# HG changeset patch
# User cstrittmatter
# Date 1587964842 14400
# Node ID 8e36dd436ac436284cd9dbe5897e2c5d4daff160
# Parent  d0350fe29fdf7622448e95ef4c17c394f65d1799
planemo upload commit c50df40caef2fb97c178d6890961e0e527992324-dirty

diff -r d0350fe29fdf -r 8e36dd436ac4 bin/Initial_Conditions.py
--- a/bin/Initial_Conditions.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,109 +0,0 @@
-#!/usr/bin/env python
-
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-
-remove_list=['Schleissheim', 'Sendai', 'Blegdam', 'Naestved', 'Rostock', 'Moscow', 'Antarctica', 'Rosenberg', 'Chittagong', 'Bilu', 'Dessau', 'Cannonhill', 'Ilugun']
-
-rename_dict={'Nitra': 'Enteritidis',
- 'Kiel': 'Dublin',
- 'Koessen': 'Panama',
- 'Phaliron': 'Kalumburu',
- 'Istanbul': 'Hadar',
- 'Haardt': 'Blockley',
- 'Ferruch': 'Kottbus',
- 'Sanga': 'Eboko',
- 'Pakistan': 'Litchfield',
- 'Bellevue': 'Lezennes',
- 'Sunnycove': 'Daarle',
- 'Noya': 'Akanji',
- 'Virginia': 'Muenchen',
- 'Djelfa': 'Skansen',
- 'Konstanz': 'Gatuni',
- 'Bardo': 'Newport',
- 'Houston': 'Panama',
- 'Martonos': 'Finkenwerder',
- 'Midway': 'Florida',
- 'Lindern': 'Charity',
- 'Bahrenfeld': 'Onderstepoort',
- 'Schalkwijk': 'Moussoro',
- 'Amberg': 'Boecker',
- 'Madelia': 'Carrau',
- 'Soahanina': 'Sundsvall',
- 'Stafford': 'Poano',
- 'Chichiri': 'Uzaramo',
- 'II 16:g,[m],[s],t:[e,n,x]': 'II 16:g,[m],[s],t:[1,5]',
- 'Hindmarsh':'Bovismorbificans',
- 'Yovokome': 'Manhattan'}
-
- #potential merge for O22 and O23
- #'Ibadan': 'Mississippi',
- #'Bracknell': 'Oudwijk',
- #'Vaertan': 'Ullevi',
- #'Bahati': 'Durham',
- #'Wichita': 'Friedenau',
- #'Diguel': 'Telelkebir',
- #'II 13,22:l,z28:1,5': 'II 13,23:l,z28:1,5',
- #'Washington': 'Kintambo',
- #'II 13,23:m,t:z42': 'II 13,22:m,t:z42:z39',
- #'Serenli': 'Winslow',
- #'Farmsen': 'Poona',
- #'Durance': 'Ivrysurseine',
- #'Agoueve': 'Cubana',
- #'II 13,23:z29:1,5': 'II 13,22:z29:1,5',
- #'II 13,23:z29:e,n,x': 'II 13,22:z29:e,n,x',
- #'Picpus': 'Mampong',
- #'Anna': 'Nimes',
- #'Fanti': 'Leiden',
- #'Ried': 'Ajiobo',
-
- #potential O68 list
- #'Djelfa': 'Skansen',
- #'Korbol': 'Nagoya',
- #'Sanga': 'Eboko',
- #'Konstanz': 'Gatuni',
- #'Presov': 'Shipley',
- #'Heistopdenberg': 'Bukuru',
- #'Tounouma': 'Banalia',
- #'Gaillac': 'Utah',
- #'Santiago': 'Belem',
- #'Virginia': 'Muenchen',
- #'Yovokome': 'Manhattan',
- #'Portanigra': 'Dunkwa',
- #'Bardo': 'Newport',
- #'Ferruch': 'Kottbus',
- #'Alminko': 'Nanergou',
- #'Bargny': 'Takoradi',
- #'Magherafelt': 'Cyprus',
- #'Haardt': 'Blockley',
- #'Pakistan': 'Litchfield',
- #'Yokoe': 'Bassa',
- #'Noya': 'Akanji',
- #'Lamphun': 'Giza',
- #'Tananarive': 'Brunei',
- #'Inchpark': 'Alagbon',
- #'Sunnycove': 'Daarle',
- #'Sindelfingen': 'Benue',
- #'Phaliron': 'Kalumburu',
- #'Bazenheid': 'Zerifin',
- #'Paris': 'Mapo',
- #'Istanbul': 'Hadar',
- #'Chomedey': 'Glostrup',
- #'Wippra': 'Molade',
- #'Uno': 'Tamale',
- #'Kolda': 'Yarm',
- #'Bellevue': 'Lezennes',
- #'Albany':'Duesseldorf'
diff -r d0350fe29fdf -r 8e36dd436ac4 bin/SeqSero2_package.py
--- a/bin/SeqSero2_package.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1575 +0,0 @@
-#!/usr/bin/env python3
-
-import sys
-import time
-import random
-import os
-import subprocess
-import gzip
-import io
-import pickle
-import argparse
-import itertools
-from distutils.version import LooseVersion
-from distutils.spawn import find_executable
-sys.path.insert(1,sys.path[0]+'/..')
-
-try:
-    from .version import SeqSero2_version
-except Exception: #ImportError
-    from version import SeqSero2_version
-
-### SeqSero Kmer
-def parse_args():
-    "Parse the input arguments, use '-h' for help."
-    parser = argparse.ArgumentParser(usage='SeqSero2_package.py -t <data_type> -m <mode> -i <input_data> [-d <output_directory>] [-p <number of threads>] [-b <BWA_algorithm>]\n\nDevelopper: Shaokang Zhang (zskzsk@uga.edu), Hendrik C Den-Bakker (Hendrik.DenBakker@uga.edu) and Xiangyu Deng (xdeng@uga.edu)\n\nContact email:seqsero@gmail.com\n\nVersion: v1.1.0')#add "-m <data_type>" in future
-    parser.add_argument("-i",nargs="+",help="<string>: path/to/input_data",type=os.path.abspath)  ### add 'type=os.path.abspath' to generate absolute path of input data.
-    parser.add_argument("-t",choices=['1','2','3','4','5','6'],help="<int>: '1' for interleaved paired-end reads, '2' for separated paired-end reads, '3' for single reads, '4' for genome assembly, '5' for nanopore fasta, '6' for nanopore fastq")
-    parser.add_argument("-b",choices=['sam','mem'],default="mem",help="<string>: algorithms for bwa mapping for allele mode; 'mem' for mem, 'sam' for samse/sampe; default=mem; optional; for now we only optimized for default 'mem' mode")
-    parser.add_argument("-p",default="1",help="<int>: number of threads for allele mode, if p >4, only 4 threads will be used for assembly since the amount of extracted reads is small, default=1")
-    parser.add_argument("-m",choices=['k','a'],default="a",help="<string>: which workflow to apply, 'a'(raw reads allele micro-assembly), 'k'(raw reads and genome assembly k-mer), default=a")
-    parser.add_argument("-n",help="<string>: optional, to specify a sample name in the report output")
-    parser.add_argument("-d",help="<string>: optional, to specify an output directory name, if not set, the output directory would be 'SeqSero_result_'+time stamp+one random number")
-    parser.add_argument("-c",action="store_true",help="<flag>: if '-c' was flagged, SeqSero2 will only output serotype prediction without the directory containing log files")
-    parser.add_argument("-s",action="store_true",help="<flag>: if '-s' was flagged, SeqSero2 will not output header in SeqSero_result.tsv")
-    parser.add_argument("--check",action="store_true",help="<flag>: use '--check' flag to check the required dependencies")
-    parser.add_argument('-v', '--version', action='version', version='%(prog)s ' + SeqSero2_version)
-    return parser.parse_args()
-
-### check paths of dependencies
-check_dependencies = parse_args().check
-dependencies = ['bwa','samtools','blastn','fastq-dump','spades.py','bedtools','SalmID.py']
-if check_dependencies:
-    for item in dependencies:
-        ext_path = find_executable(item)
-        if ext_path is not None:
-            print ("Using "+item+" - "+ext_path)
-        else:
-            print ("ERROR: can not find "+item+" in PATH")
-    sys.exit()
-### end of --check
-
-def reverse_complement(sequence):
-    complement = {
-        'A': 'T',
-        'C': 'G',
-        'G': 'C',
-        'T': 'A',
-        'N': 'N',
-        'M': 'K',
-        'R': 'Y',
-        'W': 'W',
-        'S': 'S',
-        'Y': 'R',
-        'K': 'M',
-        'V': 'B',
-        'H': 'D',
-        'D': 'H',
-        'B': 'V'
-    }
-    return "".join(complement[base] for base in reversed(sequence))
-
-
-def createKmerDict_reads(list_of_strings, kmer):
-    kmer_table = {}
-    for string in list_of_strings:
-        sequence = string.strip('\n')
-        for i in range(len(sequence) - kmer + 1):
-            new_mer = sequence[i:i + kmer].upper()
-            new_mer_rc = reverse_complement(new_mer)
-            if new_mer in kmer_table:
-                kmer_table[new_mer.upper()] += 1
-            else:
-                kmer_table[new_mer.upper()] = 1
-            if new_mer_rc in kmer_table:
-                kmer_table[new_mer_rc.upper()] += 1
-            else:
-                kmer_table[new_mer_rc.upper()] = 1
-    return kmer_table
-
-
-def multifasta_dict(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r') if len(line.strip()) > 0
-    ]
-    headers = [i for i in multifasta_list if i[0] == '>']
-    multifasta_dict = {}
-    for h in headers:
-        start = multifasta_list.index(h)
-        for element in multifasta_list[start + 1:]:
-            if element[0] == '>':
-                break
-            else:
-                if h[1:] in multifasta_dict:
-                    multifasta_dict[h[1:]] += element
-                else:
-                    multifasta_dict[h[1:]] = element
-    return multifasta_dict
-
-
-def multifasta_single_string(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r')
-        if (len(line.strip()) > 0) and (line.strip()[0] != '>')
-    ]
-    return ''.join(multifasta_list)
-
-
-def chunk_a_long_sequence(long_sequence, chunk_size=60):
-    chunk_list = []
-    steps = len(long_sequence) // 60  #how many chunks
-    for i in range(steps):
-        chunk_list.append(long_sequence[i * chunk_size:(i + 1) * chunk_size])
-    chunk_list.append(long_sequence[steps * chunk_size:len(long_sequence)])
-    return chunk_list
-
-
-def target_multifasta_kmerizer(multifasta, k, kmerDict):
-    forward_length = 300  #if find the target, put forward 300 bases
-    reverse_length = 2200  #if find the target, put backward 2200 bases
-    chunk_size = 60  #it will firstly chunk the single long sequence to multiple smaller sequences, it controls the size of those smaller sequences
-    target_mers = []
-    long_single_string = multifasta_single_string(multifasta)
-    multifasta_list = chunk_a_long_sequence(long_single_string, chunk_size)
-    unit_length = len(multifasta_list[0])
-    forward_lines = int(forward_length / unit_length) + 1
-    reverse_lines = int(forward_length / unit_length) + 1
-    start_num = 0
-    end_num = 0
-    for i in range(len(multifasta_list)):
-        if i not in range(start_num, end_num):  #avoid computational repetition
-            line = multifasta_list[i]
-            start = int((len(line) - k) // 2)
-            s1 = line[start:k + start]
-            if s1 in kmerDict:  #detect it is a potential read or not (use the middle part)
-                if i - forward_lines >= 0:
-                    start_num = i - forward_lines
-                else:
-                    start_num = 0
-                if i + reverse_lines <= len(multifasta_list) - 1:
-                    end_num = i + reverse_lines
-                else:
-                    end_num = len(multifasta_list) - 1
-                target_list = [
-                    x.strip() for x in multifasta_list[start_num:end_num]
-                ]
-                target_line = "".join(target_list)
-                target_mers += [
-                    k1 for k1 in createKmerDict_reads([str(target_line)], k)
-                ]  ##changed k to k1, just want to avoid the mixes of this "k" (kmer) to the "k" above (kmer length)
-        else:
-            pass
-    return set(target_mers)
-
-
-def target_read_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = []
-    if file.endswith(".gz"):
-        file_content = io.BufferedReader(gzip.open(file))
-    else:
-        file_content = open(file, "r").readlines()
-    for line in file_content:
-        start = int((len(line) - k) // 2)
-        if i % 4 == 2:
-            if file.endswith(".gz"):
-                s1 = line[start:k + start].decode()
-                line = line.decode()
-            else:
-                s1 = line[start:k + start]
-            if s1 in kmerDict:  #detect it is a potential read or not (use the middle part)
-                n_reads += 1
-                total_coverage += len(line)
-                target_mers += [
-                    k1 for k1 in createKmerDict_reads([str(line)], k)
-                ]  #changed k to k1, just want to avoid the mixes of this "k" (kmer) to the "k" above (kmer length)
-        i += 1
-        if total_coverage >= 4000000:
-            break
-    return set(target_mers)
-
-
-def minion_fasta_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = {}
-    for line in open(file):
-        if i % 2 == 0:
-            for kmer, rc_kmer in kmers(line.strip().upper(), k):
-                if (kmer in kmerDict) or (rc_kmer in kmerDict):
-                    if kmer in target_mers:
-                        target_mers[kmer] += 1
-                    else:
-                        target_mers[kmer] = 1
-                    if rc_kmer in target_mers:
-                        target_mers[rc_kmer] += 1
-                    else:
-                        target_mers[rc_kmer] = 1
-        i += 1
-    return set([h for h in target_mers])
-
-
-def minion_fastq_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = {}
-    for line in open(file):
-        if i % 4 == 2:
-            for kmer, rc_kmer in kmers(line.strip().upper(), k):
-                if (kmer in kmerDict) or (rc_kmer in kmerDict):
-                    if kmer in target_mers:
-                        target_mers[kmer] += 1
-                    else:
-                        target_mers[kmer] = 1
-                    if rc_kmer in target_mers:
-                        target_mers[rc_kmer] += 1
-                    else:
-                        target_mers[rc_kmer] = 1
-        i += 1
-    return set([h for h in target_mers])
-
-
-def multifasta_single_string2(multifasta):
-    single_string = ''
-    with open(multifasta, 'r') as f:
-        for line in f:
-            if line.strip()[0] == '>':
-                pass
-            else:
-                single_string += line.strip()
-    return single_string
-
-
-def kmers(seq, k):
-    rev_comp = reverse_complement(seq)
-    for start in range(1, len(seq) - k + 1):
-        yield seq[start:start + k], rev_comp[-(start + k):-start]
-
-
-def multifasta_to_kmers_dict(multifasta,k_size):#used to create database kmer set
-    multi_seq_dict = multifasta_dict(multifasta)
-    lib_dict = {}
-    for h in multi_seq_dict:
-        lib_dict[h] = set(
-            [k for k in createKmerDict_reads([multi_seq_dict[h]], k_size)])
-    return lib_dict
-
-
-def Combine(b, c):
-    fliC_combinations = []
-    fliC_combinations.append(",".join(c))
-    temp_combinations = []
-    for i in range(len(b)):
-        for x in itertools.combinations(b, i + 1):
-            temp_combinations.append(",".join(x))
-    for x in temp_combinations:
-        temp = []
-        for y in c:
-            temp.append(y)
-        temp.append(x)
-        temp = ",".join(temp)
-        temp = temp.split(",")
-        temp.sort()
-        temp = ",".join(temp)
-        fliC_combinations.append(temp)
-    return fliC_combinations
-
-
-def seqsero_from_formula_to_serotypes(Otype, fliC, fljB, special_gene_list,subspecies):
-    #like test_output_06012017.txt
-    #can add more varialbles like sdf-type, sub-species-type in future (we can conclude it into a special-gene-list)
-    from Initial_Conditions import phase1,phase2,phaseO,sero,subs,remove_list,rename_dict
-    rename_dict_not_anymore=[rename_dict[x] for x in rename_dict]
-    rename_dict_all=rename_dict_not_anymore+list(rename_dict) #used for decide whether to 
-    seronames = []
-    seronames_none_subspecies=[]
-    for i in range(len(phase1)):
-        fliC_combine = []
-        fljB_combine = []
-        if phaseO[i] == Otype: # no VII in KW, but it's there
-            ### for fliC, detect every possible combinations to avoid the effect of "["
-            if phase1[i].count("[") == 0:
-                fliC_combine.append(phase1[i])
-            elif phase1[i].count("[") >= 1:
-                c = []
-                b = []
-                if phase1[i][0] == "[" and phase1[i][-1] == "]" and phase1[i].count(
-                        "[") == 1:
-                    content = phase1[i].replace("[", "").replace("]", "")
-                    fliC_combine.append(content)
-                    fliC_combine.append("-")
-                else:
-                    for x in phase1[i].split(","):
-                        if "[" in x:
-                            b.append(x.replace("[", "").replace("]", ""))
-                        else:
-                            c.append(x)
-                    fliC_combine = Combine(
-                        b, c
-                    )  #Combine will offer every possible combinations of the formula, like f,[g],t: f,t  f,g,t
-            ### end of fliC "[" detect
-            ### for fljB, detect every possible combinations to avoid the effect of "["
-            if phase2[i].count("[") == 0:
-                fljB_combine.append(phase2[i])
-            elif phase2[i].count("[") >= 1:
-                d = []
-                e = []
-                if phase2[i][0] == "[" and phase2[i][-1] == "]" and phase2[i].count(
-                        "[") == 1:
-                    content = phase2[i].replace("[", "").replace("]", "")
-                    fljB_combine.append(content)
-                    fljB_combine.append("-")
-                else:
-                    for x in phase2[i].split(","):
-                        if "[" in x:
-                            d.append(x.replace("[", "").replace("]", ""))
-                        else:
-                            e.append(x)
-                    fljB_combine = Combine(d, e)
-            ### end of fljB "[" detect
-            new_fliC = fliC.split(
-                ","
-            )  #because some antigen like r,[i] not follow alphabetical order, so use this one to judge and can avoid missings
-            new_fliC.sort()
-            new_fliC = ",".join(new_fliC)
-            new_fljB = fljB.split(",")
-            new_fljB.sort()
-            new_fljB = ",".join(new_fljB)
-            if (new_fliC in fliC_combine
-                    or fliC in fliC_combine) and (new_fljB in fljB_combine
-                                                  or fljB in fljB_combine):
-              ######start, remove_list,rename_dict, added on 11/11/2018
-              if sero[i] not in remove_list:
-                temp_sero=sero[i]
-                if temp_sero in rename_dict:
-                  temp_sero=rename_dict[temp_sero] #rename if in the rename list
-                if temp_sero not in seronames:#the new sero may already included, if yes, then not consider
-                  if subs[i] == subspecies:
-                    seronames.append(temp_sero)
-                  seronames_none_subspecies.append(temp_sero)
-                else:
-                  pass
-              else:
-                pass
-              ######end, added on 11/11/2018
-    #analyze seronames
-    subspecies_pointer=""
-    if len(seronames) == 0 and len(seronames_none_subspecies)!=0:
-      # ed_SL_12182019: modified to fix the subspecies output problem
-      #seronames=seronames_none_subspecies
-      seronames=["N/A"]
-      #subspecies_pointer="1"
-      subspecies_pointer="0"
-    if len(seronames) == 0:
-        seronames = [
-            "N/A (The predicted antigenic profile does not exist in the White-Kauffmann-Le Minor scheme)"
-        ]
-    star = ""
-    star_line = ""
-    if len(seronames) > 1:  #there are two possible predictions for serotypes
-        star = "*"
-        #changed 04072019
-        #star_line = "The predicted serotypes share the same general formula:\t" + Otype + ":" + fliC + ":" + fljB + "\n"
-    if subspecies_pointer=="1" and len(seronames_none_subspecies)!=0:
-      star="*"
-      star_line="The predicted O and H antigens correspond to serotype '"+(" or ").join(seronames)+"' in the Kauffmann-White scheme. The predicted subspecies by SalmID (github.com/hcdenbakker/SalmID) may not be consistent with subspecies designation in the Kauffmann-White scheme. " + star_line
-      #star_line="The formula with this subspieces prediction can't get a serotype in KW manual, and the serotyping prediction was made without considering it."+star_line
-    if  Otype=="":
-      Otype="-"
-    predict_form = Otype + ":" + fliC + ":" + fljB
-    predict_sero = (" or ").join(seronames)
-    ###special test for Enteritidis
-    if predict_form == "9:g,m:-":
-        sdf = "-"
-        for x in special_gene_list:
-            if x.startswith("sdf"):
-                sdf = "+"
-                #star_line="Detected sdf gene, a marker to differentiate Gallinarum and Enteritidis"
-                star_line="sdf gene detected. "
-        #predict_form = predict_form + " Sdf prediction:" + sdf
-        predict_form = predict_form #changed 04072019
-        if sdf == "-":
-            star = "*"
-            #star_line="Didn't detected sdf gene, a marker to differentiate Gallinarum and Enteritidis"
-            star_line="sdf gene not detected. "
-            #changed in 04072019, for new output
-            #star_line = "Additional characterization is necessary to assign a serotype to this strain.  Commonly circulating strains of serotype Enteritidis are sdf+, although sdf- strains of serotype Enteritidis are known to exist. Serotype Gallinarum is typically sdf- but should be quite rare. Sdf- strains of serotype Enteritidis and serotype Gallinarum can be differentiated by phenotypic profile or genetic criteria.\n"
-            #predict_sero = "Gallinarum/Enteritidis" #04132019, for new output requirement
-            predict_sero = "Gallinarum or Enteritidis"
-    ###end of special test for Enteritidis
-    elif predict_form == "4:i:-":
-        predict_sero = "I 4,[5],12:i:-" # change serotype name
-    elif predict_form == "4:r:-":
-        predict_sero = "N/A (4:r:-)"
-    elif predict_form == "4:b:-":
-        predict_sero = "N/A (4:b:-)"
-    #elif predict_form == "8:e,h:1,2": #removed after official merge of newport and bardo
-        #predict_sero = "Newport"
-        #star = "*"
-        #star_line = "Serotype Bardo shares the same antigenic profile with Newport, but Bardo is exceedingly rare."
-    claim = "The serotype(s) is/are the only serotype(s) with the indicated antigenic profile currently recognized in the Kauffmann White Scheme. New serotypes can emerge and the possibility exists that this antigenic profile may emerge in a different subspecies.  Identification of strains to the subspecies level should accompany serotype determination; the same antigenic profile in different subspecies is considered different serotypes.\n"
-    if "N/A" in predict_sero:
-        claim = ""
-    #special test for Typhimurium
-    if "Typhimurium" in predict_sero or predict_form == "4:i:-":
-        normal = 0
-        mutation = 0
-        for x in special_gene_list:
-            if "oafA-O-4_full" in x:
-                normal = float(special_gene_list[x])
-            elif "oafA-O-4_5-" in x:
-                mutation = float(special_gene_list[x])
-        if normal > mutation:
-            pass
-        elif normal < mutation:
-            #predict_sero = predict_sero.strip() + "(O5-)"
-            predict_sero = predict_sero.strip() #diable special sero for new output requirement, 04132019
-            star = "*"
-            #star_line = "Detected the deletion of O5-."
-            star_line = "Detected a deletion that causes O5- variant of Typhimurium. "
-        else:
-            pass
-    #special test for Paratyphi B
-    if "Paratyphi B" in predict_sero or predict_form == "4:b:-":
-        normal = 0
-        mutation = 0
-        for x in special_gene_list:
-            if "gntR-family-regulatory-protein_dt-positive" in x:
-                normal = float(special_gene_list[x])
-            elif "gntR-family-regulatory-protein_dt-negative" in x:
-                mutation = float(special_gene_list[x])
-        #print(normal,mutation)
-        if normal > mutation:
-            #predict_sero = predict_sero.strip() + "(dt+)" #diable special sero for new output requirement, 04132019
-            predict_sero = predict_sero.strip()+' var. L(+) tartrate+' if "Paratyphi B" in predict_sero else predict_sero.strip()
-            star = "*"
-            #star_line = "Didn't detect the SNP for dt- which means this isolate is a Paratyphi B variant L(+) tartrate(+)."
-            star_line = "The SNP that causes d-Tartrate nonfermentating phenotype of Paratyphi B was not detected. "
-        elif normal < mutation:
-            #predict_sero = predict_sero.strip() + "(dt-)" #diable special sero for new output requirement, 04132019
-            predict_sero = predict_sero.strip()
-            star = "*"
-            #star_line = "Detected the SNP for dt- which means this isolate is a systemic pathovar of Paratyphi B."
-            star_line = "Detected the SNP for d-Tartrate nonfermenting phenotype of Paratyphi B. "
-        else:
-            star = "*"
-            #star_line = " Failed to detect the SNP for dt-, can't decide it's a Paratyphi B variant L(+) tartrate(+) or not."
-            star_line = " " ## ed_SL_05152019: do not report this situation.
-    #special test for O13,22 and O13,23
-    if Otype=="13":
-      #ex_dir = os.path.dirname(os.path.realpath(__file__))
-      ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019
-      f = open(ex_dir + '/special.pickle', 'rb')
-      special = pickle.load(f)
-      O22_O23=special['O22_O23']
-      if predict_sero.split(" or ")[0] in O22_O23[-1] and predict_sero.split(" or ")[0] not in rename_dict_all:#if in rename_dict_all, then it means already merged, no need to analyze 
-        O22_score=0
-        O23_score=0
-        for x in special_gene_list:
-            if "O:22" in x:
-                O22_score = O22_score+float(special_gene_list[x])
-            elif "O:23" in x:
-                O23_score = O23_score+float(special_gene_list[x])
-        #print(O22_score,O23_score)
-        for z in O22_O23[0]:
-          if predict_sero.split(" or ")[0] in z:
-            if O22_score > O23_score:
-              star = "*"
-              #star_line = "Detected O22 specific genes to further differenciate '"+predict_sero+"'." #diabled for new output requirement, 04132019
-              predict_sero = z[0]
-            elif O22_score < O23_score:
-              star = "*"
-              #star_line = "Detected O23 specific genes to further differenciate '"+predict_sero+"'." #diabled for new output requirement, 04132019
-              predict_sero = z[1]
-            else:
-              star = "*"
-              #star_line = "Fail to detect O22 and O23 differences." #diabled for new output requirement, 04132019
-    if " or " in predict_sero:
-      star_line = star_line + "The predicted serotypes share the same general formula: " + Otype + ":" + fliC + ":" + fljB + "."
-    #special test for O6,8 
-    #merge_O68_list=["Blockley","Bovismorbificans","Hadar","Litchfield","Manhattan","Muenchen"] #remove 11/11/2018, because already in merge list
-    #for x in merge_O68_list:
-    #  if x in predict_sero:
-    #    predict_sero=x
-    #    star=""
-    #    star_line=""
-    #special test for Montevideo; most of them are monophasic
-    #if "Montevideo" in predict_sero and "1,2,7" in predict_form: #remove 11/11/2018, because already in merge list
-      #star="*"
-      #star_line="Montevideo is almost always monophasic, having an antigen called for the fljB position may be a result of Salmonella-Salmonella contamination."
-    return predict_form, predict_sero, star, star_line, claim
-### End of SeqSero Kmer part
-
-### Begin of SeqSero2 allele prediction and output
-def xml_parse_score_comparision_seqsero(xmlfile):
-  #used to do seqsero xml analysis
-  from Bio.Blast import NCBIXML
-  handle=open(xmlfile)
-  handle=NCBIXML.parse(handle)
-  handle=list(handle)
-  List=[]
-  List_score=[]
-  List_ids=[]
-  List_query_region=[]
-  for i in range(len(handle)):
-    if len(handle[i].alignments)>0:
-      for j in range(len(handle[i].alignments)):
-        score=0
-        ids=0
-        cover_region=set() #fixed problem that repeated calculation leading percentage > 1
-        List.append(handle[i].query.strip()+"___"+handle[i].alignments[j].hit_def)
-        for z in range(len(handle[i].alignments[j].hsps)):
-          hsp=handle[i].alignments[j].hsps[z]
-          temp=set(range(hsp.query_start,hsp.query_end))
-          if len(cover_region)==0:
-            cover_region=cover_region|temp
-            fraction=1
-          else:
-            fraction=1-len(cover_region&temp)/float(len(temp))
-            cover_region=cover_region|temp
-          if "last" in handle[i].query or "first" in handle[i].query:
-            score+=hsp.bits*fraction
-            ids+=float(hsp.identities)/handle[i].query_length*fraction
-          else:
-            score+=hsp.bits*fraction
-            ids+=float(hsp.identities)/handle[i].query_length*fraction
-        List_score.append(score)
-        List_ids.append(ids)
-        List_query_region.append(cover_region)
-  temp=zip(List,List_score,List_ids,List_query_region)
-  Final_list=sorted(temp, key=lambda d:d[1], reverse = True)
-  return Final_list
-
-
-def Uniq(L,sort_on_fre="none"): #return the uniq list and the count number
-  Old=L
-  L.sort()
-  L = [L[i] for i in range(len(L)) if L[i] not in L[:i]]
-  count=[]
-  for j in range(len(L)):
-    y=0
-    for x in Old:
-      if L[j]==x:
-        y+=1
-    count.append(y)
-  if sort_on_fre!="none":
-    d=zip(*sorted(zip(count, L)))
-    L=d[1]
-    count=d[0]
-  return (L,count)
-
-def judge_fliC_or_fljB_from_head_tail_for_one_contig(nodes_vs_score_list):
-  #used to predict it's fliC or fljB for one contig, based on tail and head score, but output the score difference,if it is very small, then not reliable, use blast score for whole contig to test
-  #this is mainly used for 
-  a=nodes_vs_score_list
-  fliC_score=0
-  fljB_score=0
-  for z in a:
-    if "fliC" in z[0]:
-      fliC_score+=z[1]
-    elif "fljB" in z[0]:
-      fljB_score+=z[1]
-  if fliC_score>=fljB_score:
-    role="fliC"
-  else:
-    role="fljB"
-  return (role,abs(fliC_score-fljB_score))
-
-def judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(node_name,Final_list,Final_list_passed):
-  #used to predict contig is fliC or fljB, if the differnce score value on above head_and_tail is less than 10 (quite small)
-  #also used when no head or tail got blasted score for the contig
-  role=""
-  for z in Final_list_passed:
-    if node_name in z[0]:
-      role=z[0].split("_")[0]
-      break
-  return role
-
-def fliC_or_fljB_judge_from_head_tail_sequence(nodes_list,tail_head_list,Final_list,Final_list_passed):
-  #nodes_list is the c created by c,d=Uniq(nodes) in below function
-  first_target=""
-  role_list=[]
-  for x in nodes_list:
-    a=[]
-    role=""
-    for y in tail_head_list:
-      if x in y[0]:
-        a.append(y)
-    if len(a)==4:
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-    elif len(a)==3:
-      ###however, if the one with highest score is the fewer one, compare their accumulation score
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-      ###end of above score comparison
-    elif len(a)==2:
-      #must on same node, if not, then decide with unit blast score, blast-score/length_of_special_sequence(30 or 37)
-      temp=[]
-      for z in a:
-        temp.append(z[0].split("_")[0])
-      m,n=Uniq(temp)#should only have one choice, but weird situation might occur too
-      if len(m)==1:
-        pass
-      else:
-        pass
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-        ###need to desgin a algorithm to guess most possible situation for nodes_list, See the situations of test evaluation
-    elif len(a)==1:
-      #that one
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-      #need to evaluate, in future, may set up a cut-off, if not met, then just find Final_list_passed best match,like when "a==0"
-    else:#a==0
-      #use Final_list_passed best match
-      for z in Final_list_passed:
-        if x in z[0]:
-          role=z[0].split("_")[0]
-          break
-    #print x,role,len(a)
-    role_list.append((role,x))
-  if len(role_list)==2:
-    if role_list[0][0]==role_list[1][0]:#this is the most cocmmon error, two antigen were assigned to same phase
-      #just use score to do a final test
-      role_list=[]
-      for x in nodes_list: 
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-        role_list.append((role,x))
-  return role_list
-
-def decide_contig_roles_for_H_antigen(Final_list,Final_list_passed):
-  #used to decide which contig is FliC and which one is fljB
-  contigs=[]
-  nodes=[]
-  for x in Final_list_passed:
-    if x[0].startswith("fl") and "last" not in x[0] and "first" not in x[0]:
-      nodes.append(x[0].split("___")[1].strip())
-  c,d=Uniq(nodes)#c is node_list
-  #print c
-  tail_head_list=[x for x in Final_list if ("last" in x[0] or "first" in x[0])]
-  roles=fliC_or_fljB_judge_from_head_tail_sequence(c,tail_head_list,Final_list,Final_list_passed)
-  return roles
-
-def decide_O_type_and_get_special_genes(Final_list,Final_list_passed):
-  #decide O based on Final_list
-  O_choice="?"
-  O_list=[]
-  special_genes={}
-  nodes=[]
-  for x in Final_list_passed:
-    if x[0].startswith("O-"):
-      nodes.append(x[0].split("___")[1].strip())
-    elif not x[0].startswith("fl"):
-      special_genes[x[0]]=x[2]#08172018, x[2] changed from x[-1]
-  #print "special_genes:",special_genes
-  c,d=Uniq(nodes)
-  #print "potential O antigen contig",c
-  final_O=[]
-  O_nodes_list=[]
-  for x in c:#c is the list for contigs
-    temp=0
-    for y in Final_list_passed:
-      if x in y[0] and y[0].startswith("O-"):
-        final_O.append(y)
-        break
-  ### O contig has the problem of two genes on same contig, so do additional test
-  potenial_new_gene=""
-  for x in final_O:
-    pointer=0 #for genes merged or not
-    #not consider O-1,3,19_not_in_3,10, too short compared with others
-    if "O-1,3,19_not_in_3,10" not in x[0] and int(x[0].split("__")[1].split("___")[0])*x[2]+850 <= int(x[0].split("length_")[1].split("_")[0]):#gene length << contig length; for now give 300*2 (for secureity can use 400*2) as flank region
-      pointer=x[0].split("___")[1].strip()#store the contig name
-      print(pointer)
-    if pointer!=0:#it has potential merge event
-      for y in Final_list:
-        if pointer in y[0] and y not in final_O and (y[1]>=int(y[0].split("__")[1].split("___")[0])*1.5 or (y[1]>=int(y[0].split("__")[1].split("___")[0])*y[2] and y[1]>=400)):#that's a realtively strict filter now; if passed, it has merge event and add one more to final_O
-          potenial_new_gene=y
-          #print(potenial_new_gene)
-          break
-  if potenial_new_gene!="":
-    print("two differnt genes in same contig, fix it for O antigen")
-    print(potenial_new_gene[:3])
-    pointer=0
-    for y in final_O:
-      if y[0].split("___")[-1]==potenial_new_gene[0].split("___")[-1]:
-        pointer=1
-    if pointer!=0: #changed to consider two genes in same contig
-      final_O.append(potenial_new_gene)
-  ### end of the two genes on same contig test
-  final_O=sorted(final_O,key=lambda x: x[2], reverse=True)#sorted
-  if len(final_O)==0 or (len(final_O)==1 and "O-1,3,19_not_in_3,10" in final_O[0][0]):
-    #print "$$$No Otype, due to no hit"#may need to be changed
-    O_choice="-"
-  else:
-    highest_O_coverage=max([float(x[0].split("_cov_")[-1].split("_")[0]) for x in final_O if "O-1,3,19_not_in_3,10" not in x[0]])
-    O_list=[]
-    O_list_less_contamination=[]
-    for x in final_O:
-      if not "O-1,3,19_not_in_3,10__130" in x[0]:#O-1,3,19_not_in_3,10 is too small, which may affect further analysis; to avoid contamination affect, use 0.15 of highest coverage as cut-off
-        O_list.append(x[0].split("__")[0])
-        O_nodes_list.append(x[0].split("___")[1])
-        if float(x[0].split("_cov_")[-1].split("_")[0])>highest_O_coverage*0.15:
-          O_list_less_contamination.append(x[0].split("__")[0])
-    ### special test for O9,46 and O3,10 family
-    if ("O-9,46_wbaV" in O_list or "O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254" in O_list) and O_list_less_contamination[0].startswith("O-9,"):#not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-      if "O-9,46_wzy" in O_list or "O-9,46_wzy_partial" in O_list:#and float(O946_wzy)/float(num_1) > 0.1
-        O_choice="O-9,46"
-        #print "$$$Most possilble Otype:  O-9,46"
-      elif "O-9,46,27_partial_wzy" in O_list:#and float(O94627)/float(num_1) > 0.1
-        O_choice="O-9,46,27"
-        #print "$$$Most possilble Otype:  O-9,46,27"
-      else:
-        O_choice="O-9"#next, detect O9 vs O2?
-        O2=0
-        O9=0
-        for z in special_genes:
-          if "tyr-O-9" in z:
-            O9=special_genes[z]
-          elif "tyr-O-2" in z:
-            O2=special_genes[z]
-        if O2>O9:
-          O_choice="O-2"
-        elif O2<O9:
-          pass
-        else:
-          pass
-          #print "$$$No suitable one, because can't distinct it's O-9 or O-2, but O-9 has a more possibility."
-    elif ("O-3,10_wzx" in O_list) and ("O-9,46_wzy" in O_list) and (O_list[0].startswith("O-3,10") or O_list_less_contamination[0].startswith("O-9,46_wzy")):#and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-      if "O-3,10_not_in_1,3,19" in O_list:#and float(O310_no_1319)/float(num_1) > 0.1
-        O_choice="O-3,10"
-        #print "$$$Most possilble Otype:  O-3,10 (contain O-3,10_not_in_1,3,19)"
-      else:
-        O_choice="O-1,3,19"
-        #print "$$$Most possilble Otype:  O-1,3,19 (not contain O-3,10_not_in_1,3,19)"
-    ### end of special test for O9,46 and O3,10 family
-    else:
-      try: 
-        max_score=0
-        for x in final_O:
-          if x[2]>=max_score and float(x[0].split("_cov_")[-1].split("_")[0])>highest_O_coverage*0.15:#use x[2],08172018, the "coverage identity = cover_length * identity"; also meet coverage threshold
-            max_score=x[2]#change from x[-1] to x[2],08172018
-            O_choice=x[0].split("_")[0]
-        if O_choice=="O-1,3,19":
-          O_choice=final_O[1][0].split("_")[0]
-        #print "$$$Most possilble Otype: ",O_choice
-      except:
-        pass
-        #print "$$$No suitable Otype, or failure of mapping (please check the quality of raw reads)"
-  if O_choice=="O-9,46,27" and len(O_list)==2 and "O-4_wzx" in O_list: #special for very low chance sitatuion between O4 and O9,27,46, this is for serotypes like Bredeney and Schwarzengrund (normallly O-4 will have higher score, but sometimes sequencing quality may affect the prediction)
-    O_choice="O-4"
-  #print "O:",O_choice,O_nodes_list
-  Otypes=[]
-  for x in O_list:
-    if x!="O-1,3,19_not_in_3,10":
-      if "O-9,46_" not in x:
-        Otypes.append(x.split("_")[0])
-      else:
-        Otypes.append(x.split("-from")[0])#O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254
-  #Otypes=[x.split("_")[0] for x in O_list if x!="O-1,3,19_not_in_3,10"]
-  Otypes_uniq,Otypes_fre=Uniq(Otypes)
-  contamination_O=""
-  if O_choice=="O-9,46,27" or O_choice=="O-3,10" or O_choice=="O-1,3,19":
-    if len(Otypes_uniq)>2:
-      contamination_O="potential contamination from O antigen signals"
-  else:
-    if len(Otypes_uniq)>1:
-      if O_choice=="O-4" and len(Otypes_uniq)==2 and "O-9,46,27" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      elif O_choice=="O-9,46" and len(Otypes_uniq)==2 and "O-9,46_wbaV" in Otypes_uniq and "O-9,46_wzy" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      else:
-        contamination_O="potential contamination from O antigen signals"
-  return O_choice,O_nodes_list,special_genes,final_O,contamination_O,Otypes_uniq
-### End of SeqSero2 allele prediction and output
-
-def get_input_files(make_dir,input_file,data_type,dirpath):
-  #tell input files from datatype
-  #"<int>: '1'(pair-end reads, interleaved),'2'(pair-end reads, seperated),'3'(single-end reads), '4'(assembly),'5'(nanopore fasta),'6'(nanopore fastq)"
-  for_fq=""
-  rev_fq=""
-  os.chdir(make_dir)
-  if data_type=="1":
-    input_file=input_file[0].split("/")[-1]
-    if input_file.endswith(".sra"):
-      subprocess.check_call("fastq-dump --split-files "+input_file,shell=True)
-      for_fq=input_file.replace(".sra","_1.fastq")
-      rev_fq=input_file.replace(".sra","_2.fastq")
-    else:
-      core_id=input_file.split(".fastq")[0].split(".fq")[0]
-      for_fq=core_id+"_1.fastq"
-      rev_fq=core_id+"_2.fastq"
-      if input_file.endswith(".gz"):
-        subprocess.check_call("gzip -dc "+input_file+" | "+dirpath+"/deinterleave_fastq.sh "+for_fq+" "+rev_fq,shell=True)
-      else:
-        subprocess.check_call("cat "+input_file+" | "+dirpath+"/deinterleave_fastq.sh "+for_fq+" "+rev_fq,shell=True)
-  elif data_type=="2":
-    for_fq=input_file[0].split("/")[-1]
-    rev_fq=input_file[1].split("/")[-1]
-  elif data_type=="3":
-    input_file=input_file[0].split("/")[-1]
-    if input_file.endswith(".sra"):
-      subprocess.check_call("fastq-dump --split-files "+input_file,shell=True)
-      for_fq=input_file.replace(".sra","_1.fastq")
-    else:
-      for_fq=input_file
-  elif data_type in ["4","5","6"]:
-    for_fq=input_file[0].split("/")[-1]
-  os.chdir("..")
-  return for_fq,rev_fq
-
-def predict_O_and_H_types(Final_list,Final_list_passed,new_fasta):
-  #get O and H types from Final_list from blast parsing; allele mode
-  from Bio import SeqIO
-  fliC_choice="-"
-  fljB_choice="-"
-  fliC_contig="NA"
-  fljB_contig="NA"
-  fliC_region=set([0])
-  fljB_region=set([0,])
-  fliC_length=0 #can be changed to coverage in future; in 03292019, changed to ailgned length
-  fljB_length=0 #can be changed to coverage in future; in 03292019, changed to ailgned length
-  O_choice="-"#no need to decide O contig for now, should be only one
-  O_choice,O_nodes,special_gene_list,O_nodes_roles,contamination_O,Otypes_uniq=decide_O_type_and_get_special_genes(Final_list,Final_list_passed)#decide the O antigen type and also return special-gene-list for further identification
-  O_choice=O_choice.split("-")[-1].strip()
-  if (O_choice=="1,3,19" and len(O_nodes_roles)==1 and "1,3,19" in O_nodes_roles[0][0]) or O_choice=="":
-    O_choice="-"
-  H_contig_roles=decide_contig_roles_for_H_antigen(Final_list,Final_list_passed)#decide the H antigen contig is fliC or fljB
-  #add alignment locations, used for further selection, 03312019
-  for i in range(len(H_contig_roles)):
-    x=H_contig_roles[i]
-    for y in Final_list_passed:
-      if x[1] in y[0] and y[0].startswith(x[0]):
-        H_contig_roles[i]+=H_contig_roles[i]+(y[-1],)
-        break
-  log_file=open("SeqSero_log.txt","a")
-  extract_file=open("Extracted_antigen_alleles.fasta","a")
-  handle_fasta=list(SeqIO.parse(new_fasta,"fasta"))
-
-  #print("O_contigs:")
-  log_file.write("O_contigs:\n")
-  extract_file.write("#Sequences with antigen signals (if the micro-assembled contig only covers the flanking region, it will not be used for contamination analysis)\n")
-  extract_file.write("#O_contigs:\n")
-  for x in O_nodes_roles:
-    if "O-1,3,19_not_in_3,10" not in x[0]:#O-1,3,19_not_in_3,10 is just a small size marker
-      #print(x[0].split("___")[-1],x[0].split("__")[0],"blast score:",x[1],"identity%:",str(round(x[2]*100,2))+"%",str(min(x[-1]))+" to "+str(max(x[-1])))
-      log_file.write(x[0].split("___")[-1]+" "+x[0].split("__")[0]+"; "+"blast score: "+str(x[1])+" identity%: "+str(round(x[2]*100,2))+"%; alignment from "+str(min(x[-1]))+" to "+str(max(x[-1]))+" of antigen\n")
-      title=">"+x[0].split("___")[-1]+" "+x[0].split("__")[0]+"; "+"blast score: "+str(x[1])+" identity%: "+str(round(x[2]*100,2))+"%; alignment from "+str(min(x[-1]))+" to "+str(max(x[-1]))+" of antigen\n"      
-      seqs=""
-      for z in handle_fasta:
-        if x[0].split("___")[-1]==z.description:
-          seqs=str(z.seq)
-      extract_file.write(title+seqs+"\n")
-  if len(H_contig_roles)!=0:
-    highest_H_coverage=max([float(x[1].split("_cov_")[-1].split("_")[0]) for x in H_contig_roles]) #less than highest*0.1 would be regarded as contamination and noises, they will still be considered in contamination detection and logs, but not used as final serotype output
-  else:
-    highest_H_coverage=0
-  for x in H_contig_roles:
-    #if multiple choices, temporately select the one with longest length for now, will revise in further change
-    if "fliC" == x[0] and len(x[-1])>=fliC_length and x[1] not in O_nodes and float(x[1].split("_cov_")[-1].split("_")[0])>highest_H_coverage*0.13:#remember to avoid the effect of O-type contig, so should not in O_node list
-      fliC_contig=x[1]
-      fliC_length=len(x[-1])
-    elif "fljB" == x[0] and len(x[-1])>=fljB_length and x[1] not in O_nodes and float(x[1].split("_cov_")[-1].split("_")[0])>highest_H_coverage*0.13:
-      fljB_contig=x[1]
-      fljB_length=len(x[-1])
-  for x in Final_list_passed:
-    if fliC_choice=="-" and "fliC_" in x[0] and fliC_contig in x[0]:
-      fliC_choice=x[0].split("_")[1]
-    elif fljB_choice=="-" and "fljB_" in x[0] and fljB_contig in x[0]:
-      fljB_choice=x[0].split("_")[1]
-    elif fliC_choice!="-" and fljB_choice!="-":
-      break
-  #now remove contigs not in middle core part
-  first_allele="NA"
-  first_allele_percentage=0
-  for x in Final_list:
-    if x[0].startswith("fliC") or x[0].startswith("fljB"):
-      first_allele=x[0].split("__")[0] #used to filter those un-middle contigs
-      first_allele_percentage=x[2]
-      break 
-  additional_contigs=[]
-  for x in Final_list:
-    if first_allele in x[0]:
-      if (fliC_contig == x[0].split("___")[-1]): 
-        fliC_region=x[3]
-      elif fljB_contig!="NA" and (fljB_contig == x[0].split("___")[-1]):
-        fljB_region=x[3]
-      else:
-        if x[1]*1.1>int(x[0].split("___")[1].split("_")[3]):#loose threshold by multiplying 1.1
-          additional_contigs.append(x)
-        #else:
-          #print x[:3]
-  #we can just use the fljB region (or fliC depends on size), no matter set() or contain a large locations (without middle part); however, if none of them is fully assembled, use 500 and 1200 as conservative cut-off
-  if first_allele_percentage>0.9:
-    if len(fliC_region)>len(fljB_region) and (max(fljB_region)-min(fljB_region))>1000:
-      target_region=fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region)))) #fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region))))
-    elif len(fliC_region)<len(fljB_region) and (max(fliC_region)-min(fliC_region))>1000:
-      target_region=fliC_region|(fljB_region-set(range(min(fliC_region),max(fliC_region))))  #fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region))))
-    else:
-      target_region=set()#doesn't do anything
-  else:
-    target_region=set()#doesn't do anything
-  #print(target_region)
-  #print(additional_contigs)
-  target_region2=set(list(range(0,525))+list(range(1200,1700)))#I found to use 500 to 1200 as special region would be best
-  target_region=target_region2|target_region
-  for x in additional_contigs:
-    removal=0
-    contig_length=int(x[0].split("___")[1].split("length_")[-1].split("_")[0])
-    if fljB_contig not in x[0] and fliC_contig not in x[0] and len(target_region&x[3])/float(len(x[3]))>0.65 and contig_length*0.5<len(x[3])<contig_length*1.5: #consider length and alignment length for now, but very loose,0.5 and 1.5 as cut-off
-      removal=1
-    else:
-      if first_allele_percentage > 0.9 and float(x[0].split("__")[1].split("___")[0])*x[2]/len(x[-1])>0.96:#if high similiarity with middle part of first allele (first allele >0.9, already cover middle part)
-        removal=1
-      else:
-        pass
-    if removal==1:
-      for y in H_contig_roles:
-        if y[1] in x[0]:
-          H_contig_roles.remove(y)
-    else:
-      pass
-      #print(x[:3],contig_length,len(target_region&x[3])/float(len(x[3])),contig_length*0.5,len(x[3]),contig_length*1.5)
-  #end of removing none-middle contigs
-  #print("H_contigs:")
-  log_file.write("H_contigs:\n")
-  extract_file.write("#H_contigs:\n")
-  H_contig_stat=[]
-  H1_cont_stat={}
-  H2_cont_stat={}
-  for i in range(len(H_contig_roles)):
-    x=H_contig_roles[i]
-    a=0
-    for y in Final_list_passed:
-      if x[1] in y[0] and y[0].startswith(x[0]):
-        if "first" in y[0] or "last" in y[0]: #this is the final filter to decide it's fliC or fljB, if can't pass, then can't decide
-          for y in Final_list_passed: #it's impossible to has the "first" and "last" allele as prediction, so re-do it
-            if x[1] in y[0]:#it's very possible to be third phase allele, so no need to make it must be fliC or fljB
-              #print(x[1],"can't_decide_fliC_or_fljB",y[0].split("_")[1],"blast_score:",y[1],"identity%:",str(round(y[2]*100,2))+"%",str(min(y[-1]))+" to "+str(max(y[-1])))
-              log_file.write(x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n")
-              H_contig_roles[i]="can't decide fliC or fljB, may be third phase"
-              title=">"+x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antiten\n"
-              seqs=""
-              for z in handle_fasta:
-                if x[1]==z.description:
-                  seqs=str(z.seq)
-              extract_file.write(title+seqs+"\n")
-              break
-        else:
-          #print(x[1],x[0],y[0].split("_")[1],"blast_score:",y[1],"identity%:",str(round(y[2]*100,2))+"%",str(min(y[-1]))+" to "+str(max(y[-1])))
-          log_file.write(x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n")
-          title=">"+x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n"
-          seqs=""
-          for z in handle_fasta:
-            if x[1]==z.description:
-              seqs=str(z.seq)
-          extract_file.write(title+seqs+"\n")
-        if x[0]=="fliC":
-          if y[0].split("_")[1] not in H1_cont_stat:
-            H1_cont_stat[y[0].split("_")[1]]=y[2]
-          else:
-            H1_cont_stat[y[0].split("_")[1]]+=y[2]
-        if x[0]=="fljB":
-          if y[0].split("_")[1] not in H2_cont_stat:
-            H2_cont_stat[y[0].split("_")[1]]=y[2]
-          else:
-            H2_cont_stat[y[0].split("_")[1]]+=y[2]
-        break
-  #detect contaminations
-  #print(H1_cont_stat)
-  #print(H2_cont_stat)
-  H1_cont_stat_list=[x for x in H1_cont_stat if H1_cont_stat[x]>0.2]
-  H2_cont_stat_list=[x for x in H2_cont_stat if H2_cont_stat[x]>0.2]
-  contamination_H=""
-  if len(H1_cont_stat_list)>1 or len(H2_cont_stat_list)>1:
-    contamination_H="potential contamination from H antigen signals"
-  elif len(H2_cont_stat_list)==1 and fljB_contig=="NA":
-    contamination_H="potential contamination from H antigen signals, uncommon weak fljB signals detected"
-  #get additional antigens
-  """
-    if ("O-9,46_wbaV" in O_list or "O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254" in O_list) and O_list_less_contamination[0].startswith("O-9,"):#not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-      if "O-9,46_wzy" in O_list:#and float(O946_wzy)/float(num_1) > 0.1
-        O_choice="O-9,46"
-        #print "$$$Most possilble Otype:  O-9,46"
-      elif "O-9,46,27_partial_wzy" in O_list:#and float(O94627)/float(num_1) > 0.1
-        O_choice="O-9,46,27"
-        #print "$$$Most possilble Otype:  O-9,46,27"
-    elif ("O-3,10_wzx" in O_list) and ("O-9,46_wzy" in O_list) and (O_list[0].startswith("O-3,10") or O_list_less_contamination[0].startswith("O-9,46_wzy")):#and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-      if "O-3,10_not_in_1,3,19" in O_list:#and float(O310_no_1319)/float(num_1) > 0.1
-        O_choice="O-3,10"
-        #print "$$$Most possilble Otype:  O-3,10 (contain O-3,10_not_in_1,3,19)"
-      else:
-        O_choice="O-1,3,19"
-        #print "$$$Most possilble Otype:  O-1,3,19 (not contain O-3,10_not_in_1,3,19)"
-    ### end of special test for O9,46 and O3,10 family
-
-    if O_choice=="O-9,46,27" or O_choice=="O-3,10" or O_choice=="O-1,3,19":
-    if len(Otypes_uniq)>2:
-      contamination_O="potential contamination from O antigen signals"
-  else:
-    if len(Otypes_uniq)>1:
-      if O_choice=="O-4" and len(Otypes_uniq)==2 and "O-9,46,27" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      elif O_choice=="O-9,46" and len(Otypes_uniq)==2 and "O-9,46_wbaV" in Otypes_uniq and "O-9,46_wzy" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-  """
-  additonal_antigents=[]
-  #print(contamination_O)
-  #print(contamination_H)
-  log_file.write(contamination_O+"\n")
-  log_file.write(contamination_H+"\n")
-  log_file.close()
-  return O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H,Otypes_uniq,H1_cont_stat_list,H2_cont_stat_list
-
-def get_input_K(input_file,lib_dict,data_type,k_size):
-  #kmer mode; get input_Ks from dict and data_type
-  kmers = []
-  for h in lib_dict:
-      kmers += lib_dict[h]
-  if data_type == '4':
-      input_Ks = target_multifasta_kmerizer(input_file, k_size, set(kmers))
-  elif data_type == '1' or data_type == '2' or data_type == '3':#set it for now, will change later
-      input_Ks = target_read_kmerizer(input_file, k_size, set(kmers))
-  elif data_type == '5':#minion_2d_fasta
-      input_Ks = minion_fasta_kmerizer(input_file, k_size, set(kmers))
-  if data_type == '6':#minion_2d_fastq
-      input_Ks = minion_fastq_kmerizer(input_file, k_size, set(kmers))
-  return input_Ks
-
-def get_kmer_dict(lib_dict,input_Ks):
-  #kmer mode; get predicted types
-  O_dict = {}
-  H_dict = {}
-  Special_dict = {}
-  for h in lib_dict:
-      score = (len(lib_dict[h] & input_Ks) / len(lib_dict[h])) * 100
-      if score > 1:  # Arbitrary cut-off for similarity score very low but seems necessary to detect O-3,10 in some cases
-          if h.startswith('O-') and score > 25:
-              O_dict[h] = score
-          if h.startswith('fl') and score > 40:
-              H_dict[h] = score
-          if (h[:2] != 'fl') and (h[:2] != 'O-'):
-              Special_dict[h] = score
-  return O_dict,H_dict,Special_dict
-
-def call_O_and_H_type(O_dict,H_dict,Special_dict,make_dir):
-  log_file=open("SeqSero_log.txt","a")
-  log_file.write("O_scores:\n")
-  #call O:
-  highest_O = '-'
-  if len(O_dict) == 0:
-      pass
-  else:
-      for x in O_dict:
-          log_file.write(x+"\t"+str(O_dict[x])+"\n")
-      if ('O-9,46_wbaV__1002' in O_dict and O_dict['O-9,46_wbaV__1002']>70) or ("O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002" in O_dict and O_dict['O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002']>70):  # not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-          #if 'O-9,46_wzy__1191' in O_dict or "O-9,46_wzy_partial__216" in O_dict:  # and float(O946_wzy)/float(num_1) > 0.1
-          #modified to fix miscall of O-9,46
-          if ('O-9,46_wzy__1191' in O_dict and O_dict['O-9,46_wzy__1191']>40) or ("O-9,46_wzy_partial__216" in O_dict and O_dict["O-9,46_wzy_partial__216"]>40):  # and float(O946_wzy)/float(num_1) > 0.1
-              highest_O = "O-9,46"
-          elif "O-9,46,27_partial_wzy__1019" in O_dict:  # and float(O94627)/float(num_1) > 0.1
-              highest_O = "O-9,46,27"
-          else:
-              highest_O = "O-9"  # next, detect O9 vs O2?
-              O2 = 0
-              O9 = 0
-              for z in Special_dict:
-                  if "tyr-O-9" in z:
-                      O9 = float(Special_dict[z])
-                  if "tyr-O-2" in z:
-                      O2 = float(Special_dict[z])
-              if O2 > O9:
-                  highest_O = "O-2"
-      elif ("O-3,10_wzx__1539" in O_dict) and (
-              "O-9,46_wzy__1191" in O_dict
-      ):  # and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-          if "O-3,10_not_in_1,3,19__1519" in O_dict:  # and float(O310_no_1319)/float(num_1) > 0.1
-              highest_O = "O-3,10"
-          else:
-              highest_O = "O-1,3,19"
-      ### end of special test for O9,46 and O3,10 family
-      else:
-          try:
-              max_score = 0
-              for x in O_dict:
-                  if float(O_dict[x]) >= max_score:
-                      max_score = float(O_dict[x])
-                      #highest_O = x.split("_")[0]
-                      # ed_SL_12182019: modified to fix the O-9,46 error example1
-                      if (x == 'O-9,46_wbaV__1002' or x == 'O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002') and ('O-9,46_wzy__1191' not in O_dict and 'O-9,46_wzy_partial__216' not in O_dict):
-                          highest_O = "O-9"
-                      else:
-                          highest_O = x.split("_")[0]
-              if highest_O == "O-1,3,19":
-                  highest_O = '-'
-                  max_score = 0
-                  for x in O_dict:
-                      if x == 'O-1,3,19_not_in_3,10__130':
-                          pass
-                      else:
-                          if float(O_dict[x]) >= max_score:
-                              max_score = float(O_dict[x])
-                              #highest_O = x.split("_")[0]
-                              # ed_SL_12182019: modified to fix the O-9,46 error example1
-                              if (x == 'O-9,46_wbaV__1002' or x == 'O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002') and ('O-9,46_wzy__1191' not in O_dict and 'O-9,46_wzy_partial__216' not in O_dict):
-                                  highest_O = "O-9"
-                              else:
-                                  highest_O = x.split("_")[0]
-          except:
-              pass
-  #call_fliC:
-  if len(H_dict)!=0:
-    highest_H_score_both_BC=H_dict[max(H_dict.keys(), key=(lambda k: H_dict[k]))] #used to detect whether fljB existed or not
-  else:
-    highest_H_score_both_BC=0
-  highest_fliC = '-'
-  highest_fliC_raw = '-'
-  highest_Score = 0
-  log_file.write("\nH_scores:\n")
-  for s in H_dict:
-      log_file.write(s+"\t"+str(H_dict[s])+"\n")
-      if s.startswith('fliC'):
-          if float(H_dict[s]) > highest_Score:
-              highest_fliC = s.split('_')[1]
-              highest_fliC_raw = s
-              highest_Score = float(H_dict[s])
-  #call_fljB
-  highest_fljB = '-'
-  highest_fljB_raw = '-'
-  highest_Score = 0
-  for s in H_dict:
-      if s.startswith('fljB'):
-          if float(H_dict[s]) > highest_Score and float(H_dict[s]) > highest_H_score_both_BC * 0.65: #fljB is special, so use highest_H_score_both_BC to give a general estimate of coverage, currently 0.65 seems pretty good; the reason use a high (0.65) is some fliC and fljB shared with each other
-              #highest_fljB = s.split('_')[1]
-              #highest_fljB_raw = s
-              #highest_Score = float(H_dict[s])
-              if s.split('_')[1]!=highest_fliC:
-                  highest_fljB = s.split('_')[1]
-                  highest_fljB_raw = s
-                  highest_Score = float(H_dict[s])
-  log_file.write("\nSpecial_scores:\n")
-  for s in Special_dict:
-    log_file.write(s+"\t"+str(Special_dict[s])+"\n")
-  log_file.close()
-  return highest_O,highest_fliC,highest_fljB
-
-def get_temp_file_names(for_fq,rev_fq):
-  #seqsero2 -a; get temp file names
-  sam=for_fq+".sam"
-  bam=for_fq+".bam"
-  sorted_bam=for_fq+"_sorted.bam"
-  mapped_fq1=for_fq+"_mapped.fq"
-  mapped_fq2=rev_fq+"_mapped.fq"
-  combined_fq=for_fq+"_combined.fq"
-  for_sai=for_fq+".sai"
-  rev_sai=rev_fq+".sai"
-  return sam,bam,sorted_bam,mapped_fq1,mapped_fq2,combined_fq,for_sai,rev_sai
-
-def map_and_sort(threads,database,fnameA,fnameB,sam,bam,for_sai,rev_sai,sorted_bam,mapping_mode):
-  #seqsero2 -a; do mapping and sort
-  print("building database...")
-  subprocess.check_call("bwa index "+database+ " 2>> data_log.txt",shell=True)
-  print("mapping...")
-  if mapping_mode=="mem":
-    subprocess.check_call("bwa mem -k 17 -t "+threads+" "+database+" "+fnameA+" "+fnameB+" > "+sam+ " 2>> data_log.txt",shell=True)
-  elif mapping_mode=="sam":
-    if fnameB!="":
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameA+" > "+for_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameB+" > "+rev_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa sampe "+database+" "+for_sai+" "+ rev_sai+" "+fnameA+" "+fnameB+" > "+sam+ " 2>> data_log.txt",shell=True)
-    else:
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameA+" > "+for_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa samse "+database+" "+for_sai+" "+for_fq+" > "+sam)
-  subprocess.check_call("samtools view -@ "+threads+" -F 4 -Sh "+sam+" > "+bam,shell=True)
-  ### check the version of samtools then use differnt commands
-  samtools_version=subprocess.Popen(["samtools"],stdout=subprocess.PIPE,stderr=subprocess.PIPE)
-  out, err = samtools_version.communicate()
-  version = str(err).split("ersion:")[1].strip().split(" ")[0].strip()
-  print("check samtools version:",version)
-  ### end of samtools version check and its analysis
-  if LooseVersion(version)<=LooseVersion("1.2"):
-    subprocess.check_call("samtools sort -@ "+threads+" -n "+bam+" "+fnameA+"_sorted",shell=True)
-  else:
-    subprocess.check_call("samtools sort -@ "+threads+" -n "+bam+" >"+sorted_bam,shell=True)
-
-def extract_mapped_reads_and_do_assembly_and_blast(current_time,sorted_bam,combined_fq,mapped_fq1,mapped_fq2,threads,fnameA,fnameB,database,mapping_mode):
-  #seqsero2 -a; extract, assembly and blast
-  subprocess.check_call("bamToFastq -i "+sorted_bam+" -fq "+combined_fq,shell=True)
-  #print("fnameA:",fnameA)
-  #print("fnameB:",fnameB)
-  if fnameB!="":
-    subprocess.check_call("bamToFastq -i "+sorted_bam+" -fq "+mapped_fq1+" -fq2 "+mapped_fq2 + " 2>> data_log.txt",shell=True)#2> /dev/null if want no output
-  else:
-    pass
-  outdir=current_time+"_temp"
-  print("assembling...")
-  if int(threads)>4:
-    t="4"
-  else:
-    t=threads
-  if os.path.getsize(combined_fq)>100 and (fnameB=="" or os.path.getsize(mapped_fq1)>100):#if not, then it's "-:-:-"
-    if fnameB!="":
-      subprocess.check_call("spades.py --careful --pe1-s "+combined_fq+" --pe1-1 "+mapped_fq1+" --pe1-2 "+mapped_fq2+" -t "+t+" -o "+outdir+ " >> data_log.txt 2>&1",shell=True)
-    else:
-      subprocess.check_call("spades.py --careful --pe1-s "+combined_fq+" -t "+t+" -o "+outdir+ " >> data_log.txt 2>&1",shell=True)
-    new_fasta=fnameA+"_"+database+"_"+mapping_mode+".fasta"
-    #new_fasta=fnameA+"_"+database.split('/')[-1]+"_"+mapping_mode+".fasta" # change path to databse for packaging
-    subprocess.check_call("mv "+outdir+"/contigs.fasta "+new_fasta+ " 2> /dev/null",shell=True)
-    #os.system("mv "+outdir+"/scaffolds.fasta "+new_fasta+ " 2> /dev/null") contigs.fasta
-    subprocess.check_call("rm -rf "+outdir+ " 2> /dev/null",shell=True)
-    print("blasting...","\n")
-    xmlfile="blasted_output.xml"#fnameA+"-extracted_vs_"+database+"_"+mapping_mode+".xml"
-    subprocess.check_call('makeblastdb -in '+new_fasta+' -out '+new_fasta+'_db '+'-dbtype nucl >> data_log.txt 2>&1',shell=True) #temp.txt is to forbid the blast result interrupt the output of our program###1/27/2015
-    subprocess.check_call("blastn -query "+database+" -db "+new_fasta+"_db -out "+xmlfile+" -outfmt 5 >> data_log.txt 2>&1",shell=True)###1/27/2015; 08272018, remove "-word_size 10"
-  else:
-    xmlfile="NA"
-  return xmlfile,new_fasta
-
-def judge_subspecies(fnameA):
-  #seqsero2 -a; judge subspecies on just forward raw reads fastq
-  salmID_output=subprocess.Popen("SalmID.py -i "+fnameA,shell=True,stdout=subprocess.PIPE,stderr=subprocess.PIPE)
-  out, err = salmID_output.communicate()
-  out=out.decode("utf-8")
-  file=open("data_log.txt","a")
-  file.write(out)
-  file.close()
-  salm_species_scores=out.split("\n")[1].split("\t")[6:]
-  salm_species_results=out.split("\n")[0].split("\t")[6:]
-  max_score=0
-  max_score_index=1 #default is 1, means "I"
-  for i in range(len(salm_species_scores)):
-    if max_score<float(salm_species_scores[i]):
-      max_score=float(salm_species_scores[i])
-      max_score_index=i
-  prediction=salm_species_results[max_score_index].split(".")[1].strip().split(" ")[0]
-  #if float(out.split("\n")[1].split("\t")[4]) > float(out.split("\n")[1].split("\t")[5]): #bongori and enterica compare
-  if float(out.split("\n")[1].split("\t")[4]) > 10 and float(out.split("\n")[1].split("\t")[4]) > float(out.split("\n")[1].split("\t")[5]): ## ed_SL_0318: change SalmID_ssp_threshold
-    prediction="bongori" #if not, the prediction would always be enterica, since they are located in the later part
-  #if max_score<10:  ## ed_SL_0318: change SalmID_ssp_threshold
-  if max_score<60:
-    prediction="-"
-  return prediction
-
-def judge_subspecies_Kmer(Special_dict):
-  #seqsero2 -k;
-  max_score=0
-  prediction="-" #default should be I
-  for x in Special_dict:
-    #if "mer" in x: ## ed_SL_0318: change ssp_threshold
-    if "mer" in x and float(Special_dict[x]) > 60:
-      if max_score<float(Special_dict[x]):
-        max_score=float(Special_dict[x])
-        prediction=x.split("_")[-1].strip()
-      if x.split("_")[-1].strip()=="bongori" and float(Special_dict[x])>95:#if bongori already, then no need to test enterica
-        prediction="bongori"
-        break
-  return prediction
-
-## ed_SL_11232019: add notes for missing antigen
-def check_antigens(ssp,O_antigen,H1_antigen,H2_antigen,NA_note):
-  antigen_note = ''
-  if ssp != '-':
-    if O_antigen != '-' and H1_antigen == '-' and H2_antigen == '-': # O:-:-
-      antigen_note = 'H antigens were not detected. This is an atypical result that should be further investigated. Most Salmonella strains have at least fliC, encoding the Phase 1 H antigen, even if it is not expressed. '
-      NA_note = ''
-    elif O_antigen != '-' and H1_antigen == '-' and H2_antigen != '-': # O:-:H2
-      antigen_note = 'fliC was not detected. This is an atypical result that should be further investigated. Most Salmonella strains have fliC, encoding the Phase 1 H antigen, even if it is not expressed. '
-      NA_note = ''
-    elif O_antigen == '-' and H1_antigen != '-': # -:H1:X
-      antigen_note = 'O antigen was not detected. This result may be due to a rough strain that has deleted the rfb region. For raw reads input, the k-mer workflow is sometimes more sensitive than the microassembly workflow in detecting O antigen. Caution should be used with this approach because the k-mer result may be due to low levels of contamination. '
-      NA_note = ''
-    elif O_antigen == '-' and H1_antigen == '-' and H2_antigen == '-': # -:-:-
-      antigen_note = 'No serotype antigens were detected. This is an atypical result that should be further investigated. '
-      NA_note = ''
-  else:
-    antigen_note = 'The input genome cannot be identified as Salmonella. Check the input for taxonomic ID, contamination, or sequencing quality. '
-    NA_note = ''
-#    if [O_antigen, H1_antigen, H2_antigen].count('-') >= 2:
-#      antigen_note = 'No subspecies marker was detected and less than 2 serotype antigens were detected; further, this genome was not identified as Salmonella. This is an atypical result that should be further investigated. '
-#    else:
-#      antigen_note = 'No subspecies marker was detected. This genome may not be Salmonella. This is an atypical result that should be further investigated. '
-  return (antigen_note,NA_note)
-
-def main():
-  #combine SeqSeroK and SeqSero2, also with SalmID
-  args = parse_args()
-  input_file = args.i
-  data_type = args.t
-  analysis_mode = args.m
-  mapping_mode=args.b
-  threads=args.p
-  make_dir=args.d
-  clean_mode=args.c
-  sample_name=args.n
-  ingore_header=args.s
-  k_size=27 #will change for bug fixing
-  dirpath = os.path.abspath(os.path.dirname(os.path.realpath(__file__)))
-  ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019: add ex_dir for packaging
-  seqsero2_db=ex_dir+"/H_and_O_and_specific_genes.fasta" # ed_SL_11092019: change path to database for packaging
-  database="H_and_O_and_specific_genes.fasta"
-  note="Note:	"
-  NA_note="This predicted serotype is not in the Kauffman-White scheme. " # ed_SL_09272019: add for new output format
-  if len(sys.argv)==1:
-    subprocess.check_call(dirpath+"/SeqSero2_package.py -h",shell=True)#change name of python file
-  else:
-    request_id = time.strftime("%m_%d_%Y_%H_%M_%S", time.localtime())
-    request_id += str(random.randint(1, 10000000))
-    if make_dir is None:
-      make_dir="SeqSero_result_"+request_id
-    if os.path.isdir(make_dir):
-      pass
-    else:
-      subprocess.check_call(["mkdir",make_dir])
-    #subprocess.check_call("cp "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True)
-    #subprocess.check_call("ln -sr "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True)
-    subprocess.check_call("ln -f -s "+seqsero2_db+" "+" ".join(input_file)+" "+make_dir,shell=True) # ed_SL_11092019: change path to database for packaging 
-    #subprocess.check_call("ln -f -s "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True) ### use -f option to force the replacement of links, remove -r and use absolute path instead to avoid link issue (use 'type=os.path.abspath' in -i argument).
-  ############################begin the real analysis 
-    if analysis_mode=="a":
-      if data_type in ["1","2","3"]:#use allele mode
-        for_fq,rev_fq=get_input_files(make_dir,input_file,data_type,dirpath)
-        os.chdir(make_dir)
-        ###add a function to tell input files
-        fnameA=for_fq.split("/")[-1]
-        fnameB=rev_fq.split("/")[-1]
-        current_time=time.strftime("%Y_%m_%d_%H_%M_%S", time.localtime())
-        sam,bam,sorted_bam,mapped_fq1,mapped_fq2,combined_fq,for_sai,rev_sai=get_temp_file_names(fnameA,fnameB) #get temp files id
-        map_and_sort(threads,database,fnameA,fnameB,sam,bam,for_sai,rev_sai,sorted_bam,mapping_mode) #do mapping and sort
-        ### avoid error out when micro assembly fails. ed_SL_03172020
-        try:
-          xmlfile,new_fasta=extract_mapped_reads_and_do_assembly_and_blast(current_time,sorted_bam,combined_fq,mapped_fq1,mapped_fq2,threads,fnameA,fnameB,database,mapping_mode) #extract the mapped reads and do micro assembly and blast
-        except (UnboundLocalError, subprocess.CalledProcessError):
-          xmlfile="NA"
-          H1_cont_stat_list=[]
-          H2_cont_stat_list=[]
-        ###
-        if xmlfile=="NA":
-          O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H=("-","-","-",[],"","")
-        else:
-          Final_list=xml_parse_score_comparision_seqsero(xmlfile) #analyze xml and get parsed results
-          file=open("data_log.txt","a")
-          for x in Final_list:
-            file.write("\t".join(str(y) for y in x)+"\n")
-          file.close()
-          Final_list_passed=[x for x in Final_list if float(x[0].split("_cov_")[1].split("_")[0])>=0.9 and (x[1]>=int(x[0].split("__")[1]) or x[1]>=int(x[0].split("___")[1].split("_")[3]) or x[1]>1000)]
-          O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H,Otypes_uniq,H1_cont_stat_list,H2_cont_stat_list=predict_O_and_H_types(Final_list,Final_list_passed,new_fasta) #predict O, fliC and fljB
-        subspecies=judge_subspecies(fnameA) #predict subspecies
-        ###output
-        predict_form,predict_sero,star,star_line,claim=seqsero_from_formula_to_serotypes(O_choice,fliC_choice,fljB_choice,special_gene_list,subspecies)
-        claim="" #04132019, disable claim for new report requirement
-        contamination_report=""
-        H_list=["fliC_"+x for x in H1_cont_stat_list if len(x)>0]+["fljB_"+x for x in H2_cont_stat_list if len(x)>0]
-        if contamination_O!="" and contamination_H=="":
-          contamination_report="#Potential inter-serotype contamination detected from O antigen signals. All O-antigens detected:"+"\t".join(Otypes_uniq)+"."
-        elif contamination_O=="" and contamination_H!="":
-          contamination_report="#Potential inter-serotype contamination detected or potential thrid H phase from H antigen signals. All H-antigens detected:"+"\t".join(H_list)+"."
-        elif contamination_O!="" and contamination_H!="":
-          contamination_report="#Potential inter-serotype contamination detected from both O and H antigen signals.All O-antigens detected:"+"\t".join(Otypes_uniq)+". All H-antigens detected:"+"\t".join(H_list)+"."
-        if contamination_report!="":
-          #contamination_report="potential inter-serotype contamination detected (please refer below antigen signal report for details)." #above contamination_reports are for back-up and bug fixing #web-based mode need to be re-used, 04132019
-          contamination_report="Co-existence of multiple serotypes detected, indicating potential inter-serotype contamination. See 'Extracted_antigen_alleles.fasta' for detected serotype determinant alleles. "
-        #claim="\n"+open("Extracted_antigen_alleles.fasta","r").read()#used to store H and O antigen sequeences #04132019, need to change if using web-version
-        #if contamination_report+star_line+claim=="": #0413, new output style
-        #  note=""
-        #else:
-        #  note="Note:"
-
-        ### ed_SL_11232019: add notes for missing antigen
-        if O_choice=="":
-          O_choice="-"
-        antigen_note,NA_note=check_antigens(subspecies,O_choice,fliC_choice,fljB_choice,NA_note)
-        if sample_name:
-          print ("Sample name:\t"+sample_name)
-        ###
-
-        if clean_mode:
-          subprocess.check_call("rm -rf ../"+make_dir,shell=True)
-          make_dir="none-output-directory due to '-c' flag"
-        else:
-          new_file=open("SeqSero_result.txt","w")
-          ### ed_SL_01152020: add new output
-          conta_note="yes" if "inter-serotype contamination" in contamination_report else "no"
-          tsv_file=open("SeqSero_result.tsv","w")
-          if ingore_header:
-            pass
-          else:
-            tsv_file.write("Sample name\tOutput directory\tInput files\tO antigen prediction\tH1 antigen prediction(fliC)\tH2 antigen prediction(fljB)\tPredicted subspecies\tPredicted antigenic profile\tPredicted serotype\tPotential inter-serotype contamination\tNote\n")
-          if sample_name:
-            new_file.write("Sample name:\t"+sample_name+"\n")
-            tsv_file.write(sample_name+'\t')
-          else:
-            tsv_file.write(input_file[0].split('/')[-1]+'\t')
-          ###
-          if "N/A" not in predict_sero:
-            new_file.write("Output directory:\t"+make_dir+"\n"+
-                           "Input files:\t"+"\t".join(input_file)+"\n"+
-                           "O antigen prediction:\t"+O_choice+"\n"+
-                           "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                           "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                           "Predicted subspecies:\t"+subspecies+"\n"+
-                           "Predicted antigenic profile:\t"+predict_form+"\n"+
-                           "Predicted serotype:\t"+predict_sero+"\n"+
-                           note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-            tsv_file.write(make_dir+"\t"+" ".join(input_file)+"\t"+O_choice+"\t"+fliC_choice+"\t"+fljB_choice+"\t"+subspecies+"\t"+predict_form+"\t"+predict_sero+"\t"+conta_note+"\t"+contamination_report+star_line+claim+antigen_note+"\n")
-          else:
-            #star_line=star_line.strip()+"\tNone such antigenic formula in KW.\n"
-            star_line="" #04132019, for new output requirement, diable star_line if "NA" in output
-            new_file.write("Output directory:\t"+make_dir+"\n"+
-                           "Input files:\t"+"\t".join(input_file)+"\n"+
-                           "O antigen prediction:\t"+O_choice+"\n"+
-                           "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                           "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                           "Predicted subspecies:\t"+subspecies+"\n"+
-                           "Predicted antigenic profile:\t"+predict_form+"\n"+
-                           "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, add subspecies
-                           note+NA_note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-            tsv_file.write(make_dir+"\t"+" ".join(input_file)+"\t"+O_choice+"\t"+fliC_choice+"\t"+fljB_choice+"\t"+subspecies+"\t"+predict_form+"\t"+subspecies+' '+predict_form+"\t"+conta_note+"\t"+NA_note+contamination_report+star_line+claim+antigen_note+"\n")
-          new_file.close()
-          tsv_file.close()
-          #subprocess.check_call("cat Seqsero_result.txt",shell=True)
-          #subprocess.call("rm H_and_O_and_specific_genes.fasta* *.sra *.bam *.sam *.fastq *.gz *.fq temp.txt *.xml "+fnameA+"*_db* 2> /dev/null",shell=True)
-          subprocess.call("rm H_and_O_and_specific_genes.fasta* *.sra *.bam *.sam *.fastq *.gz *.fq temp.txt "+fnameA+"*_db* 2> /dev/null",shell=True)
-        if "N/A" not in predict_sero:
-          #print("Output_directory:"+make_dir+"\nInput files:\t"+for_fq+" "+rev_fq+"\n"+"O antigen prediction:\t"+O_choice+"\n"+"H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+"H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+"Predicted antigenic profile:\t"+predict_form+"\n"+"Predicted subspecies:\t"+subspecies+"\n"+"Predicted serotype(s):\t"+predict_sero+star+"\nNote:"+contamination_report+star+star_line+claim+"\n")#+##
-          print("Output directory:\t"+make_dir+"\n"+
-                "Input files:\t"+"\t".join(input_file)+"\n"+
-                "O antigen prediction:\t"+O_choice+"\n"+
-                "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                "Predicted subspecies:\t"+subspecies+"\n"+
-                "Predicted antigenic profile:\t"+predict_form+"\n"+
-                "Predicted serotype:\t"+predict_sero+"\n"+
-                note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-        else:
-          print("Output directory:\t"+make_dir+"\n"+
-                "Input files:\t"+"\t".join(input_file)+"\n"+
-                "O antigen prediction:\t"+O_choice+"\n"+
-                "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                "Predicted subspecies:\t"+subspecies+"\n"+
-                "Predicted antigenic profile:\t"+predict_form+"\n"+
-                "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-                note+NA_note+contamination_report+star_line+claim+antigen_note+"\n")
-      else:
-        print("Allele modes only support raw reads datatype, i.e. '-t 1 or 2 or 3'; please use '-m k'")
-    elif analysis_mode=="k":
-      #ex_dir = os.path.dirname(os.path.realpath(__file__))
-      ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019: change ex_dir for packaging
-      #output_mode = args.mode
-      for_fq,rev_fq=get_input_files(make_dir,input_file,data_type,dirpath)
-      input_file = for_fq #-k will just use forward because not all reads were used
-      os.chdir(make_dir)
-      f = open(ex_dir + '/antigens.pickle', 'rb')
-      lib_dict = pickle.load(f)
-      f.close
-      input_Ks=get_input_K(input_file,lib_dict,data_type,k_size)
-      O_dict,H_dict,Special_dict=get_kmer_dict(lib_dict,input_Ks)
-      highest_O,highest_fliC,highest_fljB=call_O_and_H_type(O_dict,H_dict,Special_dict,make_dir)
-      subspecies=judge_subspecies_Kmer(Special_dict)
-      if subspecies=="IIb" or subspecies=="IIa":
-        subspecies="II"
-      predict_form,predict_sero,star,star_line,claim = seqsero_from_formula_to_serotypes(
-          highest_O.split('-')[1], highest_fliC, highest_fljB, Special_dict,subspecies)
-      claim="" #no claim any more based on new output requirement
-      #if star_line+claim=="": #0413, new output style
-      #  note=""
-      #else:
-      #  note="Note:"
-
-      ### ed_SL_11232019: add notes for missing antigen
-      if highest_O.split('-')[-1]=="":
-        O_choice="-"
-      else:
-        O_choice=highest_O.split('-')[-1]
-      antigen_note,NA_note=check_antigens(subspecies,O_choice,highest_fliC,highest_fljB,NA_note)
-      if sample_name:
-        print ("Sample name:\t"+sample_name)
-      ###
-
-      if clean_mode:
-        subprocess.check_call("rm -rf ../"+make_dir,shell=True)
-        make_dir="none-output-directory due to '-c' flag"
-      #  ### ed_SL_05282019, fix the assignment issue of variable 'O_choice' using "-m k -c"
-      #  if highest_O.split('-')[-1]=="":
-      #    O_choice="-"
-      #  else:
-      #    O_choice=highest_O.split('-')[-1]
-      #  ###
-      else:
-      #  if highest_O.split('-')[-1]=="":
-      #    O_choice="-"
-      #  else:
-      #    O_choice=highest_O.split('-')[-1]
-        #print("Output_directory:"+make_dir+"\tInput_file:"+input_file+"\tPredicted subpecies:"+subspecies + '\tPredicted antigenic profile:' + predict_form + '\tPredicted serotype(s):' + predict_sero)
-        new_file=open("SeqSero_result.txt","w")
-        #new_file.write("Output_directory:"+make_dir+"\nInput files:\t"+input_file+"\n"+"O antigen prediction:\t"+O_choice+"\n"+"H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+"H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+"Predicted antigenic profile:\t"+predict_form+"\n"+"Predicted subspecies:\t"+subspecies+"\n"+"Predicted serotype(s):\t"+predict_sero+star+"\n"+star+star_line+claim+"\n")#+##
-        ### ed_SL_01152020: add new output
-        tsv_file=open("SeqSero_result.tsv","w")
-        if ingore_header:
-          pass
-        else:
-          tsv_file.write("Sample name\tOutput directory\tInput files\tO antigen prediction\tH1 antigen prediction(fliC)\tH2 antigen prediction(fljB)\tPredicted subspecies\tPredicted antigenic profile\tPredicted serotype\tNote\n")
-        if sample_name: 
-          new_file.write("Sample name:\t"+sample_name+"\n")
-          tsv_file.write(sample_name+'\t')
-        else:
-          tsv_file.write(input_file.split('/')[-1]+'\t')
-        ###
-        if "N/A" not in predict_sero:
-          new_file.write("Output directory:\t"+make_dir+"\n"+
-                         "Input files:\t"+input_file+"\n"+
-                         "O antigen prediction:\t"+O_choice+"\n"+
-                         "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-                         "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-                         "Predicted subspecies:\t"+subspecies+"\n"+
-                         "Predicted antigenic profile:\t"+predict_form+"\n"+
-                         "Predicted serotype:\t"+predict_sero+"\n"+
-                         note+star_line+claim+antigen_note+"\n")#+##
-          tsv_file.write(make_dir+"\t"+input_file+"\t"+O_choice+"\t"+highest_fliC+"\t"+highest_fljB+"\t"+subspecies+"\t"+predict_form+"\t"+predict_sero+"\t"+star_line+claim+antigen_note+"\n")
-        else:
-          #star_line=star_line.strip()+"\tNone such antigenic formula in KW.\n"
-          star_line = "" #changed for new output requirement, 04132019
-          new_file.write("Output directory:\t"+make_dir+"\n"+
-                         "Input files:\t"+input_file+"\n"+
-                         "O antigen prediction:\t"+O_choice+"\n"+
-                         "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-                         "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-                         "Predicted subspecies:\t"+subspecies+"\n"+
-                         "Predicted antigenic profile:\t"+predict_form+"\n"+
-                         "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-                         note+NA_note+star_line+claim+antigen_note+"\n")#+##
-          tsv_file.write(make_dir+"\t"+input_file+"\t"+O_choice+"\t"+highest_fliC+"\t"+highest_fljB+"\t"+subspecies+"\t"+predict_form+"\t"+subspecies+' '+predict_form+"\t"+NA_note+star_line+claim+antigen_note+"\n")
-        new_file.close()
-        tsv_file.close()
-        subprocess.call("rm *.fasta* *.fastq *.gz *.fq temp.txt *.sra 2> /dev/null",shell=True)
-      if "N/A" not in predict_sero:
-        print("Output directory:\t"+make_dir+"\n"+
-              "Input files:\t"+input_file+"\n"+
-              "O antigen prediction:\t"+O_choice+"\n"+
-              "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-              "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-              "Predicted subspecies:\t"+subspecies+"\n"+
-              "Predicted antigenic profile:\t"+predict_form+"\n"+
-              "Predicted serotype:\t"+predict_sero+"\n"+
-              note+star_line+claim+antigen_note+"\n")#+##
-      else:
-        print("Output directory:\t"+make_dir+"\n"+
-              "Input files:\t"+input_file+"\n"+
-              "O antigen prediction:\t"+O_choice+"\n"+
-              "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-              "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-              "Predicted subspecies:\t"+subspecies+"\n"+
-              "Predicted antigenic profile:\t"+predict_form+"\n"+
-              "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-              note+NA_note+star_line+claim+antigen_note+"\n")#+##
-
-if __name__ == '__main__':
-  main()
diff -r d0350fe29fdf -r 8e36dd436ac4 bin/SeqSero2_update_kmer_database.py
--- a/bin/SeqSero2_update_kmer_database.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,113 +0,0 @@
-#!/usr/bin/env python3
-
-import argparse
-import os,subprocess
-import pickle
-
-### SeqSero Kmer
-def parse_args():
-    "Parse the input arguments, use '-h' for help."
-    parser = argparse.ArgumentParser(usage='Just type "SeqSero2_update_kmer_database.py", it will update kmer database automatically')
-    return parser.parse_args()
-
-def reverse_complement(sequence):
-    complement = {
-        'A': 'T',
-        'C': 'G',
-        'G': 'C',
-        'T': 'A',
-        'N': 'N',
-        'M': 'K',
-        'R': 'Y',
-        'W': 'W',
-        'S': 'S',
-        'Y': 'R',
-        'K': 'M',
-        'V': 'B',
-        'H': 'D',
-        'D': 'H',
-        'B': 'V'
-    }
-    return "".join(complement[base] for base in reversed(sequence))
-
-def multifasta_dict(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r') if len(line.strip()) > 0
-    ]
-    headers = [i for i in multifasta_list if i[0] == '>']
-    multifasta_dict = {}
-    for h in headers:
-        start = multifasta_list.index(h)
-        for element in multifasta_list[start + 1:]:
-            if element[0] == '>':
-                break
-            else:
-                if h[1:] in multifasta_dict:
-                    multifasta_dict[h[1:]] += element
-                else:
-                    multifasta_dict[h[1:]] = element
-    return multifasta_dict
-
-def createKmerDict_reads(list_of_strings, kmer):
-    kmer_table = {}
-    for string in list_of_strings:
-        sequence = string.strip('\n')
-        for i in range(len(sequence) - kmer + 1):
-            new_mer = sequence[i:i + kmer].upper()
-            new_mer_rc = reverse_complement(new_mer)
-            if new_mer in kmer_table:
-                kmer_table[new_mer.upper()] += 1
-            else:
-                kmer_table[new_mer.upper()] = 1
-            if new_mer_rc in kmer_table:
-                kmer_table[new_mer_rc.upper()] += 1
-            else:
-                kmer_table[new_mer_rc.upper()] = 1
-    return kmer_table
-
-def multifasta_to_kmers_dict(multifasta):
-    multi_seq_dict = multifasta_dict(multifasta)
-    lib_dict = {}
-    for h in multi_seq_dict:
-        lib_dict[h] = set(
-            [k for k in createKmerDict_reads([multi_seq_dict[h]], 27)])
-    return lib_dict
-
-def get_salmid_invA_database(ex_dir):
-  # read invA kmer and return it
-  a = open(ex_dir + '/invA_mers_dict', 'rb')
-  invA_dict = pickle.load(a)
-  try:
-    del invA_dict['version']
-  except:
-    pass
-  return invA_dict
-
-def get_salmid_rpoB_database(ex_dir):
-  # read invA kmer and return it
-  a = open(ex_dir + '/rpoB_mers_dict', 'rb')
-  rpoB_dict = pickle.load(a)
-  try:
-    del rpoB_dict['version']
-  except:
-    pass
-  return rpoB_dict
-
-def main():
-  args = parse_args()
-  ex_dir = os.path.dirname(os.path.realpath(__file__))
-  lib_dict = multifasta_to_kmers_dict(ex_dir + '/H_and_O_and_specific_genes.fasta')
-  invA_dict=get_salmid_invA_database(ex_dir)
-  #rpoB_dict=get_salmid_rpoB_database(ex_dir)
-  lib_dict_new = lib_dict.copy()
-  #print(len(lib_dict_new))
-  lib_dict_new.update(invA_dict)
-  #print(len(lib_dict_new))
-  #lib_dict_new.update(rpoB_dict)
-  #print(len(lib_dict_new))
-  f = open(ex_dir + '/antigens.pickle', "wb")
-  pickle.dump(lib_dict_new, f)
-  f.close()
-
-if __name__ == '__main__':
-  main()
diff -r d0350fe29fdf -r 8e36dd436ac4 bin/__pycache__/Initial_Conditions.cpython-36.pyc
Binary file bin/__pycache__/Initial_Conditions.cpython-36.pyc has changed
diff -r d0350fe29fdf -r 8e36dd436ac4 bin/deinterleave_fastq.sh
--- a/bin/deinterleave_fastq.sh	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,30 +0,0 @@
-#!/bin/bash
-# Usage: deinterleave_fastq.sh < interleaved.fastq f.fastq r.fastq [compress]
-# 
-# Deinterleaves a FASTQ file of paired reads into two FASTQ
-# files specified on the command line. Optionally GZip compresses the output
-# FASTQ files using pigz if the 3rd command line argument is the word "compress"
-# 
-# Can deinterleave 100 million paired reads (200 million total
-# reads; a 43Gbyte file), in memory (/dev/shm), in 4m15s (255s)
-# 
-# Latest code: https://gist.github.com/3521724
-# Also see my interleaving script: https://gist.github.com/4544979
-# 
-# Inspired by Torsten Seemann's blog post:
-# http://thegenomefactory.blogspot.com.au/2012/05/cool-use-of-unix-paste-with-ngs.html
-
-# Set up some defaults
-GZIP_OUTPUT=0
-PIGZ_COMPRESSION_THREADS=10
-
-# If the third argument is the word "compress" then we'll compress the output using pigz
-if [[ $3 == "compress" ]]; then
-  GZIP_OUTPUT=1
-fi
-
-if [[ ${GZIP_OUTPUT} == 0 ]]; then
-  paste - - - - - - - -  | tee >(cut -f 1-4 | tr "\t" "\n" > $1) | cut -f 5-8 | tr "\t" "\n" > $2
-else
-  paste - - - - - - - -  | tee >(cut -f 1-4 | tr "\t" "\n" | pigz --best --processes ${PIGZ_COMPRESSION_THREADS} > $1) | cut -f 5-8 | tr "\t" "\n" | pigz --best --processes ${PIGZ_COMPRESSION_THREADS} > $2
-fi
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/LICENSE
--- a/build/lib/LICENSE	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,339 +0,0 @@
-GNU GENERAL PUBLIC LICENSE
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diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/MANIFEST.in
--- a/build/lib/MANIFEST.in	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,10 +0,0 @@
-include LICENSE
-include README.md
-include MANIFEST.in
-include version.py
-include setup.py
-include seqsero2_db/antigens.pickle
-include seqsero2_db/H_and_O_and_specific_genes.fasta
-include seqsero2_db/invA_mers_dict
-include seqsero2_db/special.pickle
-include bin/deinterleave_fastq.sh
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/README.md
--- a/build/lib/README.md	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,117 +0,0 @@
-# SeqSero2 v1.1.0
-Salmonella serotype prediction from genome sequencing data.
-
-Online version: http://www.denglab.info/SeqSero2
-
-# Introduction 
-SeqSero2 is a pipeline for Salmonella serotype prediction from raw sequencing reads or genome assemblies
-
-# Dependencies 
-SeqSero2 has three workflows:
-
-(A) Allele micro-assembly (default). This workflow takes raw reads as input and performs targeted assembly of serotype determinant alleles. Assembled alleles are used to predict serotype and flag potential inter-serotype contamination in sequencing data (i.e., presence of reads from multiple serotypes due to, for example, cross or carryover contamination during sequencing). 
-
-Allele micro-assembly workflow depends on:
-
-1. Python 3;
-
-2. Biopython 1.73;
-
-3. [Burrows-Wheeler Aligner v0.7.12](http://sourceforge.net/projects/bio-bwa/files/);
-
-4. [Samtools v1.8](http://sourceforge.net/projects/samtools/files/samtools/);
-
-5. [NCBI BLAST v2.2.28+](https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastDocs&DOC_TYPE=Download);
-
-6. [SRA Toolkit v2.8.0](http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=software&m=software&s=software);
-
-7. [SPAdes v3.9.0](http://bioinf.spbau.ru/spades);
-
-8. [Bedtools v2.17.0](http://bedtools.readthedocs.io/en/latest/);
-
-9. [SalmID v0.11](https://github.com/hcdenbakker/SalmID).
-
-
-(B) Raw reads k-mer. This workflow takes raw reads as input and performs rapid serotype prediction based on unique k-mers of serotype determinants. 
-
-Raw reads k-mer workflow (originally SeqSeroK) depends on:
-
-1. Python 3;
-2. [SRA Toolkit](http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=software&m=software&s=software) (optional, just used to fastq-dump sra files);
-
-
-(C) Genome assembly k-mer. This workflow takes genome assemblies as input and the rest of the workflow largely overlaps with the raw reads k-mer workflow
-
-# Installation
-### Conda
-To install the latest SeqSero2 Conda package (recommended):  
-```
-conda install -c bioconda seqsero2=1.1.0
-```
-### Git
-To install the SeqSero2 git repository locally:
-```
-git clone https://github.com/denglab/SeqSero2.git
-cd SeqSero2
-python3 -m pip install --user .
-```
-### Other options
-Third party SeqSero2 installations (may not be the latest version of SeqSero2): \
-https://github.com/B-UMMI/docker-images/tree/master/seqsero2 \
-https://github.com/denglab/SeqSero2/issues/13
-
-
-# Executing the code 
-Make sure all SeqSero2 and its dependency executables are added to your path (e.g. to ~/.bashrc). Then type SeqSero2_package.py to get detailed instructions.
-
-    Usage: SeqSero2_package.py 
-
-    -m <string> (which workflow to apply, 'a'(raw reads allele micro-assembly), 'k'(raw reads and genome assembly k-mer), default=a)
-
-    -t <string> (input data type, '1' for interleaved paired-end reads, '2' for separated paired-end reads, '3' for single reads, '4' for genome assembly, '5' for nanopore fasta, '6'for nanopore fastq)
-
-    -i <file> (/path/to/input/file)
-
-    -p <int> (number of threads for allele mode, if p >4, only 4 threads will be used for assembly since the amount of extracted reads is small, default=1) 
-
-    -b <string> (algorithms for bwa mapping for allele mode; 'mem' for mem, 'sam' for samse/sampe; default=mem; optional; for now we only optimized for default "mem" mode)
- 
-    -d <string> (output directory name, if not set, the output directory would be 'SeqSero_result_'+time stamp+one random number)
-	
-    -c <flag> (if '-c' was flagged, SeqSero2 will only output serotype prediction without the directory containing log files)
-    
-    -n <string> (optional, to specify a sample name in the report output)
-    
-    -s <flag> (if '-s' was flagged, SeqSero2 will not output header in SeqSero_result.tsv)
-		    
-    --check <flag> (use '--check' flag to check the required dependencies)
-    
-    -v, --version (show program's version number and exit)
-	
-
-# Examples
-Allele mode:
-
-    # Allele workflow ("-m a", default), for separated paired-end raw reads ("-t 2"), use 10 threads in mapping and assembly ("-p 10")
-    SeqSero2_package.py -p 10 -t 2 -i R1.fastq.gz R2.fastq.gz
-	
-K-mer mode:
-
-    # Raw reads k-mer ("-m k"), for separated paired-end raw reads ("-t 2")
-    SeqSero2_package.py -m k -t 2 -i R1.fastq.gz R2.fastq.gz
-
-    # Genome assembly k-mer ("-t 4", genome assemblies only predicted by the k-mer workflow, "-m k")
-    SeqSero2_package.py -m k -t 4 -i assembly.fasta
-	
-# Output 
-Upon executing the command, a directory named 'SeqSero_result_Time_your_run' will be created. Your result will be stored in 'SeqSero_result.txt' in that directory. And the assembled alleles can also be found in the directory if using "-m a" (allele mode).
-
-
-# Citation
-Zhang S, Den-Bakker HC, Li S, Dinsmore BA, Lane C, Lauer AC, Fields PI, Deng X. 
-SeqSero2: rapid and improved Salmonella serotype determination using whole genome sequencing data.
-**Appl Environ Microbiology. 2019 Sep; 85(23):e01746-19.** [PMID: 31540993](https://aem.asm.org/content/early/2019/09/17/AEM.01746-19.long) 
-
-Zhang S, Yin Y, Jones MB, Zhang Z, Deatherage Kaiser BL, Dinsmore BA, Fitzgerald C, Fields PI, Deng X.  
-Salmonella serotype determination utilizing high-throughput genome sequencing data.  
-**J Clin Microbiol. 2015 May;53(5):1685-92.** [PMID: 25762776](http://jcm.asm.org/content/early/2015/03/05/JCM.00323-15)
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/SeqSero2.egg-info/PKG-INFO
--- a/build/lib/SeqSero2.egg-info/PKG-INFO	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,132 +0,0 @@
-Metadata-Version: 1.1
-Name: SeqSero2
-Version: 1.1.0
-Summary: Salmonella serotyping
-Home-page: https://github.com/denglab/SeqSero2/
-Author: Shaokang Zhang, Hendrik C Den-Bakker and Xiangyu Deng
-Author-email: zskzsk@uga.edu, Hendrik.DenBakker@uga.edu, xdeng@uga.edu
-License: GPLv2
-Description: # SeqSero2 v1.1.0
-        Salmonella serotype prediction from genome sequencing data.
-        
-        Online version: http://www.denglab.info/SeqSero2
-        
-        # Introduction 
-        SeqSero2 is a pipeline for Salmonella serotype prediction from raw sequencing reads or genome assemblies
-        
-        # Dependencies 
-        SeqSero2 has three workflows:
-        
-        (A) Allele micro-assembly (default). This workflow takes raw reads as input and performs targeted assembly of serotype determinant alleles. Assembled alleles are used to predict serotype and flag potential inter-serotype contamination in sequencing data (i.e., presence of reads from multiple serotypes due to, for example, cross or carryover contamination during sequencing). 
-        
-        Allele micro-assembly workflow depends on:
-        
-        1. Python 3;
-        
-        2. Biopython 1.73;
-        
-        3. [Burrows-Wheeler Aligner v0.7.12](http://sourceforge.net/projects/bio-bwa/files/);
-        
-        4. [Samtools v1.8](http://sourceforge.net/projects/samtools/files/samtools/);
-        
-        5. [NCBI BLAST v2.2.28+](https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastDocs&DOC_TYPE=Download);
-        
-        6. [SRA Toolkit v2.8.0](http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=software&m=software&s=software);
-        
-        7. [SPAdes v3.9.0](http://bioinf.spbau.ru/spades);
-        
-        8. [Bedtools v2.17.0](http://bedtools.readthedocs.io/en/latest/);
-        
-        9. [SalmID v0.11](https://github.com/hcdenbakker/SalmID).
-        
-        
-        (B) Raw reads k-mer. This workflow takes raw reads as input and performs rapid serotype prediction based on unique k-mers of serotype determinants. 
-        
-        Raw reads k-mer workflow (originally SeqSeroK) depends on:
-        
-        1. Python 3;
-        2. [SRA Toolkit](http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=software&m=software&s=software) (optional, just used to fastq-dump sra files);
-        
-        
-        (C) Genome assembly k-mer. This workflow takes genome assemblies as input and the rest of the workflow largely overlaps with the raw reads k-mer workflow
-        
-        # Installation
-        ### Conda
-        To install the latest SeqSero2 Conda package (recommended):  
-        ```
-        conda install -c bioconda seqsero2=1.1.0
-        ```
-        ### Git
-        To install the SeqSero2 git repository locally:
-        ```
-        git clone https://github.com/denglab/SeqSero2.git
-        cd SeqSero2
-        python3 -m pip install --user .
-        ```
-        ### Other options
-        Third party SeqSero2 installations (may not be the latest version of SeqSero2): \
-        https://github.com/B-UMMI/docker-images/tree/master/seqsero2 \
-        https://github.com/denglab/SeqSero2/issues/13
-        
-        
-        # Executing the code 
-        Make sure all SeqSero2 and its dependency executables are added to your path (e.g. to ~/.bashrc). Then type SeqSero2_package.py to get detailed instructions.
-        
-            Usage: SeqSero2_package.py 
-        
-            -m <string> (which workflow to apply, 'a'(raw reads allele micro-assembly), 'k'(raw reads and genome assembly k-mer), default=a)
-        
-            -t <string> (input data type, '1' for interleaved paired-end reads, '2' for separated paired-end reads, '3' for single reads, '4' for genome assembly, '5' for nanopore fasta, '6'for nanopore fastq)
-        
-            -i <file> (/path/to/input/file)
-        
-            -p <int> (number of threads for allele mode, if p >4, only 4 threads will be used for assembly since the amount of extracted reads is small, default=1) 
-        
-            -b <string> (algorithms for bwa mapping for allele mode; 'mem' for mem, 'sam' for samse/sampe; default=mem; optional; for now we only optimized for default "mem" mode)
-         
-            -d <string> (output directory name, if not set, the output directory would be 'SeqSero_result_'+time stamp+one random number)
-        	
-            -c <flag> (if '-c' was flagged, SeqSero2 will only output serotype prediction without the directory containing log files)
-            
-            -n <string> (optional, to specify a sample name in the report output)
-            
-            -s <flag> (if '-s' was flagged, SeqSero2 will not output header in SeqSero_result.tsv)
-        		    
-            --check <flag> (use '--check' flag to check the required dependencies)
-            
-            -v, --version (show program's version number and exit)
-        	
-        
-        # Examples
-        Allele mode:
-        
-            # Allele workflow ("-m a", default), for separated paired-end raw reads ("-t 2"), use 10 threads in mapping and assembly ("-p 10")
-            SeqSero2_package.py -p 10 -t 2 -i R1.fastq.gz R2.fastq.gz
-        	
-        K-mer mode:
-        
-            # Raw reads k-mer ("-m k"), for separated paired-end raw reads ("-t 2")
-            SeqSero2_package.py -m k -t 2 -i R1.fastq.gz R2.fastq.gz
-        
-            # Genome assembly k-mer ("-t 4", genome assemblies only predicted by the k-mer workflow, "-m k")
-            SeqSero2_package.py -m k -t 4 -i assembly.fasta
-        	
-        # Output 
-        Upon executing the command, a directory named 'SeqSero_result_Time_your_run' will be created. Your result will be stored in 'SeqSero_result.txt' in that directory. And the assembled alleles can also be found in the directory if using "-m a" (allele mode).
-        
-        
-        # Citation
-        Zhang S, Den-Bakker HC, Li S, Dinsmore BA, Lane C, Lauer AC, Fields PI, Deng X. 
-        SeqSero2: rapid and improved Salmonella serotype determination using whole genome sequencing data.
-        **Appl Environ Microbiology. 2019 Sep; 85(23):e01746-19.** [PMID: 31540993](https://aem.asm.org/content/early/2019/09/17/AEM.01746-19.long) 
-        
-        Zhang S, Yin Y, Jones MB, Zhang Z, Deatherage Kaiser BL, Dinsmore BA, Fitzgerald C, Fields PI, Deng X.  
-        Salmonella serotype determination utilizing high-throughput genome sequencing data.  
-        **J Clin Microbiol. 2015 May;53(5):1685-92.** [PMID: 25762776](http://jcm.asm.org/content/early/2015/03/05/JCM.00323-15)
-        
-Keywords: Salmonella serotyping bioinformatics WGS
-Platform: UNKNOWN
-Classifier: Development Status :: 3 - Alpha
-Classifier: License :: OSI Approved :: GNU General Public License v2 (GPLv2)
-Classifier: Programming Language :: Python :: 3
-Classifier: Topic :: Text Processing :: Linguistic
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/SeqSero2.egg-info/SOURCES.txt
--- a/build/lib/SeqSero2.egg-info/SOURCES.txt	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,19 +0,0 @@
-LICENSE
-MANIFEST.in
-README.md
-setup.py
-version.py
-SeqSero2.egg-info/PKG-INFO
-SeqSero2.egg-info/SOURCES.txt
-SeqSero2.egg-info/dependency_links.txt
-SeqSero2.egg-info/not-zip-safe
-SeqSero2.egg-info/requires.txt
-SeqSero2.egg-info/top_level.txt
-bin/Initial_Conditions.py
-bin/SeqSero2_package.py
-bin/SeqSero2_update_kmer_database.py
-bin/deinterleave_fastq.sh
-seqsero2_db/H_and_O_and_specific_genes.fasta
-seqsero2_db/antigens.pickle
-seqsero2_db/invA_mers_dict
-seqsero2_db/special.pickle
\ No newline at end of file
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/SeqSero2.egg-info/dependency_links.txt
--- a/build/lib/SeqSero2.egg-info/dependency_links.txt	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/SeqSero2.egg-info/not-zip-safe
--- a/build/lib/SeqSero2.egg-info/not-zip-safe	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/SeqSero2.egg-info/requires.txt
--- a/build/lib/SeqSero2.egg-info/requires.txt	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-biopython==1.73
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/SeqSero2.egg-info/top_level.txt
--- a/build/lib/SeqSero2.egg-info/top_level.txt	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/bin/Initial_Conditions.py
--- a/build/lib/bin/Initial_Conditions.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,109 +0,0 @@
-#!/usr/bin/env python
-
-subs=['II', 'I', 'I', 'II', 'I', 'II', 'II', 'I', 'II', 'II', 'II', 'II', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'IIIb', 'I', 'II', 'II', 'II', 'II', 'II', 'I', 'I', 'I', 'I', 'I', 'II', 'I', 'I', 'II', 'II', 'II', 'II', 'II', 'II', 'I', 'II', 'I', 'I', 'I', 'I', 'I', 'II', 'I', 'I', 'I', 'I', 'I', 'I', 'VI', 'II', 'I', 'VI', 'I', 'I', 'I', 'II', 'I', 'I', 'II', 'I', 'II', 'I', 'I', 'I', 'I', 'I', 'II', 'I', 'I', 'I', 'II', 'II', 'I', 'I', 'I', 'I', 'II', 'I', 'IV', 'I', 'I', 'II', 'I', 'I', 'IV', 'I', 'II', 'I', 'I', 'II', 'I', 'I', 'II', 'I', 'I', 'IV', 'I', 'I', 'I', 'I', 'II', 'I', 'I', 'I', 'I', 'I', 'I', 'I', 'I', 'II', 'II', 'I', 'I', 'II', 'I', 'I', 'II', 'I', 'I', 'I', 'I', 'I', 'I', 'I', 'I', 'I', 'II', 'II', 'II', 'I', 'I', 'I', 'I', 'I', 'II', 'I', 'VI', 'I', 'I', 'I', 'I', 'II', 'I', 'I', 'I', 'I', 'I', 'II', 'I', 'I', 'I', 'I', 'VI', 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4,12:b:1,5', u'Broughton', u'Kolar', u'II 42:b:1,5', u'Canada', u'Kotte', u'Leopoldville', u'Ohio', u'II 6,7:b:[e,n,x]', u'Koumra', u'II [1],4,[5],12,[27]:b:[e,n,x]', u'Orbe', u'II 6,7:b:z39', u'Elbeuf', u'Vaugirard', u'Sedgwick', u'Wa', u'Melaka', u'Hull', u'Kirkee', u'Dahra', u'Mattenhof', u'II 17:b:e,n,x,z15', u'Wandsworth', u'II 17:b:z6', u'Glasgow', u'48:b:-', u'II 48:b:e,n,x,z15', u'II 48:b:z6', u'Shahalam', u'Riogrande', u'Saugus', u'Johannesburg', u'Duval', u'Benguella', u'II 40:b:-', u'Bignona', u'Paratyphi B', u'II 38:b:1,2', u'IV 50:b:-', u'II 50:b:z6', u'Rochdale', u'Rittersbach', u'Sica', u'Vietnam', u'Gnesta', u'VI 41:b:1,7', u'Abidjan', u'Limete', u'Adime', u'II 16:b:z42', u'II 16:b:z39', u'Malstatt', u'Visby', u'Edinburg', u'Brazzaville', u'Vegesack', u'Sangera', u'II 16:b:e,n,x', u'Hvittingfoss', u'II 41:b:1,5', u'Pharr', u'Eboko', u'Tonev', u'Sanga', u'Kuntair', u'Tucson', u'IIIb (6),14:b:e,n,x', u'Schleissheim (Schleissheim is extremely rare)', u'II 3,10:b:e,n,x', u'Atento', u'Leeuwarden', u'Wohlen', u'Korbol', u'VI 11:b:e,n,x', u'Fomeco', u'Erfurt', u'Yaba', u'Neudorf', u'Epicrates', u'Egusitoo', u'Sanktjohann', u'Stourbridge', u'Tripoli', u'Durham', u'II 6,8:b:1,5', u'Nagoya', u'VI 11:b:1,7', u'Maryland', u'Onarimon', u'Shipley', u'Presov', u'Frintrop', u'Kalina', u'Butantan', u'Bata', u'Allerton', u'Huvudsta', u'II 21:b:1,5', u'II [1],9,12:b:e,n,x', u'Konstanz', u'Batonrouge', u'Gatuni', u'Bukuru', u'Heistopdenberg', u'II [1],9,12:b:z6', u'Ghana', u'Tounouma', u'Benfica', u'Minnesota', u'II [1],9,12:b:z39', u'II 56:b:[1,5]', u'Banalia', u'Riverside', u'Chittagong', u'Mana', u'Westminster', u'Wien', u'II 60:b:-', u'Mississippi', u'Ndjamena', u'Wenatchee', u'II 47:b:1,5', u'II 47:b:e,n,x,z15', u'Sya', u'II 47:b:z6', u'Cochise', u'Djelfa', u'Wilmington', u'Oudwijk', u'II 3,10:b:z39', u'Louga', u'Aschersleben', u'Tempe', u'IV 51:b:-', u'Karaya', u'II 58:b:1,5', u'Urbana', u'II [1],13,22:b:z42', u'II 30:b:z6', u'II 42:b:z6', u'Fluntern', u'II [1],13,23:b:[1,5]', u'II 28:b:z6', u'Vaertan', u'Rottnest', u'II 28:b:e,n,x', u'Soumbedioune', u'Langford', u'Bracknell', u'Freefalls', u'Bokanjac', u'Bahati', u'Skansen', u'Flottbek', u'Molesey', u'Ullevi', u'Moero', u'Ashanti', u'II [1],40:c:z39', u'Antwerpen', u'Montreal', u'IIIb 41:c:e,n,x,z15', u'Bida', u'Kampala', u'IIIb 47:c:z35', u'IIIb 47:c:z', u'IIIb 47:c:e,n,x,z15', u'Eastglam', u'Madigan', u'Kassberg', u'Blijdorp', u'Minna', u'Haouaria', u'Luedinghausen', u'Ridge', u'Alabama', u'IIIb 47:c:1,5,7', u'Keurmassar', u'Madiago', u'Elokate', u'Ipeko', u'Deversoir', u'II 41:c:z6', u'Runby', u'Goeteborg', u'Quebec', u'Kodjovi', u'Lonestar', u'Chiredzi', u'Schwabach', u'II 21:c:e,n,x', u'Utah', u'IIIb 21:c:e,n,x,z15', u'Bronx', u'Belfast', u'Alexanderpolder', u'Santiago', u'Belem', u'Yolo', u'Tado', u'II 40:c:z6', u'Wingrove', u'II 53:c:1,5', u'Rhone', u'Brindisi', u'Hermannswerder', u'Eberswalde', u'Halle', u'II 52:c:k', u'Dresden', u'Wedding', u'Techimani', u'II 11:c:e,n,z15', u'Woodinville', u'Namibia', u'Cotonou', u'Kaduna', u'Rawash', u'Victoriaborg', u'II 17:c:z39', u'IIIb 65:c:z53', u'IIIb 65:c:z', u'IIIb 65:c:1,5,7', u'Okefoko', u'Anderlecht', u'Agege', u'Pramiso', u'IIIb 61:c:z35', u'IIIb 61:c:1,5,(7)', u'Ikayi', u'Gaillac', u'Asylanta', u'II 1,9,12,46,27:c:z39', u'IIIb 59:c:e,n,x,z15', u'Legon', u'Abortusovis', u'Altendorf', u'II 58:c:z6', u'Bissau', u'Jericho', u'Hallfold', u'IIIb 57:c:z', u'IIIb 57:c:e,n,x,z15', u'Bury', u'Hydra', u'Gbadago', u'Morningside', u'Gouloumbo', u'Itutaba', u'II 39:c:e,n,x', u'Vancouver', u'Gafsa', u'Paratyphi C', u'Choleraesuis', u'Typhisuis', u'II 30:c:z39', u'Hissar', u'Kidderminster', u'IIIb 48:c:z', u'Sheffield', u'Quiniela', u'Argenteuil', u'Hithergreen', u'Zaire', u'II 51:c:-', u'Birkenhead', u'Yoruba', u'II [1],40:c:e,n,x,z15', u'Shamba', u'Groenekan', u'Sculcoates', u'II 16:d:1,5', u'Usumbura', u'Sherbrooke', u'II 38:d:z39', u'II 38:d:[1,5]', u'Willamette', u'Oldenburg', u'Nieukerk', u'Orleans', u'Wil', u'Gaminara', u'Livingstone', u'II 6,7:d:z42', u'II 3,10:d:e,n,x', u'Driffield', u'Berlin', u'Karlshamn', u'Niamey', u'II 40:d:-', u'Logone', u'Maron', u'Weybridge', u'Stormont', u'Madjorio', u'Gombe', u'Souza', u'Onireke', u'Lekke', u'II 43:d:z42', u'II 43:d:z39', u'II 43:d:e,n,x,z15', u'Shangani', u'Barranquilla', u'Birmingham', u'Plymouth', u'Dembe', u'Midway', u'Florida', u'Lindern', u'Charity', u'Quentin', u'Typhi', u'II 9,12:d:z39', u'Jaffna', u'Finkenwerder', u'Olten', u'Martonos', u'Sontheim', u'Messina', u'Amoutive', u'Hatfield', u'Mundonobo', u'Mocamedes', u'Patience', u'Cullingworth', u'II 42:d:z6', u'Encino', u'Strasbourg', u'Eschberg', u'Nottingham', u'Caen', u'Barmbek', u'II 35:d:1,5', u'Teko', u'Tarshyne', u'Spartel', u'Magwa', u'Madison', u'Woodhull', u'Ndolo', u'II 16:d:e,n,x', u'II 41:d:z6', u'Bangui', u'Zega', u'Ontario', u'Amersfoort', u'Kambole', u'Kivu', u'Isangi', u'Kisii', u'Albuquerque', u'Egusi', u'Niloese', u'II 47:d:z39', u'II 47:d:e,n,x,z15', u'Stellingen', u'II 47:d:1,5', u'Liverpool', u'Tilburg', u'Wanatah', u'II 13,22:d:1,5', u'Ayinde', u'Friedenau', u'Wichita', u'Grumpensis', u'II [1],9,12:d:e,n,x', u'Diguel', u'II 48:d:1,2', u'Telelkebir', u'Putten', u'Ati', u'Gustavia', u'Warmsen', u'Karachi', u'Dugbe', u'Isuge', u'Chandans', u'Findorff', u'Hemingford', u'IV 50:d:-', u'II 13,23:d:e,n,x', u'Stanley', u'Brezany', u'Schwarzengrund', u'Ahmadi', u'II 4,12:d:e,n,x', u'Sarajane', u'Duisburg', u'Mons', u'II 53:d:z42', u'II [1],53:d:z39', u'II 53:d:1,5', u'Eppendorf', u'II 56:d:-', u'Buckeye', u'Umbadah', u'II 48:d:z6', u'II 57:d:1,5', u'Virginia', u'Muenchen', u'II 58:d:z6', u'II 52:d:z39', u'II 52:d:e,n,x,z15', u'Utrecht', u'Yovokome', u'Manhattan', u'Portanigra', u'Dunkwa', u'Sterrenbos', u'Mishmarhaemek', u'Chennai', u'Palamaner', u'Handen', u'II 6,8:d:z6', u'Fischerstrasse', u'Kermel', u'Gokul', u'Bobo', u'Labadi', u'Herston', u'Newlands', u'Kaapstad', u'Korkeasaari', u'Kpeme', u'Gozo', u'Israel', u'Westafrica', u'Eastbourne', u'Chester', u'Eko', u'Redhill', u'Bahrenfeld', u'Nyborg', u'Anatum', u'Muenster', u'Vejle', u'Hayindogo', u'Kottbus', u'Cremieu', u'Fitzroy', u'Meleagridis', u'Vilvoorde', u'Winnipeg', u'Jubilee', u'Sekondi', u'Saintpaul', u'Weston', u'Beaudesert', u'Guerin', u'Waedenswil', u'Derkle', u'Butare', u'Bergedorf', u'Newport', u'Reading', u'Magumeri', u'Larochelle', u'Lomita', u'Norwich', u'Nola', u'Tilene', u'Onderstepoort', u'Lamberhurst', u'Ferruch', u'Atakpame', u'Bardo', u'Tschangu', u'Braenderup', u'Saboya', u'Rechovot', u'Chingola', u'Chartres', u'Vridi', u'Torhout', u'Livulu', u'Astridplein', u'Sao', u'Bournemouth', u'Calabar', u'Gassi', u'Fillmore', u'Tshiongwe', u'Willemstad', u'Meskin', u'Rhydyfelin', u'Moabit', u'Sanktmarx', u'Adamstua', u'Bruebach', u'Mara', u'Kasenyi', u'Thiaroye', u'Sandiego', u'Malakal', u'Rossleben', u'II 50:e,n,x:1,7', u'II 6,7:e,n,x:1,6', u'II 16:e,n,x:1,6', u'II 3,10:e,n,x:1,7', u'II [1],4,12,[27]:e,n,x:1,[5],7', u'II [1],40:e,n,x:1,[5],7', u'II 56:e,n,x:1,7', u'II 16:e,n,x:1,(5),7', u'II [1],13,23:e,n,x:1,[5],7', u'II 4,12:e,n,x:1,2,7', u'II 9,46:e,n,x:1,5,7', u'II [1],44:e,n,x:1,6', u'II 9,12:e,n,x:1,[5],7', u'II 39:e,n,x:1,7', u'II 28:e,n,x:1,7', u'II 9,12:e,n,x:1,6', u'II 42:e,n,x:1,6', u'II 48:e,n,x,z15:z6', u'II [1],40:e,n,x,z15:1,6', u'II 47:e,n,x,z15:1,6', u'II 17:e,n,x,z15:1,6', u'II 43:e,n,x,z15:1,(5),7', u'II 43:e,n,x,z15:1,6', u'II 17:e,n,x,z15:1,[5],7', u'II 28:e,n,z15:z87', u'6,14:e,n,z15:-', u'Kastrup', u'Wernigerode', u'Derby', u'Raus', u'Vleuten', u'Sljeme', u'Good', u'Friedrichsfelde', u'Rissen', u'Alfort', u'Suelldorf', u'Sandow', u'Rideau', u'Tees', u'Adelaide', u'Havana', u'Regent', u'Milwaukee', u'II 6,8:f,g,m,t:[e,n,x]', u'Borreze', u'Agona', u'II [1],4,[5],12:f,g,t:z6', u'Eingedi', u'Afula', u'Bilu', u'Petahtikve', u'Maiduguri', u'II 28:g,(m),[s],t:1,5', u'Riggil', u'II [1],40:g,[m],[s],[t]:e,n,x', u'II 21:g,[m],[s],t:-', u'II [1],40:g,[m],[s],t:[1,5]', u'II 9,46:g,[m],[s],t:[e,n,x]', u'II 16:g,[m],[s],t:[e,n,x]', u'II [1],40:g,[m],[s],t:z42', u'II 16:g,[m],[s],t:[1,5]', u'II [1],4,12,[27]:g,[m],[s],t:e,n,x', u'II 6,7:g,[m],s,t:[z42]', u'II 11:g,[m],s,t:z39', u'II 50:g,[m],s,t:[1,5]', u'II 57:g,[m],s,t:z42', u'II [1],4,12,[27]:g,[m],t:[1,5]', u'Senftenberg', u'II [1],13,23:g,[s],t:z42', u'Okatie', u'Enteritidis', u'Luke', u'Abadina', u'Yardley', u'Warragul', u'Bijlmer', u'Abuja', u'Bron', u'Essen', u'Hillingdon', u'Nitra', u'Suberu', u'Pontypridd', u'Montevideo', u'Korovi', u'Chincol', u'Gamaba', u'Tornow', u'Agbeni', u'II 6,7:g,m,[s],t:e,n,x', u'II [1],9,12:g,m,[s],t:[1,5,7]', u'II [1],13,23:g,m,[s],t:[e,n,x]', u'II 43:g,m,[s],t:[z42]', u'Godesberg', u'Othmarschen', u'Adeoyo', u'Kouka', u'Blegdam', u'Hato', u'Gueuletapee', u'Amsterdam', u'Nikolaifleet', u'Macclesfield', u'IIIb 13,22:g,m,s:z', u'Giessen', u'Ealing', u'Caracas', u'II 30:g,m,s:e,n,x', u'Croft', u'Athens', u'Emek', u'II [1],13,23:g,m,s,t:1,5', u'II 3,{10}{15}:g,m,s,t:[1,5]', u'II [1],9,12:g,m,s,t:e,n,x', u'II 45:g,m,s,t:1,5', u'II 17:g,m,s,t:-', u'II 6,7:g,m,s,t:z39', u'II 45:g,m,s,t:e,n,x', u'II [1],13,23:g,m,s,t:z42', u'II 41:g,m,s,t:z6', u'II 35:g,m,s,t:-', u'II 28:g,m,t:z39', u'II 28:g,m,t:e,n,x', u'II 60:g,m,t:z6', u'Reubeuss', u'II 6,8:g,m,t:1,7', u'II 45:g,m,t:e,n,x,z15', u'California', u'II 4,12:g,m,t:z39', u'Ebrie', u'II [1],13,22:g,m,t:[1,5]', u'II 48:g,m,t:-', u'Sylvania', u'Kiel', u'Dublin', u'Naestved', u'Rostock', u'Moscow', u'Menston', u'Plumaugat', u'Gateshead', u'Missouri', u'Catanzaro', u'Newyork', u'Sternschanze', u'Binningen', u'Anecho', u'II 9,12:g,s,t:e,n,x', u'Alminko', u'Nanergou', u'Cardoner', u'Ona', u'II 51:g,s,t:e,n,x', u'Lowestoft', u'Dessau', u'II 28:g,s,t:e,n,x', u'Splott', u'Kingston', u'Eaubonne', u'Uccle', u'Westhampton', u'II [1],13,22:g,t:[1,5]', u'IIIb [1],44:g,t:1,5', u'II 44:g,t:z42', u'IIIb 43:g,t:-', u'II 30:g,t:-', u'II 38:g,t:-', u'II 41:g,t:-', u'II 43:g,t:[1,5]', u'II 13,22:g,t:z6', u'II [1],13,23:g,t:1,5', u'Saintemarie', u'IV 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-
-remove_list=['Schleissheim', 'Sendai', 'Blegdam', 'Naestved', 'Rostock', 'Moscow', 'Antarctica', 'Rosenberg', 'Chittagong', 'Bilu', 'Dessau', 'Cannonhill', 'Ilugun']
-
-rename_dict={'Nitra': 'Enteritidis',
- 'Kiel': 'Dublin',
- 'Koessen': 'Panama',
- 'Phaliron': 'Kalumburu',
- 'Istanbul': 'Hadar',
- 'Haardt': 'Blockley',
- 'Ferruch': 'Kottbus',
- 'Sanga': 'Eboko',
- 'Pakistan': 'Litchfield',
- 'Bellevue': 'Lezennes',
- 'Sunnycove': 'Daarle',
- 'Noya': 'Akanji',
- 'Virginia': 'Muenchen',
- 'Djelfa': 'Skansen',
- 'Konstanz': 'Gatuni',
- 'Bardo': 'Newport',
- 'Houston': 'Panama',
- 'Martonos': 'Finkenwerder',
- 'Midway': 'Florida',
- 'Lindern': 'Charity',
- 'Bahrenfeld': 'Onderstepoort',
- 'Schalkwijk': 'Moussoro',
- 'Amberg': 'Boecker',
- 'Madelia': 'Carrau',
- 'Soahanina': 'Sundsvall',
- 'Stafford': 'Poano',
- 'Chichiri': 'Uzaramo',
- 'II 16:g,[m],[s],t:[e,n,x]': 'II 16:g,[m],[s],t:[1,5]',
- 'Hindmarsh':'Bovismorbificans',
- 'Yovokome': 'Manhattan'}
-
- #potential merge for O22 and O23
- #'Ibadan': 'Mississippi',
- #'Bracknell': 'Oudwijk',
- #'Vaertan': 'Ullevi',
- #'Bahati': 'Durham',
- #'Wichita': 'Friedenau',
- #'Diguel': 'Telelkebir',
- #'II 13,22:l,z28:1,5': 'II 13,23:l,z28:1,5',
- #'Washington': 'Kintambo',
- #'II 13,23:m,t:z42': 'II 13,22:m,t:z42:z39',
- #'Serenli': 'Winslow',
- #'Farmsen': 'Poona',
- #'Durance': 'Ivrysurseine',
- #'Agoueve': 'Cubana',
- #'II 13,23:z29:1,5': 'II 13,22:z29:1,5',
- #'II 13,23:z29:e,n,x': 'II 13,22:z29:e,n,x',
- #'Picpus': 'Mampong',
- #'Anna': 'Nimes',
- #'Fanti': 'Leiden',
- #'Ried': 'Ajiobo',
-
- #potential O68 list
- #'Djelfa': 'Skansen',
- #'Korbol': 'Nagoya',
- #'Sanga': 'Eboko',
- #'Konstanz': 'Gatuni',
- #'Presov': 'Shipley',
- #'Heistopdenberg': 'Bukuru',
- #'Tounouma': 'Banalia',
- #'Gaillac': 'Utah',
- #'Santiago': 'Belem',
- #'Virginia': 'Muenchen',
- #'Yovokome': 'Manhattan',
- #'Portanigra': 'Dunkwa',
- #'Bardo': 'Newport',
- #'Ferruch': 'Kottbus',
- #'Alminko': 'Nanergou',
- #'Bargny': 'Takoradi',
- #'Magherafelt': 'Cyprus',
- #'Haardt': 'Blockley',
- #'Pakistan': 'Litchfield',
- #'Yokoe': 'Bassa',
- #'Noya': 'Akanji',
- #'Lamphun': 'Giza',
- #'Tananarive': 'Brunei',
- #'Inchpark': 'Alagbon',
- #'Sunnycove': 'Daarle',
- #'Sindelfingen': 'Benue',
- #'Phaliron': 'Kalumburu',
- #'Bazenheid': 'Zerifin',
- #'Paris': 'Mapo',
- #'Istanbul': 'Hadar',
- #'Chomedey': 'Glostrup',
- #'Wippra': 'Molade',
- #'Uno': 'Tamale',
- #'Kolda': 'Yarm',
- #'Bellevue': 'Lezennes',
- #'Albany':'Duesseldorf'
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/bin/SeqSero2_package.py
--- a/build/lib/bin/SeqSero2_package.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1575 +0,0 @@
-#!/usr/bin/env python3
-
-import sys
-import time
-import random
-import os
-import subprocess
-import gzip
-import io
-import pickle
-import argparse
-import itertools
-from distutils.version import LooseVersion
-from distutils.spawn import find_executable
-sys.path.insert(1,sys.path[0]+'/..')
-
-try:
-    from .version import SeqSero2_version
-except Exception: #ImportError
-    from version import SeqSero2_version
-
-### SeqSero Kmer
-def parse_args():
-    "Parse the input arguments, use '-h' for help."
-    parser = argparse.ArgumentParser(usage='SeqSero2_package.py -t <data_type> -m <mode> -i <input_data> [-d <output_directory>] [-p <number of threads>] [-b <BWA_algorithm>]\n\nDevelopper: Shaokang Zhang (zskzsk@uga.edu), Hendrik C Den-Bakker (Hendrik.DenBakker@uga.edu) and Xiangyu Deng (xdeng@uga.edu)\n\nContact email:seqsero@gmail.com\n\nVersion: v1.1.0')#add "-m <data_type>" in future
-    parser.add_argument("-i",nargs="+",help="<string>: path/to/input_data",type=os.path.abspath)  ### add 'type=os.path.abspath' to generate absolute path of input data.
-    parser.add_argument("-t",choices=['1','2','3','4','5','6'],help="<int>: '1' for interleaved paired-end reads, '2' for separated paired-end reads, '3' for single reads, '4' for genome assembly, '5' for nanopore fasta, '6' for nanopore fastq")
-    parser.add_argument("-b",choices=['sam','mem'],default="mem",help="<string>: algorithms for bwa mapping for allele mode; 'mem' for mem, 'sam' for samse/sampe; default=mem; optional; for now we only optimized for default 'mem' mode")
-    parser.add_argument("-p",default="1",help="<int>: number of threads for allele mode, if p >4, only 4 threads will be used for assembly since the amount of extracted reads is small, default=1")
-    parser.add_argument("-m",choices=['k','a'],default="a",help="<string>: which workflow to apply, 'a'(raw reads allele micro-assembly), 'k'(raw reads and genome assembly k-mer), default=a")
-    parser.add_argument("-n",help="<string>: optional, to specify a sample name in the report output")
-    parser.add_argument("-d",help="<string>: optional, to specify an output directory name, if not set, the output directory would be 'SeqSero_result_'+time stamp+one random number")
-    parser.add_argument("-c",action="store_true",help="<flag>: if '-c' was flagged, SeqSero2 will only output serotype prediction without the directory containing log files")
-    parser.add_argument("-s",action="store_true",help="<flag>: if '-s' was flagged, SeqSero2 will not output header in SeqSero_result.tsv")
-    parser.add_argument("--check",action="store_true",help="<flag>: use '--check' flag to check the required dependencies")
-    parser.add_argument('-v', '--version', action='version', version='%(prog)s ' + SeqSero2_version)
-    return parser.parse_args()
-
-### check paths of dependencies
-check_dependencies = parse_args().check
-dependencies = ['bwa','samtools','blastn','fastq-dump','spades.py','bedtools','SalmID.py']
-if check_dependencies:
-    for item in dependencies:
-        ext_path = find_executable(item)
-        if ext_path is not None:
-            print ("Using "+item+" - "+ext_path)
-        else:
-            print ("ERROR: can not find "+item+" in PATH")
-    sys.exit()
-### end of --check
-
-def reverse_complement(sequence):
-    complement = {
-        'A': 'T',
-        'C': 'G',
-        'G': 'C',
-        'T': 'A',
-        'N': 'N',
-        'M': 'K',
-        'R': 'Y',
-        'W': 'W',
-        'S': 'S',
-        'Y': 'R',
-        'K': 'M',
-        'V': 'B',
-        'H': 'D',
-        'D': 'H',
-        'B': 'V'
-    }
-    return "".join(complement[base] for base in reversed(sequence))
-
-
-def createKmerDict_reads(list_of_strings, kmer):
-    kmer_table = {}
-    for string in list_of_strings:
-        sequence = string.strip('\n')
-        for i in range(len(sequence) - kmer + 1):
-            new_mer = sequence[i:i + kmer].upper()
-            new_mer_rc = reverse_complement(new_mer)
-            if new_mer in kmer_table:
-                kmer_table[new_mer.upper()] += 1
-            else:
-                kmer_table[new_mer.upper()] = 1
-            if new_mer_rc in kmer_table:
-                kmer_table[new_mer_rc.upper()] += 1
-            else:
-                kmer_table[new_mer_rc.upper()] = 1
-    return kmer_table
-
-
-def multifasta_dict(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r') if len(line.strip()) > 0
-    ]
-    headers = [i for i in multifasta_list if i[0] == '>']
-    multifasta_dict = {}
-    for h in headers:
-        start = multifasta_list.index(h)
-        for element in multifasta_list[start + 1:]:
-            if element[0] == '>':
-                break
-            else:
-                if h[1:] in multifasta_dict:
-                    multifasta_dict[h[1:]] += element
-                else:
-                    multifasta_dict[h[1:]] = element
-    return multifasta_dict
-
-
-def multifasta_single_string(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r')
-        if (len(line.strip()) > 0) and (line.strip()[0] != '>')
-    ]
-    return ''.join(multifasta_list)
-
-
-def chunk_a_long_sequence(long_sequence, chunk_size=60):
-    chunk_list = []
-    steps = len(long_sequence) // 60  #how many chunks
-    for i in range(steps):
-        chunk_list.append(long_sequence[i * chunk_size:(i + 1) * chunk_size])
-    chunk_list.append(long_sequence[steps * chunk_size:len(long_sequence)])
-    return chunk_list
-
-
-def target_multifasta_kmerizer(multifasta, k, kmerDict):
-    forward_length = 300  #if find the target, put forward 300 bases
-    reverse_length = 2200  #if find the target, put backward 2200 bases
-    chunk_size = 60  #it will firstly chunk the single long sequence to multiple smaller sequences, it controls the size of those smaller sequences
-    target_mers = []
-    long_single_string = multifasta_single_string(multifasta)
-    multifasta_list = chunk_a_long_sequence(long_single_string, chunk_size)
-    unit_length = len(multifasta_list[0])
-    forward_lines = int(forward_length / unit_length) + 1
-    reverse_lines = int(forward_length / unit_length) + 1
-    start_num = 0
-    end_num = 0
-    for i in range(len(multifasta_list)):
-        if i not in range(start_num, end_num):  #avoid computational repetition
-            line = multifasta_list[i]
-            start = int((len(line) - k) // 2)
-            s1 = line[start:k + start]
-            if s1 in kmerDict:  #detect it is a potential read or not (use the middle part)
-                if i - forward_lines >= 0:
-                    start_num = i - forward_lines
-                else:
-                    start_num = 0
-                if i + reverse_lines <= len(multifasta_list) - 1:
-                    end_num = i + reverse_lines
-                else:
-                    end_num = len(multifasta_list) - 1
-                target_list = [
-                    x.strip() for x in multifasta_list[start_num:end_num]
-                ]
-                target_line = "".join(target_list)
-                target_mers += [
-                    k1 for k1 in createKmerDict_reads([str(target_line)], k)
-                ]  ##changed k to k1, just want to avoid the mixes of this "k" (kmer) to the "k" above (kmer length)
-        else:
-            pass
-    return set(target_mers)
-
-
-def target_read_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = []
-    if file.endswith(".gz"):
-        file_content = io.BufferedReader(gzip.open(file))
-    else:
-        file_content = open(file, "r").readlines()
-    for line in file_content:
-        start = int((len(line) - k) // 2)
-        if i % 4 == 2:
-            if file.endswith(".gz"):
-                s1 = line[start:k + start].decode()
-                line = line.decode()
-            else:
-                s1 = line[start:k + start]
-            if s1 in kmerDict:  #detect it is a potential read or not (use the middle part)
-                n_reads += 1
-                total_coverage += len(line)
-                target_mers += [
-                    k1 for k1 in createKmerDict_reads([str(line)], k)
-                ]  #changed k to k1, just want to avoid the mixes of this "k" (kmer) to the "k" above (kmer length)
-        i += 1
-        if total_coverage >= 4000000:
-            break
-    return set(target_mers)
-
-
-def minion_fasta_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = {}
-    for line in open(file):
-        if i % 2 == 0:
-            for kmer, rc_kmer in kmers(line.strip().upper(), k):
-                if (kmer in kmerDict) or (rc_kmer in kmerDict):
-                    if kmer in target_mers:
-                        target_mers[kmer] += 1
-                    else:
-                        target_mers[kmer] = 1
-                    if rc_kmer in target_mers:
-                        target_mers[rc_kmer] += 1
-                    else:
-                        target_mers[rc_kmer] = 1
-        i += 1
-    return set([h for h in target_mers])
-
-
-def minion_fastq_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = {}
-    for line in open(file):
-        if i % 4 == 2:
-            for kmer, rc_kmer in kmers(line.strip().upper(), k):
-                if (kmer in kmerDict) or (rc_kmer in kmerDict):
-                    if kmer in target_mers:
-                        target_mers[kmer] += 1
-                    else:
-                        target_mers[kmer] = 1
-                    if rc_kmer in target_mers:
-                        target_mers[rc_kmer] += 1
-                    else:
-                        target_mers[rc_kmer] = 1
-        i += 1
-    return set([h for h in target_mers])
-
-
-def multifasta_single_string2(multifasta):
-    single_string = ''
-    with open(multifasta, 'r') as f:
-        for line in f:
-            if line.strip()[0] == '>':
-                pass
-            else:
-                single_string += line.strip()
-    return single_string
-
-
-def kmers(seq, k):
-    rev_comp = reverse_complement(seq)
-    for start in range(1, len(seq) - k + 1):
-        yield seq[start:start + k], rev_comp[-(start + k):-start]
-
-
-def multifasta_to_kmers_dict(multifasta,k_size):#used to create database kmer set
-    multi_seq_dict = multifasta_dict(multifasta)
-    lib_dict = {}
-    for h in multi_seq_dict:
-        lib_dict[h] = set(
-            [k for k in createKmerDict_reads([multi_seq_dict[h]], k_size)])
-    return lib_dict
-
-
-def Combine(b, c):
-    fliC_combinations = []
-    fliC_combinations.append(",".join(c))
-    temp_combinations = []
-    for i in range(len(b)):
-        for x in itertools.combinations(b, i + 1):
-            temp_combinations.append(",".join(x))
-    for x in temp_combinations:
-        temp = []
-        for y in c:
-            temp.append(y)
-        temp.append(x)
-        temp = ",".join(temp)
-        temp = temp.split(",")
-        temp.sort()
-        temp = ",".join(temp)
-        fliC_combinations.append(temp)
-    return fliC_combinations
-
-
-def seqsero_from_formula_to_serotypes(Otype, fliC, fljB, special_gene_list,subspecies):
-    #like test_output_06012017.txt
-    #can add more varialbles like sdf-type, sub-species-type in future (we can conclude it into a special-gene-list)
-    from Initial_Conditions import phase1,phase2,phaseO,sero,subs,remove_list,rename_dict
-    rename_dict_not_anymore=[rename_dict[x] for x in rename_dict]
-    rename_dict_all=rename_dict_not_anymore+list(rename_dict) #used for decide whether to 
-    seronames = []
-    seronames_none_subspecies=[]
-    for i in range(len(phase1)):
-        fliC_combine = []
-        fljB_combine = []
-        if phaseO[i] == Otype: # no VII in KW, but it's there
-            ### for fliC, detect every possible combinations to avoid the effect of "["
-            if phase1[i].count("[") == 0:
-                fliC_combine.append(phase1[i])
-            elif phase1[i].count("[") >= 1:
-                c = []
-                b = []
-                if phase1[i][0] == "[" and phase1[i][-1] == "]" and phase1[i].count(
-                        "[") == 1:
-                    content = phase1[i].replace("[", "").replace("]", "")
-                    fliC_combine.append(content)
-                    fliC_combine.append("-")
-                else:
-                    for x in phase1[i].split(","):
-                        if "[" in x:
-                            b.append(x.replace("[", "").replace("]", ""))
-                        else:
-                            c.append(x)
-                    fliC_combine = Combine(
-                        b, c
-                    )  #Combine will offer every possible combinations of the formula, like f,[g],t: f,t  f,g,t
-            ### end of fliC "[" detect
-            ### for fljB, detect every possible combinations to avoid the effect of "["
-            if phase2[i].count("[") == 0:
-                fljB_combine.append(phase2[i])
-            elif phase2[i].count("[") >= 1:
-                d = []
-                e = []
-                if phase2[i][0] == "[" and phase2[i][-1] == "]" and phase2[i].count(
-                        "[") == 1:
-                    content = phase2[i].replace("[", "").replace("]", "")
-                    fljB_combine.append(content)
-                    fljB_combine.append("-")
-                else:
-                    for x in phase2[i].split(","):
-                        if "[" in x:
-                            d.append(x.replace("[", "").replace("]", ""))
-                        else:
-                            e.append(x)
-                    fljB_combine = Combine(d, e)
-            ### end of fljB "[" detect
-            new_fliC = fliC.split(
-                ","
-            )  #because some antigen like r,[i] not follow alphabetical order, so use this one to judge and can avoid missings
-            new_fliC.sort()
-            new_fliC = ",".join(new_fliC)
-            new_fljB = fljB.split(",")
-            new_fljB.sort()
-            new_fljB = ",".join(new_fljB)
-            if (new_fliC in fliC_combine
-                    or fliC in fliC_combine) and (new_fljB in fljB_combine
-                                                  or fljB in fljB_combine):
-              ######start, remove_list,rename_dict, added on 11/11/2018
-              if sero[i] not in remove_list:
-                temp_sero=sero[i]
-                if temp_sero in rename_dict:
-                  temp_sero=rename_dict[temp_sero] #rename if in the rename list
-                if temp_sero not in seronames:#the new sero may already included, if yes, then not consider
-                  if subs[i] == subspecies:
-                    seronames.append(temp_sero)
-                  seronames_none_subspecies.append(temp_sero)
-                else:
-                  pass
-              else:
-                pass
-              ######end, added on 11/11/2018
-    #analyze seronames
-    subspecies_pointer=""
-    if len(seronames) == 0 and len(seronames_none_subspecies)!=0:
-      # ed_SL_12182019: modified to fix the subspecies output problem
-      #seronames=seronames_none_subspecies
-      seronames=["N/A"]
-      #subspecies_pointer="1"
-      subspecies_pointer="0"
-    if len(seronames) == 0:
-        seronames = [
-            "N/A (The predicted antigenic profile does not exist in the White-Kauffmann-Le Minor scheme)"
-        ]
-    star = ""
-    star_line = ""
-    if len(seronames) > 1:  #there are two possible predictions for serotypes
-        star = "*"
-        #changed 04072019
-        #star_line = "The predicted serotypes share the same general formula:\t" + Otype + ":" + fliC + ":" + fljB + "\n"
-    if subspecies_pointer=="1" and len(seronames_none_subspecies)!=0:
-      star="*"
-      star_line="The predicted O and H antigens correspond to serotype '"+(" or ").join(seronames)+"' in the Kauffmann-White scheme. The predicted subspecies by SalmID (github.com/hcdenbakker/SalmID) may not be consistent with subspecies designation in the Kauffmann-White scheme. " + star_line
-      #star_line="The formula with this subspieces prediction can't get a serotype in KW manual, and the serotyping prediction was made without considering it."+star_line
-    if  Otype=="":
-      Otype="-"
-    predict_form = Otype + ":" + fliC + ":" + fljB
-    predict_sero = (" or ").join(seronames)
-    ###special test for Enteritidis
-    if predict_form == "9:g,m:-":
-        sdf = "-"
-        for x in special_gene_list:
-            if x.startswith("sdf"):
-                sdf = "+"
-                #star_line="Detected sdf gene, a marker to differentiate Gallinarum and Enteritidis"
-                star_line="sdf gene detected. "
-        #predict_form = predict_form + " Sdf prediction:" + sdf
-        predict_form = predict_form #changed 04072019
-        if sdf == "-":
-            star = "*"
-            #star_line="Didn't detected sdf gene, a marker to differentiate Gallinarum and Enteritidis"
-            star_line="sdf gene not detected. "
-            #changed in 04072019, for new output
-            #star_line = "Additional characterization is necessary to assign a serotype to this strain.  Commonly circulating strains of serotype Enteritidis are sdf+, although sdf- strains of serotype Enteritidis are known to exist. Serotype Gallinarum is typically sdf- but should be quite rare. Sdf- strains of serotype Enteritidis and serotype Gallinarum can be differentiated by phenotypic profile or genetic criteria.\n"
-            #predict_sero = "Gallinarum/Enteritidis" #04132019, for new output requirement
-            predict_sero = "Gallinarum or Enteritidis"
-    ###end of special test for Enteritidis
-    elif predict_form == "4:i:-":
-        predict_sero = "I 4,[5],12:i:-" # change serotype name
-    elif predict_form == "4:r:-":
-        predict_sero = "N/A (4:r:-)"
-    elif predict_form == "4:b:-":
-        predict_sero = "N/A (4:b:-)"
-    #elif predict_form == "8:e,h:1,2": #removed after official merge of newport and bardo
-        #predict_sero = "Newport"
-        #star = "*"
-        #star_line = "Serotype Bardo shares the same antigenic profile with Newport, but Bardo is exceedingly rare."
-    claim = "The serotype(s) is/are the only serotype(s) with the indicated antigenic profile currently recognized in the Kauffmann White Scheme. New serotypes can emerge and the possibility exists that this antigenic profile may emerge in a different subspecies.  Identification of strains to the subspecies level should accompany serotype determination; the same antigenic profile in different subspecies is considered different serotypes.\n"
-    if "N/A" in predict_sero:
-        claim = ""
-    #special test for Typhimurium
-    if "Typhimurium" in predict_sero or predict_form == "4:i:-":
-        normal = 0
-        mutation = 0
-        for x in special_gene_list:
-            if "oafA-O-4_full" in x:
-                normal = float(special_gene_list[x])
-            elif "oafA-O-4_5-" in x:
-                mutation = float(special_gene_list[x])
-        if normal > mutation:
-            pass
-        elif normal < mutation:
-            #predict_sero = predict_sero.strip() + "(O5-)"
-            predict_sero = predict_sero.strip() #diable special sero for new output requirement, 04132019
-            star = "*"
-            #star_line = "Detected the deletion of O5-."
-            star_line = "Detected a deletion that causes O5- variant of Typhimurium. "
-        else:
-            pass
-    #special test for Paratyphi B
-    if "Paratyphi B" in predict_sero or predict_form == "4:b:-":
-        normal = 0
-        mutation = 0
-        for x in special_gene_list:
-            if "gntR-family-regulatory-protein_dt-positive" in x:
-                normal = float(special_gene_list[x])
-            elif "gntR-family-regulatory-protein_dt-negative" in x:
-                mutation = float(special_gene_list[x])
-        #print(normal,mutation)
-        if normal > mutation:
-            #predict_sero = predict_sero.strip() + "(dt+)" #diable special sero for new output requirement, 04132019
-            predict_sero = predict_sero.strip()+' var. L(+) tartrate+' if "Paratyphi B" in predict_sero else predict_sero.strip()
-            star = "*"
-            #star_line = "Didn't detect the SNP for dt- which means this isolate is a Paratyphi B variant L(+) tartrate(+)."
-            star_line = "The SNP that causes d-Tartrate nonfermentating phenotype of Paratyphi B was not detected. "
-        elif normal < mutation:
-            #predict_sero = predict_sero.strip() + "(dt-)" #diable special sero for new output requirement, 04132019
-            predict_sero = predict_sero.strip()
-            star = "*"
-            #star_line = "Detected the SNP for dt- which means this isolate is a systemic pathovar of Paratyphi B."
-            star_line = "Detected the SNP for d-Tartrate nonfermenting phenotype of Paratyphi B. "
-        else:
-            star = "*"
-            #star_line = " Failed to detect the SNP for dt-, can't decide it's a Paratyphi B variant L(+) tartrate(+) or not."
-            star_line = " " ## ed_SL_05152019: do not report this situation.
-    #special test for O13,22 and O13,23
-    if Otype=="13":
-      #ex_dir = os.path.dirname(os.path.realpath(__file__))
-      ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019
-      f = open(ex_dir + '/special.pickle', 'rb')
-      special = pickle.load(f)
-      O22_O23=special['O22_O23']
-      if predict_sero.split(" or ")[0] in O22_O23[-1] and predict_sero.split(" or ")[0] not in rename_dict_all:#if in rename_dict_all, then it means already merged, no need to analyze 
-        O22_score=0
-        O23_score=0
-        for x in special_gene_list:
-            if "O:22" in x:
-                O22_score = O22_score+float(special_gene_list[x])
-            elif "O:23" in x:
-                O23_score = O23_score+float(special_gene_list[x])
-        #print(O22_score,O23_score)
-        for z in O22_O23[0]:
-          if predict_sero.split(" or ")[0] in z:
-            if O22_score > O23_score:
-              star = "*"
-              #star_line = "Detected O22 specific genes to further differenciate '"+predict_sero+"'." #diabled for new output requirement, 04132019
-              predict_sero = z[0]
-            elif O22_score < O23_score:
-              star = "*"
-              #star_line = "Detected O23 specific genes to further differenciate '"+predict_sero+"'." #diabled for new output requirement, 04132019
-              predict_sero = z[1]
-            else:
-              star = "*"
-              #star_line = "Fail to detect O22 and O23 differences." #diabled for new output requirement, 04132019
-    if " or " in predict_sero:
-      star_line = star_line + "The predicted serotypes share the same general formula: " + Otype + ":" + fliC + ":" + fljB + "."
-    #special test for O6,8 
-    #merge_O68_list=["Blockley","Bovismorbificans","Hadar","Litchfield","Manhattan","Muenchen"] #remove 11/11/2018, because already in merge list
-    #for x in merge_O68_list:
-    #  if x in predict_sero:
-    #    predict_sero=x
-    #    star=""
-    #    star_line=""
-    #special test for Montevideo; most of them are monophasic
-    #if "Montevideo" in predict_sero and "1,2,7" in predict_form: #remove 11/11/2018, because already in merge list
-      #star="*"
-      #star_line="Montevideo is almost always monophasic, having an antigen called for the fljB position may be a result of Salmonella-Salmonella contamination."
-    return predict_form, predict_sero, star, star_line, claim
-### End of SeqSero Kmer part
-
-### Begin of SeqSero2 allele prediction and output
-def xml_parse_score_comparision_seqsero(xmlfile):
-  #used to do seqsero xml analysis
-  from Bio.Blast import NCBIXML
-  handle=open(xmlfile)
-  handle=NCBIXML.parse(handle)
-  handle=list(handle)
-  List=[]
-  List_score=[]
-  List_ids=[]
-  List_query_region=[]
-  for i in range(len(handle)):
-    if len(handle[i].alignments)>0:
-      for j in range(len(handle[i].alignments)):
-        score=0
-        ids=0
-        cover_region=set() #fixed problem that repeated calculation leading percentage > 1
-        List.append(handle[i].query.strip()+"___"+handle[i].alignments[j].hit_def)
-        for z in range(len(handle[i].alignments[j].hsps)):
-          hsp=handle[i].alignments[j].hsps[z]
-          temp=set(range(hsp.query_start,hsp.query_end))
-          if len(cover_region)==0:
-            cover_region=cover_region|temp
-            fraction=1
-          else:
-            fraction=1-len(cover_region&temp)/float(len(temp))
-            cover_region=cover_region|temp
-          if "last" in handle[i].query or "first" in handle[i].query:
-            score+=hsp.bits*fraction
-            ids+=float(hsp.identities)/handle[i].query_length*fraction
-          else:
-            score+=hsp.bits*fraction
-            ids+=float(hsp.identities)/handle[i].query_length*fraction
-        List_score.append(score)
-        List_ids.append(ids)
-        List_query_region.append(cover_region)
-  temp=zip(List,List_score,List_ids,List_query_region)
-  Final_list=sorted(temp, key=lambda d:d[1], reverse = True)
-  return Final_list
-
-
-def Uniq(L,sort_on_fre="none"): #return the uniq list and the count number
-  Old=L
-  L.sort()
-  L = [L[i] for i in range(len(L)) if L[i] not in L[:i]]
-  count=[]
-  for j in range(len(L)):
-    y=0
-    for x in Old:
-      if L[j]==x:
-        y+=1
-    count.append(y)
-  if sort_on_fre!="none":
-    d=zip(*sorted(zip(count, L)))
-    L=d[1]
-    count=d[0]
-  return (L,count)
-
-def judge_fliC_or_fljB_from_head_tail_for_one_contig(nodes_vs_score_list):
-  #used to predict it's fliC or fljB for one contig, based on tail and head score, but output the score difference,if it is very small, then not reliable, use blast score for whole contig to test
-  #this is mainly used for 
-  a=nodes_vs_score_list
-  fliC_score=0
-  fljB_score=0
-  for z in a:
-    if "fliC" in z[0]:
-      fliC_score+=z[1]
-    elif "fljB" in z[0]:
-      fljB_score+=z[1]
-  if fliC_score>=fljB_score:
-    role="fliC"
-  else:
-    role="fljB"
-  return (role,abs(fliC_score-fljB_score))
-
-def judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(node_name,Final_list,Final_list_passed):
-  #used to predict contig is fliC or fljB, if the differnce score value on above head_and_tail is less than 10 (quite small)
-  #also used when no head or tail got blasted score for the contig
-  role=""
-  for z in Final_list_passed:
-    if node_name in z[0]:
-      role=z[0].split("_")[0]
-      break
-  return role
-
-def fliC_or_fljB_judge_from_head_tail_sequence(nodes_list,tail_head_list,Final_list,Final_list_passed):
-  #nodes_list is the c created by c,d=Uniq(nodes) in below function
-  first_target=""
-  role_list=[]
-  for x in nodes_list:
-    a=[]
-    role=""
-    for y in tail_head_list:
-      if x in y[0]:
-        a.append(y)
-    if len(a)==4:
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-    elif len(a)==3:
-      ###however, if the one with highest score is the fewer one, compare their accumulation score
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-      ###end of above score comparison
-    elif len(a)==2:
-      #must on same node, if not, then decide with unit blast score, blast-score/length_of_special_sequence(30 or 37)
-      temp=[]
-      for z in a:
-        temp.append(z[0].split("_")[0])
-      m,n=Uniq(temp)#should only have one choice, but weird situation might occur too
-      if len(m)==1:
-        pass
-      else:
-        pass
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-        ###need to desgin a algorithm to guess most possible situation for nodes_list, See the situations of test evaluation
-    elif len(a)==1:
-      #that one
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-      #need to evaluate, in future, may set up a cut-off, if not met, then just find Final_list_passed best match,like when "a==0"
-    else:#a==0
-      #use Final_list_passed best match
-      for z in Final_list_passed:
-        if x in z[0]:
-          role=z[0].split("_")[0]
-          break
-    #print x,role,len(a)
-    role_list.append((role,x))
-  if len(role_list)==2:
-    if role_list[0][0]==role_list[1][0]:#this is the most cocmmon error, two antigen were assigned to same phase
-      #just use score to do a final test
-      role_list=[]
-      for x in nodes_list: 
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-        role_list.append((role,x))
-  return role_list
-
-def decide_contig_roles_for_H_antigen(Final_list,Final_list_passed):
-  #used to decide which contig is FliC and which one is fljB
-  contigs=[]
-  nodes=[]
-  for x in Final_list_passed:
-    if x[0].startswith("fl") and "last" not in x[0] and "first" not in x[0]:
-      nodes.append(x[0].split("___")[1].strip())
-  c,d=Uniq(nodes)#c is node_list
-  #print c
-  tail_head_list=[x for x in Final_list if ("last" in x[0] or "first" in x[0])]
-  roles=fliC_or_fljB_judge_from_head_tail_sequence(c,tail_head_list,Final_list,Final_list_passed)
-  return roles
-
-def decide_O_type_and_get_special_genes(Final_list,Final_list_passed):
-  #decide O based on Final_list
-  O_choice="?"
-  O_list=[]
-  special_genes={}
-  nodes=[]
-  for x in Final_list_passed:
-    if x[0].startswith("O-"):
-      nodes.append(x[0].split("___")[1].strip())
-    elif not x[0].startswith("fl"):
-      special_genes[x[0]]=x[2]#08172018, x[2] changed from x[-1]
-  #print "special_genes:",special_genes
-  c,d=Uniq(nodes)
-  #print "potential O antigen contig",c
-  final_O=[]
-  O_nodes_list=[]
-  for x in c:#c is the list for contigs
-    temp=0
-    for y in Final_list_passed:
-      if x in y[0] and y[0].startswith("O-"):
-        final_O.append(y)
-        break
-  ### O contig has the problem of two genes on same contig, so do additional test
-  potenial_new_gene=""
-  for x in final_O:
-    pointer=0 #for genes merged or not
-    #not consider O-1,3,19_not_in_3,10, too short compared with others
-    if "O-1,3,19_not_in_3,10" not in x[0] and int(x[0].split("__")[1].split("___")[0])*x[2]+850 <= int(x[0].split("length_")[1].split("_")[0]):#gene length << contig length; for now give 300*2 (for secureity can use 400*2) as flank region
-      pointer=x[0].split("___")[1].strip()#store the contig name
-      print(pointer)
-    if pointer!=0:#it has potential merge event
-      for y in Final_list:
-        if pointer in y[0] and y not in final_O and (y[1]>=int(y[0].split("__")[1].split("___")[0])*1.5 or (y[1]>=int(y[0].split("__")[1].split("___")[0])*y[2] and y[1]>=400)):#that's a realtively strict filter now; if passed, it has merge event and add one more to final_O
-          potenial_new_gene=y
-          #print(potenial_new_gene)
-          break
-  if potenial_new_gene!="":
-    print("two differnt genes in same contig, fix it for O antigen")
-    print(potenial_new_gene[:3])
-    pointer=0
-    for y in final_O:
-      if y[0].split("___")[-1]==potenial_new_gene[0].split("___")[-1]:
-        pointer=1
-    if pointer!=0: #changed to consider two genes in same contig
-      final_O.append(potenial_new_gene)
-  ### end of the two genes on same contig test
-  final_O=sorted(final_O,key=lambda x: x[2], reverse=True)#sorted
-  if len(final_O)==0 or (len(final_O)==1 and "O-1,3,19_not_in_3,10" in final_O[0][0]):
-    #print "$$$No Otype, due to no hit"#may need to be changed
-    O_choice="-"
-  else:
-    highest_O_coverage=max([float(x[0].split("_cov_")[-1].split("_")[0]) for x in final_O if "O-1,3,19_not_in_3,10" not in x[0]])
-    O_list=[]
-    O_list_less_contamination=[]
-    for x in final_O:
-      if not "O-1,3,19_not_in_3,10__130" in x[0]:#O-1,3,19_not_in_3,10 is too small, which may affect further analysis; to avoid contamination affect, use 0.15 of highest coverage as cut-off
-        O_list.append(x[0].split("__")[0])
-        O_nodes_list.append(x[0].split("___")[1])
-        if float(x[0].split("_cov_")[-1].split("_")[0])>highest_O_coverage*0.15:
-          O_list_less_contamination.append(x[0].split("__")[0])
-    ### special test for O9,46 and O3,10 family
-    if ("O-9,46_wbaV" in O_list or "O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254" in O_list) and O_list_less_contamination[0].startswith("O-9,"):#not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-      if "O-9,46_wzy" in O_list or "O-9,46_wzy_partial" in O_list:#and float(O946_wzy)/float(num_1) > 0.1
-        O_choice="O-9,46"
-        #print "$$$Most possilble Otype:  O-9,46"
-      elif "O-9,46,27_partial_wzy" in O_list:#and float(O94627)/float(num_1) > 0.1
-        O_choice="O-9,46,27"
-        #print "$$$Most possilble Otype:  O-9,46,27"
-      else:
-        O_choice="O-9"#next, detect O9 vs O2?
-        O2=0
-        O9=0
-        for z in special_genes:
-          if "tyr-O-9" in z:
-            O9=special_genes[z]
-          elif "tyr-O-2" in z:
-            O2=special_genes[z]
-        if O2>O9:
-          O_choice="O-2"
-        elif O2<O9:
-          pass
-        else:
-          pass
-          #print "$$$No suitable one, because can't distinct it's O-9 or O-2, but O-9 has a more possibility."
-    elif ("O-3,10_wzx" in O_list) and ("O-9,46_wzy" in O_list) and (O_list[0].startswith("O-3,10") or O_list_less_contamination[0].startswith("O-9,46_wzy")):#and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-      if "O-3,10_not_in_1,3,19" in O_list:#and float(O310_no_1319)/float(num_1) > 0.1
-        O_choice="O-3,10"
-        #print "$$$Most possilble Otype:  O-3,10 (contain O-3,10_not_in_1,3,19)"
-      else:
-        O_choice="O-1,3,19"
-        #print "$$$Most possilble Otype:  O-1,3,19 (not contain O-3,10_not_in_1,3,19)"
-    ### end of special test for O9,46 and O3,10 family
-    else:
-      try: 
-        max_score=0
-        for x in final_O:
-          if x[2]>=max_score and float(x[0].split("_cov_")[-1].split("_")[0])>highest_O_coverage*0.15:#use x[2],08172018, the "coverage identity = cover_length * identity"; also meet coverage threshold
-            max_score=x[2]#change from x[-1] to x[2],08172018
-            O_choice=x[0].split("_")[0]
-        if O_choice=="O-1,3,19":
-          O_choice=final_O[1][0].split("_")[0]
-        #print "$$$Most possilble Otype: ",O_choice
-      except:
-        pass
-        #print "$$$No suitable Otype, or failure of mapping (please check the quality of raw reads)"
-  if O_choice=="O-9,46,27" and len(O_list)==2 and "O-4_wzx" in O_list: #special for very low chance sitatuion between O4 and O9,27,46, this is for serotypes like Bredeney and Schwarzengrund (normallly O-4 will have higher score, but sometimes sequencing quality may affect the prediction)
-    O_choice="O-4"
-  #print "O:",O_choice,O_nodes_list
-  Otypes=[]
-  for x in O_list:
-    if x!="O-1,3,19_not_in_3,10":
-      if "O-9,46_" not in x:
-        Otypes.append(x.split("_")[0])
-      else:
-        Otypes.append(x.split("-from")[0])#O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254
-  #Otypes=[x.split("_")[0] for x in O_list if x!="O-1,3,19_not_in_3,10"]
-  Otypes_uniq,Otypes_fre=Uniq(Otypes)
-  contamination_O=""
-  if O_choice=="O-9,46,27" or O_choice=="O-3,10" or O_choice=="O-1,3,19":
-    if len(Otypes_uniq)>2:
-      contamination_O="potential contamination from O antigen signals"
-  else:
-    if len(Otypes_uniq)>1:
-      if O_choice=="O-4" and len(Otypes_uniq)==2 and "O-9,46,27" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      elif O_choice=="O-9,46" and len(Otypes_uniq)==2 and "O-9,46_wbaV" in Otypes_uniq and "O-9,46_wzy" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      else:
-        contamination_O="potential contamination from O antigen signals"
-  return O_choice,O_nodes_list,special_genes,final_O,contamination_O,Otypes_uniq
-### End of SeqSero2 allele prediction and output
-
-def get_input_files(make_dir,input_file,data_type,dirpath):
-  #tell input files from datatype
-  #"<int>: '1'(pair-end reads, interleaved),'2'(pair-end reads, seperated),'3'(single-end reads), '4'(assembly),'5'(nanopore fasta),'6'(nanopore fastq)"
-  for_fq=""
-  rev_fq=""
-  os.chdir(make_dir)
-  if data_type=="1":
-    input_file=input_file[0].split("/")[-1]
-    if input_file.endswith(".sra"):
-      subprocess.check_call("fastq-dump --split-files "+input_file,shell=True)
-      for_fq=input_file.replace(".sra","_1.fastq")
-      rev_fq=input_file.replace(".sra","_2.fastq")
-    else:
-      core_id=input_file.split(".fastq")[0].split(".fq")[0]
-      for_fq=core_id+"_1.fastq"
-      rev_fq=core_id+"_2.fastq"
-      if input_file.endswith(".gz"):
-        subprocess.check_call("gzip -dc "+input_file+" | "+dirpath+"/deinterleave_fastq.sh "+for_fq+" "+rev_fq,shell=True)
-      else:
-        subprocess.check_call("cat "+input_file+" | "+dirpath+"/deinterleave_fastq.sh "+for_fq+" "+rev_fq,shell=True)
-  elif data_type=="2":
-    for_fq=input_file[0].split("/")[-1]
-    rev_fq=input_file[1].split("/")[-1]
-  elif data_type=="3":
-    input_file=input_file[0].split("/")[-1]
-    if input_file.endswith(".sra"):
-      subprocess.check_call("fastq-dump --split-files "+input_file,shell=True)
-      for_fq=input_file.replace(".sra","_1.fastq")
-    else:
-      for_fq=input_file
-  elif data_type in ["4","5","6"]:
-    for_fq=input_file[0].split("/")[-1]
-  os.chdir("..")
-  return for_fq,rev_fq
-
-def predict_O_and_H_types(Final_list,Final_list_passed,new_fasta):
-  #get O and H types from Final_list from blast parsing; allele mode
-  from Bio import SeqIO
-  fliC_choice="-"
-  fljB_choice="-"
-  fliC_contig="NA"
-  fljB_contig="NA"
-  fliC_region=set([0])
-  fljB_region=set([0,])
-  fliC_length=0 #can be changed to coverage in future; in 03292019, changed to ailgned length
-  fljB_length=0 #can be changed to coverage in future; in 03292019, changed to ailgned length
-  O_choice="-"#no need to decide O contig for now, should be only one
-  O_choice,O_nodes,special_gene_list,O_nodes_roles,contamination_O,Otypes_uniq=decide_O_type_and_get_special_genes(Final_list,Final_list_passed)#decide the O antigen type and also return special-gene-list for further identification
-  O_choice=O_choice.split("-")[-1].strip()
-  if (O_choice=="1,3,19" and len(O_nodes_roles)==1 and "1,3,19" in O_nodes_roles[0][0]) or O_choice=="":
-    O_choice="-"
-  H_contig_roles=decide_contig_roles_for_H_antigen(Final_list,Final_list_passed)#decide the H antigen contig is fliC or fljB
-  #add alignment locations, used for further selection, 03312019
-  for i in range(len(H_contig_roles)):
-    x=H_contig_roles[i]
-    for y in Final_list_passed:
-      if x[1] in y[0] and y[0].startswith(x[0]):
-        H_contig_roles[i]+=H_contig_roles[i]+(y[-1],)
-        break
-  log_file=open("SeqSero_log.txt","a")
-  extract_file=open("Extracted_antigen_alleles.fasta","a")
-  handle_fasta=list(SeqIO.parse(new_fasta,"fasta"))
-
-  #print("O_contigs:")
-  log_file.write("O_contigs:\n")
-  extract_file.write("#Sequences with antigen signals (if the micro-assembled contig only covers the flanking region, it will not be used for contamination analysis)\n")
-  extract_file.write("#O_contigs:\n")
-  for x in O_nodes_roles:
-    if "O-1,3,19_not_in_3,10" not in x[0]:#O-1,3,19_not_in_3,10 is just a small size marker
-      #print(x[0].split("___")[-1],x[0].split("__")[0],"blast score:",x[1],"identity%:",str(round(x[2]*100,2))+"%",str(min(x[-1]))+" to "+str(max(x[-1])))
-      log_file.write(x[0].split("___")[-1]+" "+x[0].split("__")[0]+"; "+"blast score: "+str(x[1])+" identity%: "+str(round(x[2]*100,2))+"%; alignment from "+str(min(x[-1]))+" to "+str(max(x[-1]))+" of antigen\n")
-      title=">"+x[0].split("___")[-1]+" "+x[0].split("__")[0]+"; "+"blast score: "+str(x[1])+" identity%: "+str(round(x[2]*100,2))+"%; alignment from "+str(min(x[-1]))+" to "+str(max(x[-1]))+" of antigen\n"      
-      seqs=""
-      for z in handle_fasta:
-        if x[0].split("___")[-1]==z.description:
-          seqs=str(z.seq)
-      extract_file.write(title+seqs+"\n")
-  if len(H_contig_roles)!=0:
-    highest_H_coverage=max([float(x[1].split("_cov_")[-1].split("_")[0]) for x in H_contig_roles]) #less than highest*0.1 would be regarded as contamination and noises, they will still be considered in contamination detection and logs, but not used as final serotype output
-  else:
-    highest_H_coverage=0
-  for x in H_contig_roles:
-    #if multiple choices, temporately select the one with longest length for now, will revise in further change
-    if "fliC" == x[0] and len(x[-1])>=fliC_length and x[1] not in O_nodes and float(x[1].split("_cov_")[-1].split("_")[0])>highest_H_coverage*0.13:#remember to avoid the effect of O-type contig, so should not in O_node list
-      fliC_contig=x[1]
-      fliC_length=len(x[-1])
-    elif "fljB" == x[0] and len(x[-1])>=fljB_length and x[1] not in O_nodes and float(x[1].split("_cov_")[-1].split("_")[0])>highest_H_coverage*0.13:
-      fljB_contig=x[1]
-      fljB_length=len(x[-1])
-  for x in Final_list_passed:
-    if fliC_choice=="-" and "fliC_" in x[0] and fliC_contig in x[0]:
-      fliC_choice=x[0].split("_")[1]
-    elif fljB_choice=="-" and "fljB_" in x[0] and fljB_contig in x[0]:
-      fljB_choice=x[0].split("_")[1]
-    elif fliC_choice!="-" and fljB_choice!="-":
-      break
-  #now remove contigs not in middle core part
-  first_allele="NA"
-  first_allele_percentage=0
-  for x in Final_list:
-    if x[0].startswith("fliC") or x[0].startswith("fljB"):
-      first_allele=x[0].split("__")[0] #used to filter those un-middle contigs
-      first_allele_percentage=x[2]
-      break 
-  additional_contigs=[]
-  for x in Final_list:
-    if first_allele in x[0]:
-      if (fliC_contig == x[0].split("___")[-1]): 
-        fliC_region=x[3]
-      elif fljB_contig!="NA" and (fljB_contig == x[0].split("___")[-1]):
-        fljB_region=x[3]
-      else:
-        if x[1]*1.1>int(x[0].split("___")[1].split("_")[3]):#loose threshold by multiplying 1.1
-          additional_contigs.append(x)
-        #else:
-          #print x[:3]
-  #we can just use the fljB region (or fliC depends on size), no matter set() or contain a large locations (without middle part); however, if none of them is fully assembled, use 500 and 1200 as conservative cut-off
-  if first_allele_percentage>0.9:
-    if len(fliC_region)>len(fljB_region) and (max(fljB_region)-min(fljB_region))>1000:
-      target_region=fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region)))) #fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region))))
-    elif len(fliC_region)<len(fljB_region) and (max(fliC_region)-min(fliC_region))>1000:
-      target_region=fliC_region|(fljB_region-set(range(min(fliC_region),max(fliC_region))))  #fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region))))
-    else:
-      target_region=set()#doesn't do anything
-  else:
-    target_region=set()#doesn't do anything
-  #print(target_region)
-  #print(additional_contigs)
-  target_region2=set(list(range(0,525))+list(range(1200,1700)))#I found to use 500 to 1200 as special region would be best
-  target_region=target_region2|target_region
-  for x in additional_contigs:
-    removal=0
-    contig_length=int(x[0].split("___")[1].split("length_")[-1].split("_")[0])
-    if fljB_contig not in x[0] and fliC_contig not in x[0] and len(target_region&x[3])/float(len(x[3]))>0.65 and contig_length*0.5<len(x[3])<contig_length*1.5: #consider length and alignment length for now, but very loose,0.5 and 1.5 as cut-off
-      removal=1
-    else:
-      if first_allele_percentage > 0.9 and float(x[0].split("__")[1].split("___")[0])*x[2]/len(x[-1])>0.96:#if high similiarity with middle part of first allele (first allele >0.9, already cover middle part)
-        removal=1
-      else:
-        pass
-    if removal==1:
-      for y in H_contig_roles:
-        if y[1] in x[0]:
-          H_contig_roles.remove(y)
-    else:
-      pass
-      #print(x[:3],contig_length,len(target_region&x[3])/float(len(x[3])),contig_length*0.5,len(x[3]),contig_length*1.5)
-  #end of removing none-middle contigs
-  #print("H_contigs:")
-  log_file.write("H_contigs:\n")
-  extract_file.write("#H_contigs:\n")
-  H_contig_stat=[]
-  H1_cont_stat={}
-  H2_cont_stat={}
-  for i in range(len(H_contig_roles)):
-    x=H_contig_roles[i]
-    a=0
-    for y in Final_list_passed:
-      if x[1] in y[0] and y[0].startswith(x[0]):
-        if "first" in y[0] or "last" in y[0]: #this is the final filter to decide it's fliC or fljB, if can't pass, then can't decide
-          for y in Final_list_passed: #it's impossible to has the "first" and "last" allele as prediction, so re-do it
-            if x[1] in y[0]:#it's very possible to be third phase allele, so no need to make it must be fliC or fljB
-              #print(x[1],"can't_decide_fliC_or_fljB",y[0].split("_")[1],"blast_score:",y[1],"identity%:",str(round(y[2]*100,2))+"%",str(min(y[-1]))+" to "+str(max(y[-1])))
-              log_file.write(x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n")
-              H_contig_roles[i]="can't decide fliC or fljB, may be third phase"
-              title=">"+x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antiten\n"
-              seqs=""
-              for z in handle_fasta:
-                if x[1]==z.description:
-                  seqs=str(z.seq)
-              extract_file.write(title+seqs+"\n")
-              break
-        else:
-          #print(x[1],x[0],y[0].split("_")[1],"blast_score:",y[1],"identity%:",str(round(y[2]*100,2))+"%",str(min(y[-1]))+" to "+str(max(y[-1])))
-          log_file.write(x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n")
-          title=">"+x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n"
-          seqs=""
-          for z in handle_fasta:
-            if x[1]==z.description:
-              seqs=str(z.seq)
-          extract_file.write(title+seqs+"\n")
-        if x[0]=="fliC":
-          if y[0].split("_")[1] not in H1_cont_stat:
-            H1_cont_stat[y[0].split("_")[1]]=y[2]
-          else:
-            H1_cont_stat[y[0].split("_")[1]]+=y[2]
-        if x[0]=="fljB":
-          if y[0].split("_")[1] not in H2_cont_stat:
-            H2_cont_stat[y[0].split("_")[1]]=y[2]
-          else:
-            H2_cont_stat[y[0].split("_")[1]]+=y[2]
-        break
-  #detect contaminations
-  #print(H1_cont_stat)
-  #print(H2_cont_stat)
-  H1_cont_stat_list=[x for x in H1_cont_stat if H1_cont_stat[x]>0.2]
-  H2_cont_stat_list=[x for x in H2_cont_stat if H2_cont_stat[x]>0.2]
-  contamination_H=""
-  if len(H1_cont_stat_list)>1 or len(H2_cont_stat_list)>1:
-    contamination_H="potential contamination from H antigen signals"
-  elif len(H2_cont_stat_list)==1 and fljB_contig=="NA":
-    contamination_H="potential contamination from H antigen signals, uncommon weak fljB signals detected"
-  #get additional antigens
-  """
-    if ("O-9,46_wbaV" in O_list or "O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254" in O_list) and O_list_less_contamination[0].startswith("O-9,"):#not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-      if "O-9,46_wzy" in O_list:#and float(O946_wzy)/float(num_1) > 0.1
-        O_choice="O-9,46"
-        #print "$$$Most possilble Otype:  O-9,46"
-      elif "O-9,46,27_partial_wzy" in O_list:#and float(O94627)/float(num_1) > 0.1
-        O_choice="O-9,46,27"
-        #print "$$$Most possilble Otype:  O-9,46,27"
-    elif ("O-3,10_wzx" in O_list) and ("O-9,46_wzy" in O_list) and (O_list[0].startswith("O-3,10") or O_list_less_contamination[0].startswith("O-9,46_wzy")):#and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-      if "O-3,10_not_in_1,3,19" in O_list:#and float(O310_no_1319)/float(num_1) > 0.1
-        O_choice="O-3,10"
-        #print "$$$Most possilble Otype:  O-3,10 (contain O-3,10_not_in_1,3,19)"
-      else:
-        O_choice="O-1,3,19"
-        #print "$$$Most possilble Otype:  O-1,3,19 (not contain O-3,10_not_in_1,3,19)"
-    ### end of special test for O9,46 and O3,10 family
-
-    if O_choice=="O-9,46,27" or O_choice=="O-3,10" or O_choice=="O-1,3,19":
-    if len(Otypes_uniq)>2:
-      contamination_O="potential contamination from O antigen signals"
-  else:
-    if len(Otypes_uniq)>1:
-      if O_choice=="O-4" and len(Otypes_uniq)==2 and "O-9,46,27" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      elif O_choice=="O-9,46" and len(Otypes_uniq)==2 and "O-9,46_wbaV" in Otypes_uniq and "O-9,46_wzy" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-  """
-  additonal_antigents=[]
-  #print(contamination_O)
-  #print(contamination_H)
-  log_file.write(contamination_O+"\n")
-  log_file.write(contamination_H+"\n")
-  log_file.close()
-  return O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H,Otypes_uniq,H1_cont_stat_list,H2_cont_stat_list
-
-def get_input_K(input_file,lib_dict,data_type,k_size):
-  #kmer mode; get input_Ks from dict and data_type
-  kmers = []
-  for h in lib_dict:
-      kmers += lib_dict[h]
-  if data_type == '4':
-      input_Ks = target_multifasta_kmerizer(input_file, k_size, set(kmers))
-  elif data_type == '1' or data_type == '2' or data_type == '3':#set it for now, will change later
-      input_Ks = target_read_kmerizer(input_file, k_size, set(kmers))
-  elif data_type == '5':#minion_2d_fasta
-      input_Ks = minion_fasta_kmerizer(input_file, k_size, set(kmers))
-  if data_type == '6':#minion_2d_fastq
-      input_Ks = minion_fastq_kmerizer(input_file, k_size, set(kmers))
-  return input_Ks
-
-def get_kmer_dict(lib_dict,input_Ks):
-  #kmer mode; get predicted types
-  O_dict = {}
-  H_dict = {}
-  Special_dict = {}
-  for h in lib_dict:
-      score = (len(lib_dict[h] & input_Ks) / len(lib_dict[h])) * 100
-      if score > 1:  # Arbitrary cut-off for similarity score very low but seems necessary to detect O-3,10 in some cases
-          if h.startswith('O-') and score > 25:
-              O_dict[h] = score
-          if h.startswith('fl') and score > 40:
-              H_dict[h] = score
-          if (h[:2] != 'fl') and (h[:2] != 'O-'):
-              Special_dict[h] = score
-  return O_dict,H_dict,Special_dict
-
-def call_O_and_H_type(O_dict,H_dict,Special_dict,make_dir):
-  log_file=open("SeqSero_log.txt","a")
-  log_file.write("O_scores:\n")
-  #call O:
-  highest_O = '-'
-  if len(O_dict) == 0:
-      pass
-  else:
-      for x in O_dict:
-          log_file.write(x+"\t"+str(O_dict[x])+"\n")
-      if ('O-9,46_wbaV__1002' in O_dict and O_dict['O-9,46_wbaV__1002']>70) or ("O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002" in O_dict and O_dict['O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002']>70):  # not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-          #if 'O-9,46_wzy__1191' in O_dict or "O-9,46_wzy_partial__216" in O_dict:  # and float(O946_wzy)/float(num_1) > 0.1
-          #modified to fix miscall of O-9,46
-          if ('O-9,46_wzy__1191' in O_dict and O_dict['O-9,46_wzy__1191']>40) or ("O-9,46_wzy_partial__216" in O_dict and O_dict["O-9,46_wzy_partial__216"]>40):  # and float(O946_wzy)/float(num_1) > 0.1
-              highest_O = "O-9,46"
-          elif "O-9,46,27_partial_wzy__1019" in O_dict:  # and float(O94627)/float(num_1) > 0.1
-              highest_O = "O-9,46,27"
-          else:
-              highest_O = "O-9"  # next, detect O9 vs O2?
-              O2 = 0
-              O9 = 0
-              for z in Special_dict:
-                  if "tyr-O-9" in z:
-                      O9 = float(Special_dict[z])
-                  if "tyr-O-2" in z:
-                      O2 = float(Special_dict[z])
-              if O2 > O9:
-                  highest_O = "O-2"
-      elif ("O-3,10_wzx__1539" in O_dict) and (
-              "O-9,46_wzy__1191" in O_dict
-      ):  # and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-          if "O-3,10_not_in_1,3,19__1519" in O_dict:  # and float(O310_no_1319)/float(num_1) > 0.1
-              highest_O = "O-3,10"
-          else:
-              highest_O = "O-1,3,19"
-      ### end of special test for O9,46 and O3,10 family
-      else:
-          try:
-              max_score = 0
-              for x in O_dict:
-                  if float(O_dict[x]) >= max_score:
-                      max_score = float(O_dict[x])
-                      #highest_O = x.split("_")[0]
-                      # ed_SL_12182019: modified to fix the O-9,46 error example1
-                      if (x == 'O-9,46_wbaV__1002' or x == 'O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002') and ('O-9,46_wzy__1191' not in O_dict and 'O-9,46_wzy_partial__216' not in O_dict):
-                          highest_O = "O-9"
-                      else:
-                          highest_O = x.split("_")[0]
-              if highest_O == "O-1,3,19":
-                  highest_O = '-'
-                  max_score = 0
-                  for x in O_dict:
-                      if x == 'O-1,3,19_not_in_3,10__130':
-                          pass
-                      else:
-                          if float(O_dict[x]) >= max_score:
-                              max_score = float(O_dict[x])
-                              #highest_O = x.split("_")[0]
-                              # ed_SL_12182019: modified to fix the O-9,46 error example1
-                              if (x == 'O-9,46_wbaV__1002' or x == 'O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002') and ('O-9,46_wzy__1191' not in O_dict and 'O-9,46_wzy_partial__216' not in O_dict):
-                                  highest_O = "O-9"
-                              else:
-                                  highest_O = x.split("_")[0]
-          except:
-              pass
-  #call_fliC:
-  if len(H_dict)!=0:
-    highest_H_score_both_BC=H_dict[max(H_dict.keys(), key=(lambda k: H_dict[k]))] #used to detect whether fljB existed or not
-  else:
-    highest_H_score_both_BC=0
-  highest_fliC = '-'
-  highest_fliC_raw = '-'
-  highest_Score = 0
-  log_file.write("\nH_scores:\n")
-  for s in H_dict:
-      log_file.write(s+"\t"+str(H_dict[s])+"\n")
-      if s.startswith('fliC'):
-          if float(H_dict[s]) > highest_Score:
-              highest_fliC = s.split('_')[1]
-              highest_fliC_raw = s
-              highest_Score = float(H_dict[s])
-  #call_fljB
-  highest_fljB = '-'
-  highest_fljB_raw = '-'
-  highest_Score = 0
-  for s in H_dict:
-      if s.startswith('fljB'):
-          if float(H_dict[s]) > highest_Score and float(H_dict[s]) > highest_H_score_both_BC * 0.65: #fljB is special, so use highest_H_score_both_BC to give a general estimate of coverage, currently 0.65 seems pretty good; the reason use a high (0.65) is some fliC and fljB shared with each other
-              #highest_fljB = s.split('_')[1]
-              #highest_fljB_raw = s
-              #highest_Score = float(H_dict[s])
-              if s.split('_')[1]!=highest_fliC:
-                  highest_fljB = s.split('_')[1]
-                  highest_fljB_raw = s
-                  highest_Score = float(H_dict[s])
-  log_file.write("\nSpecial_scores:\n")
-  for s in Special_dict:
-    log_file.write(s+"\t"+str(Special_dict[s])+"\n")
-  log_file.close()
-  return highest_O,highest_fliC,highest_fljB
-
-def get_temp_file_names(for_fq,rev_fq):
-  #seqsero2 -a; get temp file names
-  sam=for_fq+".sam"
-  bam=for_fq+".bam"
-  sorted_bam=for_fq+"_sorted.bam"
-  mapped_fq1=for_fq+"_mapped.fq"
-  mapped_fq2=rev_fq+"_mapped.fq"
-  combined_fq=for_fq+"_combined.fq"
-  for_sai=for_fq+".sai"
-  rev_sai=rev_fq+".sai"
-  return sam,bam,sorted_bam,mapped_fq1,mapped_fq2,combined_fq,for_sai,rev_sai
-
-def map_and_sort(threads,database,fnameA,fnameB,sam,bam,for_sai,rev_sai,sorted_bam,mapping_mode):
-  #seqsero2 -a; do mapping and sort
-  print("building database...")
-  subprocess.check_call("bwa index "+database+ " 2>> data_log.txt",shell=True)
-  print("mapping...")
-  if mapping_mode=="mem":
-    subprocess.check_call("bwa mem -k 17 -t "+threads+" "+database+" "+fnameA+" "+fnameB+" > "+sam+ " 2>> data_log.txt",shell=True)
-  elif mapping_mode=="sam":
-    if fnameB!="":
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameA+" > "+for_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameB+" > "+rev_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa sampe "+database+" "+for_sai+" "+ rev_sai+" "+fnameA+" "+fnameB+" > "+sam+ " 2>> data_log.txt",shell=True)
-    else:
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameA+" > "+for_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa samse "+database+" "+for_sai+" "+for_fq+" > "+sam)
-  subprocess.check_call("samtools view -@ "+threads+" -F 4 -Sh "+sam+" > "+bam,shell=True)
-  ### check the version of samtools then use differnt commands
-  samtools_version=subprocess.Popen(["samtools"],stdout=subprocess.PIPE,stderr=subprocess.PIPE)
-  out, err = samtools_version.communicate()
-  version = str(err).split("ersion:")[1].strip().split(" ")[0].strip()
-  print("check samtools version:",version)
-  ### end of samtools version check and its analysis
-  if LooseVersion(version)<=LooseVersion("1.2"):
-    subprocess.check_call("samtools sort -@ "+threads+" -n "+bam+" "+fnameA+"_sorted",shell=True)
-  else:
-    subprocess.check_call("samtools sort -@ "+threads+" -n "+bam+" >"+sorted_bam,shell=True)
-
-def extract_mapped_reads_and_do_assembly_and_blast(current_time,sorted_bam,combined_fq,mapped_fq1,mapped_fq2,threads,fnameA,fnameB,database,mapping_mode):
-  #seqsero2 -a; extract, assembly and blast
-  subprocess.check_call("bamToFastq -i "+sorted_bam+" -fq "+combined_fq,shell=True)
-  #print("fnameA:",fnameA)
-  #print("fnameB:",fnameB)
-  if fnameB!="":
-    subprocess.check_call("bamToFastq -i "+sorted_bam+" -fq "+mapped_fq1+" -fq2 "+mapped_fq2 + " 2>> data_log.txt",shell=True)#2> /dev/null if want no output
-  else:
-    pass
-  outdir=current_time+"_temp"
-  print("assembling...")
-  if int(threads)>4:
-    t="4"
-  else:
-    t=threads
-  if os.path.getsize(combined_fq)>100 and (fnameB=="" or os.path.getsize(mapped_fq1)>100):#if not, then it's "-:-:-"
-    if fnameB!="":
-      subprocess.check_call("spades.py --careful --pe1-s "+combined_fq+" --pe1-1 "+mapped_fq1+" --pe1-2 "+mapped_fq2+" -t "+t+" -o "+outdir+ " >> data_log.txt 2>&1",shell=True)
-    else:
-      subprocess.check_call("spades.py --careful --pe1-s "+combined_fq+" -t "+t+" -o "+outdir+ " >> data_log.txt 2>&1",shell=True)
-    new_fasta=fnameA+"_"+database+"_"+mapping_mode+".fasta"
-    #new_fasta=fnameA+"_"+database.split('/')[-1]+"_"+mapping_mode+".fasta" # change path to databse for packaging
-    subprocess.check_call("mv "+outdir+"/contigs.fasta "+new_fasta+ " 2> /dev/null",shell=True)
-    #os.system("mv "+outdir+"/scaffolds.fasta "+new_fasta+ " 2> /dev/null") contigs.fasta
-    subprocess.check_call("rm -rf "+outdir+ " 2> /dev/null",shell=True)
-    print("blasting...","\n")
-    xmlfile="blasted_output.xml"#fnameA+"-extracted_vs_"+database+"_"+mapping_mode+".xml"
-    subprocess.check_call('makeblastdb -in '+new_fasta+' -out '+new_fasta+'_db '+'-dbtype nucl >> data_log.txt 2>&1',shell=True) #temp.txt is to forbid the blast result interrupt the output of our program###1/27/2015
-    subprocess.check_call("blastn -query "+database+" -db "+new_fasta+"_db -out "+xmlfile+" -outfmt 5 >> data_log.txt 2>&1",shell=True)###1/27/2015; 08272018, remove "-word_size 10"
-  else:
-    xmlfile="NA"
-  return xmlfile,new_fasta
-
-def judge_subspecies(fnameA):
-  #seqsero2 -a; judge subspecies on just forward raw reads fastq
-  salmID_output=subprocess.Popen("SalmID.py -i "+fnameA,shell=True,stdout=subprocess.PIPE,stderr=subprocess.PIPE)
-  out, err = salmID_output.communicate()
-  out=out.decode("utf-8")
-  file=open("data_log.txt","a")
-  file.write(out)
-  file.close()
-  salm_species_scores=out.split("\n")[1].split("\t")[6:]
-  salm_species_results=out.split("\n")[0].split("\t")[6:]
-  max_score=0
-  max_score_index=1 #default is 1, means "I"
-  for i in range(len(salm_species_scores)):
-    if max_score<float(salm_species_scores[i]):
-      max_score=float(salm_species_scores[i])
-      max_score_index=i
-  prediction=salm_species_results[max_score_index].split(".")[1].strip().split(" ")[0]
-  #if float(out.split("\n")[1].split("\t")[4]) > float(out.split("\n")[1].split("\t")[5]): #bongori and enterica compare
-  if float(out.split("\n")[1].split("\t")[4]) > 10 and float(out.split("\n")[1].split("\t")[4]) > float(out.split("\n")[1].split("\t")[5]): ## ed_SL_0318: change SalmID_ssp_threshold
-    prediction="bongori" #if not, the prediction would always be enterica, since they are located in the later part
-  #if max_score<10:  ## ed_SL_0318: change SalmID_ssp_threshold
-  if max_score<60:
-    prediction="-"
-  return prediction
-
-def judge_subspecies_Kmer(Special_dict):
-  #seqsero2 -k;
-  max_score=0
-  prediction="-" #default should be I
-  for x in Special_dict:
-    #if "mer" in x: ## ed_SL_0318: change ssp_threshold
-    if "mer" in x and float(Special_dict[x]) > 60:
-      if max_score<float(Special_dict[x]):
-        max_score=float(Special_dict[x])
-        prediction=x.split("_")[-1].strip()
-      if x.split("_")[-1].strip()=="bongori" and float(Special_dict[x])>95:#if bongori already, then no need to test enterica
-        prediction="bongori"
-        break
-  return prediction
-
-## ed_SL_11232019: add notes for missing antigen
-def check_antigens(ssp,O_antigen,H1_antigen,H2_antigen,NA_note):
-  antigen_note = ''
-  if ssp != '-':
-    if O_antigen != '-' and H1_antigen == '-' and H2_antigen == '-': # O:-:-
-      antigen_note = 'H antigens were not detected. This is an atypical result that should be further investigated. Most Salmonella strains have at least fliC, encoding the Phase 1 H antigen, even if it is not expressed. '
-      NA_note = ''
-    elif O_antigen != '-' and H1_antigen == '-' and H2_antigen != '-': # O:-:H2
-      antigen_note = 'fliC was not detected. This is an atypical result that should be further investigated. Most Salmonella strains have fliC, encoding the Phase 1 H antigen, even if it is not expressed. '
-      NA_note = ''
-    elif O_antigen == '-' and H1_antigen != '-': # -:H1:X
-      antigen_note = 'O antigen was not detected. This result may be due to a rough strain that has deleted the rfb region. For raw reads input, the k-mer workflow is sometimes more sensitive than the microassembly workflow in detecting O antigen. Caution should be used with this approach because the k-mer result may be due to low levels of contamination. '
-      NA_note = ''
-    elif O_antigen == '-' and H1_antigen == '-' and H2_antigen == '-': # -:-:-
-      antigen_note = 'No serotype antigens were detected. This is an atypical result that should be further investigated. '
-      NA_note = ''
-  else:
-    antigen_note = 'The input genome cannot be identified as Salmonella. Check the input for taxonomic ID, contamination, or sequencing quality. '
-    NA_note = ''
-#    if [O_antigen, H1_antigen, H2_antigen].count('-') >= 2:
-#      antigen_note = 'No subspecies marker was detected and less than 2 serotype antigens were detected; further, this genome was not identified as Salmonella. This is an atypical result that should be further investigated. '
-#    else:
-#      antigen_note = 'No subspecies marker was detected. This genome may not be Salmonella. This is an atypical result that should be further investigated. '
-  return (antigen_note,NA_note)
-
-def main():
-  #combine SeqSeroK and SeqSero2, also with SalmID
-  args = parse_args()
-  input_file = args.i
-  data_type = args.t
-  analysis_mode = args.m
-  mapping_mode=args.b
-  threads=args.p
-  make_dir=args.d
-  clean_mode=args.c
-  sample_name=args.n
-  ingore_header=args.s
-  k_size=27 #will change for bug fixing
-  dirpath = os.path.abspath(os.path.dirname(os.path.realpath(__file__)))
-  ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019: add ex_dir for packaging
-  seqsero2_db=ex_dir+"/H_and_O_and_specific_genes.fasta" # ed_SL_11092019: change path to database for packaging
-  database="H_and_O_and_specific_genes.fasta"
-  note="Note:	"
-  NA_note="This predicted serotype is not in the Kauffman-White scheme. " # ed_SL_09272019: add for new output format
-  if len(sys.argv)==1:
-    subprocess.check_call(dirpath+"/SeqSero2_package.py -h",shell=True)#change name of python file
-  else:
-    request_id = time.strftime("%m_%d_%Y_%H_%M_%S", time.localtime())
-    request_id += str(random.randint(1, 10000000))
-    if make_dir is None:
-      make_dir="SeqSero_result_"+request_id
-    if os.path.isdir(make_dir):
-      pass
-    else:
-      subprocess.check_call(["mkdir",make_dir])
-    #subprocess.check_call("cp "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True)
-    #subprocess.check_call("ln -sr "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True)
-    subprocess.check_call("ln -f -s "+seqsero2_db+" "+" ".join(input_file)+" "+make_dir,shell=True) # ed_SL_11092019: change path to database for packaging 
-    #subprocess.check_call("ln -f -s "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True) ### use -f option to force the replacement of links, remove -r and use absolute path instead to avoid link issue (use 'type=os.path.abspath' in -i argument).
-  ############################begin the real analysis 
-    if analysis_mode=="a":
-      if data_type in ["1","2","3"]:#use allele mode
-        for_fq,rev_fq=get_input_files(make_dir,input_file,data_type,dirpath)
-        os.chdir(make_dir)
-        ###add a function to tell input files
-        fnameA=for_fq.split("/")[-1]
-        fnameB=rev_fq.split("/")[-1]
-        current_time=time.strftime("%Y_%m_%d_%H_%M_%S", time.localtime())
-        sam,bam,sorted_bam,mapped_fq1,mapped_fq2,combined_fq,for_sai,rev_sai=get_temp_file_names(fnameA,fnameB) #get temp files id
-        map_and_sort(threads,database,fnameA,fnameB,sam,bam,for_sai,rev_sai,sorted_bam,mapping_mode) #do mapping and sort
-        ### avoid error out when micro assembly fails. ed_SL_03172020
-        try:
-          xmlfile,new_fasta=extract_mapped_reads_and_do_assembly_and_blast(current_time,sorted_bam,combined_fq,mapped_fq1,mapped_fq2,threads,fnameA,fnameB,database,mapping_mode) #extract the mapped reads and do micro assembly and blast
-        except (UnboundLocalError, subprocess.CalledProcessError):
-          xmlfile="NA"
-          H1_cont_stat_list=[]
-          H2_cont_stat_list=[]
-        ###
-        if xmlfile=="NA":
-          O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H=("-","-","-",[],"","")
-        else:
-          Final_list=xml_parse_score_comparision_seqsero(xmlfile) #analyze xml and get parsed results
-          file=open("data_log.txt","a")
-          for x in Final_list:
-            file.write("\t".join(str(y) for y in x)+"\n")
-          file.close()
-          Final_list_passed=[x for x in Final_list if float(x[0].split("_cov_")[1].split("_")[0])>=0.9 and (x[1]>=int(x[0].split("__")[1]) or x[1]>=int(x[0].split("___")[1].split("_")[3]) or x[1]>1000)]
-          O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H,Otypes_uniq,H1_cont_stat_list,H2_cont_stat_list=predict_O_and_H_types(Final_list,Final_list_passed,new_fasta) #predict O, fliC and fljB
-        subspecies=judge_subspecies(fnameA) #predict subspecies
-        ###output
-        predict_form,predict_sero,star,star_line,claim=seqsero_from_formula_to_serotypes(O_choice,fliC_choice,fljB_choice,special_gene_list,subspecies)
-        claim="" #04132019, disable claim for new report requirement
-        contamination_report=""
-        H_list=["fliC_"+x for x in H1_cont_stat_list if len(x)>0]+["fljB_"+x for x in H2_cont_stat_list if len(x)>0]
-        if contamination_O!="" and contamination_H=="":
-          contamination_report="#Potential inter-serotype contamination detected from O antigen signals. All O-antigens detected:"+"\t".join(Otypes_uniq)+"."
-        elif contamination_O=="" and contamination_H!="":
-          contamination_report="#Potential inter-serotype contamination detected or potential thrid H phase from H antigen signals. All H-antigens detected:"+"\t".join(H_list)+"."
-        elif contamination_O!="" and contamination_H!="":
-          contamination_report="#Potential inter-serotype contamination detected from both O and H antigen signals.All O-antigens detected:"+"\t".join(Otypes_uniq)+". All H-antigens detected:"+"\t".join(H_list)+"."
-        if contamination_report!="":
-          #contamination_report="potential inter-serotype contamination detected (please refer below antigen signal report for details)." #above contamination_reports are for back-up and bug fixing #web-based mode need to be re-used, 04132019
-          contamination_report="Co-existence of multiple serotypes detected, indicating potential inter-serotype contamination. See 'Extracted_antigen_alleles.fasta' for detected serotype determinant alleles. "
-        #claim="\n"+open("Extracted_antigen_alleles.fasta","r").read()#used to store H and O antigen sequeences #04132019, need to change if using web-version
-        #if contamination_report+star_line+claim=="": #0413, new output style
-        #  note=""
-        #else:
-        #  note="Note:"
-
-        ### ed_SL_11232019: add notes for missing antigen
-        if O_choice=="":
-          O_choice="-"
-        antigen_note,NA_note=check_antigens(subspecies,O_choice,fliC_choice,fljB_choice,NA_note)
-        if sample_name:
-          print ("Sample name:\t"+sample_name)
-        ###
-
-        if clean_mode:
-          subprocess.check_call("rm -rf ../"+make_dir,shell=True)
-          make_dir="none-output-directory due to '-c' flag"
-        else:
-          new_file=open("SeqSero_result.txt","w")
-          ### ed_SL_01152020: add new output
-          conta_note="yes" if "inter-serotype contamination" in contamination_report else "no"
-          tsv_file=open("SeqSero_result.tsv","w")
-          if ingore_header:
-            pass
-          else:
-            tsv_file.write("Sample name\tOutput directory\tInput files\tO antigen prediction\tH1 antigen prediction(fliC)\tH2 antigen prediction(fljB)\tPredicted subspecies\tPredicted antigenic profile\tPredicted serotype\tPotential inter-serotype contamination\tNote\n")
-          if sample_name:
-            new_file.write("Sample name:\t"+sample_name+"\n")
-            tsv_file.write(sample_name+'\t')
-          else:
-            tsv_file.write(input_file[0].split('/')[-1]+'\t')
-          ###
-          if "N/A" not in predict_sero:
-            new_file.write("Output directory:\t"+make_dir+"\n"+
-                           "Input files:\t"+"\t".join(input_file)+"\n"+
-                           "O antigen prediction:\t"+O_choice+"\n"+
-                           "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                           "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                           "Predicted subspecies:\t"+subspecies+"\n"+
-                           "Predicted antigenic profile:\t"+predict_form+"\n"+
-                           "Predicted serotype:\t"+predict_sero+"\n"+
-                           note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-            tsv_file.write(make_dir+"\t"+" ".join(input_file)+"\t"+O_choice+"\t"+fliC_choice+"\t"+fljB_choice+"\t"+subspecies+"\t"+predict_form+"\t"+predict_sero+"\t"+conta_note+"\t"+contamination_report+star_line+claim+antigen_note+"\n")
-          else:
-            #star_line=star_line.strip()+"\tNone such antigenic formula in KW.\n"
-            star_line="" #04132019, for new output requirement, diable star_line if "NA" in output
-            new_file.write("Output directory:\t"+make_dir+"\n"+
-                           "Input files:\t"+"\t".join(input_file)+"\n"+
-                           "O antigen prediction:\t"+O_choice+"\n"+
-                           "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                           "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                           "Predicted subspecies:\t"+subspecies+"\n"+
-                           "Predicted antigenic profile:\t"+predict_form+"\n"+
-                           "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, add subspecies
-                           note+NA_note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-            tsv_file.write(make_dir+"\t"+" ".join(input_file)+"\t"+O_choice+"\t"+fliC_choice+"\t"+fljB_choice+"\t"+subspecies+"\t"+predict_form+"\t"+subspecies+' '+predict_form+"\t"+conta_note+"\t"+NA_note+contamination_report+star_line+claim+antigen_note+"\n")
-          new_file.close()
-          tsv_file.close()
-          #subprocess.check_call("cat Seqsero_result.txt",shell=True)
-          #subprocess.call("rm H_and_O_and_specific_genes.fasta* *.sra *.bam *.sam *.fastq *.gz *.fq temp.txt *.xml "+fnameA+"*_db* 2> /dev/null",shell=True)
-          subprocess.call("rm H_and_O_and_specific_genes.fasta* *.sra *.bam *.sam *.fastq *.gz *.fq temp.txt "+fnameA+"*_db* 2> /dev/null",shell=True)
-        if "N/A" not in predict_sero:
-          #print("Output_directory:"+make_dir+"\nInput files:\t"+for_fq+" "+rev_fq+"\n"+"O antigen prediction:\t"+O_choice+"\n"+"H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+"H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+"Predicted antigenic profile:\t"+predict_form+"\n"+"Predicted subspecies:\t"+subspecies+"\n"+"Predicted serotype(s):\t"+predict_sero+star+"\nNote:"+contamination_report+star+star_line+claim+"\n")#+##
-          print("Output directory:\t"+make_dir+"\n"+
-                "Input files:\t"+"\t".join(input_file)+"\n"+
-                "O antigen prediction:\t"+O_choice+"\n"+
-                "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                "Predicted subspecies:\t"+subspecies+"\n"+
-                "Predicted antigenic profile:\t"+predict_form+"\n"+
-                "Predicted serotype:\t"+predict_sero+"\n"+
-                note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-        else:
-          print("Output directory:\t"+make_dir+"\n"+
-                "Input files:\t"+"\t".join(input_file)+"\n"+
-                "O antigen prediction:\t"+O_choice+"\n"+
-                "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                "Predicted subspecies:\t"+subspecies+"\n"+
-                "Predicted antigenic profile:\t"+predict_form+"\n"+
-                "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-                note+NA_note+contamination_report+star_line+claim+antigen_note+"\n")
-      else:
-        print("Allele modes only support raw reads datatype, i.e. '-t 1 or 2 or 3'; please use '-m k'")
-    elif analysis_mode=="k":
-      #ex_dir = os.path.dirname(os.path.realpath(__file__))
-      ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019: change ex_dir for packaging
-      #output_mode = args.mode
-      for_fq,rev_fq=get_input_files(make_dir,input_file,data_type,dirpath)
-      input_file = for_fq #-k will just use forward because not all reads were used
-      os.chdir(make_dir)
-      f = open(ex_dir + '/antigens.pickle', 'rb')
-      lib_dict = pickle.load(f)
-      f.close
-      input_Ks=get_input_K(input_file,lib_dict,data_type,k_size)
-      O_dict,H_dict,Special_dict=get_kmer_dict(lib_dict,input_Ks)
-      highest_O,highest_fliC,highest_fljB=call_O_and_H_type(O_dict,H_dict,Special_dict,make_dir)
-      subspecies=judge_subspecies_Kmer(Special_dict)
-      if subspecies=="IIb" or subspecies=="IIa":
-        subspecies="II"
-      predict_form,predict_sero,star,star_line,claim = seqsero_from_formula_to_serotypes(
-          highest_O.split('-')[1], highest_fliC, highest_fljB, Special_dict,subspecies)
-      claim="" #no claim any more based on new output requirement
-      #if star_line+claim=="": #0413, new output style
-      #  note=""
-      #else:
-      #  note="Note:"
-
-      ### ed_SL_11232019: add notes for missing antigen
-      if highest_O.split('-')[-1]=="":
-        O_choice="-"
-      else:
-        O_choice=highest_O.split('-')[-1]
-      antigen_note,NA_note=check_antigens(subspecies,O_choice,highest_fliC,highest_fljB,NA_note)
-      if sample_name:
-        print ("Sample name:\t"+sample_name)
-      ###
-
-      if clean_mode:
-        subprocess.check_call("rm -rf ../"+make_dir,shell=True)
-        make_dir="none-output-directory due to '-c' flag"
-      #  ### ed_SL_05282019, fix the assignment issue of variable 'O_choice' using "-m k -c"
-      #  if highest_O.split('-')[-1]=="":
-      #    O_choice="-"
-      #  else:
-      #    O_choice=highest_O.split('-')[-1]
-      #  ###
-      else:
-      #  if highest_O.split('-')[-1]=="":
-      #    O_choice="-"
-      #  else:
-      #    O_choice=highest_O.split('-')[-1]
-        #print("Output_directory:"+make_dir+"\tInput_file:"+input_file+"\tPredicted subpecies:"+subspecies + '\tPredicted antigenic profile:' + predict_form + '\tPredicted serotype(s):' + predict_sero)
-        new_file=open("SeqSero_result.txt","w")
-        #new_file.write("Output_directory:"+make_dir+"\nInput files:\t"+input_file+"\n"+"O antigen prediction:\t"+O_choice+"\n"+"H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+"H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+"Predicted antigenic profile:\t"+predict_form+"\n"+"Predicted subspecies:\t"+subspecies+"\n"+"Predicted serotype(s):\t"+predict_sero+star+"\n"+star+star_line+claim+"\n")#+##
-        ### ed_SL_01152020: add new output
-        tsv_file=open("SeqSero_result.tsv","w")
-        if ingore_header:
-          pass
-        else:
-          tsv_file.write("Sample name\tOutput directory\tInput files\tO antigen prediction\tH1 antigen prediction(fliC)\tH2 antigen prediction(fljB)\tPredicted subspecies\tPredicted antigenic profile\tPredicted serotype\tNote\n")
-        if sample_name: 
-          new_file.write("Sample name:\t"+sample_name+"\n")
-          tsv_file.write(sample_name+'\t')
-        else:
-          tsv_file.write(input_file.split('/')[-1]+'\t')
-        ###
-        if "N/A" not in predict_sero:
-          new_file.write("Output directory:\t"+make_dir+"\n"+
-                         "Input files:\t"+input_file+"\n"+
-                         "O antigen prediction:\t"+O_choice+"\n"+
-                         "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-                         "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-                         "Predicted subspecies:\t"+subspecies+"\n"+
-                         "Predicted antigenic profile:\t"+predict_form+"\n"+
-                         "Predicted serotype:\t"+predict_sero+"\n"+
-                         note+star_line+claim+antigen_note+"\n")#+##
-          tsv_file.write(make_dir+"\t"+input_file+"\t"+O_choice+"\t"+highest_fliC+"\t"+highest_fljB+"\t"+subspecies+"\t"+predict_form+"\t"+predict_sero+"\t"+star_line+claim+antigen_note+"\n")
-        else:
-          #star_line=star_line.strip()+"\tNone such antigenic formula in KW.\n"
-          star_line = "" #changed for new output requirement, 04132019
-          new_file.write("Output directory:\t"+make_dir+"\n"+
-                         "Input files:\t"+input_file+"\n"+
-                         "O antigen prediction:\t"+O_choice+"\n"+
-                         "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-                         "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-                         "Predicted subspecies:\t"+subspecies+"\n"+
-                         "Predicted antigenic profile:\t"+predict_form+"\n"+
-                         "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-                         note+NA_note+star_line+claim+antigen_note+"\n")#+##
-          tsv_file.write(make_dir+"\t"+input_file+"\t"+O_choice+"\t"+highest_fliC+"\t"+highest_fljB+"\t"+subspecies+"\t"+predict_form+"\t"+subspecies+' '+predict_form+"\t"+NA_note+star_line+claim+antigen_note+"\n")
-        new_file.close()
-        tsv_file.close()
-        subprocess.call("rm *.fasta* *.fastq *.gz *.fq temp.txt *.sra 2> /dev/null",shell=True)
-      if "N/A" not in predict_sero:
-        print("Output directory:\t"+make_dir+"\n"+
-              "Input files:\t"+input_file+"\n"+
-              "O antigen prediction:\t"+O_choice+"\n"+
-              "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-              "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-              "Predicted subspecies:\t"+subspecies+"\n"+
-              "Predicted antigenic profile:\t"+predict_form+"\n"+
-              "Predicted serotype:\t"+predict_sero+"\n"+
-              note+star_line+claim+antigen_note+"\n")#+##
-      else:
-        print("Output directory:\t"+make_dir+"\n"+
-              "Input files:\t"+input_file+"\n"+
-              "O antigen prediction:\t"+O_choice+"\n"+
-              "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-              "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-              "Predicted subspecies:\t"+subspecies+"\n"+
-              "Predicted antigenic profile:\t"+predict_form+"\n"+
-              "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-              note+NA_note+star_line+claim+antigen_note+"\n")#+##
-
-if __name__ == '__main__':
-  main()
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/bin/SeqSero2_update_kmer_database.py
--- a/build/lib/bin/SeqSero2_update_kmer_database.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,113 +0,0 @@
-#!/usr/bin/env python3
-
-import argparse
-import os,subprocess
-import pickle
-
-### SeqSero Kmer
-def parse_args():
-    "Parse the input arguments, use '-h' for help."
-    parser = argparse.ArgumentParser(usage='Just type "SeqSero2_update_kmer_database.py", it will update kmer database automatically')
-    return parser.parse_args()
-
-def reverse_complement(sequence):
-    complement = {
-        'A': 'T',
-        'C': 'G',
-        'G': 'C',
-        'T': 'A',
-        'N': 'N',
-        'M': 'K',
-        'R': 'Y',
-        'W': 'W',
-        'S': 'S',
-        'Y': 'R',
-        'K': 'M',
-        'V': 'B',
-        'H': 'D',
-        'D': 'H',
-        'B': 'V'
-    }
-    return "".join(complement[base] for base in reversed(sequence))
-
-def multifasta_dict(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r') if len(line.strip()) > 0
-    ]
-    headers = [i for i in multifasta_list if i[0] == '>']
-    multifasta_dict = {}
-    for h in headers:
-        start = multifasta_list.index(h)
-        for element in multifasta_list[start + 1:]:
-            if element[0] == '>':
-                break
-            else:
-                if h[1:] in multifasta_dict:
-                    multifasta_dict[h[1:]] += element
-                else:
-                    multifasta_dict[h[1:]] = element
-    return multifasta_dict
-
-def createKmerDict_reads(list_of_strings, kmer):
-    kmer_table = {}
-    for string in list_of_strings:
-        sequence = string.strip('\n')
-        for i in range(len(sequence) - kmer + 1):
-            new_mer = sequence[i:i + kmer].upper()
-            new_mer_rc = reverse_complement(new_mer)
-            if new_mer in kmer_table:
-                kmer_table[new_mer.upper()] += 1
-            else:
-                kmer_table[new_mer.upper()] = 1
-            if new_mer_rc in kmer_table:
-                kmer_table[new_mer_rc.upper()] += 1
-            else:
-                kmer_table[new_mer_rc.upper()] = 1
-    return kmer_table
-
-def multifasta_to_kmers_dict(multifasta):
-    multi_seq_dict = multifasta_dict(multifasta)
-    lib_dict = {}
-    for h in multi_seq_dict:
-        lib_dict[h] = set(
-            [k for k in createKmerDict_reads([multi_seq_dict[h]], 27)])
-    return lib_dict
-
-def get_salmid_invA_database(ex_dir):
-  # read invA kmer and return it
-  a = open(ex_dir + '/invA_mers_dict', 'rb')
-  invA_dict = pickle.load(a)
-  try:
-    del invA_dict['version']
-  except:
-    pass
-  return invA_dict
-
-def get_salmid_rpoB_database(ex_dir):
-  # read invA kmer and return it
-  a = open(ex_dir + '/rpoB_mers_dict', 'rb')
-  rpoB_dict = pickle.load(a)
-  try:
-    del rpoB_dict['version']
-  except:
-    pass
-  return rpoB_dict
-
-def main():
-  args = parse_args()
-  ex_dir = os.path.dirname(os.path.realpath(__file__))
-  lib_dict = multifasta_to_kmers_dict(ex_dir + '/H_and_O_and_specific_genes.fasta')
-  invA_dict=get_salmid_invA_database(ex_dir)
-  #rpoB_dict=get_salmid_rpoB_database(ex_dir)
-  lib_dict_new = lib_dict.copy()
-  #print(len(lib_dict_new))
-  lib_dict_new.update(invA_dict)
-  #print(len(lib_dict_new))
-  #lib_dict_new.update(rpoB_dict)
-  #print(len(lib_dict_new))
-  f = open(ex_dir + '/antigens.pickle', "wb")
-  pickle.dump(lib_dict_new, f)
-  f.close()
-
-if __name__ == '__main__':
-  main()
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/bin/deinterleave_fastq.sh
--- a/build/lib/bin/deinterleave_fastq.sh	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,30 +0,0 @@
-#!/bin/bash
-# Usage: deinterleave_fastq.sh < interleaved.fastq f.fastq r.fastq [compress]
-# 
-# Deinterleaves a FASTQ file of paired reads into two FASTQ
-# files specified on the command line. Optionally GZip compresses the output
-# FASTQ files using pigz if the 3rd command line argument is the word "compress"
-# 
-# Can deinterleave 100 million paired reads (200 million total
-# reads; a 43Gbyte file), in memory (/dev/shm), in 4m15s (255s)
-# 
-# Latest code: https://gist.github.com/3521724
-# Also see my interleaving script: https://gist.github.com/4544979
-# 
-# Inspired by Torsten Seemann's blog post:
-# http://thegenomefactory.blogspot.com.au/2012/05/cool-use-of-unix-paste-with-ngs.html
-
-# Set up some defaults
-GZIP_OUTPUT=0
-PIGZ_COMPRESSION_THREADS=10
-
-# If the third argument is the word "compress" then we'll compress the output using pigz
-if [[ $3 == "compress" ]]; then
-  GZIP_OUTPUT=1
-fi
-
-if [[ ${GZIP_OUTPUT} == 0 ]]; then
-  paste - - - - - - - -  | tee >(cut -f 1-4 | tr "\t" "\n" > $1) | cut -f 5-8 | tr "\t" "\n" > $2
-else
-  paste - - - - - - - -  | tee >(cut -f 1-4 | tr "\t" "\n" | pigz --best --processes ${PIGZ_COMPRESSION_THREADS} > $1) | cut -f 5-8 | tr "\t" "\n" | pigz --best --processes ${PIGZ_COMPRESSION_THREADS} > $2
-fi
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/seqsero2_db/H_and_O_and_specific_genes.fasta
--- a/build/lib/seqsero2_db/H_and_O_and_specific_genes.fasta	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,7094 +0,0 @@
->fliC_g,m_Enteritidisstr_AKFY01000033_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_g,m,s_Montevideostr_AESV01000018_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTATGACACCTATGCAGCGGGTGCCAATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAATGGTCAGTTGACAACTGACGATGCGGAA
-AATAACACTGCGGTTAACCTATTCAAGACGACTAAATCTGCTGCTGGTACCGATGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_1,2_Salmonella.enterica_Stanley_AY353267_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,2_Saintpaulstr_AYDS01000021_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAATCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_z4,z23_Cerrostr_AYVH01000420_z4,z23__1257
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACTGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAACAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATACAGGTAATTACTTTGTCAAAGATGTTACTGCGACGGCTAAATACTATGCAGCTACCGTA
-GATATGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGACTCCGCCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGACTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_i_4,[5],12_i_-str_ABAO01000026_r,i__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_d_Typhistr_AJGK01000049_b,d,j__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-TGCTATCGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGACAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCGAATGGTACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATTGATTTA
-AAAGAAATCAGCTCTAAAACACTGGGACTTGATAAGCTTAATGTCCAAGATGCCTACACCCCGAAAGAAACTGCTGTAAC
-CGTTGATAAAACTACCTATAAAAATGGTACAGATCCTATTACAGCCCAGAGCAATACTGATATCCAAACTGCAATTGGCG
-GTGGTGCAACGGGGGTTACTGGGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGCGGTGCTTCT
-GCTGGTGTTTATAAAGCCACTTATGATGAAACTACAAAGAAAGTTAATATTGATACGACTGATAAAACTCCGTTGGCAAC
-TGCGGAAGCTACAGCTATTCGGGGAACGGCCACTATAACCCACAACCAAATTGCTGAAGTAACAAAAGAGGGTGTTGATA
-CGACCACAGTTGCGGCTCAACTTGCTGCAGCAGGGGTTACTGGCGCCGATAAGGACAATACTAGCCTTGTAAAACTATCG
-TTTGAGGATAAAAACGGTAAGGTTATTGATGGTGGCTATGCAGTGAAAATGGGCGACGATTTCTATGCCGCTACATATGA
-TGAGAAAACAGGTGCAATTACTGCTAAAACCACTACTTATACAGATGGTACTGGCGTTGCTCAAACTGGAGCTGTGAAAT
-TTGGTGGCGCAAATGGTAAATCTGAAGTTGTTACTGCTACCGATGGTAAGACTTACTTAGCAAGCGACCTTGACAAACAT
-AACTTCAGAACAGGCGGTGAGCTTAAAGAGGTTAATACAGATAAGACTGAAAACCCACTGCAGAAAATTGATGCTGCCTT
-GGCACAGGTTGATACACTTCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCAACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_i_Salmonella.enterica_Kentucky_AY353427_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_r_Heidelbergstr_AJGW01000023_r,i__1470
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTCACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCT
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAG
-GCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_1,2_Heidelbergstr_AMMX01000009_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAATCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_z6_Kentuckystr_AYDR01000034_k,z__1493
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGATCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGTAAGGCTGTGAC
-AGTAGCTGCCAATTTAGATATTACTGATCTTAATAAAGACGCAGCCCTTAAAGCAGGCACTGGTGCTACAACAGGTACTG
-CAGCAATAAAAGATGGCAAAGTTTATTATGATAGTGCTAGCAAAAACTACTATGTTGAAGTTACCGGTCTGACCACCCCT
-GATGACGGTAAAAATGGCTTCTATAAAGTAAATGTCGCCGATGATGGTAAGGTGTCTATGACCGCTGGTACGGCTATGGA
-GGCGGGTAAACCAGCTGGTGCGGTAGAAGTAACAAAAACTCAGGAAGAAAAAAATCCATTACCATTATCAACAGATCTCA
-AAACCTCCCTTAAATCTGGCGGGATTACAGACCCAGAAATTGCTGCTGCCCAGGTTGTCAAAATGTCTTACACCGATAAA
-AATGGTAAGACGATTGATGGCGGTTACGCTGTAAAGGTGGGCGATAATTACTATGCCGCTACCCAGAAAAAAGATGGTAG
-CTTCAGTGTTAACACCACGTCTTACACCGCAGCTGACGGTACTACCAAAACTGCCCTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATTGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAGCCA
-GAGCTGGCGGAAGCAGCTGCTAAAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_g,s,t_Senftenbergstr_AOYU01000052_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTGACAACTGACGATGCGGAG
-AACAACACTGCGGTTAACCTATTCAAGACGACTAAATCTACTGCTGGTACCGATGAAGCCAAAGCGATAGCTAGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTGATGACGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCAGCGAATGTT
-AATGATGCCACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_d_Manhattanstr_CBKW010000019_b,d,j__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTTGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATTGATATTGATTTA
-AAAGAAATTAGCTCTAAAACACTGGGACTTGATAAGCTTAATGTCCAGGATGCCTACACCCCGAAAGAAACTGCTGTAAC
-CGTTGATAAAACTACCTATAAAAATGGTACAGATACTATTACAGCCCAGAGCAATACTGATATCCAAACTGCAATTGGCG
-GTGGTGCAACGGGGGTTACTGGGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGCGGTGCTTCT
-GCTGGTGTTTATAAAGCCACTTATGATGAAACTACAAAGAAAGTTAATATTGATACGACTGATAAAACTCCGTTAGCAAC
-TGCGGAAGCTACAGCTATTCGGGGAACGGCCACTATAACCCACAACCAAATTGCTGAAGTAACAAAAGAGGGTGTTGATA
-CGACCACAGTTGCGGCTCAACTTGCTGCTGCAGGGGTTACTGGTGCCGATAAGGACAATACTAGCCTTGTAAAACTATCG
-TTTGAGGATAAAAACGGTAAGGTTATTGATGGTGGCTATGCAGTGAAAATGGGCGACGATTTCTATGCCGCTACATATGA
-TGAGAAAACAGGTACAATTACTGCTAAAACAACCACTTATACAGATGGTGCTGGCGTTGCTCAAACTGGAGCTGTGAAAT
-TTGGTGGCGCAAATGGTAAATCTGAAGTTGTTACTGCTACCGATGGTAAAACTTACTTAGCAAGCGACCTTGACAAACAT
-AACTTCAGAACAGGCGGTGAGCTTAAAGAGGTTAATACAGATAAGACTGAAAACCCACTGCAGAAAATTGATGCTGCCTT
-GGCACAGGTTGATACACTTCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_e,h_Salmonella.enterica_Saintpaul_AY353377_e__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTATCAGCAACTGCTGCAAT
-GGATCCGAAATCATTTACTGACGGTACTAAAAATCTTACAGCGCCTGATGCTACTGCTATCAAAGCCGCGTTGGGAAATC
-CCGCGGCAACAGGCGATTCCTTGTCTGCTACGCTTTCGTTTAAAGATGGTAAGTATTACGCCACTGTTGCAGGGTATACG
-AATGCTGCCGATACCAGTAAGAATGGTAAATATGAAGTGAATGTTGATAGTGCGACAGGTGCGGTAACTTTCAATGCAGC
-ACCAACTAAAGCCACAGTAACTGGGGATACAACAGTAACCAAAGTACAGGTTAATGCTCCTGTTGCAGTCAGTACTGATG
-TTAAAAAAGCGCTAGAAGATGGTGGCGTTTCAAATGCGGACGCTACCGCAGCTAAATTAGTAAAAATGTCTTATACCGAT
-AAAAATGGAAAATCTATTGACGGTGGTTATGCGCTTGAAGCCGGTGGCAAGTACTATGCTGCAACCTATGACGAAGGTAC
-AGGTAAAATCACAGCTAATGTAACCACTTATACTGATTCCACGGGAGCCACAAAAACTGCGGCTAACCAACTTGGTGGCG
-TAGACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCTAGTAAAGCCGCTGGTCACGATTTCAAAGCG
-CAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGA
-TGCGTTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACT
-TGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCTGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,5,7_Salmonella.enterica_IIIb.6,7:l,v:1,5,7_AY353273_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGTTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTGAAAGATACAGCAGCAAC
-AACGAAAGCTTATGCTGATAATGGTACTACACTGGATGTATCAGGTCTTGATGATGCAGCGATTAAAGCGGCTACGGGTG
-GTACGACTGGTGCGCCTACTGTAACGGGCGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGGTGATGCTGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTAACACTTGCGAC
-TGGTGCAACTAAAACCACAATGCCTGCAGGTGCTACAACCAAAACAGAAGTACAGGAATTAAAAGATACACCGGCAGTTG
-TATCAGCTGATGCTAAAAATGCTTTAATTGCTGCTGGCGTTGATACTACAGATGCAAATGCCGCGACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAATATTACGCTGCTGATTA
-CAATGAAACTACAGGAGCTATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACTAAAACGGCGGCTAACC
-AACTTGGTGGCGCAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCAT
-GATTTCAAAGCACAGCCAGATCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCT
-GGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACA
-CCGTAAACAACCTGACTTCTGCACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCGGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_g,p_Dublinstr_ATFR01000073_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGTAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCATTGGCGCGGCGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_1,2_Salmonella.enterica_Muenchen_AY353269_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAATAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_g,m_Salmonella.enterica_Enteritidis_AY353386_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Typhimuriumstr_AUQT01000018_r,i__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTAAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z10_Hadarstr_ALPP01000007_other.z10__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAGCACTGGCGTTAC
-TCAATCTCTTGATTTAAAAACTGCTGGAATTACTGGTGCTACATTAAAAGCTGGTATTACTGGTACAACGACAGAAACCG
-GTAGCGTTAAAGATGGTAAAGTCTACTATGATGCAGATAGCAAAAATTACTATGTAGAGGTTGATTTTACTGATACTACG
-GATAAAGCAGCGCATGCTGGTTTCTACAAAGCTGACGTCGATGCTGACGGTAATGTTTCTTTAGCAACTGGTGCGACTAA
-AGAAGCAAAACCAACGAATGCAGTTGAAGTTGAAAAAACTATTGATGAAAAACCGCTGAAAGCATCAAGTAGTGTTCAGG
-ATGCCTTAAAAGCGAGTGGTATTGCTGATGCGGTTGCAGAAGCTGCGACGGTAGTGAAAATGTCGTACACTGATAAGAAT
-GGTAAAACTATTGATGGTGGATACGGTATTAAAGTAGGTGATGACTACTATGCTGCAACTAAAGAAAAAGACGGCAGCTA
-TAGTATTAATAGTACTTCTTATACCGATAAAGACGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGTA
-AAACTGAAGTTGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAGCCTGAT
-CTGGCGGAAGCGGCTGCTACAACTACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCTGCG
-TTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z29_Salmonella.enterica_Tennessee_AY353474_other.z29__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAGGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTACGTGAGTTGACTGTTCAGGCAACTAATGGGACAAACTCTGACAG
-CGACCTGACCTCTATTCAAAATGAAATCACACAACGTTTGAGTGAAATTGATCGTGTCTCTGGTCAAACTCAATTTAACG
-GCGTGAAAGTGCTGGCCCAAGACAATACGCTGAAAATTCAAGTAGGAGCCAACGACGGCGAAACCATTTCTATTGATCTT
-AAGAAAATTGACTCAAAAAGCCTTGGAATGGATGGTTTTAACGTTAATGGCGCGCACAAAGCAACAGGAAGTGATTTAAT
-TTCTCAATTTGGTGCTACAGGTACTGATAATTATAACGTTACCAAAGGGGCTACTACCACTACTTATTCGGTAGACATTA
-AATCTGGCGCTGTTACTACTGGTACACCAGCTGAAGCTGTCTTTGTTAACGCGGCTGATGGTAGCTTGACAACTGATGCT
-ACTACCAAAAACACTGAAATTAAAGGTAACGATGACTTTACAAAGGGACTTGCAGACGCAGCAAAAGGCGCTGTTAAAGA
-TTCTACATTTACCTACAGTGGCATCGAATTTACTGCTAAGACTGCTGGTACAGCAGATGGTAATGGTACTTTTGAAGCGA
-AAATTGATGGTGCAGTGTTTTCCTTTGTAATTACTGGTGGTACAACACCTTCCTCTGCAGTAACTGGAGCTGGTGGTGCA
-AAAGCTTATGTTTCTAAAATTGATGGTAGTATTACGACAACAGCTGAAGTCGATAACCGTGCTGCGAAAATGTCCGATTT
-GGATTTAAACAACGCGGTTAAAATAGGTAGTACATTAAATGTTAACGGTGCTACCTATAATGTTAATGCTAAAGGTGATG
-AAGTTACTGGTAAGTTTGATGATGGTGCAGGCGGACTGGTTGATAAACAAGTATTCTTGGGAAAAACCGCTGGCGGAGCT
-GCAACATTAATTAATGAGGATGCTGCTAAATCCCAACAATCTACCGTAGATCCGTTGAAAACTATTGATGATGCACTTGC
-TCAGGTTGATGCGCTTCGCTCCGATTTGGGCGCAGTACAGAACCGCTTTGATTCTGCCATTACCAACCTTGGCAATACGG
-TAAATAACTTATCTTCTGCCCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAAGCTGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,5_Infantisstr_ASRF01000034_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGACAGCTTATGCCGATAATGGTACTACACTGGATGTATCGGGTCTTACTGATGCAGCTATTAAAACGGCTACGGGTG
-GTACGACTGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGTGACAACTAAAACAGAAGTACAGGAGTTAACAACTACACCGGTAGTTG
-CTTCAGCAGATGCTAAGAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGCCGCGACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCAGCGTT
-GGCGCAGGTGGATGCGCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_i_Salmonella.enterica_Typhimurium_AY353420_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,m,p,s_Montevideostr_AETD01000005_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTATGACACCTATGCAGCGGGTGCCAATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAATGGTCAGTTGACAACTGACGATGCGGAA
-AAAAACACTGCGGTTAACCTATTCAAGACGACTAAATCTGCTGCTGGTACCGATGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_1,6_Anatumstr_AOZZ01000116_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-CACGAAAACTTATGCCGATAATGGTACTACACTGGATGCCTCAGGCCTTGATGATACAGCTATCAAAGCGGCTATAGGTG
-GTACGCTTGGCACGGCTTCTGTAACCGGTGGTACAGTTAAATTTGACGCAGATAATAATAAGTACTTTGTTACTATTGGT
-GGCTATACTGGTGCTGATGCCACCAAAAATGGCGATTATGAAGTTAACGTCGCTACTGACGGTAAAGTAACCCTTGCGCC
-TGGCGCAACTAAAACCACAATACCGGCAGGTGCTACAACCAAAACAGAAGTACAGGAGTTAAAAGATACACCGACAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGATGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_k_Salmonella.enterica_IIIb.38:k:z35_AY353439_k,z__1485
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACCATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCTTGGGTCTGGATGCGCTGAATGTGCAGAAAGCGTATGATGTAGATAGCAAACCAACAAG
-TATGAAGTTGGATACTAGCGGTATAACAGCGGAGGCAATTAAAAACGGTGTAACTGGCGCAACGACAGATGGTGCACTTA
-AAGACGGCAAGATTTATTCCGATGGTACTAACTACTACGTAGAAGTTAGCTTTGCTGCTACCGCAGACACAAGTAAAGGC
-GGTTTTCTTAAAGTGGATGTTGATTCCTCTAATGGTAAAGTGTCTATTCCTACCACTGCTGCATCTGCTGTCGCGGCAAA
-ACCAGCTGGAGTAAAAGAAGTTTCTGAAGTTCAAGGGAAAATTGCTGCATCAACAGATGTTAAAAATCAATTGACAGCAG
-GCGGTATTGATGCTGGTGTTGCCGCCAATGCAGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATTGAT
-GGCGGTTATGCTGTAAAAGTAGGCAATGACTACTACGCCGCTACTCAGAAAAAAGATGGTAGCTTTAGTGTTAACACTAC
-GTCTTACACTGCAGATGACGGTACATCCAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTT
-CTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCT
-ACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGC
-GGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCG
-AAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTGGCG
-CAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_z6_Sloterdijkstr_AOXT01000012_k,z__1493
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGATCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGTAAGGCTGTGAC
-AGTAGCTGCCAATTTAGATATTACTGATCTTAATAAAGACGCAGCCCTTAAAGCAGGCACTGGTGCTACAACAGGTACTG
-CAGCAATAAAAGATGGCAAAGTTTATTATGATAGTGCTAGCAAAAACTACTATGTTGAAGTTACCGGTCTGACCACCCCT
-GATGACGGTAAAAATGGCTTCTATAAAGTAAATGTCGCCGATGATGGTAAGGTGTCTATGACCGCTGGTACGGCTATGGA
-GGCGGGTAAACCAGCTGGTGCGGTAGAAGTAACAAAAACTCAGGAAGAAAAAAATCCATTACCATTATCAACAGATCTCA
-AAACCTCCCTTAAATCTGGCGGGATTACAGACCCAGAAATTGCTGCTGCCCAGGTTGTCAAAATGTCTTACACCGATAAA
-AATGGTAAGACGATTGATGGCGGTTACGCTGTAAAGGTGGGCGATAATTACTATGCCGCTACCCAGAAAAAAGATGGTAG
-CTTCAGTGTTAACACCACGTCTTACACCGCAGCTGACGGTACTACCAAAACTGCCCTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATTGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAGCCA
-GAGCTGGCGGAAGCAGCCGCTAAAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCTACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAGAACGTGCTGTCTCT
->fljB_1,7_Salmonella.enterica_Bredeney_AY353296_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCCTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGATGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTGCACCTAGTGTAACAGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATCTCGACAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCCGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACCGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATCCTGCAGCAGGCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_e,n,x_Minnesotastr_AOYO01000082_e__1496
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCCTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_z4,z32_Salmonella.enterica_Tallahassee_AY353507_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATTTCCATTGCGCAGACGACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCGAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACTGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGTTCTGGAGC
-CTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACAACGGGTGGTCCGGCTGCAGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGTTACTGCGACGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGGCTCCGTCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGGGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,2_Typhimuriumstr_AHVA01000007_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACTACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAATCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_1,5_Salmonella.enterica_Thompson_AY353285_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCGATAATGGTACTACACTGGATGCCTCAGGCCTTGATGATGCGGCCATCAAAGCGGCCATTGGTG
-GTACGACTGGTACGGCTGCTGTAACGGGTGGTACAGTTAAATTTGACGCAGATAATAATAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTTACACTTGCTGC
-GGGTGCAACTAAAACCACAATGCCTGCTGGTGCGGCAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAGCAGATGCTAAGAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATCTTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,2_Salmonella.enterica_Typhimurium_AY353264_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAATCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,7_Pomonastr_AHIA01000072_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCGCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTGCACCTAGTGTAACAGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATCTCGACAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATATTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATCCTGCAGCAGGCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_k_Salmonella.enterica_IIIb.65:k:z_AY353438_k,z__1485
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACCATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCTTGGGTCTGGATGCGCTGAATGTGCAGAAAGCGTATGATGTAGATAGCAAACCAACAAG
-TATGAAGTTGGATACTAGCGGTATAACAGCGGAGGCAATTAAAAACGGTGTAACTGGCGCAACGACAGATGGTGCACTTA
-AAGACGGCAAGATTTATTCCGATGGTACTAACTACTACGTAGAAGTTAGCTTTGCTGCTACCGCAGACACAAGTAAAGGC
-GGTTTTCTTAAAGTGGATGTTGATTCCTCTAATGGTAAAGTGTCTATTCCTACCACTGCTGCATCTGCTGTCGCGGCAAA
-ACCAGCTGGAGTAAAAGAAGTTTCTGAAGTTCAAGGGAAAATTGCTGCATCAACAGATGTTAAAAATCAATTGACAGCAG
-GCGGTATTGATGCTGGTGTTGCCGCCAATGCAGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATTGAT
-GGCGGTTATGCTGTAAAAGTAGGCAATGACTACTACGCCGCTACTCAGAAAAAAGATGGTAGCTTTAGTGTTAACACTAC
-GTCTTACACTGCAGATGACGGTACATCCAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTT
-CTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCT
-ACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGC
-GGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCG
-AAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTGGCG
-CAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_j_Salmonella.enterica_Typhi.var.j+_AY353433_b,d,j__1260
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-TGCTATCGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGACAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCGAATGGTACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATTGATTTA
-AAAGAAATCAGCTCTAAAACACTGGGACTTGATAAGCTTAATGTCCAAGATGCCTACACCCCGAAAGAAACTGCTGTAAC
-CGTTGATAAAACTACCTATAAAAATGGTACAGATCCTATTACAGCCCAGAGCAATACTGATATCCAAACTGCAATTGGCG
-GTGGTGCAACGGGGGTTACTGGCGCCGATAAGGACAATACTAGCCTTGTAAAACTATCGTTTGAGGATAAAAACGGTAAG
-GTTATTGATGGTGGCTATGCAGTGAAAATGGGCGACGATTTCTATGCCGCTACATATGATGAGAAAACAGGTGCAATTAC
-TGCTAAAACCACTACTTATACAGATGGTACTGGCGTTGCTCAAACTGGAGCTGTGAAATTTGGTGGCGCAAATGGTAAAT
-CTGAAGTTGTTACTGCTACCGATGGTAAGACTTACTTAGCAAGCGACCTTGACAAACATAACTTCAGAACAGGCGGTGAG
-CTTAAAGAGGTTAATACAGATAAGACTGAAAACCCACTGCAGAAAATTGATGCTGCCTTGGCACAGGTTGATACACTTCG
-TTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCAACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_e,h_Anatumstr_AOZZ01000009_e__1497
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCACAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTATCAGCAACTGCTGCAAT
-GGATCCGAAATCATTTACTGACGGTACTAAAAATCTTACAGCGCCTGATGCTACTGCTATCAAAGCCGCGTTGGGAAATC
-CCACGGCAACAGGCGATTCCTTGTCTGCTACGCTTTCGTTTAAAGATGGTAAGTATTACGCCACTGTTGCAGGGTATACG
-AATGCTGCCGATACCAGTAAGAATGGTAAATATGAAGTGAATGTTGATAGTGCGACAGGTGCGGTAACTTTCAATGCAGC
-ACCAACTAAAGCCACAGTAACTGGGGATACAACAGTAACCAAAGTACAGGTTAATGCTCCTGTTGCAGTCAGTACTGATG
-TTAAAAAAGCGCTAGAAGATGGTGGCGTTTCAAATGCGGACGCTACCGCAGCTAAATTAGTAAAAATGTCTTATACCGAT
-AAAAATGGAAAATCTATTGACGGTGGTTATGCGCTTGAAGCCGGTGGCAAGTACTATGCTGCAACCTATGACGAAGGTAC
-AGGTAAAATCACAGCTAATGTAACCACTTATACTGATTCCACGGGAGCCACAAAAACTGCGGCTAACCAACTTGGTGGCG
-TAGACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCTAGTAAAGCCGCTGGTCACGATTTCAAAGCG
-CAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGA
-TGCGTTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACT
-TGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_1,6_Salmonella.enterica_Poona_AY353295_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCGCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAACTTATGCCGATAATGGTACTACACTGGATGCCTCAGGCCTTGATGATACAGCTATCAAAGCGGCTATAGGTG
-GTACGCTTGGCACGGCTTCTGTAACCGGTGGTACAGTTAAATTTGACGCAGATAATAATAAGTACTTTGTTACTATTGGT
-GGCTATACTGGTGCTGATGCCACCAAAAATGGCGATTATGAAGTTAACGTCGCTACTGACGGTAAAGTAACCCTTGCGCC
-TGGCGCAACTAAAACCACAATACCGGCAGGTGCTACAACCAAAACAGAAGTACAGGAGTTAAAAGATACACCGACAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGATGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACCATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGTT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_f,g,t_Salmonella.enterica_Berta_AY353532_g,m__1527
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTGCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATCCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-GTCCAGCTTCAAGAATGTTACGGGGTATGATACCTATGCTGTTGGTGCCAATAAATATCGCGTGGATGTCAACTCAGGGG
-CGGTAGTAACTGACACCACTGCTCCAACTGTTCCTGATAAAGTATACGTAAACGCTGCAAACGGTCAGTTAACAACTGAC
-GATGCGGAAAATAACACTGCGGTTGACCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGC
-TGGTGCCATTAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGCA
-ATGACGGTAATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCG
-GCGAATGTTGATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGA
-TAAAACCAAAAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAA
-ATGGGGCTGAATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCT
-TCTGGCGTTAGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTC
-TGCATTGTCAAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTG
-GCAATACGGTAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCT
-AAAGCGCAGATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACT
-GCGTTAA
->fliC_d_Schwarzengrundstr_ABEJ01000027_b,d,j__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGA
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTTGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATTGATATTGATTTA
-AAAGAAATTAGCTCTAAAACACTGGGACTTGATAAGCTTAATGTCCAAGATGCCTACACCCCGAAAGAAACTGCTGTAAC
-CGTTGATAAAACTACCTATAAAAATGGTACAGATACTGTTACAGCCCAGAGCAATACTGATATCGAAACTGCAATTGGCG
-GTGGTGCAACGGGGGTTACTGGGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGCGGTGCTTCT
-GCTGGTGTTTATAAAGCCACTTATGATGAAACTACAAAGAAAGTTAATATTGATACGACTGATAAAACTCCGTTAGCAAC
-TGCGGAAGCTACAGCTATTCGGGGAACGGCCACTATAACCCACAACCAAATTGCTGAAGTAACAAAAGAGGGTGTTGATA
-CGACCACAGTTGCGGCTCAACTTGCTGCTGCAGGGGTTACTGGTGCCGATAAGGACAATACTAGCCTTGTAAAACTATCG
-TTTGAGGATAAAAACGGTAAGGTTATTGATGGTGGCTATGCAGTGAAAATGGGCGACGATTTCTATGCCGCTACATATGA
-TGAGAAAACAGGTACAATTACTGCTAAAACAACCACTTATACAGATGGTGCTGGCGTTGCTCAAACTGGAGCTGTGAAAT
-TTGGTGGCGCAAATGGTAAATCTGAAGTTGTTACTGCTACCGATGGTAAAACTTACTTAGCAAGCGACCTTGACAAACAT
-AACTTCAGAACAGGCGGTGAGCTTAAAGAGGTTAATACAGATAAGACTGAAAACCCACTGCAGAAAATTGATGCTGCCTT
-GGCACAGGTTGATACACTTCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_k_Thompsonstr_AMSN01000007_k,z__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTTCAAGCTACAGTTGAAAA
-CAGTGTCAAACTGGATACTAGTGCTCTTACTGCCGATGCAATTAAAGGTGGCGTAACAGGTGCGACAACAGCTGGTGCCC
-TCAAGGACGGTAAAGTTTACTCTAATGGTACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGACTCAGGTAAA
-AATGGTTTCCTTAAAGTTGACGTTAATACAACTACTGGAGCGGTTACAGTTCCTGCAGCAGCAGCAAATACTGTAGCAGC
-AAAACCAGCAGGTGTGTCTGAAGTTACTGAAGTTCAGGGACTAAATACACCGAGTTCGGCTGTACAAGATCAGTTAACAG
-CTGCAGGTGTAAGTGCCGCTGATGCTGCTAAATCTGAAGTTGTGAAAATGTCTTACACGGATAAAAACGGTAAGACGATT
-GATGGCGGCTTCGGTGTTAAAGTTGGAGACGATATTTATGCTGCAACTAAAAATAAAGATGGATCGATCAGCATTAACGC
-CACTGAATATACCGATAAAGACGGCAACACAAAAACTGCACTGAACCAACTGGGTGGCGTAGACGGTAAAACCGAAGTTG
-TTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCGGAAGCG
-GCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCTGCGTTCTGACCTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCTGGTACTTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z4,z23_Salmonella.enterica_IIIa.43:z4,z23:-_AY353495_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACGACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCGAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACTGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCCGCTGATTTCGATAACGCAAAAGCAACGGGTGGTCCGGCTGCAGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGGGGCGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCAGATAAAGATGCAACTGCAACTGCGGGGACTCCGCCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z39_Salmonella.enterica_Grancanaria_AY353489_other.z39__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCCTCCGGTCTGCGTATCAACAGCGCGAAGGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAATGACGGTATTTCTATTGCGCAGACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATACGCTGAATGTTCAGAAAGCGTATGATGTGAATAGTGAAGTTGTTAC
-TGATGGTAGTGGTGGTAAGGCACTAAATATTAGCGGTCTTGATGATGCTGCGATTAAAACCGCGGTTGGGGGGACACCAA
-CTGGTACTGGTGAAATTAAAGATAACAAAGTTTATCACAACAGTACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAACGGTTTCTATGAAGTAGAGGCAAACCCTACTGATGGTACAGTTACATTTGCTACCGGTGCTACTAA
-AATAACGGCTAAACCAGCTGGTGTTGAAGAAGTTACAACTGTCCAATCAAAACCCGTAGCTCTCAGTGCTGATGTTAAAA
-CTCAATTAACTAATAGTGGAGTTAGTACTGCAGACGCTGATAAAGGTCAGTTAGTCACTATGTCTTATACGGATAAAAAC
-GGTAAGACGATTGATGGCGGCTTCGGTGTTAAAGTTGGAGACGATATTTATGCTGCAACTAAGAATAAAGATGGTTCTTT
-TAGTATCAACACCACGAAATATACCGATAAAGACGGTAATACCCAAACTGCATTGAACAAACTTGGTGGTGTAGACGGTA
-AAACTGAAGTTGTTTCGATTGAAGGTAAAACCTACACTGCAGCGAAAGCAAAAGATCACGATTTCAAAGCACAGCCAGAA
-CTGGCGGAAGCGGCTACTACAACCACCGAAAACCCGCTGCAGAAAATCGATGCTGCGCTGGCACAGGTGGATGCACTGCG
-TTCTGACCTGGGCGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGG
-ACCTCCGTTCTGGCACAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,x_Chesterstr_AOZI01000020_e__1496
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCCGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_r_Infantisstr_ASRF01000003_r,i__1470
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCTTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTCACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCT
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAG
-GCGAACCAGGTTCCGCAAAACGTCCTCTCT
->sdf-I_AF370707__333
-GATCTATCCTAATGAAAATAAATGTGTTTTATCTGATGCAAGAGGGGGAGGGAGGAGCTTTAGCCAAAAGAAAACCGCCG
-GGAGAGGCGGTTTGATGTGGTTGGTTCGTCACTGATTTTTTAGGCGCTTTTGTGCAGCGAGCATGTTCTGGAAAGCCTCT
-TTATATAGCTCATTCTGACCTCTAAGCCGGTCAATGAGTTTTTCTTTCTCAGATTCAGGGAGTATATCAAAAAGGTTTAG
-TAAATCAGCCTGTTGTCTGCTCACCATTCGCCAGCCACCACCTTCGAAGTTGTCATCGTAAGTACCAGAAGAACGAACGT
-AGTTCATTAGATC
->fljB_z35_Salmonella.enterica_III.b.65:z52:z35_AY353342_other.z35__1488
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTTTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-ACCTCCGGCAAAACTTGATATTGCAGGATTAACTGGAACTGCAATTAAAACGGGCGTTGATAGCGCTACGGTTGATACTG
-GCTCCATTAAAGATGGCAAAGTTTATTATAATAGTACCTCTAAGAACTATTACGTAGAGGTTGATTTTGGTACATCAGCC
-GATGCTGCTAAGAGTGGTTACTATAAAGTCAATGTTGCTGATGATGGTACAGTCTCAATGACAGCTTCTACCACTAAAGA
-GGCTACAACTCCTACTGGTATTACTGAAGTTACTCAGGTTCAAAAACCTGTAGCCGCTCCAGCCGCTATTCAGGCTCAGT
-TGACAGCTGCCCATGTGACCGGAGCTGATACTGCTGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTACGCTGTAAAAGTGGGTGATGACTACTACGCCGCTACCCAGAAAAAAGATGGTAGCTTTAGTATTAACAC
-CACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCCTGAACCAACTTGGTGGCGCAGACGGTAAAACCGAAGTCG
-TTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCTGAAGCA
-GCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fliC_r_Infantisstr_AFYI01000002_r,i__1470
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCTGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCTGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCT
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTACGCGACCGAGGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAG
-GCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_k_Salmonella.enterica_II.52:c:k_AY353328_k,z__1488
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGGCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGACAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCACAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACTCTGACCATTCAGGTTGGCGCCAACGACGGTGAAACCATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTGATAGCAAAGCTGCGCA
-AAGCGTTAAACTGGATACCAGTGCTCTTACTGCCGCTGCAATCAAAGGCGGTGTAACAGGTGCAACAACAGATGGTGCCC
-TCAAAGACGGTAAAGTTTACTCTAATGGCACAGACTATTATGTAGAAGTAAGCTTTGCTGATGCAACGGACTCTGCTAAA
-GGTGGTTTCCTTAAAGTAGATGTTGATTCCACTACTGGTAAAGTTACCGTACCGGGTACGGCAGCAGCAGCTTCTTCAAC
-TAAACCTGTTGGTGTGAACGAGGTTACAGAAGTACAAGGTAAAATCCCTGCATCTACTGCTATCCAGGACCAATTGAAAG
-CTGGTGGTGTGAGTAACGCAGATGCTGCTACTGCTGAGGTTGTCAAAATGTCTTATACCGATAAAAATGGTAAGACGATT
-GATGGCGGTTACGCTGTAAAAGTAGGTGATGACTACTATGCCGCTACCCAGAAAAAAGATGGTAGCTTTAGTGTTAACAC
-CACGTCTTACACCGATAAAGACGGCAACACTAAATCCGCACTGAACCAACTGGGTGGCGCAGACGGTAAAACCGAAGTCG
-TTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAACCAGAGCTGGCTGAAGCA
-GCCGCTAAAACCACCGAAAATCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCCGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fliC_k_Salmonella.enterica_Inverness_AY353441_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTTCAAGCTACAGTTGAAAA
-CAGTGTCAAACTGGATACTAGTGCTCTTACTGCCGATGCAATTAAAGGTGGCGTAACAGGTGCGACAACAGCTGGTGCCC
-TCAAGGACGGTAAAGTTTACTCTAATGGTACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGACTCAGGTAAA
-AATGGTTTCCTTAAAGTTGACGTTAATACAACTACTGGAGCGGTTACAGTTCCTGCAGCAGCAGCAAATACTGTAGCAGC
-AAAACCAGCAGGTGTGTCTGAAGTTACTGAAGTTCAGGGACTAAATACACCGAGTTCGGCTGTACAAGATCAGTTAACAG
-CTGCAGGTGTAAGTGCCGCTGATGCTGCTAAATCTGAAGTTGTGAAAATGTCTTACACGGATAAAAACGGTAAGACGATT
-GATGGCGGCTTCGGTGTTAAAGTTGGAGACGATATTTATGCTGCAACTAAAAATAAAGATGGATCGATCAGCATTAACGC
-CACTGAATATACCGATAAAGACGGCAACACAAAGACTGCACTGAACCAACTGGGTGGCGCAGACGGTAAAACTGAAGTTG
-TTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCGGAAGCG
-GCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCTGCGTTCTGACCTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCTGGTACTTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,x_Hadarstr_ARYR01000012_e__1496
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGTGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAGAACGTGCTGTCTCT
->fliC_g,m,q_Salmonella.enterica_Blegdam_AY353393_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGGCGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,2,7_Salmonella.enterica_Kambole_AY353275_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAAACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGATGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTGCACCTAGTGTAACTGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTTACACTTGCTAC
-GGGGGCAACTAAAACCACAATGCCTGCTGGTGCGGCAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAACAGATGCTAAGAATGCCTTAATCGCTGGCGGCGTGGACGCTACCAATGCTAATGGCGCCGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_m,t_Salmonella.enterica_Oranienburg_AY353411_g,m__1527
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGGTATGATACCTATGCTGTTGGTGCCAATAAATATCGCGTGGATGTCAACTCAGGGG
-CGGTAGTAACTGACACCACTGCTCCAACTGTTCCTGATAAAGTATACGTAAACGCTGCAAACGGTCAGTTGACAACTGCC
-GATGCGCAAAATAACACCGCGGTTGATTTGTTTAAATCTACTAAATCTGCTGCAGGTACTGACGATGCCAAGGCTATCGC
-AACTTCTATCAAAGGCGGAAAAGTTGGTGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTG
-ATGACGGTAATGGTACGGTTTCTACTACCATCAATGGTGAAAAAGTTACATTAACAATTAGTGATATTGGCGCGAGTGCA
-ACAGACGTAAATAGCGCGAAGATTCAATCAAGTAAAGATGTTTATACTTCCGTTGTAAGCGGTCAGTTTACTTTTGCTGA
-TAAAACCAAAAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAA
-ATGGGGCTGAATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCT
-TCTGGCGTAAGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTC
-TGCATTGTCAAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTG
-GCAATACGGTAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCC
-AAAGCGCAGATCCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACT
-GCGTTAA
->fliC_g,p_Salmonella.enterica_Dublin_AY353399_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGTAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCATTGGCGCGGCGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_Augustenborg_AY353418_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGTACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCTCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_f,g,s_Salmonella.enterica_Agona_AY353383_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTGACAACTGACGATGCGGAG
-AACAACACTGCGGTTAACCTATTCAAGACGACTAAATCTACTGCTGGTACCGATGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGCGGCGAATGTT
-GATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAAGGCGAAAGTAAAATTACAGTAAACGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGGTCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,5_Muensterstr_AOYX01000059_1__1511
-ATGGCACAAGTAATCAACACTAAcagtctgtcgctgctgacccagaataacctgaacaaatcccagtccgcactgggcac
-cgctatcgagcgtctgtcttctggtctgcgtatcaacagcgcgaaagacgatgcggcaggtcaggcgattgctaaccgtt
-ttaccgcgaacatcaaaggtctgactcaggcttcccgtaacgctaacgacggtatctccattgcgcagaccactgaaggc
-gcgctgaacgaaatcaacaacaacctgcagcgtgtgcgtgaactggcggttcagtctgctaacagcaccaactcccagtc
-tgacctcgactccatccaggctgaaatcacccagcgcctgaacgaaatcgaccgtgtatccggtcagactcagttcaacg
-gcgtgaaagtcctggcgcaggacaacaccctgaccatccaggttggtgccaacgacggtgaaactatcgatatcgatctg
-aagcagatcaactctcagaccctgggcctggattcactgaacgtgcagaaagcgtatgatgtgaaagatacagcagtaac
-cacgaaaacttatgccaataatggtactacactggatgtatcgggtcttgatgatgcagccatcaaagcggccataggtg
-gtacgactggtacgcctgctgtaacgggcggtacagttaaatttgacgcagataataataagtattttgtttctattggt
-ggctatactggtgctgatgcatccaaaaatggcgattatgaagttaacgttgctgctgacggtaaagttacacttgctac
-aggtgcaactaaaaccacaataccggcaggtgcgacaactaaaacagaagtacaggagttaaaagatacaccaacagttg
-tttcagcagatgcgaaaaatgccttaatcgctggcggcgtggatgctaccgatgctaatggcgctgagttggtcaaaatg
-tcttataccgataaaaatggtaagacaattgaaggcggttatgcgcttaaagctggcgataagtattacgccgcagatta
-cgatgaagcgacaggagcaattaaagctaaaaccacaagttataccgctgctgacggcgctaccaaaacagcggctaacc
-aactgggtggcgtagacggtaaaaccgaagtcgttactatcgacggtaaaacctacaatgccagcaaagccgctggtcat
-gatttcaaagcacaaccagagctggctgaagcagccgctaaaaccaccgaaaacccgctgcagaaaattgatgccgcgct
-ggcgcaggtggatgcgctgcgttctgacctgggtgcggtacagaaccgttttaactccgctatcaccaacctgggcaata
-ccgtaaacaacctgtctgaagcgcgtagccgtatcgaagattctgactatgcgaccgaagtttccaacatgtctcgcgcg
-cagatcctgcagcaggccggtacttccgttctggcacaggctaaccaggtcccgcagaaCGTGCTGTCTcT
->fliC_z_Indianastr_AOZC01000051_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAATAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGCGCGAATATTAAAACTGGCGTTGATGGAGCTACCACTACGAGTG
-GCTCCATTAAAGATGGCAAAGTATACTATGATGGTGCTACTAAAAATTATTATGTTGAAGTAGACTTTTCTGATGCCGCT
-GATACTGCTAAAAATGGCTACTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCCTCGACTACTAAAGA
-ACCTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCGTCTGCTGAGGTGAAAG
-CTGCTTTGACTGCTGGTGGCGTCGATGCTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTATACCGATAAAAAC
-GGTAAGACGATTGATGGTGGTTATGCTGTAAAAGTAGGCGATAGCTACTATGCCGCTACCCAGAAAAAAGACGGTAGTTT
-CAGTGTTAATACTACTTCTTACACTGATAAAGACGGCAACACTAAATCTGCACTGAACCAACTGGGTGGCGTAGACGGTA
-AAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCTGCG
-TTCTGACCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACTTGGGCAATACCGTAAACAACCTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_b_Salmonella.enterica_Paratyphi.B_AY353358_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTACAGGATGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAGAGATGTTACCACCTATAAAAATGGTGGTACTACTCTTACAGCACCTAACGCAGCAGCAATTGATACCGCTTTAGGTA
-CGACTGGTGCGGCGGGTACTGCGGCTGTGAAATTTAAAGACGGTAACTACTTCGTTGAGGTGACCGGTACAACTAAAGAT
-GGTCTGTATGAAGCGACAGTTGATGCAGCTGGCGCGGTGACAATGACCGCAAATAAAGCAACAGTAACTGGGGCTAGTAC
-AGTTACTGAAAACCAAATTGTAGACGCTGTTACACCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGACAGGTGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCG
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAAACTGGTGAGATAAAAGCTAAAACTGT
-AAATTATACTGACGCTACTGGTGCGACAAAAACCGGTGCTGTGAAATTTGGCGGTGCGAATGGTAAAACTGAAGTTGTGA
-CCACCGTTGATGGTAATACTTATCAGGCTAGTGATGTAAAAGGGCATAATTTCCAGAGTGGTGGCGCTTTAAGCGAGGCT
-GTAACCACTAAAACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAAGTTGATGCGCTGCGTTCTGACTTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCCCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_e,h_Salmonella.enterica_Sandiego.var.d+_AY353378_e__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTATCAGCAACTGATGCAAT
-GGATCCGAAATCATTTACTGACGGTACTAAAAATCTTACAGCGCCTGATGCTACTGCTATCAAAGCCGCGTTGGGAAATC
-CCACGGCAACAGGCGATTCCTTGTCTGCTACGCTTTCGTTTAAAGATGGTAAGTATTACGCCACTGTTGCAGGGTATACG
-AATGCTGCCGATACCAGTAAGAATGGTAAATATGAAGTGAATGTTGATAGTGCGACAGGTGCGGTAACTTTCAATGCAGC
-ACCAACTAAAGCCACAGTAACTGGGGATACAACAGTAACCAAAGTACAGGTTAATGCTCCTGTTGCAGTCAGTACTGATG
-TTAAAAAAGCGCTAGAAGATGGTGGCGTTTCAAATGCGGACGCTACCGCAGCTAAATTAGTAAAAATGTCTTATACCGAT
-AAAAATGGAAAATCTATTGACGGTGGTTATGCGCTTGAAGCCGGTGGCAAGTACTATGCTGCAACCTATGACGAAGGTAC
-AGGTAAAATCACAGCTAATGTAACCACTTATACTGATTCCACGGGAGCCACAAAAACTGCGGCTAACCAACTTGGTGGCG
-TAGACGGTAAAACCGAGGTTGTTACTATCGACGGTAAAACCTACAATGCTAGTAAAGCCGCTGGTCACGATTTCAAAGCG
-CAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGA
-TGCGCTGCGTTCTGACCTGGGTGCGGTCCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACC
-TGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,z15_Braenderupstr_AOZM01000055_e__1496
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAGGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTATCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGTGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAGTTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_l,v_Litchfieldstr_APAN01000015_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTTTCTGGCCAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTCGGCGCTAACGACGGTGAAACCATCGATATCGATCTG
-AAACAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAATACCACTGGTCTTAATGATGCAGCTCTTAAAACGGGTGTTGGTGGTGCAACAAACG
-GTACTGCTGCAATTAAGGATGGTAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTAGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGACAACCACGAA
-AGTGACAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCACAACTTCAAAGCACAGCCA
-GAGCTGGCTGAAGCGGCTGCTACAACCACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTATTGCGTTAA
->O-9,46,27_partial_wzy__1019
-ATGTTACCGCATACATTTATGTTCCTGATTTTTAATATAGTATATATGTTACCAGTAGCCTATGTACATTTTTTTGGGTT
-CTCCCTTGGAGGGGTTGAAGAGATTCTCAACGGTGATCCCAGTATGCTTGCAGATATGATGGTCTTTTACGTCGCTGTCT
-GGTTCTTTTATCTTGCCGGTTCGGCATTATTAGGATTTGGTATAAAAAATAAAAATATACAATGGATTATAGCATTCGAA
-CTTCCAATTATTGTAAAGATTTTATTCAGTTTAGTTTTATTTTTTATAGTACTATCAAAAGTATTGCTTTATCCTGAAGG
-GGTTTACTCATCTTATGCCTTTGATTCTGGCGCTATGGCAAGTCGTGTCTGGAATATCTCGATGGGATTATCAGAACTAG
-GTATAATAATTTTTACATTTTGTTTAGTTACAAAGAATATAAAGTTTGCAGTTGTTACCTTTCTTATAGTCTCATTAAAT
-CTACTACATGGGACTAGAATATTTACATTGATATTACTTTTAATGATCATATTTTATATAATTTTTATTAATAAAAAAAT
-ATCAAAGCTGAAATTATTTATTATTTTGAGCCTTTTTTTTGGCGCAATAGTGATATCATTTTTGATAATATTCATTATCC
-GTTCTAATGTTTCAATTGAAAATATAAATATAGACCTAATTCTAAGTCCAATAGTATATGAGTCTTTATTTAATCAAATA
-TCTTTTATGCGGATGCTGGATTGGCTACATCAAGGGGCAGTTCCGTTTGCACCACAAATGCTTTTTTCTGATTCAGCTAT
-ATTTACGTTACCGACTTTTCTTTTTGATGAAAAATCATCTTTAATGTATATAAATAAATTTGGAGAACTTAGCCCTTTAG
-GTGGGCTTTCCGGTTATGCTAGTGCAGTAATATATTTTTCGTATTATTATTTCCTGTGGTATTTTATTCTCGGTATTACA
-TCAAGCTTATTATTAAGGTTTACATCGAGTGTAAACTTTGTAATATTGTCGAGAGTTAT
->fliC_z69_Salmonella.enterica_Pietersburg_AY353520_k,z__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGTAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACCGCAAACATCAAAGGTCTGAGCCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCGAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCGGAAATCACGCAGCGTCTGAACGAAATCGACCGCGTATCCGGTCAGACCCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACTCTGACCATCCAGGTTGGCGCTAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAATTCGCAGACCCTGGGTCTGGATACGCTGAATGTACAGAAAGCGTATGATGTTGATAGTAAAGCTGTAAC
-AGTAGCTGCTGATTTAGATATTACCGCTCTTAATACCGATGCAGCTCTTAAAGCAGGAACGGGAGCTACAACAGGTACTC
-CATCAATAAAAGATGACAAAGTTTATTATGATAGTGCCAGCAAAAACTACTACGTTGAAGTTACCGGATTAACCGCCCCT
-GATGATGCTAAGAATGGCTTCTATAAAGTAAATGTTGCTGATGACGGTACAGTATCCATGGCCGCTAATACAGCTATAGA
-GGCGGGTAAACCAGCCGGTGCAGTAGAAGTAACAAAAACTCAAGAAGAAAAAAACCCATTACCATTATCAGCAGATCTCA
-AAACTTCTCTTAAATCTGGCGAGATTACAGATCCAGACATTGCTACCGCCCAAGTTGTCAAAATGTCTTATACCGATAAA
-AACGGTAAGACGATTGATGGCGGTTATGCTGTAAAAGTAGGGAATGATTACTATGCTGCCACTCAGAAAAAAGACGGTAG
-CTTTAGCGTTAATACCACTTCTTATACCGATAAAGATGGCAATACTAAATCTGCACTGAATCAACTTGGCGGCGTAGACG
-GTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAACGCCAGCAAAGCCGCTGGTCACGATTTCAAAGCGCAGCCA
-GAGCTGGCTGAAGCCGCTACTGCAACCACCGAAAACCCGCTGCAGAAAATCGATGCCGCGCTGGCGCAGGTTGATGCGCT
-GCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGTCTG
-AAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCA
-GGGACTTCCGTCCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_IIIa.62:z4,z23:-_AY353545_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGGGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAAC
-CCTATCACGCGAAGTGAAATTTGATGGAGCAGATTTAAAAGCCGATCAATCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACTTTGGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAA
-ACTACGGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAAATAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-9,46_wzy__1191
-ATGAGATGTGCTATGGTATTTTTAGCGTGGTTTATTGCTATTGGGATATATATAATATGTGGTATTTTTTATCTTCAATT
-TCCTCAATTATCACCACTAGGGGCTCTTGCATATACTGATACAGTGGGCGATGTAATCATTGTCGTATCCACGGGGATAG
-TGGGAGTTTTTCTCGGCTATTTTGCATTTTCTAAAATCAAGTTAGTAGGAATAAAAGATTTTAATAATTCGTGTTTTATA
-AATTTTTGTTCAGTATGCTTTATTATTTCAGCGTTTCTAATTTTCGCCTTAGGCGTCGCTGCATATGGTGGTTACATAGC
-ATTTCTACATACGCCTTATATAGCAATCTATGAAGGTAGTGCAGAAAATCAAACCAGAGATATCCTCATATCTTCATCGG
-GATTGCTTGCTAACTATGCACTATTAACTAGCATTCGTGTCAACTTTAAAGAAATATCAATAACTAATAAAGTTGTCATA
-GCAGTATCGCTATTAATACTTGTTTCTATATTTATTCAGGGACGAAGAGAAAATTTAATTTTGCTAATATTATGTTTCGT
-GTCATTCTATATGCTAAATTATAAAATTAATTTTAAACGTATTATCAAAGTAAGCATTATTTGTATAATAATGTTTTTCA
-TTGCTGGATTAGGTTTATATTTGCGTGAAAGCACTTCAACTTCAGGAGGAAGTATTTTTACAGCTATACCTTTTGCCGTG
-ATGTATGAAACACATTTTTCTTTAGCGACTTTGGCTAATGAAGTGAGAACGCATTTATATAATAATTTACCTTATGGGGG
-AGTATTAGATTTATTTTCTCCCATATTATTTATTATCCCTGCTTTTATATATGGGATTTTTGGTTTAGATAAACAATCTT
-TGTTCGAGAATAATGAGATGCGTTTTTATGAGGATAAAGGCGGCCAGTTTATATTCACAGAGGCTTTTCATTCACTTGGT
-TATGTCGGAGTATTCCTGCATGGTTTAATCTTGGGTGTAATGCTAATAGTATTTTATCGTGTAGCCAAGAAAAGCAGGCT
-CATAATTTATCATTTTCCAATTATTTCCCTCATATTTGTTGCAATGAGAAAAGACCTTACCTATGGTGTTAAATATATTT
-CTCTTTTGTTCATATTTATGATGATTTTTTATTTCATCTATAAGTTACTCCCACTTAAAAATAATGGTTGA
->fliC_f,g_Havanastr_APAH01000011_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-GTCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGAATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGACCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGCGGCGAATGTT
-GATGCTGCTACCTTACAATCAAGCAAAAATGTTTTTACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAAGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGGTCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->O-45_wzy__1164
-ATGTCGTACAAAAGTAATAATTTCTATAGAAATATACTTTTATTGAGTTTTTTCTTTTCTGGCTTTAGCTTGTATACTGT
-TTTTATACCGTTACTATTTTTGACTATTCTTCTTTCTTTGCACAAAAATAAGGCACTGTATTTTGGAAGGCTAGCAGCAA
-GCGCTAATATATTATTTATTATTTTATTTATTTTATTTGTTTTTTTTATAGGGGAAGATAGGCTATTATTAGAAAAACCA
-TTTAAATATGCAGCATATATTATATTTATGATTTTTTGTTTGACATTATTACTATTGAATAATATAGAATATGCACAGAA
-AGCAATACTATTTTTTATTTTTGGAATATTTTTACGAGCAGAGATTATTGTTATATATAGTTTCCTTGACCCATCAGGAG
-TCTATGGATATGGTAAATTATTAGATCCTTTTAACCATGAAGAAATTAACTCACCAGGTATCAGTAATTCACTGGCTATG
-GTTTTTGTATTTTTATTAGTTGTTTTCGAACCGAAGACATTAGCCAGAAAAATTTTTCTTATACTAGTTTACCCGTTACT
-TTTATTATCCTCTATATTTTTAGGAGGGCGAGCATTTTTTATAATTGCAATTCTTGGGTTGGTTTATCAATACAAAAATA
-ATACAAATATAAAGGCGATTATTTTTTTATTATTTTCTGCTCTTGGATGCTTAGTGCTATTTTTTATTATGTTTAAGGAC
-GCTCCAGTTTTCGAAAAATATTTTAATTTAATTTTTGAGCGTTTTGGAAGTGAAGGATTAAAATCAGCACGCTTTGAACT
-AATACAGGACGGGATTAGTAAATTCTTTATGTATCCGTTTGGAGGGTTTACTCCATATGCAAGTGAATACTCAGGTAGTT
-GGTATCATAATATATACTTGGATAGTGCCAGAGTTGCAGGTTTTTTACCTTTGATAATGTTTCTTATATCAAATATTATT
-TTATTTTCATGCTATTTCAAGTGTAAAAAGCGTAATCACAAAAATAAATATTTTTTCTTGTCAGTTATTACCTTAATTAT
-AATGTGCCAGGACGTTATTCTCGAAGGAAATATGATGTTGCTGATTTGTTATGCATTATTCACAACAATGCAACTTCAAA
-CGGGAGGGAGAAGTAAAAATGAAATTATATTACAGAGTAAATGA
->fljB_1,7_Indianastr_AOZC01000015_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCACAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTGCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTGCACCTAGTGTAACAGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATCTTGACAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGTGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTACGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCG
-CAGATCCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_z6_Kentuckystr_AOYY01000105_k,z__1493
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGTAAGGCTGTGAC
-AGTAGCTGCCAATTTAGATATTACTGATCTTAATAAAGACGCAGCCCTTAAAGCAGGCACTGGTGCTACAACAGGTACTG
-CAGCAATAAAAGATGGCAAAGTTTATTATGATAGTGCTAGCAAAAACTACTATGTTGAAGTTACCGGTCTGACCACCCCT
-GATGACGGTAAAAATGGCTTCTATAAAGTAAATGTCGCCGATGATGGTAAGGTGTCTATGACCGCTGGTACGGCTATGGA
-GGCGGGTAAACCAGCTGGTGCGGTAGAAGTAACAAAAACTCAGGAAGAAAAAAATCCATTACCATTATCAACAGATCTCA
-AAACCTCCCTTAAATCTGGCGGGATTACAGACCCAGAAATTGCTGCTGCCCAGGTTGTCAAAATGTCTTACACCGATAAA
-AATGGTAAGACGATTGATGGCGGTTACGCTGTAAAGGTGGGCGATAATTACTATGCCGCTACCCAGAAAAAAGATGGTAG
-CTTCAGTGTTAACACCACGTCTTACACCGCAGCTGACGGTACTACCAAAACTGCCCTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATTGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAGCCA
-GAGCTGGCGGAAGCAGCTGCTAAAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAAAACCGTTTCAACTCCGCTATCACCAACTTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_1,5_Bareillystr_AOZP01000315_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGTGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCGATAATGGTACTACACTGGATGCCTCAGGCCTTGATGATGCGGCCATCAAAGCGGCCATTGGTG
-GTACGACTGGTACGGCTGCTGTAACGGGTGGTACAGTTAAATTTGACGCAGATAATAATAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTTACACTTGCTAC
-GGGTGCAACTAAAACCACAATGCCTGCTGGTGCGGCAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAGCAGATGCTAAGAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGCCGCGACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACATACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATCCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAGAACGTGCTGTCTCT
->fljB_z39_Salmonella.enterica_II.6,7:z39:1,5,7_AY353349_other.z39__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAATCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTACGTATCAATAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAATAACCTGCAGCGTGTACGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATACAGGTTGGCGCGAACGACGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGATGGTAGTGGTGGTAAGACATTAAATATTAGTGGTCTTGATGCTGCTGCAATTAAAACCGCTGTTGGAGGGACACCAA
-CTGGTACTGGCGAAATTAAGGATAATAAGGTTTATCACAATAGTACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAATGGCTTCTATGAGGTAGATGCAAATCCTGCTGATGGTACAGTTACATTTGCTACCGGTGCTACGAA
-AATAACGGCTAAACCTGCTGATGTTGAAGAGGTTACAACTGTCCAATCAAAACCTATAGCTCTCAGTGCTGAGGTTAAAA
-CACAATTAACTGCTAATGGAGTTAGCACAGCGGCCGCTGATAAAGGCCAATTGGTCACAATGTCTTATACAGATAAAAAT
-GGTAAGACTATTGATGGTGGCTTCGGTGTTAAAGTTGGCGCTGATATTTATGCTGCAACTAAGAATAAAGATGGCTCTTT
-TAGTATCAATACCACGAAATATACTGATAAAGACGGTAATACCCAAACTACACTGAATAAACTTGGTGGCGTTGATGGTA
-AAACTGAAGTTGTTTCGATTGAAGGTAAAACCTACACCGCAGCGAAAGCAAAAGATCATAATTTCAAAGCCGATCCTGAT
-CTAGCGGAAGCAGCCGTTAAAACCACCGAAAACCCGTTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCTGCG
-TTCCGATCTGGGTGCGGTACAGAACCGTTTCAATTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAGGCCGGT
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_z39_Salmonella.enterica_II.51:l,z28:z39_AY353348_other.z39__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGCCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAATAACCTGCAGCGTGTACGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGATGGTAGTGGTGGTAAGACATTAAATATTAGTGGTCTTGATGCTGCTGCAATTAAAACCGCTGTTGGAGGGACACCAA
-CTGGTACTGGCGAAATTAAGGATAATAAGGTTTATCACAATAGTACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAATGGCTTCTATGAGGTAGATGCAAATCCTGCTGATGGTACAGTTACATTTGCTACCGGTGCTACGAA
-AATAACGGCTAAACCTGCTGATGTTGAAGAGGTTACAACTGTCCAATCAAAACCTATAGCTCTCAGTGCTGAGGTTAAAA
-CACAATTAACTGCTAATGGAGTTAGCACAGCGGCCGCTGATAAAGGCCAATTGGTCACAATGTCTTATACAGATAAAAAT
-GGTAAGACTATTGATGGTGGCTTCGGTGTTAAAGTTGGCGCTGATATTTATGCTGCAACTAAGAATAAAGATGGCTCTTT
-TAGTATCAATACCACGAAATATACTGATAAAGACGGTAATACCCAAACTACACTGAATAAACTTGGTGGCGTTGATGGTA
-AAACTGAAGTTGTTTCGATTGAAGGTAAAACCTACACCGCAGCGAAAGCAAAAGATCATAATTTCAAAGCCGATCCTGAT
-CTAGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCTGCG
-TTCCGATCTGGGTGCGGTACAGAACCGTTTCAATTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGTCTGAAG
-CGCGTAGTCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAGGCCGGT
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,5_Manhattanstr_CBKW010000016_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCGATAATGGTACTACACTGGATGCCTCAGGCCTTGATGATGCGGCCATCAAAGCGGCCATTGGTG
-GTACGACTGGTACGGCTGCTGTAACGGGTGGTACAGTTAAATTTGACGCAGATAATAATAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTTACACTTGCTAC
-GGGTGCAACTAAAACCACAATGCCTGCTGGTGCGGCAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAGCAGATGCTAAGAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGCCGCGACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACATACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATCCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAGAACGTGCTGTCTCT
->fljB_1,5_Idikan_SRR1272896__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACGACACTGGATGTATCGGGTCTTGATGATACAGCTATCAAAGCGGCTATAGGTG
-GTACGACTGGTACGGCTGCTGTAACCGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGATGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->O-44_wzy__1134
-ATGATAATAAATAATATATTATTAATGGCATTATTAGCTGTATGTACTATAGACCTACCTTCCTTTATAGTAGTTTATGG
-CTTGCAATTGTATATTCTGCCGTGTATTGTACTAATGTGTCTAATAAGAGGGGGAGTGTTTCCATTAAAATTTTTTTTCG
-TAGCATCTTTTCTATCATTAATAATAATTATTATTACCGTAATCCAGGAGACTTATACTCCCTATCCTGATTTACTATGG
-AGTTATACTGCTAGATTAATTTATTGGATTATGGTTTTTACACTGCTTATTCCATTTATACAAAAAATACCACTGATAGA
-TTTAATAAAAATAATAAGAAGATGGATATTGTTATATTCTACATTCTTATTTATACAGTTTATAGCATTTTATCTATTTC
-ATATTATAGTTGATTACTCATTAATTATTGGTGGTCAGGAATCAAGAATACTAAACGAAGTAGGTTTAAGAGCTTCCGGC
-TTGACTGCTGAACCCTCAATTTATTCCGGGATAATGATTTCACTATTGATACTATTGTATCTCATGACTGGGAAAAATAA
-TATAATAACATACATAGGGTTAATAAGTATATTATGTACTTTATCTACTTTAGGAATTTTTTTGGTTATTATTTATTTAG
-CTATAACAAATTTATATCGAATTAAAATTTCTAGAATAGTCTTTTTTATATCCCTTTCAATTGCAATTATTTTTATTTTA
-TGGGATTTTATTTTAAAAAGAATAGAACTTTTTCTGCAGGGCGGGGATGTTAGTAATAATATAAAAATCATGGTCATTGA
-TAATCTGTTTAATAATGAGTCTTTATTTTTGCTTGGATATGGGTTGGTTGGTTATAGTGATAAAGCTCCCCCATATTATC
-AGGCTCTTTATGACCTAACTTTATTTGGGAATTTATGTGTTATCTTTGGTATTCCTATTGGTCTTATGTTATCTATAACT
-GTTTTTTTATTTACGTTGAATATGAGGATTTGTTTCGAGAAGAAAATACTGATAATTCTTTCTTTTATAAAAATCACTAT
-CCCAAACTATATATTTTTTTATTTTTTCTTGGTTTTACTATATGTCATAACTAATAAAATATCGGTAAGATATCACAATA
-GAAGAGAAGTATGA
->fljB_1,2_Saintpaulstr_AOXF01000050_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_1,2_Newportstr_AJMO01000050_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_e,h_Meleagridisstr_AOYN01000134_e__1497
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGTGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTATCAGCAACTGATGCAAT
-GGATCCGAAATCATTTACTGACGGTACTAAAAATCTTACAGCGCCTGATGCTACTGCTATCAAAGCCGCGTTGGGAAATC
-CCACGGCAACAGGCGATTCCTTGTCTGCTACGCTTTCGTTTAAAGATGGTAAGTATTACGCCACTGTTGCAGGGTATACG
-AATGCTGCCGATACCAGTAAGAATGGTAAATATGAAGTGAATGTTGATAGTGCGACAGGTGCGGTAACTTTCAATGCAGC
-ACCAACTAAAGCCACAGTAACTGGGGATACAACAGTAACCAAAGTACAGGTTAATGCTCCTGTTGCAGTCAGTACTGATG
-TTAAAAAAGCGCTAGAAGATGGTGGCGTTTCAAATGCGGACGCTACCGCAGCTAAATTAGTAAAAATGTCTTATACCGAT
-AAAAATGGAAAATCTATTGACGGTGGTTATGCGCTTGAAGCCGGTGGCAAGTACTATGCTGCAACCTATGACGAAGGTAC
-AGGTAAAATCACAGCTAATGTAACCACTTATACTGATTCCACGGGAGCCACAAAAACTGCGGCTAACCAACTTGGTGGCG
-TAGACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCTAGTAAAGCCGCTGGTCACGATTTCAAAGCG
-CAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGA
-TGCGTTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACTTGGGCAACACCGTAAACAACT
-TGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z10_Salmonella.enterica_Istanbul_AY353471_other.z10__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAGCACTGGCGTTAC
-TCAATCTCTTGATTTAAAAACTGCTGGAATTACTGGTGCTACATTAAAAGCTGGTATTACTGGTACAACGACAGAAACCG
-GTAGCGTTAAAGATGGTAAAGTCTACTATGATGCAGATAGCAAAAATTACTATGTAGAGGTTGATTTTACTGATACTACG
-GATAAAGCAGCGCATGCTGGTTTCTACAAAGCTGGCGTCGATGCTGACGGTAATGTTTCTTTAGCAACTGGTGCGACTAA
-AGAAGCAAAACCAACGAATGCAGTTGAAGTTGAAAAAACTATTGATGAAAAACCGCTGAAAGCATCAAGTAGTGTTCAGG
-ATGCCTTAAAAGCGAGTGGTATTGCTGATGCGGTTGCAGAAGCTGCGACGGTAGTGAAAATGTCGTACACTGATAAGAAT
-GGTAAAACTATTGATGGTGGATACGGTATTAAAGTAGGTGATGACTACTATGCTGCAACTAAAGAAAAAGACGGCAGCTA
-TAGTATTAATAGTACTTCTTATACCGATAAAGACGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGTA
-AAACTGAAGTTGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAGCCTGAT
-CTGGCGGAAGCGGCTGCTACAACTACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCTGCG
-TTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z35_Salmonella.enterica_Tema_AY353480_other.z35__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAATGACGGTATTTCTATTGCACAGACCACGGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAATC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCCGTCAC
-GCCTCCGGCAAAACTTGATATTACAGGATTAACTGGAGCTGATATTAAAACTGGCGTTGATGGCGCTACGGTTGATACTG
-GCTCAATTAAAGATGGCAAAGTTTATTATAATAGTACTTCTAAGGACTATTACGTACAGGTTGATTTTGGTACATCAGCT
-GATGCTGCTAAGAGTGGTTACTATAAGGTCAATGTTAATGATGATGGTACAGTCTCAATGACGGCTGATACCACCAAAGA
-GGCTACAACTCCTACAGGTATTACTGAAGTTACTCAAGTTCAAAAACCTGTAGCTGCTCCAGCCGCTATCCAGGACCAGT
-TGACTGCCGCTCATGTCACCGGGGCTGATACAGCTGAAATGGTCAAGATGTCTTACACGGATAAAAACGGTAAGACTATT
-GATGGCGGTTTCGGTGTTAAAGTTGGGGCTGATATTTATGCTGCAACAAAAAATAAAGATGGATCGTTCAGCATTAACAC
-CACTGAATATACCGATAAAGACGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACGGTAAAACTGAAGTCG
-TTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACGATTTCAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,v_Salmonella.enterica_Brandenburg_AY353444_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCGGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAATACCACTGGTCTTAATGATGCAGCTCTTAAAACGGGTGTTGGTGGTGCAACAAACG
-GTACTGCTGCAATTAAGGATGGTAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTAGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGACAACCACGAA
-AGTGACAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGCCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCACAACTTCAAAGCACAGCCA
-GAGCTGGCTGAAGCGGCTGCTACAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCT
-GCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_r,i_Salmonella.enterica_Bovismorbificans_AY353463_r,i__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGTGGTTTA
-GCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAAATACAC
-TGCAGAAGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTATTGGTG
-GTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCTACAACC
-ACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGTACAGAA
-CCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAGATTCCG
-ACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAAC
-CAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z6_Salmonella.enterica_II.48:e,n,x,z15:z6_AY353519_k,z__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAGGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-AGTAGCTGCTAATTTAGATATTACTGATCTTAATAAAGATGCGGCCCTTAAAGCAGGGACTGGTGCTACAACAGGTACTG
-CAGCAATAAAAGATGACAAAGTTTATTATGATAGTGCTAGCAAAAACTACTACGTTGAAGTTACCGGTCTGACTACCCCT
-GATGACGGTAAAAATGGCTTCTATAAAGTAAATGTCGCCGATGATGGTAAGGTATCTATGGCCGCTGGTACGGCTATGGA
-GGCGGGTAAACCAGCTGGTGCGGTAGAAGTAACAAAAACTCAGGAAGAGAAAAATCCATTACCGTTATCAGCAGATCTCA
-AGACTTCTCTTAAATCTGGCGGGGTTACAGATCCAGAAATTGCTGCTGCCCAAGTTGTCAAAATGTCTTATACCGATAAA
-AACGGTAAGACGATTGATGGCGGTTACGCTGTAAAAGTGGGTGATGACTACTACGCCGCTACCCAGAAAAAAGATGGTAG
-CTTTAGTATTAACACCACGTCTTACACCGCAGCTGACGGTACATCCAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GCAAAACCGAAGTTGTTTCTATTGGTGGTAAAACCTACAATGCCAGCAAAGCCGAAGGTCACAACTTCAAAGCACAGCCT
-GATCTGGCGGAAGCGGCTGCTACAACCACCGAAAATCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTT
-ACGTTCTGACTTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCA
-GGGACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_y_Bareillystr_ALPN01000010_other.y__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAACACGGTTGTCAC
-GAACCCTAATTATGTTGATGGTGCAGCGTTAAGCACTACGATGCCTACTGCGGCTGAGATTAAAACGGCTATTGGCACTG
-GTGCGGGAACTCCGGCAGTTAAAGGTAATGAAGTTCAATTTGATAAGAGCACTGGGAAGTATTACGTTGAAATTGAAGGA
-TATTCAGCTCCTGATGCAGCTAAAAACGGCATTTATGAAGCCAAAGTTGCTGATGATGGCACAATATCTTTGGAGACTGG
-GACCAAAAAAATTGGCACCGCAATGCCTGCTGGTGCTGAAGTTATTACTCACGTGCAGAAAAAAGATCAACCAGTTGTTG
-TTGATGCCAGCGTTAAAGATGCTCTAAAAGCTGGTGGGGTAGATGATGCAGTTGCAGATACCGCGCAATTAGTCAAAATG
-TCTTACACTGATAAGAATGGTAAAACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGCAAAACCGAAGTTGTTACTATCGATGGTAAAACCTATAATGCCAGCAAAGCTGAAGGTCAC
-AACTTTAAAGCACAGCCTGATCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCTGCTTT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_i_Kentuckystr_AYDR01000065_r,i__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCTATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGGTGGCTATTATGAAGTTTCCGTTAATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z4,z23_Salmonella.enterica_IIIa.18:z4,z23:-_AY353546_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGAAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGGGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAAC
-CCTATCACGCGAAGTGAAATTTGATGGAGCAGATTTAAAAGCCGATCAATCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACTTTGGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAA
-ACTACGGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAAATAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z24_Albanystr_AOZW01000055_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTAAACGAAATTAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAAGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACAACGGGTGGTCCCGCAGCAGATAAAT
-TATCTTTGGTAAAAGATGATAAAGGAAATTACCTTGTTAAAGATGTTACTGTCACTGCTACTCCTAAATATTATGCCGCT
-ACCGTAGATAATAGTACTGGGGAAATTAGCTTTGATTCGGCTAAAGAAGTTACTTTAGCTGGTGGTGCACCAGCTCCGAG
-TACGGTTGATACTTTGTCGCGTGAAGTGAAATTTGATGGAGCAAATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAG
-ATGATAAGGGTAAAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCC
-GCGGACGGTAAAACAACAGAGGGTACTACCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCT
-TAAAACCGTTGACGCTTTCCGTAGCCAATTGGGGGCGGTGCAGAACCGTTTTGAATCTGCTATCACTAACCTGGGCAACA
-CCGTCAACAACCTGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_i_Salmonella.enterica_Agama_AY353430_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-44_wzy2__1247
-AATACGCTCTGTACCACCTGAATTACTTAGATCGTTTATAAAAAAACAAATAGTTTTCATAGTTCTCTTCTATTATGATA
-ATTTTACCGATATTTTATTAGTTATAGCGTATAGCAAAACCAAGAAGAAATAAAAAAATATATAGTTTGGAATAGTAATC
-TTTAGAAAAGAAAGAATTATCAGCATTTTCTTTTCAAAACAAATTTTCATATTTAGCACAAATGCAAAAACGATTATAGT
-TAATATAAGACCAATAGGGACACCAAAGATAACACATAAATTCCCAAATAGCGTTAGATCATAAAGGGCCTGATAATATG
-GGGGAGCTTTATCACTATAACCAACCAGCCCATAACCAAGCAGAAATAAAGATTCATTATTAAATAGGTTATCAATAACC
-ATAATTTTAATATTATTACTAACATCTCCCCCCTGCAGAAAAAGCTCTACTCTTTTTAAAATAAAATCCCATAATACAAA
-AACAATTATAATTGAAAGAGATATAAAAAAAATTATTTTAGAGGGTTTGAGTCTATATAAATTTGTTATAGCCAAATATA
-GAATAACCAGAAAAATCCCTAATGTAGATAAGGTACATAATATACTTGTCAGACCTATGTATGTTATTATATTATTTTCC
-CCGGTCATAAGGTATAACAATATTAACAAAGAAATCATTATGCCAGAATAAATTGAAGGTTCAGCAGTCAAACCTGAGGC
-TCTTAAGCCTACTTCATTTAATATTCTTGATTCTTGGCCACCAATAATTAATGAGTAATCAACGGTAATATGAAATAGAT
-AAAATGCTATAAACTGTATAAATAAAAATGCAGAATATATTACTATCCATTTTTTTATTACTTTTATTAAAATTTTCGGT
-GGTATTTTTTTTATAAATGGAACAAGCATTGTAAAAAGCATAATCCAATAAATTAACCTAGCAGTATAACTCCATAGTAA
-ATCAGGATAAGGTGTATAGGTCTTTTGGATTAAAGTAATAATTATTATTATGAATGATAAAGAGAAGGTGACGAAAAATA
-GTTTTACTGGGAAAACCTTTCCTCTAATTAAACACATTAGTACTATGCATGGTAAAATATACAATTGCAAACCATAAACT
-ACTATAGAAGCTGGCAAATCTATAGTACATATAGCTAATAATGCCATTAATAATGTATTATTTATTAACATATTAATATC
-TTATTTATTTCTTATAAAAATATAATATAAACATTGAAAATATCGTA
->O-51_wzy__1026
-ATGCTTATCTATAATACAGTGTTCTTATTTTTGGTATTATGTGCATTGCTGGATTTAGCTGACAAGAAAAATTTTTTTTT
-GTTTACATTGTCATTTATAGTATTACTTATATTAATGGGATTTCGTGGAAATGGTGGTGATGATTTTTTGGTTTATCAAC
-AATACTTTAATTCACTACCAATAATATTGTATGATTATGGTGTTGGCTATTTTTATCTGAATTCTTTTGCTAAATATTTT
-GGCAATTATGAATTTTTTATTTTTGTGTCTTCTTTATTATGTCTCTCGCTGCAATCATTTTTTATTTATAGCGAAACAGA
-AAAACCATGTCTTGTCTTGCTGCTATTTTATTCAACTAGTTTTTTATGGCTTGACTTTATTCTTATAAGGCAGTCTATTG
-CCGTAGGATTTTTTGTAGTTGCAATAAGTTTATATAAGAATAGCAGGAATAAATTGAGTTTTTTATTTTTTGTTTTTTCT
-GCATTGTTCCACGAAACAGCATTTTTTGCTGCAGCTTTATTTTACATTTTTAGTAAACTAGAGAAAAAGGGGATTCTCAT
-TGCCATTTTGATATTACTCATTTTATCTCCTTTTCTTTCAGATATTTTAGTTATCATCAATAATATTACTATAAAAAACA
-AAAATGTAGAGTTATATCTCGGAGAGCATGCTTTACCAAGTATAGCTAATATAGCTGAGTTTTTGATGGCAGTATTAGCT
-TTTATTATAATTAAAAAAGATGATATATTTAGAAATAGTAAAGAATATAGATTGTATAAAGTTATAATTATAGCATCCTT
-TTGTATATTAGTGTTATCCTATACTGTTCCTACCTTGGCTCGCTTTCTTGAATACTATCGATTATTTTATTTCTTATTGC
-TAACTCGTATGTTCATGTATTTTAATTTAAGAAGCCGATATATGATATTTATTGCTCTTACAGTATATGGTTTTGTCCGT
-ATGAATAGTTTTATATATCAGTTCGATTCTGGATTTGATTATATATTTAATGGGAGTTCTATATGA
->O-3,10_wzx__1539
-ATGTTTAGAAATAAAGTTGCTCTTGGGTCTCAGATAGGATTGTTTACTTCAGTTCTTATATTAATAACAAACTTTTTTTT
-AAGAAGTTACTTTGTTAAAGTATATGGTGCTGATTTAACCGGGTATTATTTATTAGTAGTACAGTTGATGGGAGTATTAA
-ATCTTGCTGAGCTAGGTATAAGTACAGCCTTAACATATATCCTATTTAAACCACTGCATAGAAAAGAAAATAGTGAGTTA
-AGACAATTATATTTTATAATAAAGAAAATATACCATTTTATAGCATTGGGCATATTAGTTATTGGACTACTTTTCTTTTT
-GTTATTAAATTCTATAGTAAATGCAAGTATATCCCCTGAAAATCTATATATAACATGGGGGGTGTTTGTTATAAGTACAT
-CATTATCATATTTATACTCTGCTCAATCTGTCATTTTAACAGCAGACCAGAATGTCTATTTGGTTAAATTAATTACTGGG
-TTAACTAGAAGTTTAGCGTATATATTGCAAATATTTCTAATGATTTGCGGCGTCTCCTTTTGGATTGTGTGCGCTATTGA
-ATTACTTTCTAATGTAATACAACTTATTCTTTTTAACAAACTAACATTAAAAAAATATCCGCAATTAGTAAAGTTGGATA
-TTACTGATACTATCAATAAAGAAAATATAATAAGTGTAAAATCTAAAATAAAAAGAGAGATAAAATATACGTTTGTACAT
-AAAATTGCCGGTGTTGTTGTATTTAATACAGATTATTTAATTATATCTGTCTTTCTAGGTATAACGGTTATCACATCTTT
-TTCTTCCTATATGATGTTAATTCAAGCATTGGCTTTTCTGATATCAGCAATAGCTTCCCCACTGGGTGCCTATATAGGAG
-CAAAACTATATTCTGATAGTAAGGAAAAAGTTATCAGGATTATATCACTTTATAATTCACTTTTTTTTATGCTAGGTATT
-TTTTGCGCGTATATGTTTTATATATCTTCAAGTACATTTGTATCCTTATGGATGGGAAAAGAAATTGTACTTAGCCAACA
-ATTAGTTTTGTTACTTTCTGTTAATTGCTTCGTATTGATTGCAAGGATCTCTTTTGATGTTGCAAAAGTAGGCCTTGGTT
-ATATGTCAGATATTGAATTACCCCTACTGGAAGCCATAATTAATATTATCGTTTCATTAGTTTTAGTACATTATTTAGGT
-TTAAATGGGATAGTTATTGGAACTATCGTTAGTAATATCATCGTTGTCATGATCTTGAAACCAGTATTTTTATACAAAAA
-TGCCCTTAAATCGGATAATGCATTTATTATTCATGAGCTTATAAGGTCATGGTTCTTTATAAGCATATTCTTGCTTTCCA
-TCTTTTTTATTACAAGGGCAAAAGTTATAGTCAGCAACGAATGGCTAGATTTCTTTATACAAGTGTGTATGAGTAGCATT
-ACTCCTTTATTGTTATTGATAATGATATACAGCGTCTTTGATAGCAACGTTCGGAAATTCATGTTTGTTATGTTTAAAAA
-AAAGTATAGGGAAAATTGA
->O-13_wzx__1236
-ATGGAAAAGCGTATTTATATAAATACCATTGCTAATTTATGTGGGGTTTTTTGGCAGGGAGCTATAATTCTTTTAATGGC
-TCCTTTTTACCTGAAGTTATTAGGGAAAGAACAATGGGGTATGGTGGCTGCATGTTTATCCTTACAAGGGATATTATTAC
-TGCTTGATGCAGGAATGTCACAAGTTATGCCAAGGGACTTTGCACAAAAAAAACAGAATATTAAAGAGATATATTCAAAC
-TATATAGCTTTATATTTTTTGATTGCGCTTTGTGCTGTGTTTTTCTTGTATTTTTCTGCAGAGGCTATTGCTGAAAAATG
-GTTTAGATTGGATGCTTTTTCTGCAAAGCAACTTGAACTCGCTATAAAAATTTTTGCAGGGCAGTTTTTTTTCCAGTTTT
-GCAATAACGTTAATTTGGCATATTGGAATGGGAATGAAGAGCAAGTAAAAGCAAACTTATCGCAATGTATATTCATTTCT
-TTGAAAAATATTACAGCAGTAATTTTAATTCTAAACGTTAGCCGACAAACATATATTTATGTATTATCTTTCTTCCTAAT
-TGCTATGATTGAGTTTATCTGTAATTTTTCTTTTATCGTATCAAGGATAGGAGCGTGTAAACCGTCATGGGGAAAAATCA
-AAAGAATTATTATTACTAACTATAAAATATCCTTAGGGATTCTGTTAGGCGTTTTTTCTTCACAATTAGATAGAATATTT
-ATGTCAAGGTTTTTAAGCATTCAAAACTTTGGCTTGTATGTTATGACTATGCAATTTGGACTTGCGTTATTGCAGTTACA
-GTATCCAATGGTTAAAGCAATATTACCTCATATCGCAAAAATTGGCGATACAACTAAGTTGGGATTATATAAAACAATAG
-CTTTTTTTTGTGTCTTAATGCCATCTTGCATATTATTTTTTTGGGCAAAAGACATACTTTGGTTATGGAGTCATAATATT
-GAAGTTGTAGAGTATGGAGTTATTATTGTCAAAATTTTGAGCGTTGCTGTGCTGATAAACTTTTTTTATAACTTTATTCA
-CGTTAAGTTAATTGTTGAAAATAGAGGTGGGGTGATATTTATTTCGCAACTTTTGATTATTATTATTAACTCTATTTTCC
-TAATATTCTTTTCCCCAAGAATTCATGAGGTGGCTGGAGCATTATCATGGATGATTAATTTTAGCATAGTCTTATTATGT
-GGTTTGTTTTTTCTCCATAAAGGAAAAAAAAGATAA
->fliC_z81_Salmonella.bongori_40:z81:-_AY353261_other.z81__1485
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGCAC
-TGCTATCGAACGTCTGTCTTCCGGTCTGCGTATCAACAGCGCAAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGTT
-TTACCGCCAACATCAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCTGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTCGGCGCTAACGACGGTGAAACCATCGATATTGATCTG
-AAACAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAAAATATGATGTGAAGAGCGAGGTTGCCAC
-GCCAACAGCAAAACTGGATATTTCAGGCTTGGATGGCGCTGCGCTAAAAACGGGGACGGGTTCTACTGGTGATACTGGTT
-CTATCAAAGATGGCAAAGTTTATTATGATGGAACAGATTATTACGCAGAAATTACTTTCACCGATACTGCTGATCAAACA
-GCGAAAGGTGGTTATTACAAAGTCAACGTTGATGATGCAACCGGTGCTGTTACTATGACAGCATCAACAACTAAAGAAAC
-GACAACCCCAACAGGTATTACTGCAGTGGCTCAGGTTCAGAAGCCTGTAGCAGCGCCATCAGCTATCCAGGATCAGTTGA
-CAGCGGCAAGTGTTGCTAATGCTGACAAAGCAGAAATGGTCAAAATGTCTTATACCGATAAAAATGGTAAGACTATTGAT
-GGCGGTTACGCTGTAAAAGTGGGGGACGATTACTACGCTGCTACTCAGAAAAAAGACGGTAGCTTTACCATTAACACCAC
-TTCTTACACGGATAAAGACGGTAATACCCAAACTGCATTGAACAAACTTGGTGGTGTAGACGGTAAAACTGAAGTTGTTT
-CGATTGAAGGTAAAACCTACACTGCAGCGAAAGCAAAAGATCACGATTTCAAAGCGCAGCCAGAGCTGGCGGAAGCGGCT
-ACTGCAACCACCGAAAACCCGCTGCAGAAAATCGATGCTGCGCTGGCACAGGTTGATGCGCTGCGTTCTGACCTGGGTGC
-GGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCG
-AAGATTCCGACTATGCGACTGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAGGCAGGGACCTCCGTTCTGGCA
-CAGGCGAACCAGGTACCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,t_Salmonella.enterica_Agodi_AY353407_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTGACAACTGACGATGCGGAG
-AACAACACTGCGGTTAACCTATTCAAGACGACTAAATCTACTGCTGGTACCGATGAAGCCAAAGCGATAGCTAGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTAATGACGGTA
-ATGGTACGGTTTCTACTACTATTAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCAGCGAATGTT
-AATGATGCCACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_IIIb.48:i:z_AY353419_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATAACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCAATACTGCGATTGCTTTAAACAATGGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACAG
-ACCAGCAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TGCAGGTGGATTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCCAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCCGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCTAACATGTCTCGTGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_d_Salmonella.enterica_Isangi_AY353376_b,d,j__1521
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTTGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATTGATATTGATTTA
-AAAGAAATTAGCTCTAAAACACTGGGACTTGATAAGCTTAATGTCCAAGATGCCTACACCCCGAAAGAAACTGCTGTAAC
-CGTTGATAAAACTACCTATAAAAATGGTACAGATACTATTACAGCCCAGAGCAATACTGATATCCAAACTGCAATTGGCG
-GTGGTGCAACGGGGGTTACTGGGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGCGGTGCTTCT
-GCTGGTGTTTATAAAGCCACTTATGATGAAACTACAAAGAAAGTTAATATTGATACGACTGATAAAACTCCGTTAGCAAC
-TGCGGAAGCTACAGCTATTCGGGGAACGGCCACTATAACCCACAACCAAATTGCTGAAGTAACAAAAGAGGGTGTTGATA
-CGACCACAGTTGCGGCTCAACTTGCTGCTGCAGGGGTTACTGGTGCCGATAAGGACAATACTAGCCTTGTAAAACTATCG
-TTTGAGGATAAAAACGGTAAGGTTATTGATGGTGGCTATGCACTGAAAATGGGCGACGATTTCTATGCCGCTACATATGA
-TGAGAAAACAGGTACAATTACTGCTAAAACAACCACTTATACAGATGGTGCTGGCGTTGCTCAAACTGGAGCTGTGAAAT
-TTGGTGGCGCAAATGGTAAATCTGAAGTTGTTACTGCTACCGATGGTAAAACTTACTTAGCAAGCGACCTTGACAAACAT
-AACTTCAGAACAGGCGGTGAGCTTAAAGAGGTTAATACAGATAAGACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTT
-GGCGCAGGTTGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->fliC_g,p,u_Salmonella.enterica_Rostock_AY353402_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGTAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGGCATTGGCGCGGCGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,2_Salmonella.enterica_Heidelberg_AY353265_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACACCACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAACCTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAATCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_g,z62_Salmonella.enterica_II.9,46:g,z62:-_AY353415_g,m__1515
-ATGGCACAAGTCATTAACACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAATAGTGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCACAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGTTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTGCTGCTGGTACCGCTGACGCCAAAGCGATAGCTAATGTCAT
-TAAGGGTGGTAAAGAGGGAGATACCTTTGATTATAAAGGCGTATCTTTTACTATTGATACAAAAACTGGTAATGATGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGGTAGTGTTAAT
-GATGCTACCTTACAATCAAGCAGAAATGTTTATACATCTGCAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAAAAA
-TGAGAGTGCGAAACTTTCTGATTTGGAAGCAAATAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTGAAT
-ATACTGCTAACGCCGCGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTTAGT
-ACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTCAAA
-AGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGGTAA
-CCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAGATT
-CTGCAGCAGGCCGGTACCTCTGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_IIIb.61:i:z_AY353417_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATAACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCAATACTGCGATTGCTTTAAACAATGGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACAG
-ACCAGCAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TGCAGGTGGATTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCCAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCCTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCCGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCTAACATGTCTCGTGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_c_Salmonella.enterica_IIIb.57:c:z:z60_AY353366_other.c__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAGCGATACTGCTGTAGC
-TGCTTCCTATTCCGACTCGAAACAGAATATTGCTGTTCCTGATAAAGCAGCTATTACTGCAAAAATTGGTGCAGCAACCA
-GTGGTGGTGCTGGTATAAAAGCAGATATTAGCTTTAAAGATGGCAAGTATTACGCGACTGTCAGTGGATACGATGATGCC
-GCAGATACAGATAAAAATGGAACCTATGAAGTCACTGTTGCCGCAGATACAGGAGCAGTTACTTTTGCGACTACACCAAC
-AGTGGTTGACTTACCAACGGATGCAAAAGCAGTTTCAAAAGTTCAACAGAATGATACTGAAATAGCAGCAACAAATGCGA
-AAGCTGCATTAAAAGCTGCAGGAGTTGCAGATGCAGAAGCTGATACAGCTACTTTAGTGAAAATGTCTTATACAGATAAT
-AACGGCAAAGTTATTGATGGTGGGTTCGCATTTAAGACCTCCGGTGGTTATTATGCAGCATCTGTTGATAAATCTGGCGC
-AGCTAGCTTGAAAGTTACTAGCTACGTTGACGCTACCACTGGTACCGAAAAAACTGCTGCGAATAAATTAGGTGGCGCAG
-ACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGAAGGTCACAACTTTAAAGCACAG
-CCTGATCTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,s,t_Salmonella.enterica_Missouri_AY353405_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTGACAACTGACGATGCGGAG
-AACAACACTGCGGTTAACCTATTCAAGACGACTAAATCTACTGCTGGTACCGATGAAGCCAAGGCGATAGCTAGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTAATGACGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCAGCGAATGTT
-AATGATGCCACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCCCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAAGCTGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_Gloucester_AY353429_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23,z32_Salmonella.enterica_IIIa.44:z4,z23,z32:-_AY353502_z4,z23__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGTTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATTGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCAAAGATGCAAAAACCGGCGGTCCGGCTGCGGATAAATTAT
-CTCTGACACAAGATGATAAAGGCAATTACTTTGTCAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTAGAT
-ACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAACCCT
-ATCACGCGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAGATGATAAGGGTAAAG
-ATCTCTATGCTATCCAAACGTTAGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAAACT
-ACGGAGGGCGCTGCCGTAGCCTTAGCTGCAAACGTCGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACTGTTGACGC
-ATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATAACTAACCTGGGCAACACGGTAAATAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCACAGATTCTGCAGCAG
-GCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_z52_Salmonella.enterica_IIIb.50:z52:z35_AY353516_l,v__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGTACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGTTGTTAC
-TGATGGTAGTGGTGGTAAGGCATTTGATCTCACCGCGCTTAATGATACTAACCTTAAGGCTGCAGTTGGTGGGACTCCTG
-CTCCGACAGGAACCGCTGTAGTAAAAGATGATAAAGTATATTATAACAGCGCTGACGATAAATATTTCGTCGAGATTGAT
-GGGCTAAGTAGTGGTAATGGCTTCTATGAAGTTAGCGCAAATGCAACAACTGGTGCTCTTACAATTGGTGCAGGGTTAAC
-AACGGCTGGCGCAACGGTACCGGCGGGTGCTGAAGAAGTTACATCTGTGCAGTCAAAACCCGTAGCTCTCAGTGCTGATG
-TTAAAAAACAATTGACTGATAGTGGCGTTAGCGTAGCGGACGCTGGTAAAGGCCGATTAGTCACAATGTCTTATACTGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCAGATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGATCAGCATTAACACCACTAAATATACCGATAAAGACGGCAATACTAAATCCGCACTAAACCAACTGGGTGGCGCAG
-ACGGCAAAACCGAAGTTGTTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAG
-CCCGATCTGGCGGAAGCGGCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCTAACATGTCTCGTGCGCAGATTCTGCAGCAG
-GCAGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_z53_IIIb.60:(k):z53_HM142067_other.z53__1497
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTTTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGATGCTAAGACTATTGATCTCTCCGCCTTAAACGAAGCCGCGCTCAAAGCTGGTACTACTGGTACAACAGGTGCTCCGG
-TCGTTAAAGATGATAAAATTTATTATGACGAAGCCAGTAAAAACTACTATGTTGAGGTTGATGGTTTCACTACTGGTGAT
-GTAGGTAAAAACGGTTTTTATAAAGTTACTGTTGATGCTGATGGTAAAGCGACTATGGCTGCCTCTACTACGATGGAGGC
-TGCGAAACCAGCTGGCGCTGTCGAAGTGACTAAGACTCAAACAGAAACACCAGTTAAACTAAGCGCAGCACTTAAAAAAT
-CGTTGACTGATGGTGGTGTTGACACTGCTGCTGCAGGTACTGCCCAAATTGTCAAAATGTCTTATACCGATAAAAACGGT
-AAGACGATTGATGGCGGTTACGCTGTAAAAGTGGGCGATAACTACTATGCCGCTACCCAGAAAAAAGATGGTAGCTTTAG
-TGTTAACACCACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCCTGAACCAACTTGGTGGCGCAGACGGTAAAA
-CCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTG
-GCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTC
-TGACTTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCAC
-GTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGGACT
-TCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fliC_l,v_Salmonella.enterica_IIIb.38:l,v:z54_AY353445_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACCATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGTGAGGCTGTTAA
-AAGCGGCGGTGGGGCAACACTAAGTACCACTGGTCTTAATGATGCAGCTCTTAAAACGGGTGTTGGTGGTGCAACAAGCG
-GTACTGCTGCCATTAAAGATAATAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTGCTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGTACTGTTACAATGCCGGCAACCACGAA
-AGTGGCAGGTGGTATGCCAGCAACGGCGGCGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACTGAAGTTA
-AAGCTCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTCACAATGTCTTATACTGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTGATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GATCAGCATTAACACCACTAAATATACCGATAAAGACGGCAATACTAAATCCGCACTAAACCAACTGGGTGGCGCAGACG
-GCAAAACCGAAGTTGTTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCT
-GATCTGGCGGAAGCGGCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCACTGGCACAGGTTGACACGTT
-ACGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCA
-GGGACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_c_Salmonella.enterica_Choleraesuis_AY353365_other.c__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACTCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTAGATACGCTGAATGTGCAGAAAAAATATGATGTGAGCGATACTGCTGTAGC
-TGCTTCCTATTCCGACTCGAAACAGAATATTGCTGTTCCTGATAAAACAGCTATTACTGCAAAAATTGGTGCAGCAACCA
-GTGGTGGTGCTGGTATAAAAGCAGATATTAGCTTTAAAGATGGCAAGTATTACGCGACTGTCAGTGGATACGATGATGCC
-GCAGATACAGATAAAAATGGAACCTATGAAGTCACTGTTGCCGCAGATACAGGAGCAGTTACTTTTGCGACTACACCAAC
-AGTGGTTGACTTACCAACTGATGCAAAAGCAGTTTCAAAAGTTCAACAGAATGATACTGAAATAGCAGCAACAAATGCGA
-AAGCTGCATTAAAAGCTGCAGGAGTTGCAGATGCAGAAGCTGATACAGCTACTTTAGTGAAAATGTCTTATACAGATAAT
-AATGGCAAAGTTATTGATGGTGGGTTCGCATTTAAGACCTCCGGTGGTTATTATGCAGCATCTGTTGATAAATCTGGCGC
-AGCTAGCTTGAAAGTTACTAGCTACGTTGACGCTACCACTGGTACCGAAAAAACTGCTGCGAATAAATTAGGTGGCGCAG
-ACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGGCACAACTTCAAAGCACAG
-CCAGAGCTGGCGGAAGCGGCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGC
-GCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_f,g_Salmonella.enterica_Adelaide_SRR1068324__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTGCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATCCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-GTCCAGCTTCAAGAATGTTACGGGGTATGATACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGAATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGACCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGCAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCGGCGAATGTT
-GATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_z39_Salmonella.enterica_IIIb.40:z39:1,6_AY353350_other.z39__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGCCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGATGGTAGTGGTGGTAAGACATTAAATATTAGTGGTCTTGATGCTGCTGCAATTAAAACCGCTGTTGGAGGGACACCAA
-CTGGTACTGGCGAAATTAAGGATAATAAGGTTTATCACAATAGTACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAATGGCTTCTATGAGGTAGATGCAAATCCTGCTGATGGTACAGTTACATTTGCTACCGGTGCTACGAA
-AATAACGGCTAAACCTGCTGATGTTGAAGAGGTTACAACTGTCCAATCAAAACCTATAGCTCTCAGTGCTGAGGTTAAAA
-CACAATTAACTGCTAATGGAGTTAGCACAGCGGCCGCTGATAAAGGCCAATTGGTCACAATGTCTTATACAGATAAAAAT
-GGTAAGACTATTGATGGTGGCTTCGGTGTTAAAGTTGGCGCTGATATTTATGCTGCAACTAAGAATAAAGATGGCTCTTT
-TAGTATCAATACCACGAAATATACTGATAAAGACGGTAATACCCAAACTACACTGAATAAACTTGGTGGCGTTGATGGTA
-AAACTGAAGTTGTTTCGATTGAAGGTAAAACCTACACCGCAGCGAAAGCAAAAGATCATAATTTCAAAGCCGATCCTGAT
-CTAGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCTGCG
-TTCCGATCTGGGTGCGGTACAGAACCGTTTCAATTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAGGCCGGT
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_l,w_Salmonella.enterica_Gloucester_AY353332_l,v__1503
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACCCTCAATACTGCTGGTCTTAATGATACAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAACG
-GTACTGCTGCAATTAAGGATGGTAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTAGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCACGAA
-AGTGGCAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGGCACAACTTCAAAGCACAGCCA
-GAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCT
-GCGCTCTGACCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTG
-AAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_l,z13,z28_Salmonella.enterica_Poano_AY353333_l,v__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAAACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTTTCTGGCCAGACCCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTCGGCGCTAACGACGGTGAAACCATTGATATCGATCTG
-AAACAGATCAACTCGCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAGGCAGTTAA
-AAGCGGCGGTGGGACAACACTCAGTACCACTGGTCTTGATGATGCAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAAGATGGTAAAGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAATGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCGCTGC
-GAAAGTGACAGGTGGCATACCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAG
-TTAAAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAG
-ACGGTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAG
-CCAGAGCTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,5_Bareilly_CFSAN000189__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCTATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACTTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCGATAATGGTACTACACTGGATGTATCGGGTCTTACTGATGCAGCTATTAAAACGGCTACGGGTG
-GTACGACTGGTACGGCTGCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->O:22-gene2__1023
-TTCCTTATGACAAATGTTGCATTCATTATCACAAAATCTGAAATCGGCGGTGCTCAAACTTGGGTAAATGAGATAGCTAA
-ACTTATAGAACAGGATTGCAAAGTATTTCTCATAACATCCGAGTATGGATGGTTAACTCAATGTAGTGTTTTTTCTGAGG
-TTTATATAATTCCAGGGATAAAAAAATATTTTGATGTTATTGCATATATAAAATTAATTAAGTTTATAAAAAAAAATAAC
-ATTAAATCTATAGTGGCTAGTTCTGCAAATGCGGGGGTTTATTCTAGACTTGCCAGATTAACGTGCTCTTTTAAATGTAT
-TTACGTTTCACATGGGTGGTCATGCTTATATAATGGTGGTCGGCTAAAAAGTATATTTTGCAAAATAGAAAAATACCTTT
-CCAAATTAACGGATGTCATCTGGTGTATTTCTGAAAGTGATAGAGAAAAAGCTATAAAAAAAATAGGAATTGATGAGGGT
-AAGATTATTACAGCTACGAATGCTGTTCCACCCATGCCTGCTCGTTTAAAAGAGTGTTTGGAATATAAAATTTTGTTTGT
-TGGTAGATTGACACATCCTAAGCGCCCATGTTTATTGGCCCAAGTGATATCAAAAAAACCGCAATATAAGCTGGATATTG
-TTGGAGGGGGAGAACAGTTAGAATCTCTCAAAGCCCAGTTCAAGGATTTTAAAAATATTCGTTTTTTAGGTGAAATAAAA
-GGTTTTTCTGCTTATAAAGATTATGATATTTTTGCTCTTATATCCGATAGTGAGGGTTTGCCCATGTCGGGAATTGAGGC
-TCATACTGCAGGTGTTCCCCTCCTTCTCAGTGATGTTGGAGGATGCCATGAGTTAATCGAGAAGAATGGAGTTTTGGTAG
-AAAATATTGAAAGAGACATTGAGCTTAGTATAGATAGAATTTTTGAAAGATATGATTTTTTCCATACGCAAGCTGTCCTT
-TCTGCTGATAGGTTTGTTATTGATAATTATATTCAATTATATAAAGAAATTATTTTGAATTAA
->fliC_b_Salmonella.enterica_Urbana_No-upload-yet_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGACAGGCAATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTACAGGATGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAGAGATGTTACTACCTATAAAGATGGTGGTACTACTCTTGCAGCACCTGACGCAGCAGCAATTGATGCCGCCTTAGGTA
-CGACTGGTGCGTCGGGTACTGCGGCTGTGAAATTTAAAGACGGTAACTACTTCGTTGAGGTGACCGGTACAACTAAAAAT
-GGTCTGTATGAAGCGACAGTTGATGCAGCTGGCGCGGTGACCATGACCGCAAATAAAGCAACAGTAACTGGTGCCGGCAC
-AGTTACCAAAAACCAAGTTGTAGACGCTGTTACTCCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGACAGGGGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCA
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAAACTGGTGAGATAAAAGCTAAAACTGT
-AAATTATACTGACGCTACTGGTGCGGCAAAAACCGGTGCTGTGAAATTTGGCGGTGCGAATGGTAAAACTGAAGTTGTGA
-CCACCGTTGATGGTAATACTTATCAGGCTAGTGATGTAAAAGGACATAATTTCCAGAGTGGTGGCGCTTTAAGCGAGGCT
-GTAACTACTAAAACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGACTTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCTGGTACTTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z81_Salmonella.bongori_66:z81:-_AY353260_other.z81__1485
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGCAC
-TGCTATCGAACGTCTGTCTTCCGGTCTGCGTATCAACAGCGCAAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGTT
-TTACCGCCAACATCAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCGGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTTTCCGGCCAGACCCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTCGGCGCTAACGACGGTGAAACCATCGATATCGATCTG
-AAACAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAAAATATGATGTGAAGAGCGAGGTTGCCAC
-GCCAACAGCAAAACTGGATATTTCAGGCTTGGATGGCGCTGCGCTAAAAACGGGGACGGGTTCTACTGGTGATACTGGTT
-CTATCAAAGATGGCAAAGTTTATTATGATGGAACAGATTATTACGCAGAAATTACTTTCACCGATACTGCTGATCAAACA
-GCGAAAGGTGGTTATTACAAAGTCAACGTTGATGATGCAACCGGTGCTGTTACTATGACAGCATCAACAACTAAAGAAAC
-GACAACCCCAACAGGTATTACTGCAGTGGCTCAGGTTCAGAAGCCTGTAGCAGCGCCATCAGCTATCCAGGATCAGTTGA
-CAGCGGCAAGTGTTGCTAATGCTGACAAAGCAGAAATGGTCAAAATGTCTTATACCGATAAAAATGGTAAGACTATTGAT
-GGCGGTTACGCTGTAAAAGTGGGGGACGATTACTACGCTGCTACTCAGAAAAAAGACGGTAGCTTTACCATTAACACCAC
-TTCTTACACGGATAAAGATGGTAATACGCAAACTGCACTCAATAAATTAGGCGGCGTTGACGGAAAAACTGAAGTTGTTT
-CGATTGAAGGTAAAACCTACACCGCAGCTAAAGCAAAAGATCATAATTTCAAAGCTGATCCTGATCTGGCGGAAGCGGCT
-ACTACAACCACCGAAAACCCGCTGCAGAAAATCGATGCTGCGCTGGCACAGGTGGATGCGCTGCGTTCTGACCTGGGTGC
-GGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCG
-AAGATTCCGACTATGCGACTGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAGGCAGGGACCTCCGTTCTGGCA
-CAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_b_Salmonella.enterica_IIIb.6,14:b:e,n,x,z15_AY353362_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAGGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTACAGGATGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAGAGATGTTACCACCTATAAAAATGGTGGTACTACTCTTACAGCACCTAACGCAGCAGCAATTGATACCGCTTTAGGTA
-CGACTGGTGCGGCGGGTACTGCGGCAGTGAAATTTAAAGACGGTAACTACTTCGTTGAGGTGACCGGTACAGCTAAAGAT
-GGTCTGTATGAAGCGACAGTTGATACAGCTGGCGCGGTGACAATGACCGCAAATAAAGCAACAGTAACTGGGGCTAGCAC
-AGTTACCGAAAACCAAATTGTAGACGCTGTTACACCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGACAGGTGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCG
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAAACTGGTGAGATAAAAGCTAAAACTGT
-TAATTATACTGACGCTACTGGTGCAGCAAAAACTGGTGCTGTGAAATTTGGTGGTGCGAATGGTAAGACTGAAGTTGTGA
-CCACAGTTGATGGTAATACTTATCAAGCTAGTGATGTTAAAGGACATAATTTCCAGAGTGGCGGCGCTTTAAGCGAGGCT
-GTAACTACTAAAACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGACTTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTA
-TCGAAGATTCTGATTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_l,z13,z28_Salmonella.enterica_Lutetia_AY353334_l,v__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATTGATATCGATCTG
-AAACAGATCAACTCGCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAGGCAGTTAA
-AAGCGGCGGTGGGACAACACTCAGTACCACTGGTCTTGATGATGCAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAAGATGGTAAAGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAATGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCGCTGC
-GAAAGTGACAGGTGGCATACCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAG
-TTAAAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAG
-ACGGTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAG
-CCAGAGCTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_z35_Salmonella.enterica_Kolar_AY353341_other.z35__1488
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGACAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAATACCCTGACCATCCAGGTTGGTGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCATATGATGTGAAGAGTGAAGCTGTCAC
-GCCTCCGGCAAAACTTGATATTTCAGGATTAACTGGAACTGCAATTAAAACTGGTGTTGATGGTGCTACGGTTGATACAG
-GCTCCATTAAAGATGGCAAAGTTTATTATAATAGTACCTCTAAGGACTATTACGTAGAAGTTGATTTTGGTACATCAGCC
-GATGCTGCTAAGAGTGGTTACTATAAAGTCAACGTTGCTGATGATGGTACAGTCTCAATGGCAGCTTCTACCACTAAAGA
-GGGTACAACTCCTACTGGTATTACTGAAGTTACTCAGGTTCAAAAACCTGTAGCTGCTCCAGCCGCTATTCAGGCTCAGT
-TGACAGCTGCTCATGTGACTGGAGCTGATACTGCTGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTACGCTGTAAAAGTGGGGGATGACTACTACGCCGCTACCCAGAAAAAAGACGGTAGTTTCAGTGTAAATAC
-TACTTCTTACACTGATAAAGACGGCAATACTAAAACCGCACTGAACCAACTTGGCGGCGTAGACGGAAAAACCGAAGTCG
-TTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCGGGTCATGATTTCAAAGCACAGCCAGAGCTGGCGGAAGCA
-GCCGCTAAAACCACCGAAAACCCACTGCAAAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGATCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACTGAAGTTTCTAACATGTCTCGCGCGCAGATTCTGCAACAGGCCGGTACTTCCGTTCTG
-GCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_II.56:e,n,x:1,7_AY353314_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACGGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACAGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTACCACGA
-AAAAAGCTTTACAAGATGGAGGCGTTTCATCTGCGGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACGGTGGCTAACCAACTGGGGGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCATGATTTTAAAGCACAG
-CCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGTTCCGATCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,5_Choleraesuis_CP007639_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCACAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATACAGCTATCAAAGCGGCTATAGGTG
-GTACGACTGGTACGGCTGCTGTAACCGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCAGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_e,n,x,z15_Salmonella.enterica_Verity_AY353311_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAATCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTACGTATCAATAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAATAACCTGCAGCGTGTACGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATACAGGTTGGCGCGAACGACGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTAAAGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACCGTAGGTGGTTATACCGAT
-ACGGGGGATGCTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTACCACGA
-AGAAAGCCTTACAAGATGGAGGCGTCTCATCTACAGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAACGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAG
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACTTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGGACTTCCGTTCTGGCGCAGGCAAACCAGGTCCCGCAGAACGTGCTGTCTTTGTTACGTTAA
->O-48_wzy__1194
-GTGATTATAAAGAAGAATAAATTTGTTTATTCGGTACTTAAAGTCTGGTTAATAGTCTCTTCATTGTATTATTTAAATGC
-TATTTTTTCCGGTGTTGATGCGTTAAAATATAATGAAGATTTGACGCAAAAGTTCATCAAATATGCAATATGTTTTATAA
-TAAGTTTTTTTATTCTGTTCAATAGTAAACGAGTCAAATTTTTGGGGGCTTCGTTATTTTTCATAATCCTTTCGGTAGCT
-TCAGTAGTTATTGGTAATGTAGTAACGGTATATGCTACCGCGATGCTGATAATTGCTACCATGGTTGGTTTCAGCCAAAT
-TATTCTTTATTTTTCTAATGATATGTCGAAGATTAATATGGTTTTATTATGGACTGGAATTATAATAGGCGCCATTTCTG
-TATTAGAATTAACAGTATTCTACGATTATATGGTCTCATATTGGGTTTCGACTGGTGGAGTCCGATCAATATCTTCTCTT
-CTTAATCCTACAAATAGCGGGGCTTATTCAGCGATTATAATTTTAATTGCTTTAGGGACTAATATAAGGAGTAAATTTAA
-GAGAACTTTATTTGCTTTAATGCCAATGATTACTTTAATCAGCAGCGGATCACGTACAGCATGGTTATCATTAGCATTAA
-CATTATTATTGACGGTATTATTAAATGATAAGGCTAGTATACGATTACGGAAAAAAATATTAGCTATTGCAGGTATTGGA
-GCTATTTGTGGTGTGTTATATGTAGCATTTTATATGAGTAGTATCTCTGGTATTCAATCCCAACATCGAGGGCTTGATAC
-ATATACCGCATCAATTCGAGTTGAAAACTTTATAACATATATGAATTCAATTGATTTTGATATGTTATTACCTGATTTCC
-TTGATAAAAATATTAACCTTATATCAGATAATTTTTATCTAGTGTTATTAAATTATTTTGGAATTATTGGGGGTTATATT
-GTTTTTTTTATTTCAGTATTATTATTCTATTATAATATGCAAACAAAGGATTTTGATAAAAATATAGATGAAAGTATTTC
-TGTTTGGAGAGTGATATTCATCTATTTTCTGATATCTGGACTTTCAAACTCATTCATAAATTCTTTTCCTGTAAACCAAC
-TATTTTTTATCTCATGCGGGTATTATGTGTATAAATATAACTTAATAAAGAAAAATGCTGGAAAGCAAATATGA
->O-48_wzy-from-2013K-0909__1194
-TCATATTTACTTTCCAGCATTTTTCTTTATTAGTTTATATTTATATACATAATACCCACATGATATAAAAAATAGTTGGT
-TTACAGGAAAAGAACTTATGAATGAGTTTGAAAGACCAGATATCAAAAAATAGATAAATATCACTCTCCAAATAGCAATA
-TCTTCATCTATAACTTCACTAAAATATTTTATTTGTGCATTATAATAGAACAGTAACATTGAGATTAAAAAGAAAATATA
-AAACCCAATAATCCCAAAATAATTCACTAATACCAGATAAAAATTATCTGATATAAGGTTAATATTTTTATCAAGAAAAT
-CAGGAAATAACATACCAAGGTCAATTGAGTTTATATATGTCATAAAGTTCTCAACTCGAATTGACGCGGTATATGTATCA
-AGCCCTCGATATTGTGATTGTATATTAGAGATACTACTCATATAAAATACTGCATATAGCACACCACAAATAGCTCCAAC
-ACCTGCAATAGCTAATATTTTTTTCCGTAATCGCATGCTAGCCTTATCATTTAAGAGAACCGTCAGTAATAATGTTAGCG
-CCAATGATAACCATGCTGTGCGTGATCCACTACTGATTAAAGTAATCATTGGCATTAAAACAAACAAAGTTTTCTTAAAT
-TTATTCCTTATATTAGTTGCTAAAGCAATTAATATTATGATTGCTGAATAAGCCCCGCTATTTGTAGGATTAAGAAGAGA
-AGATATTGATCGTATTCCACCAGTCGAAGTCCAATATGAGACCATATAATCGTAGAACACCGTCAATTCTAACACGGAAA
-TTGTGCCTACAATAACTCCCGTCCATAATAAAACCATATTAATCTTCGACATATCATTGGAAAGATAAACAATAATTTGG
-CTAAAACCAAGCATGGTAGCAATTATCAGCATCGTGGTTGCATATACCGTCACTACATTACTAATAATTACTGAAGATAC
-TGAAAGGAGTATGAAAAATAACGAAGCCCACAGATATTTGACTCTTCTATTATTGAACAGAACAAGAAAACTTATTATAA
-AACAAATTGCATACTTGATGAACTTTTGCGTTAAATCTTCATTATATTTTAATGCATCCACACCGGAAAAAATAGCATTA
-AGATAATATAATGAAGAGACTATTAACCAGACTTTAAGTAACGAATAAACAAATTTATTCTTCTTTATAATCAC
->O-1,3,19_not_in_3,10__130
-acgagaagtactgaataataattgtatcaaatagcctgcgtaaaatctgaacgcatcaatcgctaccttaatatcatacc
-tttgagttaacatactattcacctttaacctgccatgaccgtttgtggca
->fliC_d_from-II-48:d:z6_SRR1168371__1521
-TTAACGCAGTAAAGAGAGGACGTTTTGCGGAACCTGGTTAGCCTGCGCCAGAACGGAGGTACCGGCCTGCTGCAGAATCT
-GCGCGCGAGACATGTTGGAGACTTCGGTCGCGTAGTCGGAATCTTCGATACGGCTACGGGCAGAAGACAGGTTGTTTACA
-GTATTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTCTGTACCGCACCCAGATCGGAACGTAATGTGTCAACCTGCGC
-CAGCGCAGCATCAATTTTCTGCAGCGGGTTTTCGGTCTTATCTGTATTCACCTCTTTAAGATCGCCGCCTGTCCTGAAAT
-TATGTTTATCAAGATCACTTGCCAGGTAAGTTTTACCATCGGTAGCAGTAACCACTTCAGATTTACCATTTGCGCCACCA
-AATTTCACAGCTCCAGTTTGAGCAGCGCCAGTACTATCTGTATAAGAAGCAGTTTTAGCAGTAATTGTACCTGTTTTCTC
-ATCATAGGTAGCGGCATAGAAATCGTCGCCCATTTTCACTGCATAGCCACCATCAATAACCTTACCGTTTTTATCCTCAA
-ACGATAGTTTTACAAGGCTGGTATTGTCCTTATCGGCACCAGTTACACCCGCAGCAGCAAGTTGAGCCGCAACTGCGGTT
-GTATCAGCATCACCTTTTGTTATTTCAGCAACCTGGTTATTAGTTATGGTAGCTGTTGCCTGAATATCTGTAGCAGCCGC
-ACCTGTTAACGGAGTTGTATCAGTTGTATCTATACTAACTTTCTTGGTAGCTTCATCATAAGTCGCTTTATAAACGCCAG
-CAGAAGCACCACCTTTAACATCTAAATAGTATTGACCATCTTTAAATTTGATATCAGCCCCAGTGACACCCGTCGCACCA
-CCACCAATCGCAGTTTGGATATCCGTATTGCTCTGGGCTGTGATAGTATCTGTACCATTTTTATAGGTAGTCCTATCAAC
-TGTTACAGCAGTTTCTTTAGGTGTGTAAGCATCCTGTACATTAAGTTTATCAAGTCCCAGCGTTTTAGAGCTAATTTCTT
-TTAGATCAATATCAATAGTTTCACCATCGTTGGCGCCAACCTGGATGGTCAGGGTGTTGTCCTGCGCCAGAACTTTCACG
-CCGTTGAACTGAGTCTGGCCGGATACACGGTCGATTTCGTTCAGACGCTGGGTGATTTCAGCCTGGATGGAGTCAAGGTC
-AGACTGGGAGTTGGTACCGTTAGCAGACTGAACCGCCAGTTCACGCACACGCTGCAGGTTGTTGTTGATTTCGTTCAGCG
-CGCCTTCAGTGGTCTGCGCAATAGAAATACCGTCGTTAGCGTTACGGGAAGCCTGCGTCAGACCTTTAATGTTCGCGGTG
-AAACGGTTAGCAATCGCCTGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCGGAAGACAGACGCTCGATAGC
-GGTGCCCAGTGCGGACTGGGATTTGTTCAGGTTATTCTGGGTCAACAGCGACAGGCTGTTTGTATTAATGACTTGTGCCA
-T
->O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002
-ATGAAGGTGTCATTTTGTATCCCAACGTATAATCGAGTAAAATTCATTGAAGAGCTTCTTGAAAGTATTAATAATCAGTC
-CTCTCACTCCTTAACGGTAGAAGTATGCATTTCAGATAATGCATCAACTGATGGAACTGAAGAATCAATAAATATCTGGA
-GAGGTAGATTTAATTTTCCAATATTGTATCAAAGGCATAACGAGAATATTGGGCCGGATAGGAATTATTTATCTGCAGTT
-AATATGGGGACTGGGGATTATTGTTGGATTTTCGGAAGTGATGATATTCTTACAAAAAACTCCCTCGTATTGATGGAAGA
-TAAATTGGCTAACGAAAGTGACATTTATTTATGTGACAGACGAGAATTAGATATTTCAATGACGAGGATATGTAATCCAC
-ATCGGCGATGGTTAAGCGGTGGTAGTAGATTATTTTCTTTTAGCAATGAAGCCGATTTGATAGAGTACTTTAGTAAATGT
-AACTCAGTTGGCGGACTTTTTAGCTATTTAAGCTCTATTATAGTGAAAAGGGATAAATGGTCTGACGTCATATTTGACGA
-ATCCTACATTGGTACAGCTTATGCGCATGTATATATTTTATTAAGAATAATTAACAATATGAATTCGACCCTACAATACA
-TATCACTGCCGCTGGTTGATTGCAGAGGCGATAACGATACATTCGAAACTAATGGGAAGGCTCGTCGAATAAAAATAGAT
-TTCATCGGCTATTTAAAACTAAGGGAGGATTTTTATGATAAAAATACAAAAATATATAGCTCATTTGGGCGGGTTCTTAC
-AAAAGAGCGCCCTTGGTTTTATACTTCTTTAGCTATGGCATGTTATGGTGATTCCACAGACAGAGCTGAACTTGCATCCT
-TTTATAAGAGGTTGGGCTATCCGGAAATAGCCACTAATTTTATATTTCGTCTTAAAGGACTGGCTAGCTACGCTAAAAGA
-ATTAAATTAGCTAAAATGGTAATAAAAAAAATATTTTCATAG
->fliC_z_Salmonella.enterica_Poona_AY353467_k,z__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGCACGGATATTAAAACTGGCGTTGATGGAGCTACCACTACGAGTG
-GCTCCATTAAAGATGGCAAAGTATACTATGATGGTGCTACTAAAAATTATTATGTTGAAGTAGACTTTTCTGATGCCGCT
-GATACTGCTAAAAATGGCTACTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCCTCGACTACTAAAGA
-ACCTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCGTCTGCTGAGGTGAAAG
-CTGCTTTGACTGCTGGTGGTGTCGATGCTGCTGATGTAGCTACGGCAGAAATGGTCAAAATGTCTTATACCGATAAAAAC
-GGTAAGACGATTGATGGTGGTTATGCTGTAAAAGTAGGCGATAGCTACTATGCCGCTACCCAGAAAAAAGACGGTAGTTT
-CAGTGTTAATACTACTTCTTACACTGATAAAGACGGCAACACTAAATCTGCACTGAACCAACTGGGTGGCGTAGACGGTA
-AAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGCAGCCGCTAAAACCACCGAAAATCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCG
-TTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCTGGT
-ACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z36_Salmonella.enterica_Potosi_AY353482_z36,z38__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCAAACTCTGACTC
-TGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATTGCTACAACAGTTAAAGAAGGTAC
-GAAGCTCACTGCCGATTTTGCAGTTAAGGTCGCAGATTTTGATGATCAAGCAACAACTGGTAAATTAACTGCAGACTTAG
-AATTGAAGCAGGATAAATCCGGAAACTACTTTGCCTTCGATAAAGCAAACAGTAAATATTACGACGCAACTGTGGATGCT
-GCTACAGGTAAAATAGAATTTACTTCTGGGACAGGTAAAGAGACAACGAAAGATACATCTAAACTTACGGATGTTACTTC
-TTTGTCCAAAGAAGTAACGATAGATAGTGGGCTCACGGATGATAAATTATTAGTAAAATACAAAGGGGATGATGGTAAAG
-AACAGTATGCCGTTCAAACTCTTGATAATAAAGGTAATGCGACCTATAAGACTGCCGTTATAGCGCGTGACGGCAAAGTG
-ACAGAGGGTACTGCCGTAGCCTTAGCTGCAAACGTCGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGACGC
-TTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAGTCTGCCATAACTAACCTGGGCAACACGGTAAATAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_r_Salmonella.enterica_Rubislaw_AY353458_r,i__1482
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCTGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCTGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCT
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTACGCGACCGAGGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAG
-GCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_f,g_Salmonella.enterica_Derby_AY353381_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAGGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCTACAGTGGGTGATCTGAA
-GTCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGTAGCACCGAATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGACCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGCGGCGAATGTT
-GATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAAGGCGAAAGTAAAATTACAGTAAACGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGGTCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,m,s,t_Salmonella.enterica_II.43:g,m,s,t:z42_AY353397_g,m__1515
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGGTACGATACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCTGCAAACGGTCAGTTGACAACTGATGATGCGCAA
-AATAACACTGCAGTTGATCTATTCAAGACCACTAAATCTACTGCTGGTACCGATGATGCCAAAGCGATAGCTAATGTCAT
-TAAGGGTGGTAAAGAGGGAGATACCTTTGATTATAAAGGCGTATCTTTTACTATTGATACAAAAACTGGTAATGATGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGGCGGTGGTGGTAGTGTTAAT
-GATGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAAAAA
-TGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGTGAAAGTAAGATTACAGTAAATGGGGCTGAAT
-ATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTTAGT
-ACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTCAAA
-AGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGGTAA
-CCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAGATT
-CTGCAGCAGGCTGGTACCTCTGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,5_from-cdc_Stk2184_1__1521
-TTAACGTAACAGCGACAGCACGTTTTGCGGGACCTGGTTAGCCTGCGCCAGAACGGAAGTACCGGCCTGTTGCAGAATCT
-GCGCGCGAGACATGTTGGAAACTTCAGTCGCATAGTCGGAATCTTCGATACGGCTACGCGCTTCAGACAGGTTGTTTACA
-GTATTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTCTGTACCGCACCCAGATCAGAACGCAGCGCATCCACCTGCGC
-CAGCGCGGCATCAATTTTCTGCAGTGGGTTTTCGGTGGTTTTAGCGGCTGCTTCCGCCAGCTCTGGCTGTGCTTTGAAAT
-CATGACCCGCGGCTTTGCTGGCATTATAGGTTTTACCGTCGATAGTAACGACTTCGGTTTTTCCGTCTACGCCGCCAAGT
-TGGTTAGCCGCAGTTTTGGTAGTACCGTCAGCAGCAGTATAACTTGTGGTTTTAGCTTTAATGGCTCCTGTCGCTTCATC
-GTAATCTGCGGCGTAATACTTATCACCAGCTTTAAGCGCATAACCGCCTTCAATTGTCTTACCATTTTTATCGGTATAAG
-ACATTTTGACCAACTCAGCGCCATTAGCATCGGTAGCGTCAACGCCGCCAGCGATTAAGGCATTTTTAGCATCGGCTGAT
-ACAACTGCCGGTGTATCTTTTAATTCCTGCACTTCTGTTTTGGTTGCAGCACCAGCAGGCATTGTGGTTTTAGTTGCGCC
-AGCCGCAAGGGTTACTGTACCGTCAGTAGCAACGTTAACTTCATAATCGCCATTTTTGGCGGCATCAGCACCAGTAAAGC
-CACCAATAGTAACAAAGTACTTGTTATTATCTGCGTCAAATTTAACCGCACCACCGGTTACAGCAGCCGTACCAGTCGTA
-CCACCCGTAGCCGTTTTAATAGCTGCATCAGTAAGACCCGATACATCCAGTGTAGTACCATTATCGGCATAAGCTTTCGT
-TGTTACTGCTGTATCTTTCACATCATACGCTTTCTGCACGTTCAGTGAATCCAGACCCAGGGTCTGAGAGTTGATCTGCT
-TCAGATCGATATCGATAGTTTCACCGTCGTTGGCACCAACCTGGATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACG
-CCGTTGAACTGGGTCTGGCCGGATACACGGTCGATTTCGTTCAGACGCTGGGTGATTTCAGCCTGGATGGAGTCAAGGTC
-AGACTGGGAGTTGGTGCTGTTAGCAGACTGAACTGCCAGTTCACGCACGCGCTGCAGGTTGTTGTTGATTTCGTTCAGCG
-CGCCTTCAGTGGTCTGCGCAATAGAAATACCGTCGTTAGCGTTACGGGAAGCCTGAGTCAGACCTTTAATGTTCGCGGTG
-AAACGGTTAGCAATCGCCTGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCAGAAGACAGACGCTCGATAGC
-GGTGCCCAGTGCGGACTGGGATTTGTTCAGGTTATTCTGAGTCAGCAGCGACAGACTGTTAGTGTTGATTACTTGTGCCA
-T
->fljB_1,2,7_Salmonella.enterica_Eingedi_AY353276_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAAACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGATGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTGCACCTAGTGTAACTGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTTACACTTGCTAC
-GGGTGCAACTAAAACCACAATGCCTGCTGGTGCGGCAACTAAAACAGAAGTACAGGAGTTAAAATATACACCAGCAGTTG
-TTTCAACAGATGCTAAGAATGCCTTAATCGCTGGCGGCGTGGACGCTACCAATGCTAATGGCGCCGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_k_Salmonella.enterica_IIIb.50:k:z_AY353538_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATGCGCTGAATGTGCAGAAAGCTTATGATGTAGATAGCAAACCAGCGCA
-GAGCATTAAACTGGATACCAGTGCTCTTACTGCTACTGCAATTAAAGATGGTGTAACTGGTGCATCGACAGATGGTGCCC
-TAAAAGACGGTAAAGTTTACTCTAATGGCACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGATTCTGCTAAA
-AGTGGTTTCCTTAAAGTAGATGTTGATTCCGCTACTGGTGCAGTTACCGTTCCGGGTACGGCAGCAACAGCAGCTGCAAC
-TAAACCTGCCGGTGTGAAAGAGGTTACAGAAGTACAAGGTAAAATCCCAGCATCTACTGCTATTCAAGACCAATTGAAAG
-CAGGCGGTGTGACTACTGCAGATGCAGCTACTGCTGAAGTTGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTATGCTGTAAAAGTAGGCAATGACTACTACGCCGCTACTCAGAAAAAAGATGGTAGCTTTAGTGTTAACAC
-TACGTCTTACACTGCAGATGACGGTACATCCAAAACTGCACTGAACCAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCCGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z39_Salmonella.enterica_IIIb.6,7:z39:1,2_AY353491_other.z39__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAGGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTGGATAATGAGGTTGTTAC
-TGATGGTAGTGGTGGTAAGGCACTAAATATTAGTGGTCTTGATGATGCTACGATTAAAACCGCCGTCGGGGGGACACCAA
-CTGGTACTGGTGTAATTAAAGATAACAAGGTTTATCACAATAGCACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAATGGTTTCTATGAGGTAGATGCAAATCCTACTGATGGTACAGTTACATTTGCTGCCGGTGCTACGAA
-AATAACGGCTAAACCAGCTGGTGTTGAAGAAGTTACAACCGTACAATCAAAACCTGTAGCTCTCAGCGCTGATGTTAAAA
-CACAATTAACTAATAATGGTGTTAGCACAGCGGACGCTGATAAAGGCCAATTAGTCACAATGTCTTACACTGATAAAAAC
-GGTAAGACTATTGATGGCGGTTTAGGTGTTAAAGTTGGAGCCGATATTTATGCTGCAACAAAAAATAAAGATGGCTCTAT
-CAGTATTAACACCACAAAATATACAGATAAAGACGGTAATACTCAAACTGCACTGAATAAACTTGGTGGGGTTGATGGTA
-AAACTGAAGTGGTTACTATTGATAGTAAAACCTATGCAGCTGCTAAAGCTAAAGATCATAACTTCAAAGCTGATCCTGAC
-CTAGCGTTGGTAGCTACTGATACCACTGAAAACCCGCTGCAGAAAATCGATGCCGCGCTGGCGCAGGTTGATGCGCTGCG
-TTCCGACTTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTGAACAACCTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,m,t_Salmonella.enterica_II.6,8:g,m,t:1,7_AY353537_g,m__1515
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTGGGTGCTAACGATGGTGAATCTATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTGACGGGGTACGATACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGCAGCAGCCCCGGATAAAGTATATGTAAATGCTGCAAACGGTCAGTTGACAACTGATGATGCGCAA
-AATAACACTGCAGTTGATCTATTCAAGACCACTAAATCTACTGCTGGTACCGATGACGCCAAAGCGATAGCTAATGTCAT
-TAAGGGTGGTAAAGAGGGAGATACCTTTGATTATAAAGGCGTATCTTTTACTATTGATACAAAAGCTGGTAATGATGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGGCGGTGGTGGTAGTGTTAAT
-GATGCTACCTTACAATCAAGCAGAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAAAAA
-TGAGAGTGCGAAACTTTCTGATTTGGAAGCAAATAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTGAAT
-ATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTTAGT
-ACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTCAAA
-AGTGGACGCAGTTCGTTCTTCGCTGGGGGCAATTCAGAACCGCTTTGATTCTGCCATTACCAACCTTGGTAATACGGTAA
-ATAACTTATCTTCTGCCCGTAGTCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAGATT
-CTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-54_wbbF__1380
-ATGAATGATTATATAATTGACATAGTGGAATATGTTTTATATGTGCTTGTAACTGCCATGACATGGTATTTGTTTGCCCT
-GTCTTCCTATTCCATTTTTTTGAGTGTATTTGGGTTTGCTAAAAATAAAAAAGACTATCCTGACTGTCCTCCTGAAGCCC
-GCTTTCTAATTCTTGTGGCTGCGCATAATGAAGAGGCTGTGATTGGCTCAACACTTATTAATCTTAAGAATATTCAATAT
-GATAAAAAACTCTTTGATATAGTAGTGGTTAATGATAATTCCACTGATCGGACAGGACTTATCTGTGATAGTCATGAAGT
-AAAGCATGTGGATACTATAGAAGGCGAGTTTGAACGTGAAGGTGTGGGCAAACCAGCTGGTATTCAGTACGCTCTGCGCA
-AGCTTGGATTTGAAACTGTTAAAGAAAATTATGATTTGGTCATGGTGTTGGATGCCGACAATTTTGTTGATGCGAATATC
-CTTACTGAGCTTAATTCTCAATGGATATCAAAGGACAAGCCGGAAGCTATACAGGCGTATCTGGATTGTAAAAACTCAAC
-ATCTCTTCTCTCTTTTGGCTACTGTACATCATACTGGATGATGAATCGATTTTTCCAATTATCAAAATATCGCTTAGGTC
-TACCTAATGCAATTGGCGGAACAGGATTTGTAGTGTCCAGTAACTTTCTGATAAATACTGGAGGATTTTGTTTTAAATCT
-CTGACCGAGGACATTGAACTGGAAATTGAAATTGTGCGCAAGCGTGGTCGTGTACTATGGAATCACAATGTACGAGTCTA
-TGATGAAAAGCCAGACAATCTAAGAATAAGCCTCAAACAACGCTATCGCTGGTCAAAGGGACACTGGTATGTGGCTTTTA
-CTAACTTTTTTAACTTGTTCAAGTTGACCTTTGTTGAGCGTAAGTGGAAATATGTAGATCAATTGTTATATCTGTTCTCT
-ATGGGCCGTGCTTTCGAGGTTTGTATTATTTTCATCAATATCTTTCTATTAAGTCTTCTTAAAGAAAATTACCATCCAGA
-GATTGGAAATATTTCTACGGCGATAAAAGATCTTACTGTGACCAATATGAGTTTTGCCGACAGCGTGAGTGCGCAGTTTA
-GCTCAATAAATTGGATTAGAGTTATTACTAATATTAATATCGTCACATTAATATCCATCTGTTATGGTATGCTGATTTTA
-CCTATTTATGGTGCATGGATGGATAAAGGTATTTTCCTTAATCCATTCAGGGTATTTTTTTCCGGTCTTTATTTTGGATT
-GTCGTTTGTGTTTGTTCAGTTTTTGGCTCTTTTTCGTTGGAAAAAACAGCATAAATGGGTAGTTACGCCGCATAATAAAA
-TAAAGGAAGAGCACAAATGA
->fljB_1,2_Salmonella.enterica_1,4,5,12:i:1,2,7_AY353272_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTTCGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATA
-CCGTAAACAATCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,5_Salmonella.enterica_Bovismorbificans_AY353283_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAAACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGACAGCTTATGCCGATAATGGTACTACACTGGATGTATCGGGTCTTACTGATGCAGCTATTAAAACGGCTACGGGTG
-GTACGACTGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGG
-GGCTTTAGTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGTAACAACTAAAACAGAAGTACAGGAGTTAACAACTACACCGGTAGTTG
-CTTCAGCAGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGCCGCTACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_z35_Salmonella.enterica_IIIb.38:k:z35_AY353262_other.z35__1488
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTTTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-ACCTCCGGCAAAACTTGATATTGCAGGATTAACTGGAACTGCAATTAAAACGGGCGTTGATAGCGCTACGGTTGATACTG
-GCTCCATTAAAGATGGCAAAGTTTATTATAATAGTACCTCTAAGAACTATTACGTAGAGGTTGATTTTGGTACATCAGCC
-GATGCTGCTAAGAGTGGTTACTATAAAGTCAATGTTGCTGATGATGGTACAGTCTCAATGACAGCTTCTACCACTAAAGA
-GGCTACAACTCCTACTGGTATTACTGAAGTTACTCAGGTTCAAAAACCTGTAGCCGCTCCAGCCGCTATTCAGGCTCAGT
-TGACAGCTGCCCATGTGACCGGAGCTGATACTGCTGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTACGCTGTAAAAGTGGGTGATGACTACTACGCCGCTACCCAGAAAAAAGATGGTAGCTTTAGTATTAACAC
-CACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCCTGAACCAACTTGGTGGCGCAGACGGTAAAACCGAAGTCG
-TTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCTGAAGCA
-GCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCACGTAGCCGTA
-TCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fliC_g,m,t_Salmonella.enterica_II.28:g,m,t:e,n,x_AY353536_g,m__1515
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTGGGTGCTAACGATGGTGAATCTATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGGTACGATACCTATGCAGCTGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGCAGCAGCCCCGGATAAAGTATATGTAAATGCTGCAAACGGTCAGTTGACAACTGATGATGCGCAA
-AATAACACTGCAGTTGATCTATTCAAGACCACTAAATCTACTGCTGGTACCGATGACGCCAAAGCGATAGCTAATGTCAT
-TAAGGGTGGTAAAGAGGGAGATACCTTTGATTATAAAGGCGTATCTTTTACTATTGATACAAAAAATGGTAATGATGGTA
-ATGGTACTGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCGGTGGTGGTAGTGTTAAT
-GATGCTACCTTACAATCAAGCAGAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAAAAA
-TGAGAGTGCGAAACTTTCTGATTTGGAAGCAAATAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTGAAT
-ATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTTAGT
-ACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTCAAA
-AGTGGACGCAGTTCGTTCTTCGCTGGGGGCAATTCAGAACCGCTTTGATTCTGCCATTACCAACCTTGGTAATACGGTAA
-ATAACTTATCTTCTGCCCGTAGTCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAGATT
-CTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_d_Muenchenstr_AOYT01000015_b,d,j__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTTGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATTGATATTGATTTA
-AAAGAAATTAGCTCTAAAACACTGGGACTTGATAAGCTTAATGTCCAAGATGCCTACACCCCGAAAGAAACTGCTGTAAC
-CGTTGATAAAACTACCTATAAAAATGGTACAGATACTATTACAGCCCAGAGCAATACTGATATCCAAACTGCAATTGGCG
-GTGGTGCAACGGGGGTTACTGGGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGCGGTGCTTCT
-GCTGGTGTTTATAAAGCCACTTATGATGAAACTACAAAGAAAGTTAATATTGATACGACTGATAAAACTCCGTTAGCAAC
-TGCGGAAGCTACAGCTATTCGGGGAACGGCCACTATAACCCACAACCAAATTGCTGAAGTAACAAAAGAGGGTGTTGATA
-CGACCACAGTTGCGGCTCAACTTGCTGCTGCAGGGGTTACTGGTGCCGATAAGGACAATACTAGCCTTGTAAAACTATCG
-TTTGAGGATAAAAACGGTAAGGTTATTGATGGTGGCTATGCACTGAAAATGGGCGACGATTTCTATGCCGCTACATATGA
-TGAGAAAACAGGTACAATTACTGCTAAAACAACCACTTATACAGATGGTGCTGGCGTTGCTCAAACTGGAGCTGTGAAAT
-TTGGTGGCGCAAATGGTAAATCTGAAGTTGTTACTGCTACCGATGGTAAAACTTACTTAGCAAGCGACCTTGACAAACAT
-AACTTCAGAACAGGCGGTGAGCTTAAAGAGGTTAATACAGATAAGACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->oafA-O-4_full__332
-TCATCATCAGAGTTCAACTTTTTGCTTCACACCTGGTCACTATCAGTTGAGTGGCAATTTTATATTTTATATCCTTTATT
-AGTCATTATAGTTAAAAAATTACGGTTTCCTGTTGGACTCTCATTATCTGTAATTTTAGCCATGTCACTTGCAATTACAC
-TTATGCGAGTGACTGGAACCAAAGAAGATATTTTCTATCTTATCCCTACCAGGGCATGGGAAATGCTGGCTGGCGGCCTT
-GTATACATAGCATCTGTACGTTACAAAATGCCAGAATGGATAAAGCATTGTGAGGTTTATGGGATAGTCCTCATTGTTGT
-TGCTGTTGTTAT
->fljB_z6_from-II-48:d:z6_SRR1168371__1503
-TTAACGTAACAGAGACAGCACGTTCTGCGGGACCTGGTTAGCCTGCGCCAGAACGGAAGTACCGGCCTGCTGCAGGATCT
-GCGCACGAGACATGTTGGAAACTTCGGTCGCATAGTCAGAATCTTCGATACGGCTACGCGCTTCAGACAAGTTGTTTACG
-GTATTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTCTGTACCGCACCCAGATCGGAACGCAGCGCATCCACCTGCGC
-CAGCGCGGCATCAATTTTCTGCAGCGGGTTTTCGGTGGTTTTAGCGGCTGCTTCAGCCAGCTCTGGCTGTGCTTTGAAAT
-CATGACCAGCGGCTTTGCTGGCATTGTAGGTTTTACCGTCGATAGTAACGACTTCGGTTTTACCGTCTACGCCACCCAGT
-TGGTTCAGGGCAGTTTTGGTAGAACCATCAGCTGCAGTGTAAGACGTGGTGTTAACACTAAAGCTACCATCTTTGTTCTG
-GGTAGCGGCATAATAGTTATCGCCCACTTTTACAGCGTAACCGCCATCAATCGTCTTACCGTTTTTATCGGTATAAGACA
-TTTTAACAACTTGGGCAGCAGCAATTTCTGGATCTGTAACCCCGCCAGATTTGAGAGAAGTTTTGAGATCTGCTGATAAC
-GGTAATGGATTTTTTTCTTCCTGAGTTTTTGTTACTTCTACCGCACCAGCTGGTTTACCCGTCTCCATAGCCGTACCAGC
-GGTCATAGATACCTTACCATCATCGGCGACATTTACTTTATAGAAACCATTTTTACCATCATCAGGGGTAGTCAGGCCAG
-TAACTTCAACGTAGTAGTTTTTGCTAGCACTATCATAATAAACTTTGCCATCTTTTATTGCTGCAGTACCTGTTGTAGCA
-CCAGTCCCTGTTTTAAGGGCCGCGTCTTTATTAAGATCAGTAATATCTAAATTAGCAGCTACTGTCATAGCTTTGCTATC
-TACATCATACGCTTTCTGCACGTTCAGTGAATCCAGGCCCAGGGTCTGAGAGTTAATCTGCTTCAGATCGATATCGATAG
-TTTCACCGTCGTTCGCGCCAACCTGAATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACGCCGTTGAACTGAGTCTGG
-CCGGATACACGGTCGATTTCGTTCAGACGCTGGGTGATTTCAGCCTGGATGGAGTCGAGGTCAGACTGGGAGTTGGTGCT
-GTTAGCAGACTGAACCGCCAGTTCACGCACACGCTGCAGGTTATTGTTGATTTCGTTCAGCGCGCCTTCAGTGGTCTGCG
-CAATAGAAATACCGTCGTTAGCGTTACGGGAAGCCTGAGTCAGGCCTTTGATGTTCGCGGTGAAACGGTTAGCAATCGCC
-TGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCGGAAGACAGACGCTCGATAGCGGTGCCCAGTGCGGACTG
-GGATTTGTTCAGGTTATTCTGGGTCAGCAGCGACAGACTGTTAGTGTTGATTACTTGTGCCAT
->fljB_z39_Salmonella.enterica_II.52:z39:1,5,7_AY353347_other.z39__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGCCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAATAACCTGCAGCGTGTACGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGATGGTAGTGGTGGTAAGACATTAAATATTAGTGGTCTTGATGCTGCTGCAATTAAAACCGCTGTTGGAGGGACACCAA
-CTGGTACTGGCGAAATTAAGGATAATAAGGTTTATCACAATAGTACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAATGGCTTCTATGAGGTAGATGCAAATCCTGCTGATGGTACAGTTACATTTGCTACCGGTGCTACGAA
-AATAACGGCTAAACCTGCTGATGTTGAAGAGGTTACAACTGTCCAATCAAAACCTATAGCTCTCAGTGCTGAGGTTAAAA
-CACAATTAACTGCTAATGGAGTTAGCACAGCGGCCGCTGATAAAGGCCAATTGGTCACAATGTCTTATACAGATAAAAAT
-GGTAAGACTATTGATGGTGGCTTCGGTGTTAAAGTTGGCGCTGATATTTATGCTGCAACTAAGAATAAAGATGGCTCTTT
-TAGTATCAATACCACGAAATATACTGATAAAGACGGTAATACCCAAACTACACTGAATAAACTTGGTGGCATTGATGGTA
-AAACTGAAGTTGTTTCGATTGAAGGTAAAACCTACACCGCAGCGAAAGCAAAAGATCATAATTTCAAAGCCGATCCTGAT
-CTAGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCTGCG
-TTCCGATCTGGGTGCGGTACAGAACCGTTTCAATTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAGGCCGGT
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_II.9,46:e,n,x:1,5,7_AY353316_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATTCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGATGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACGGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACAGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTACCACGA
-AAAAAGCTTTACAAGATGGAGGCGTTTCATCTGCGGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACGGTGGCTAACCAACTGGGGGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCATGATTTTAAAGCACAG
-CCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGTTCCGATCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_II.9,12:lw:enx_AY353320_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-TGCTATCGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGATGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACGGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACAGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-AACTAAATCTACGGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCGGCAGATGCTACCACGA
-AAAAAGCCTTACAAGATGGAGGTGTTTCATCTGCGGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACGGTGGCTAACCAACTGGGGGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCATGATTTTAAAGCACAG
-CCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGTTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACTTGGGCAATACCGTAAACAACTTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAG
-GCCGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fliC_g,m,s,t_Salmonella.enterica_II.50:.g,m,s,t:1,5_AY353396_g,m__1515
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGGTACGATACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTGACAACTGATGATGCGCAA
-AATAACACTGCAGTTGATCTATTCAAGACCACTAAATCTGCTGCTGGTACCGATGACGCCAAAGCGATAGCTAATGTCAT
-TAAGGGTGGTAAAGAGGGAGATACCTTTGATTATAAAGGCGTATCTTTTACTATTGATACAAAAACTGGTAATGATGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCGGTGGTGGTAGTGTTAAT
-GATGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAAAAA
-TGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTGAAT
-ATACTGCTAACGCCACGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTTAGT
-ACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTCAAA
-AGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGGTAA
-CCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAGATT
-CTGCAGCAGGCTGGTACCTCTGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,m_Salmonella.enterica_Enteritidis_AY353398_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCGCTAGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,m,s_Salmonella.enterica_Montevideo_AY353392_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTATGACACCTATGCAGCGGGTGCCAATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAATGGTCAGTTGACAACTGACGATGCGGAA
-AATAACACTGCGGTTAACCTATTCAAGACGACTAAATCTGCTGCTGGTACCGATGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCATTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-58_wzy__1263
-GTGTATTTAACAAATAATTATTGTAATTTCCTTTTTCGCACTCGTATTGTTAGGCGCATATTTTTACTAGTTTACTTGGT
-TTCTAATGTTTATGCTTATATGGTGCTTACTGATACAGGGTTATTGATTGGCGATTATCAAGGAATACTCATTAAGTATA
-AAGAACAAGTTGCATATTTGTTAACGCTAACTATATTATCATATTATATTGTCTGTGGACCAGTGTTTTCCTGTATAGCA
-AAGATAAAAGTTAAGTTGTCTACAATTAAAGGCTTAAATTCTTTTGCTTATTTATTGCTTTTTTTTCAGGTGTTATTTTT
-TGCTTTTAATATTTCAACAGGTTCCAACACTGCGGGTACTGATTTCCAAACTGGTGGGTTTATAAGACTATTATGGCTTT
-TTTTACCTGTCGATTATTTATTCTATATATATTATTTTGTTGGAAGAGAGACTAAAGTAAATAAAATATATCTGGTCAAT
-GTAATCGTTTTTATTCTGTCGATGTTAAGTCGGGGGTGGCTCGGCTGGACTTTAGTTTTGCTTTATGCAGAGCTTTGTTT
-CTTTTTTTGTTCGCAAAAATCCATCAAAAATAAAAAAATTAACTATTTGATCTTATTGTGTTTCTTTCTTATTGTTGCGC
-CATTGGTATTTAGTCTGAAAGTGCAACTCCGTGCTGATTTGTATTTCAGTGGTATTGGTGGGGTGGTATCAACTTTAAGT
-AATATTGATTACATTCAATCTTATAATAATTTTATCGCTAGTTTTTTATCCCGAATACAGCAGCTATCAAATGTTGTTTT
-CTTTTATGACCATAAACAAGAATTGTATAAATTTGTTTCTTCGGAAATTGTATCAACCTATGCTTGGGAAGGCTTACCTC
-AACAAACAGTAGCAAAATTGTTAGGATTAGCTCCAGGTGTTGACATGCATGTTTTTCTTTACAGTCATTACATTTCTTCA
-TCTGCTGAAGCTGTAACTACATTGCAAGTTGGCTTCATTTCATGGTTCTTTTTAGATACACTATCATCTGTATTTTATCC
-GTTGTACGTTCTGATTATCATTGGATTATCTTTATTTTTATCCAAAAAAATCGGTGGAGAAAAACTATGTGCGCTTACAT
-GGATTATGATTTTTCTTTCTGTCATGTGCGGGTGGTACAATGCTTATCTGGTTTATCTGCAGGCATTAATTACGTTTTAC
-TTTATCATGGGGTTATTGACTTTAATTACTCAAGAAAAAGCAAAGGGTAATCATAATGGGTAA
->O-61_wzy__1326
-GTGACTATTTATTATATTAAATGCTATTTAGGGGGATGTGTGATTTATCGGTTTGCTATTTTAATAGTCATTGTTATATT
-AGGTATTATTTCTATTGCAACAGCTTATGCCATTGGCGCACCAACTTCTATATTTTTTTATATTTTTTATATTGTATTGT
-TTATTTTTTATCCCCCTAAATATGTAATATCACCACTCACGATCCTTTATGTTTACTATGGCTTATGGTTCTTATTAGCT
-CCACTTTTTGCTCAGCGTTATGTGGGTATTAACAACGAGTTATCTTATTCATATTCTTTTATTTTGCTTTCGGTTACTTT
-TGGTATTGGCGTAATATTTCTTTATGATAAAAAAGATTTTAGACATTTTTCAGATTCTACAATTAGCAGTAAAAATGTTC
-GGATACCATCCAAAAAAACACTGTTACTCTTATTTTTAATATCAACCTTATTTGTTATATTGATTGTGGCAAATTCTGGC
-GGAATTGATAAATGGATTCATTCGCCCGGTGATGCTTTTCTGAATCGCAGCGGTTCAGGGGTATATGTTGTTGGTAGTCA
-TTTTTCATCATTAGCATTAGCTGCACTCTGTGGCTACCATGCTTTCGTTACCCGTCAAAAAAAGATCTTGTGCTTATTTT
-TATTATGGTTGTTGCTGACATCCCCTGTGCATGGAAGTAAGTTTCAAATTTCGCTTTTATTAATTATGTCGTTACTTCCA
-TGGTTAAAGGAATTACGTTTCTATAGTAGGGGAACTTTGATCTTAGGGATAGCTCTTCTCGGGATCCTGTTTCTTGGGCT
-TTATTTTCGCAATATATCTTGGATGACATGGCATGATCTAGTTCCCTACACTCTAAATTACTTTGACACGCTTGATAACT
-TAGCGCTGTCTTTGAAGGAATTATCTCCTGCATTAAATAAAACATTTTTTATGCCTTTTAATAAATTGCTTACTCCTTTC
-GGAAATGATGGCGGTATCATATTTTACGATATGAGTCAGTGGCTAACTTCGATCTACGATCCTGACGCATGGAAAATAAG
-AGCAACAATACAGTTTCCTGTTGAAACTGACATGTATCTTAATTTTTATTTTTATCTTGGAATTCCTATATTAATGTCTT
-TTTTCTTTTTTATTGCAAGGATATATTCAGCAGCTCATAGTAAACAACATTTGGGTGCATGGTTTGCGGCAATGCTAATG
-ACATTATTTATGATTTCACATTTGCGGGGTAGCATTTATAACCATACTGATTTTTATATGTATCCCTATATTGCAGTGAT
-GTTCTTCCTTTTCAGGAAGTATAAATTTCCATCGAAACGGATGTGA
->fliC_z4,z23,z32_Salmonella.enterica_IIIa.13,23:z4,z23,z32:-_AY353500_z4,z23__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATTGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCAAAGATGCAAAAACCGGCGGTCCGGCTGCGGATAAATTAT
-CTCTGACACAAGATGATAAAGGCAATTACTTTGTCAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTAGAT
-ACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAACCCT
-ATCACGCGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAGATGATAAGGGTAAAG
-ATCTCTATGCTATCCAAACGTTAGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAAACT
-ACGGAGGGCGCTGCCGTAGCCTTAGCTGCAAACGTCGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACTGTTGACGC
-ATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATAACTAACCTGGGCAACACGGTAAATAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCACAGATTCTGCAGCAG
-GCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_z52_Salmonella.enterica_IIIb.65:z52:z35_AY353517_l,v__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGTTGTTAC
-TGATGGTAGTGGTGGTAAGGCATTTGATCTCACCGCGCTTAATGATACTAACCTTAAGGCTGCAGTTGGTGGGACTCCTG
-CTCCGACAGGAACCGCTGTAGTAAAAGATGATAAAGTATATTATAACAGCGCTGACGATAAATATTTCGTCGAGATTGAT
-GGGCTAAGTAGTGGTAATGGCTTCTATGAAGTTAGCGCAAATGCAACAACTGGTGCTCTTACAATTGGTGCAGGGTTAAC
-AACGGCTGGCGCAACGGTACCGGCGGGTGCTGAAGAAGTTACATCTGTGCAGTCAAAACCCGTAGCTCTCAGTGCTGATG
-TTAAAAAACAATTGACTGATAGTGGCGTTAGCGTAGCGGACGCTGGTAAAGGCCGATTAGTCACAATGTCTTATACTGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTGATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGATCAGCATTAACACCACTAAATATACCGATAAAGACGGCAATACTAAATCTGCACTAAACAAACTGGGTGGCGCAG
-ACGGCAAAACCGAAGTTGTTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAG
-CCCGATCTGGCGGAAGCGGCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCAGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,z28_Salmonella.enterica_Javiana_AY353454_l,v__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTTTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAGGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAGTACCACTGGTCTTGATGATACAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAAGATGGTAAAGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAATTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAATGTTGCAGATGATGGTACTGTTACAATGCCGGCAACCGCCGC
-GAAAGTGACAGGTGGCATACCAGCCACGGCGACTGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAG
-TTAAAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAG
-ACGGTAAAACTGAAGTTGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTTAAAGCACAG
-CCAGAGCTGGCTGAAGCGGCTGCTGCAACCACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATCCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCACAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_IIIb.21:i:e,n,x,z15_AY353431_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCAATACTGCGATTGCTTTAAACAATGGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACAG
-ACCAGCAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TGCAGGTGGATTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCCAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCCGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCTAACATGTCTCGTGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,z13_Salmonella.enterica_Kenya_AY353449_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAGTACCACTGGTCTTGATGATGCAGCTCTTAAAACGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAGGATGGTAAAGTCTTCTTTGATGCAACTGATAATAAATATTTCATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGGCAACTACGAA
-AGTGGCAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACGAAAAATAAAGATGGTTC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCTCTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCACAACTTTAAAGCACAGCCT
-GATCTGGCGGAAGCGGCTGCTACAACTACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTT
-GCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACTGTAAACAACCTGACTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_I.8,20:z4,z23:-_AY353544_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTAAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACTGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAACAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGTTACTGCGACGGCTAAATACTATGCAGCTACCGTA
-GATATGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAGCTGCGGGGACTCCGTCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTGAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGACTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_IIIa.41:z4,z23:-_AY353547_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTCAATAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGGGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAAC
-CCTATCACGCGAAGTGAAATTTGATGGAGCAGATTTAAAAGCCGATCAATCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACTTTGGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAA
-ACTACGGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAAATAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z41_Salmonella.enterica_Ottawa_AY353510_k,z__1491
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCGAACGACGGTGAAACCATCGATATTGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTCGATAGCAAAGCTGTTAC
-TGCAACTCTTGATCTGGATGTGACAGATCTTGATACTAATGCTTTGAAAACCGCAACTGGGATCAGTGCAGGTAATCCTG
-CTGTTAAAGACGATAAAGTTTATTATGACAGCGCAAATAATAATTATTATGTAGAGGTTGAGGGCTTTACTGATAATACG
-AAAGATGGTTTCTACAAAGTTCAGGTTGGTGATGATGGCAAAGTGTCAATGGCCACAACTACCAATAAAGAAACAGCTAC
-TCCTCCCGGAATTGTTGAAGTAAGTAAAACTCATGATGAGAAAGCTCTTAAAGCTTCTGCAGAGGTTAAAGCAGCTCTGA
-TTGCTGGAGATATTGATACTGCTGATGCAGATGCTGCTGAAATGGTCAAAATGTCTTATACCGATAAAAATGGTAAGACG
-ATTGATGGTGGTTATGCTGTAAAAGTAGGCGATAACTACTATGCCGCTACCCAGAAAAAAGACGGTAGTTTCAGTGTTAA
-TACTACTTCTTACACTGATAAAGACGGCAATACTAAATCCGCACTGAACCAACTGGGTGGTGCAGACGGTAAAACCGAAG
-TCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCACAACTTCAAAGCACAGCCTGATCTGGCGGAA
-GCGGCTACTGCAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAAGTTGATGCGCTGCGTTCTGACCT
-GGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGTCTGAAGCGCGTAGCC
-GTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTT
-CTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z24_Salmonella.enterica_Romanby_AY353503_z4,z23__1281
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAAGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACAACGGGTGGCCCCGCAGCAGATAAAT
-TATCTTTGGTAAAAGATGATAAAGGAAATTACCTTGTTAAAGATGTTACTGTCACTGCTACTCCTAAATATTATGCCGCT
-ACCGTAGATAATAGTACTGGGGAAATTAGCTTTGATTCGGCTAAAGAAGTTACTTTAGCTGGTGGTGCACCAGCTCCGAG
-TACGGTTGATACTTTGTCGCGTGAAGTGAAATTTGATGGAGCAAATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAG
-ATGATAAGGGTAAAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCC
-GCGGACGGTAAAACAACAGAGGGTACTACCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCT
-TAAAACCGTTGACGCTTTCCGTAGCCAATTGGGGGCGGTGCAGAACCGTTTTGAATCTGCTATCACTAACCTGGGCAACA
-CCGTCAACAACCTGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->fliC_z4,z32_Salmonella.enterica_IV.44:z4z32:-_AY353506_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCAAACGACGGTATTTCCATTGCGCAGACGACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCGAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACTGATTTTAACG
-GTAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGTTCTGGAGC
-CTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACAACGGGTGGCCCCGCAGCAGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGTTACTGCGACGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGTCTCCGTCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,z15_from-Chailey_SRR1049702_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAGGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGTTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_Tiergarten_AY353315_e__1506
-ATGGCACAAGTAATCAACACTAACAGTTTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACGGATATTAAAGCTGCATTAGGCAACCCGA
-CGGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAGAATGGTAAATATGAAGTTACCGTTGATAGTACTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCAGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTATCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAGGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fliC_d_Muenchenstr_ARYX01000110_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTTGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTAAAGTCCTGGCGCAGG
-ACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATTGATATTGATTTAAAAGAAATTAGCTCTAAAACA
-CTGGGACTTGATAAGCTTAATGTCCAGGATGCCTACACCCCGAAAGAAACTGCTGTAACCGTTGATAAAACTACCTATAA
-AAATGGTACAGATACTATTACAGCCCAGAGCAATACTGATATCCAAACTGCAATTGGCGGTGGTGCAACGGGGGTTACTG
-GGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGCGGTGCTTCTGCTGGTGTTTATAAAGCCACT
-TATGATGAAACTACAAAGAAAGTTAATATTGATACGACTGATAAAACTCCGTTAGCAACTGCGGAAGCTACAGCTATTCG
-GGGAACGGCCACTATAACCCACAACCAAATTGCTGAAGTAACAAAAGAGGGTGTTGATACGACCACAGTTGCGGCTCAAC
-TTGCTGCTGCAGGGGTTACTGGTGCCGATAAGGACAATACTAGCCTTGTAAAACTATCGTTTGAGGATAAAAACGGTAAG
-GTTATTGATGGTGGCTATGCAGTGAAAATGGGCGACGATTTCTATGCCGCTACATATGATGAGAAAACAGGTACAATTAC
-TGCTAAAACAACCACTTATACAGATGGTGCTGGCGTTGCTCAAACTGGAGCTGTGAAATTTGGTGGCGCAAATGGTAAAT
-CTGAAGTTGTTACTGCTACCGATGGTAAAACTTACTTAGCAAGCGACCTTGACAAACATAACTTCAGAACAGGCGGTGAG
-CTTAAAGAGGTTAATACAGATAAGACTGAAAACCCACTGCAGAAAATTGATGCTGCCTTGGCACAGGTTGATACACTTCG
-TTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_i_Kentuckystr_AOYZ01000062_r,i__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCTATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGAAACT
-GGTAAAAATGGCTATTATGAAGTTTCCGTTAATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z10_Mbandakastr_AOYR01000081_other.z10__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAGCACTGGCGTTAC
-TCAATCTCTTGATTTAAAAACTGCTGGAATTACTGGTGCTACATTAAAAGCTGGTATTACTGGTACAACGACAGAAACCG
-GTAGCGTTAAAGATGGTAAAGTCTACTATGATGCAGATAGCAAAAATTACTATGTAGAGGTTGATTTTACTGATACTACG
-GATAAAGCAGCGCATGCTGGTTTCTACAAAGCTGACGTCGATGCTGACGGTAATGTTTCTTTAGCAACTGGTGCGACTAA
-AGAAGCAAAACCAACGAATGCAGTTGAAGTTGAAAAAACTATTGATGAAAAACCGCTGAAAGCATCAAGTAGTGTTCAGG
-ATGCCTTAAAAGCGAGTGGTATTGCTGATGCGGTTGCAGAAGCTGCGACGGTAGTGAAAATGTCGTACACTGATAAGAAT
-GGTAAAACTATTGATGGTGGATACGGTATTAAAGTAGGTGATGACTACTATGCTGCAACTAAAGAAAAAGACGGCAGCTA
-TAGTATTAATAGTACTTCTTATACCGATAAAGACGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGTA
-AAACTGAAGTTGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAGCCTGAT
-CTGGCGGAAGCGGCTGCTACAACTACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCTGCG
-TTCTGACCTGGGGGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_l,z13,z28_Salmonella.enterica_Fallowfield_AY353453_l,v__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAGGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAGTACCACTGGTCTTGATGATGCAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAAGATGGTAAGGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAATGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCGCCGC
-GAAAGTGACAGGTGGCATACCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAG
-TTAAAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAG
-ACGGTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAG
-CCAGAGCTGGCTGAAGCTGCTGCTACAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z29_Salmonella.enterica_IIIa.41:z29:-_AY353478_other.z29__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAGGGT
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTACGTGAGTTGACTGTTCAGGCAACTAATGGGACAAACTCTGATAG
-CGACCTGACCTCTATTCAAAATGAAATCACACAACGTTTGAGTGAAATTGATCGTGTCTCTGGTCAAACTCAATTTAACG
-GCGTGAAAGTGCTGGCCCAAGACAATACGCTGAAAATTCAAGTAGGAGCCAACGACGGCGAAACCATTTCTATTGATCTT
-AAGAAAATTGACTCAAAAAGTCTTGGAATGGATGGCTTTAACGTCAATGGCGCACACAAAGCAACAGGAAGTGATTTAAT
-TTCTCAATTTGGTGCTACAGGTACTGATAATTATAACGTTACCAAAGGGGCTACTACCACTACTTATTCGGTAGACATTA
-AATCTGGCGCTGTTACTACTGGTACACCAGCTGAAGCTGTCTTTGTTAACGCGGCTGATGGTAGCTTGACAACTGATGCT
-ACTACCAAAAACACTGAAATTAATGGTAACGATGACTTTACAAAGGGACTTGCAGACGCAGCAAAAGGCGCTGTTAAAGA
-TTCTACATTTACCTACAGTGGCATCGAATTTACTGCTAAGACTGCTGGTACAGCAGATGGTAATGGTACTTTTGAAGCGA
-AAATTGATGGTACAGTAATTTCCTTTGAAATTACTGGTGGTACAACACCTTCCTCCGCAGTAACTGGAGCTGGTGGTGCA
-AAAGCTTATGTTTCTAAAATTGATGGTAGTATTACGACAACAGCTGAAGTCGATAACCGTGCTGCGAAAATGTCCGATTT
-GGATTTAAACAACGCGGTTAAAATAGGTAGTACATTAAATGTTAACGGTGCTACCTATAATGTTAATGCTAAAGGTGATG
-AAGTTACTGGTAAGTTTGATAATGGTGCAGGCGGACTGGTTGATAAACAAGTATTCTTGGGAAAAACCGCTGGCGGAGCT
-GCAACATTAATTAATGAGGATGCTGCTAAATCCCAACAATCTACCGTAGATCCGTTGAAAACTATTGATGATGCACTTGC
-TCAGGTTGATGCGCTTCGCTCCGATTTGGGCGCAGTACAGAACCGCTTTGATTCTGCCATTACCAACCTTGGTAATACGG
-TAAATAACTTATCTTCTGCCCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_k_Salmonella.enterica_IIIb.50:k:z53_AY353440_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGMTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACCATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATGCGCTGAATGTGCAGAAAGCTTATGATGTAGATAGCAAACCAGCGCA
-GAGCATTAAACTGGATACCAGTGCTCTTACTGCTACTGCAATTAAAGATGGTGTAACTGGTGCATCGACAGATGGTGCCC
-TAAAAGACGGTAAAGTTTACTCTAATGGCACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGATACTGCTAAA
-GGTGGTTTCCTTAAAGTAGATGTTGATTCCGCTACTGGTGCAGTTACCGTTCCGGGTACGGCAGCAACAGCAGCTGCAAC
-TAAACCTGCCGGTGTGAAAGAGGTTACAGAAGTACAAGGTAAAATCCCAGCATCTACTGCTATTCAAGACCAATTGAAAG
-CAGGCGGTGTGACTACTGCAGATGCAGCTACTGCTGAAGTTGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTATGCTGTAAAAGTAGGCAATGACTACTACGCCGCTACTCAGAAAAAAGATGGTAGCTTTAGTGTTAACAC
-TACGTCTTACACTGCAGATGACGGTACATCCAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,p,s_Salmonella.enterica_Naestved_AY353401_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGTAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTGCTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCATTGGCGCGGCGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,z51_Salmonella.enterica_IIIa.45:g,z51:-_AY353414_g,m__1515
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTTTGTCCTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATCAAAGGACTGACTCAGGCTTCCCGTAATGCGAACGACGGTATCTCCATTGCGCAGACCACCGAAGGG
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATTCAGGATGAAATTCAGCAGCGCTTATCGGAAATTGACCGTGTTTCTAACCAGACTCAGTTTAACG
-GTGTTAAAGTCCTGTCTCAGGATAATCAGATGAAAATTCAGGTGGGCGCTAACGATGGCGAGACTATTACCATTGATCTA
-CAAAAAATTGATGTGAAAAGTCTTGGTCTGGATGGGTTCAACGTGAATGGGCCTAAACAAGCAACCGCTGGGGATTTGAA
-ATCTAATTTCAAAAACGTTACTGGTTATGATACGTATGCTGTTGGTGCTGATAGTTATCGTGTAGATATTAATTCTGGAG
-CAGTAACTGATGATGCTGGTACCGATAAGATTTACGTAAACGCAGCAAACGGTAAACTCACAACTGATGATGCACAGAAT
-AACACCGCAGTTGATCTATTTAAGACAACAAAATCATCAGCCGGTACAGCTGAATCTAAAGCAATTGCTACCGCTATTAA
-AGGTGGTAAAGAAGGAGATACTTTTGATTATAAAGGTGTTTCTTTTACCATTGATACAAAGAATGGCACTGACGGTAATG
-GTACAGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTGACTGTCGCTGACATTACCACGGGTGCGGCAGACGTTAAT
-GCGGCAACCTTACAATCAAGTAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACCTTTGATGATAAAACGAAAAA
-CGAAGGTGCGAAATTATCTGATTTAGAAGCAAATAATGCTGTTAAAGGTGAAAGTAAAATCACGGTAAACGGTGCTGAAT
-ATACAGCTAACGCTGAGGGTGATAAAATTACCTTAGCAGGTAAAACCATGTTTATTGATAAGACAGCCTCTGGCGTTAGC
-ACATTAATTAATGAAGATGCTGCTGCAGCTAAGAAGAGTACCGCTAATCCACTCGCTTCAATTGATTCTGCATTGTCAAA
-AGTGGATGCTGTACGTTCTTCATTGGGGGCTATTCAGAACCGTTTTGATTCTGCCATTACCAACTTGGGTAATACGGTAA
-ATAATCTGACTTCCGCACGTAGCCGTATCGAAGATGCTGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATT
-CTGCAGCAGGCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_Gera_AY353498_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGCGGCGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGACTCCGCCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGACTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACTTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23,z32_Salmonella.enterica_IIIa.56:z4,z23,z32:-_AY353501_z4,z23__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATTGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCAAAGATGCAAAAACCGGCGGTCCGGCTGCGGATAAATTAT
-CTCTGACACAAGATGATAAAGGCAATTACTTTGTCAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTAGAT
-ACGACACCGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAACCCT
-ATCACGCGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAGATGATAAGGGTAAAG
-ATCTCTATGCTATCCAAACGTTAGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAAACT
-ACGGAGGGCGCTGCCGTAGCCTTAGCTGCAAACGTCGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACTGTTGACGC
-ATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATAACTAACCTGGGCAACACGGTAAATAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCACAGATTCTGCAGCAG
-GCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_z36,z38_Salmonella.enterica_IV.43:z36,z38:-_AY353486_z36,z38__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCAAACGACGGTATTTCCATTGCGCAGACGACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCAAACTCTGACTC
-TGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATTACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATTGCTACAACAGTTAAAGAAGGTAC
-GAAGCTCACTGCCGATTTTGCAGTTAAGGTCGCAGATTTTGATGATAAAGCAACAACTGGTAAATTAACTGCAAACTTAG
-AATTGAAGCAGGATAAATCCGGAAATTATTTTGCCTACGATAAAACAGCCAGTAAATACTATGATGCGACTGTAGATACT
-GCTACAGGTAAAATAGAATTTACTTCTGGGGCAGGTAAAGAGACAACGAAAGATACATCTAAACTTACGGATGTTACTTC
-TTTGTCCAAAGAAGTAACGATAGATAGTGGGCTCACGGATGATAAATCATTAGTAAAATACAAAGGGGATGATGGTAAAG
-AACAGTATGCCGTTCAAACTCTTGATAATAAAGGTAATGCGACCTATAAGACTGCCGTTATAGCGCGTGACGGCAAAGTG
-ACAGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGACGC
-TTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z29_Salmonella.enterica_IIIa.62:z29:-_AY353479_other.z29__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAGGGT
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTACGTGAGTTGACTGTTCAGGCAACTAATGGGACAAACTCTGATAG
-CGACCTGACCTCTATTCAAAATGAAATCACACAACGTTTGAGTGAAATTGATCGTGTCTCTGGTCAAACTCAATTTAACG
-GCGTGAAAGTGCTGGCCCAAGACAATACGCTGAAAATTCAAGTAGGAGCCAACGACGGCGAAACCATTTCTATTGATCTT
-AAGAAAATTGACTCAAAAAGTCTTGGAATGGATGGCTTTAACGTCAATGGCGCACACAAAGCAACAGGAAGTGATTTAAT
-TTCTCAATTTGGTGCTACAGGTACTGATAATTATAACGTTACCAAAGGGGCTACTACCACTACTTATTCGGTAGACATTA
-AATCTGGCGCTGTTACTACTGGTACACCAGCTGAAGCTGTCTTTGTTAACGCGGCTGATGGTAGCTTGACAACTGATGCT
-ACTACCAAAAACACTGAAATTAATGGTAACGATGACTTTACAAAGGGACTTGCAGACGCAGCAAAAGGCGCTGTTAAAGA
-TTCTACATTTACCTACAGTGGCATCGAATTTACTGCTAAGACTGCTGGTACAGCAGATGGTAATGGTACTTTTGAAGCGA
-AAATTGATGGTACAGTAATTTCCTTTGAAATTACTGGTGGTACAACACCTTCCTCCGCAGTAACTGGAGCTGGTGGTGCA
-AAAGCTTATGTTTCTAAAATTGATGGTAGTATTACGACAACAGCTGAAGTCGATAACCGTGCTGCGAAAATGTCCGATTT
-GGATTTAAACAACGCGGTTAAAATAGGTAGTACATTAAATGTTAACGGTGCTACCTATAATGTTAATGCTAAAGGTGATG
-AAGTTACTGGTAAGTTTGATAATGGTGCAGGCGGACTGGTTGATAAACAAGTATTCTTGGGAAAAACCGCTGGCGGAGCT
-GCAACATTAATTAATGAGGATGCTGCTAAATCCCAACAATCTACCGTAGATCCGTTGAAAACTATTGATGATGCACTTGC
-TCAGGTTGATGCGCTTCGCTCCGATTTGGGCGCAGTACAGAACCGCTTTGATTCTGCCATTACCAACCTTGGTAATACGG
-TAAATAACTTATCTTCTGCCCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTATAAAGCGCAG
-ATTCTGCAGCAGGCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_z36_Salmonella.enterica_IIIa.43:z36:-_AY353484_z36,z38__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAGTTGTCTGTTCAGGCAGCAAACGGCTCAAACTCTGACTC
-TGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAACTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACAAAAGGAATTGCTACAACGGTTAAAGAAGGTAC
-GAAGCTCACTGCCGATTTTGCAGTTAAGGTCGCAGATTTTGATGATCAAGCAACAACTGGTAAATTAACTGCAGACTTAG
-AATTGAAGCAGGATAAATCCGGAAACTACTTTGCCTTCGATACAGCAAACAGTAAATATTACGACGCAACTGTAGATGCT
-GCTACAGGTAAAATAGAATTTACTTCTGGGGCAGGTAAAGAGACAACGAAAGATACATCTAAACTTACGGATGTTACTTC
-TTTGTCCAAAGAAGTAACGATAGATAGTGGGCTCACGGATGATAAATCATTAGTAAAATACAAAGGGGATGATGGTAAAG
-AACAGTATGCCGTTCAAACTCTTGATAATAAAGGTAATGCGACCTATAAGACTGCCGTTATAGCGCGTGACGGCAAAGTG
-ACAGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGACGC
-ATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAAATAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,z15_Salmonella.enterica_Brandenburg_AY353323_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTAACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGTTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAGGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->O-7_wzy__1080
-ATGATATATTATATTTTTATTGTAATTTTTCCGTTCTTTTCATTTGTTAAGAATAAAAATATAAAAATTTACGCCTTGAT
-GCTAAGTTTTTTATTTCTTGTCTCGTTTTGTTCTTTACGTTGGCAGACTGGTACTGATTGGCTCCCCTATTACGATGATT
-TCATGAGTCCAGGGAATCGACATGACTTTGAAATCGGGTATGTATTATACGTCAAATTAATAAGATATTTGACAGATAAT
-TATACATTGTTTCTATTCACTACATCAATTATTCCTATCGCGTTAATATTCTGGGGATGCCTGAAAACACAAAAAAATAT
-ATCATTAACTATTCTGTCTGTTTGTGTTTTTTATAGTTATTATTATCTGGGGTCTTTTTTTGGGGCCGAAAGAAGAATTA
-TTGCAATTGGGTTATCTTTTTTCGCTTTAATCCAATATAAAAGTAATAAAAAGGTGCAATCGCTTATTCTTATTCTATGT
-GCGTCGACATTTCATATCTCGTCTTTAGTTACCTTATCTGTTTTTTTAATCAATAAGTTATCTTTAAACTTATATAAAAT
-ATTACTTGTGCTTGGTGCCATTCTATCATTGCCTTTGTCACATTATTTATCAGATATAATTTCTTCCGTTATTAGTCTAA
-TTCCTGTCGAAATTGTTCGCTATAAACTCACTGTTTATACTCAAAATGCACAAGAATATGGGTCCATAAGTATATCTGGA
-ATTTTAAAAAGGGTGGTAATTTCTGCTATTTTTATTTACACATTATCTTTTGATATAAAAAATAATAAGGCAAATTTATT
-TTTGGTAAAAACATATTTATTTGGAACTATCATATATTTATTTTTATCTCCGATCTCAGCCATGTTCTCAGTAATTAGTA
-TATATTTTACTATAGTCGAAATATTGTTGATTCCTGCAGTATTAGTGCGTGTAGGAATTTTTACACGGATTCCTGCTCTG
-ATTTTTATAGTGATTTTTTATTTTGGCTATCAAGTTTACTCTATACTAGGGTCTTATCCTGAACTTTTCTATCCTTACAT
-ATCGGTATTTTCAGAAATTCAGCGTCAAGGTATTTACTAA
->fliC_z65_Salmonella.bongori_V.66:z65:-_AY353259_other.z65__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGCAC
-TGCTATCGAACGTCTGTCTTCCGGTCTGCGTATCAACAGCGCAAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGTT
-TTACCGCCAACATCAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCACTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCGAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCGGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTTTCCGGCCAGACCCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAACAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAGGATGAAGCTGTTAC
-TGCTGGTACTTTCAGTGTAGATAGTGGTGTGGCAATTAAATCTGCAACGGTTGACGTTAAAACAGCTTTAAGCACGACTG
-GTAATGACGGTACTGTAAGTAAAATTGAACTTGATAAGGCAACAGGTAAATATTACGCAACTGTATCAGGGCTTACAGAT
-TCTGCAGATACAAGTAAAAATGGCACTTATGAAGTTAATGTTAGTTCTACTGGCGATATTACTTTTGTTGATACAACCAA
-AGACACTGTCACTGCTGGCTCGGTAGAAGTACAAAATGTTCATACGAAAGCTGCTGGTGCACTTCCTGATTTAGCCGACG
-CAAAAGCAGCTTTAACCAAAGCCAATGTTGCTAATGCAGACACTGCTTCTTTAGTGAAAATGTCTTATACGGATAAGAAC
-GGTAAGGTCATTGACGGCGGTTATGCATTAAAAACAGATGATACCAAATATTATGTTGCATCATATAACGAAACTACTGG
-AAAAGTCGAAGCTGCGGTTACAAAATATACCGATTCAAATGGATTTTCTAAAACAGCTGCTAATCAATTAGGTGGTGTAG
-ATCGCAAAACAGAAGTTGTGGAAATTGGTGGTAAAACTTACACAGCAGCCAAAGCTAAAGACCATAACTTTAAAGCTGAT
-CCAGATCTGGCAGTTGTTGCAGCTGCAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCACAGGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCAGGGACCTCCGTTCTGGCACAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-67_wzt__741
-ATGGAACCAGTAATAAACTTTAGTCACGTTACGAAAGAGTATCCTCTTTACCACCATATTGGCTCAGGAATTAAGGATCT
-CGTATTTCACCCTAAAAGAGCTTTTCAGCTGTTAAAAGGGCGTAAATATCTTGCGATCGAAGACATTACCTTCACCGTGG
-GTAAAGGCGAGGCCGTAGCGCTGATTGGTCGTAACGGCGCAGGGAAAAGTACCTCCCTCGGGCTGGTGGCCGGCGTCATT
-AAGCCTACAAAAGGCACTGTTACAACCCAGGGGCGCGTTGCCTCAATGCTTGAGCTAGGCGGCGGTTTTCACCCTGAATT
-AACCGGGCGAGAAAATATTTATCTCAATGCGACCCTGCTTGGGCTACGCCGCAAAGAGGTTCAGCAACGGATGGATCGGA
-TAATTGAGTTCTCCGAGCTGGGTGATTTCATTGACGAACCTATTCGCGTGTACTCAAGTGGTATGCTTGCGAAGCTTGGA
-TTCTCTGTCATCAGCCAGGTAGAACCCGATATACTTATTATCGATGAGGTACTTGCTGTCGGTGACATTTCGTTCCAGGC
-CAAATGTATACAAACAATACGAGACTTCAAAAATAAGGGTGTAACGATATTATTCGTTAGCCACAATATGAGTGATGTTG
-AAAAAATCTGTGACAGAGTTGTTTGGATCGAAAACCATAAACTCCGCGAAATTGGCTCAGCAGAGAGAATCATTGAACTT
-TACAAGCAAGCAATGGCTTAA
->O-40_wzy__1368
-ATGTTTCAGATTAAAACCAGAAAAAAACCATTGTTAATATTATATTTAACTTTGTTATTAAGTATTTTGATGTCGTTAAT
-TATCGATGATGGTATAAATCGATCCTTATACATACTTTGTATATCCACACTAAGTGTTTTTTTTATATGCTATTGTTGTA
-ATAAAATAACCTCCCCTGCAAGTTTATTAATTATTTCTTCCTTTGTTTTCCTTGGTTGTAGGCCATTTCTCTCATTATTC
-ACAAGTTTCGATTATAGAAATGCCGATTGGTTTATAACTGGTTATTTAGATGAGAATGTTATCTATACTAATTATGCTGT
-TTCTTTTATGTATTTTGGATATAGTGTTGCATTGATATTAAGTAATAATAATTCAGCACATAGAGAATGTTACAATCTAA
-ATAAAATAAAACCTAATATTATATTTTTGTCTATGCTTTTTCTTTTTGGCTCATTAGGACAAATCCTTAAAGGTTTTTAT
-TTTTATTCCTTCATTGAGTCGAATAGTTATGTTGGAATTTATCAAGATAAAGTAAATTTACCCATGGGATATAATTTTTT
-ATCATATCTGTTTTATTGTTCATTTTTCCTCATCTGTGCATTTTATGACAAATTCCGAGTTAATAAATCATTTTTATTAA
-TATCAATATTGATTGCTGCTTTTAGTGCCATGAAAGGTAGTCGAGGGGAGTTTGTTACATTCTTGCTTACAGTTTTTTGT
-ATTTATTATAATGAGAAGAAAGTAAGCAATATTAGCTTATTATTGAAAATGTTTTTAATATTTATTGCTGTTTTTATTAT
-AAGTGAATTTGTTTCAATGTGGCGGTCAGGCGGTAGCTTTATTGCTCTTATTGAAGGCGATAATCCACTCATGCAATTTA
-TATATGGAATGGGAGTATCATATATTACACTTTACCAATCGGTTAAAATAAGTTTGATCTCGGGAGTGTTTGAGTTTCAT
-TATTTAATCAGTCAACTATTAATTACTATATTTTCAGTGTTAGGAGTTCAGGTATATTTACCTGGAATTAGTTACAGCCA
-TTTGGCATCTAAAACTGCGAACCCACAATTATATGAACAAGGGTTTGGATTAGGAGGAAGCTATCTTGGTGAATCATATA
-TAGCTATGGGACTAATAGGATGCTTTATTATTCCATTTATAGTTTTATTTCTTATTAATAAGCTAGAAGTATTTACCAGA
-TATAATAAAACTTTTTATTTTGTATATTATAGCTCTCTACCATCTGTTTTATTTATACCCAGAGAAACCTTGTTCTATTT
-TTTCCCTTATGCAGTTAAAGGCATTATTGTGGTATTTATATTTACATTTTACGCGAATATTAAAATGAGAAGATTTAATA
-ATGGTTGA
->O-56_wzy__1179
-ATGGAATTGAAAAAAAACAATACCAGGATTCTTGTCTTTTTTTTATACCTTACCGTTAATATTATAGCATTTATATTATC
-TTGTGTTCAGGGGTACATATTAGTCGAAAATTATAGTTTTAGCTTTAACGTTGATAACGGAGCGCTGGGTTTTGCATATG
-TGATATTTTCGTTACTATTCATAACTCTATTGTATATTTTTTTTACTTTCCTGTTGAGGCCATATAATGAGCATATAAAT
-ATTACAAGATTTTATGAAAATAAAAAAATCAGTATTTCTATTTTTAGTATACAAACTTTATTTATAGTCTTTAATTTATA
-TTATGGACTAAATGTCGCCGGTGCTGGTGAAGACGTTAATATTGCACCATCATTGCTACGTTATTTTTTTGTGATATTTA
-ATCCAGATATTTTGTTTTTAATATATGCATGCACGAACATTAACAATCAGCTTTATAAAGTTAATTGTTGTGCTTATTTT
-GTATCGACTCTAATAAGAGGCTGGAGTGGTGGTGTTCTGTTCTTGTTATTTATTTTTTTATGCCGCAGTGATAAAATTAA
-TTTAAAATTAATTTTACTTTTTATCATATGTCTCTTATTCGCACCATTTATTATGGAAATAAAATGGCTAATTAGAAGTA
-ATACATTTGATTATAATAATATAATATCTGAGTTTGATTATGGTAAAAGTTTAGGGCAGTTCTTAGAGTATTTAGTGTAT
-CGATTACAGCAGGTCACTAATGTTATCTATCTTATCGACCGGGTAGAGCACATTTCTATTTTATATCAAGATAATACTTT
-AGTTCCATATTGGGGGGAATTTATCGGATTAAAAAACTTATATCAGCTTTATTATCCACAGGCAATTCCTTTGGGGCAGT
-GGCTCGGAAGCAGTATTGAAAACTCACTAGTTTCATGGAATTCTAATCCTGGGCTTGCAGGATGGTTTATAATACTTACA
-AATTACTCACTATTTTATGGTGGGCTTTTTATATTAATTACAGTAACTGCAATTTTTTTTAATGTGTATTTTTCTATTAT
-AATTGGAAGAGGGTGTATAACTGGTTTTTCTTATATTTTATGTATTCTTTATCTTTTTCCGGGATGGATGGGAATGTATT
-TTAATTTGATATTTTATCTAATTATTTGGTGTGTTGTAATTAAAATCTTAAAGGTATAA
->fliC_b_Salmonella.enterica_Niederoderwitz_AY353360_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCAGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGCTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTACAGGATGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAGAGATGTTACCACCTATAAAAATGGTGGTACTACTCTTACAGCACCTGACGCAGCAGCAATTGATACCGCTTTAGGTA
-CGACTGGTGCGGCGGGTACTGCGGCTGTGAAATTTAAAGACGGTAACTACTTCGTTGAGGTGACCGGTACAACTAAAGAT
-GGTCTGTATGAAGCGACAGTTGATGCAGCTGGCGCGGTGACAATGACCGCAAATAAAGCAACAGTAACTGGGGCTAGTAC
-AGTTACTGAAAACCAAATTGTAGACGCTGTTACACCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGACAGGTGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCG
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAAACTGGTGAGATAAAAGCTAAAACTGT
-AAATTATACTGACGCTACTGGTGCGACAAAAACCGGTGCTGTGAAATTTGGCGGTGCGAATGGTAAAACTGAAGTTGTGA
-CCACCGTTGATGGTAATACTTATCAGGCTAGTGATGTAAAAGGGCATAATTTCCAGAGTGGTGGCGCTTTAAGCGAGGCT
-GTACCACTAAAACTGGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAAGTTGATGCGCTGCGTTCTGACCTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_b_Salmonella.enterica_IIIa.47:b:-_AY353363_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCAGCAGGTCAGGCCATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGCTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACTATCCAGGTTGGCGCCAACGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTACAGGACGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAAGGATGTTACCACTTATAAAGATGGTGGTACTACTCTTACAGCACCTACCGCAGCAGCAATTGATACCGCCTTAGGTA
-CGACTGGTGCGTCGGGTACTGCGGCTGTGAAATTTAAAGACGGTAACTATTTCGTTGAGGTGACCGGTACAACTAAAAAT
-GGTCTGTATGAAGCGACAGTTGATGCAGCTGGCGCGGTGACAATGACCGCAAATAAATCAACAGTAACTGGGGCCGGCAC
-AGTTACCAAAAACCAAATTGTAGACGCTGTTACTCCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGGCAGGGGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCA
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAGACTGGTGAGATAAAAGCTAAGACTGT
-AAATTATACTGACGCTACTGGTGCAACAAAAACTGGTGCTGTGAAATTTGGCGGCGCGAATGGTAAAACTGAAGTTGTGA
-CTACAGTTGATGGTAATACTTATCAGGCTAGTGATGTGAAAGGGCATAATTTCCAGAGTGGTGGCGCTTTAAGCGAGGCT
-GTGACTACTAAAACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGACCTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAATCTGGGCAATACTGTAAACAACTTGTCTGAAGCGCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGTGCGCAGATTCTGCAGCAGGCCGGTACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_a_Salmonella.enterica_from-cdc-Stk2184_other.a__1488
-TTAACGCAGTAAAGAGAGGACGTTTTGCGGAACCTGGTTAGCCTGCGCCAGAACGGAAGTACCGGCCTGTTGCAGAATCT
-GCGCGCGAGACATGTTGGAAACTTCAGTCGCATAGTCGGAATCTTCGATACGGCTACGCGCTTCAGACAGGTTGTTTACG
-GTATTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTTTGTACCGCACCCAGATCAGAACGCAGCGCATCAACCTGCGC
-CAGCGCGGCATCAATTTTCTGCAGCGGGTTTTCGGTGGTTTTAGCGGCTGCTTCAGCCAGCTCTGGCTGTGCTTTGAAAT
-CATGACCAGCAGCTTTGCTGGCATTATAGGTTTTACCGTCGATAGTAACGACTTCGGTTTTACCATCTACGCCGCCAAGT
-TGGTTCAGTGCGGTTTTAGTATTGCCGTCTTTATCGGTATATTTAGTGGTGTTAATGCTGAACGATCCATCTTTATTTTT
-TGTTGCCGCATAAATATCAGCCCCAACTTTAACACCAAAACCGCCATCAATCGTCTTACCGTTTTTATCGGTATAGGACA
-TTTTGACCATTTCAGCAGTATCAGCTCCGGCCACATGGGCAGCTGTCAACTGAGCCTGAATAGCTGCTGGAGCAGCTACA
-GGTTTTTGAACCTGAGTAACTTCAGTAATACCAGTAGGAGTTGTACCCTCTTTAGTGGTAGCCGCAGTCATTGTGACTGC
-ACCATCATCAGCAACATTAACTTTATAGAATCCGCCTTTGTTAGTTTGATCGGTCGCATCGGTAAATTCTACTTCAACAT
-AATAATCTTTAGAGGTGCTATTATAGTAAACCTTACCATCCTTAATTGAACCAGTGTCAGTTGTAGAACCGGTTCCGGTT
-TTGAGGCCAGCACCATCAAGTGCAGTTGTGCTTAACGTAGCCGGAGGCGTGACAGCTTCACTCTTCACATCATACGCTTT
-CTGCACATTCAGCGTATCCAGACCCAGGGTCTGAGAGTTGATCTGCTTCAGATCGATATCGATAGTTTCACCGTCATTGG
-CGCCAACCTGGATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACGCCGTTGAACTGGGTCTGGCCGGATACACGGTCG
-ATTTCGTTCAGACGCTGGGTGATTTCAGCCTGGATGGAGTCAAGGTCAGACTGGGAGTTGGTGCTGTTAGCAGACTGAAC
-TGCCAGTTCACGCACGCGCTGCAAGTTGTTGTTGATTTCGTTCAGCGCGCCTTCAGTGGTCTGCGCAATAGAAATACCGT
-CGTTAGCGTTACGGGAAGCCTGAGTCAGACCTTTAATGTTCGCGGTGAAACGGTTAGCAATCGCCTGACCTGCCGCATCG
-TCTTTCGCGCTGTTGATACGCAGACCGGAAGACAAACGCTCGATAGCGGTGCCCAGTGCGGACTGGGATTTGTTCAGGTT
-ATTCTGGGTCAACAGCGACAGGCTGTTTGTATTAATGACTTGTGCCAT
->fliC_a_Salmonella.enterica_Paratyphi.A_AY353356_other.a__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATTGATATCGATCTG
-AAACAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCGGTCAC
-GCCTTCGGCTACATTAAGCACTACTGCACTTGATGGTGCTGGCCTCAAAACCGGAACCGGTTCTACAACTGATACTGGTT
-CAATTAAGGATGGTAAGGTTTACTATAACAGCACCTCTAAAAATTATTATGTTGAAGTAGAATTTACCGATGCGACCGAT
-CAAACCAACAAAGGCGGATTCTATAAAGTTAATGTTGCTGATGATGGTGCAGTCACAATGACTGCGGCTACCACCAAAGA
-GGCTACAACTCCTACAGGTATTACTGAAGTTACTCAAGTCCAAAAACCTGTGGCTGCTCCAGCTGCTATCCAGGCTCAGT
-TGACTGCTGCCCATGTGACCGGCGCTGATACTGCTGAAATGGTTAAGATGTCTTATACGGATAAAAACGGTAAGACTATT
-GATGGCGGTTTCGGTGTTAAAGTTGGGGCTGATATTTATGCTGCAACAAAAAATAAAGATGGATCGTTCAGCATTAACAC
-CACTGAATATACCGATAAAGACGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGTAAAACTGAAGTTG
-TTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTTAAAGCACAGCCAGAGCTGGCTGAAGCG
-GCTGCTGCAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGACTTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_a_Salmonella.enterica_Paratyphi.A_AY353357_other.a__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATTGATATCGATCTG
-AAACAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCGGTCAC
-GCCTTCGGCTACATTAAGCACTACTGCACTTGATGGTGCTGGCCTCAAAACCGGAACCGGTTCTACAACTGATACTGGTT
-CAATTAAGGATGGTAAGGTTTACTATAACAGCACCTCTAAAAATTATTATGTTGAAGTAGAATTTACCGATGCGACCGAT
-CAAACCAACAAAGGCGGATTCTATAAAGTTAATGTTGCTGATGATGGTGCAGTCACAATGACTGCGGCTACCACCAAAGA
-GCCTACAACTCCTACAGGTATTACTGAAGTTACTCAAGTCCAAAAACCTGTGGCTGCTCCAGCTGCTATCCAGGCTCAGT
-TGACTGCTGCCCATGTGACCGGCGCTGATACTGCTGAAATGGTTAAGATGTCTTATACGGATAAAAACGGTAAGACTATT
-GATGGCGGTTTCGGTGTTAAAGTTGGGGCTGATATTTATGCTGCAACAAAAAATAAAGATGGATCGTTCAGCATTAACAC
-CACTGAATATACCGATAAAGACGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGTAAAACTGAAGTTG
-TTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTTAAAGCACAGCCAGAGCTGGCTGAAGCG
-GCTGCTGCAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGACTTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_1,5_Panamastr_AOYJ01000008_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAATACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGGCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGACAGCTTATGCCGATAATGGTACTACGCTGGATGTATCGGGTCTTACTGATGCAGCTATTAAAACGGCTACGGGTG
-GTACGACTGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGG
-GGCTTTAGTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGTAACAACTAAAACAGAAGTACAGGAGTTAACAACTACACCGGTAGTTG
-CTTCAGCAGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGCCGCTACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->oafA-O-4_5-__325
-TCATCATCAGAGTTCAACTTTTTGCTTCACACCTGGTCACTATCAGTTGAGTGGCAATTTTATATCCTTTATTAGTCATT
-ATAGTTAAAAAATTACGGTTTCCTGTTGGACTCTCATTATCTGTAATTTTAGCCATGTCACTTGCAATTACACTTATGCG
-AGTGACTGGAACCAAAGAAGATATTTTCTATCTTATCCCTACCAGGGCATGGGAAATGCTGGCTGGCGGCCTTGTATACA
-TAGCATCTGTACGTTACAAAATGCCAGAATGGATAAAGCATTGTGAGGTTTATGGGATAGTCCTCATTGTTGTTGCTGTT
-GTTAT
->fljB_e,n,z15_Mbandakastr_AMRS01000032_e__1496
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAGGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTATCATCTGCGGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATAGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_e,n,z15_Salmonella.enterica_Uno_AY353325_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAGGTGGTTATACCGAT
-GCGGGGGATACTGCTAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCTACGA
-AAAAAGCCTTACAAGATGGGGGCGTATCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCAGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_z_Salmonella.enterica_IIIb.48:i:z_AY353336_k,z__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTTTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGTACAGCTATTAAAACTGGCGTTGCTGGAGCTACCACTACAACTG
-GTTCCATTAAAGATGACAAAGTATATTATGATAGTGCTACTAAAAATTATTATGCTGAAGTGAACTTTACAGATGCCGCT
-GATACCGCTAAAAATGGTTTCTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCTTCGACTACTAAAGA
-AGCTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCATCCGCAGATGTGAAAG
-CTGCTCTGACTGCTGGAGGTATTGATACTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTACACCGATAAAAAC
-GGTAAGACGATTGATGGCGGTTACGCTGTAAAAGTGGGCGATAACTACTATGCCGCTACCCAGAAAAAAGATGGTAGCTT
-TAGTGTTAACACCACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCTTGAACCAACTTGGTGGCGCAGACGGTA
-AAACCGAAGTCGTTACTATCAACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGCCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACG
-TTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTG
-CACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->O-28_wzy-another-lineage__1296
-ATGGAATATTTAATTATTTTGATTTTCTTTACTCTCTTATTTTTTACGACTAAAAGTACATGGCCTTTTGGTGGAGTGAA
-TGCTCATCCTATATATTTTGTATTTCTTACTCAAATTTTTATATTAACGCTCCCCGGTGTTCTTATTTTAACATTTTTCA
-GGAACTGTGTTGGATCTATTACATGTGAAATTGTCACTAATGCCACTAAAATAAATGTGATGCTTGATTATTTTACAATT
-CTTAGTTCTATCGTTTTGGCAATATTATTTTCCTACTTATTAATGCGAGGGCGTAAAGATTTTACTCCTTCTGCGTTGTC
-TCAAAAACGTTTTCTTAATTTTTGTTTTTTTATAACAATTCTAATTATTATAATTAAAATTATCTTTGTGAAGCATGTTC
-CTCTCTTTATGGTTTTATTTGGCAACAAAGAGGCTGCAGAAATTCAAAAGGCAGCTATTTTACGTGGTGAGGATGGGTTT
-TCTTTTCCTGTTCTCAATTTTCTTATTAAGTATTTTCCTCTCTATTTTTATTACTCAGTATTAATAACTTTTTTTAAGCG
-CAAAATTAGCTTTTTTTATTTAATAATAGCTTTTGCTACAACATGTTTAGCAATGCTTTATGATTTACAAAAAGCACCGG
-TAGTCATTATGATTATAGGTTCATTTTGGCTATACTGGGCTTTTTTTGGTAAATCTAAAATGATTATCATTGGGGCATTA
-CTAAGCTTAGGATTGGTTAGTTTATTATTTTATATCTCGTATGATTTTGGTGGAAATACAAATTATTTTATTGACGCTAT
-TCTCAATAGGACTTTTGTTGCGCAAGATGATGGTATGTACTGGGTATATCAATATTATGATTCATTGCCTAATAAAGAAC
-TATACGCCTATTGGGGTATACCTTTTGCTCAACAGTTTGGTTTACCACAGATAGATCCTTTAAGTGATATTATCGGTGTG
-GTATTTCCAAATGCTAGTGATAATTGGGTTAATACAACAACATTTCTTCTGGGGGAGGCTAAAGCAATATTCGGAAGTTA
-TAGTTTGATTCTTGCTACTTTTGTAGTATTCATTAATGTGATTATTATAATGATAGTTTCATCAGTATTGGTTAGAATAT
-CAAAAGACCTTTTTTATCCAGCTATATTTGTTATGTTGCAAACAATTCCATTTGCTAATAATATCACGGATTTGATTTAT
-GGCCGATTTATATTTGGTTTTCTGACGTTTATGCTATTTCCGACACTTTTTTGTTTGCTATGTAACGGCAAGATGAGTAA
-ATACGATGCGAAGTGA
->O-35_wzy__1065
-ATGTCTATTGATTTTCTTTTTTCAATTACTGAGATTGCAGTTGTTTTTTCTTGTGCTATTTATATATTTGTTCAATGCTT
-GTTAATGCACAAGATTTATTTAGATAAAGTTGTTTTAATTCTATTGTGTTTACTCCTTTGCTTGGTCATTATTCAACTTC
-CCGAACTTAATGAGCAAGGTTTGATAGATGCTGTAAAGCTATTATTACCTTTACTAATAGTATTTATCGCTTTTCAAAAA
-CCGAAATTATGCTTGTGGATCATTATTGCATTATTGTTCTTCAATTCCACGCTAAATTTCTGGCACTTCAAAGTTTTTGA
-TAAATTTAGCTCATTTCCTTTTACATTTTTTATATTATTATATTTTTTGTACAAATTGGTCAATGATCAACCTCCAAGGC
-AGAGGAATAAAAAATTTTACGTTGTAATTTTCATATTTATATTAATTGATGTAACACAATCATTATTAATAAGTTACAGA
-GGACAGATTCTATACTCTTTAATATGTGTTATAATGCTTGTATTGAGGATTAATTTAAGGAAAACAATCCCATATATTTT
-TCTAACTTTACCGTTTATATATGTTTTTATAATGACTTTTATTGGTTTTAATTACTTTAATAAAGACGTGGTTTTTTTTG
-AACCTACGGCAAGTAATATTGAACGTACGGGGATGATATATTATTTGGTTATCCATGCAAATGATTATATATTTCACGGT
-ATGGGGACGTTACATTTCTTAAATGAGGGGGGGCAATATAAAATGTTATATGGATTTCCTTCTCTAATACCAAATGATCC
-TCATGATTTTTTATTAAGATTCTTTATAAGTATTGGTATGATGGGGGCGTTGATCTATCATTGTATATTTTTTGTTTTTT
-TTAAAAATATATCTTCGTTATTGCGTCAAAAAAACAGTTATTTTGTCATAGTAAGTTGTTTATTATTATTACAAGTTGTG
-TTGTTTTATACACTAAACCCTTTTAATGCATTTAATCGATTAATTTGCGGGCTTACAATCGGAGTCATTTATGGATTTTC
-AAAGAGTAGACAGATATATATGTAG
->O-11_wzy-new-from-CP019192__1080
-ATGAATATATTATTTTTTTTGCTTCTAAGTGTTGGGCTATTATTTTCCCTCGCATATACTAATAAAAATAAAAATATAAA
-TGATAGTATCATGTTTATGCTTGTCGTCCTGATGATATTAATGTCAGGACTTAGAGTTAATGATAGTGATTATCTTGAGT
-ATAATAAAATGTATAATGAAGTTCCTTCATTATACAATTTTACGTTATCTGCGATAAAAGATATTCATGGAGAGATTGGC
-TATCTTTTCCTTTCATCTTTTTTTAAAACATTTGATCTACCGTTTCAGTTTTTTTTATTCTTTATAGCATCGTTATCTTT
-GATGCTTACTTATTTTTCTTTTAAAAAAGCAAGTATTATACCAATATTGTCTCTAGTTTTTTATTTAAGTCATGCTTTTA
-TTGTTAGGGATATGATACAAATAAGAGCTGGATTAGCTGTGAGTATGTCTCTATACACAATTGTGACATATAAGAAGAAT
-CGAAATGTGATCGCAGGGATACTGCTTGCATCGCTGATTCATTCTGGAGCAATTATAATTGCTATTTGCTACCCATTTAT
-AAGAAAAAGATATTTATCGTTAAGAAAAATATTTTCTCTTTTTCTGGTTGCCTTAATATTTTCTTATTTACATGGGCTCG
-ACTTTATATTAAATACCCTTATTCATTATAATCTTCTGCCAGATGCTGTTGCAAATTATATTGGGTGGGAAGAATATGAT
-TATAGAATTAATATTTTCACTAATCCAGTGTTTATTAAAGGGGTGATGATAGTTTTTTTAATGAAAAAATATATTAAAAT
-AAATATAAATAATGAAAAGGATAAGGTGGTTATATTATATAATTTATATGTTTTAGGTGTTTTAGCAATGGTTGGATTAA
-GTGAGATGGCTATTCTTTCAGGACGTCTCTCATCATTTTTAACACTAGGTGAAAGCATATTAATAGTATATGGTCTTTTT
-TATAAAAGAAATATCTCGGTAGGTTTTGTTTTCTTTTTGTTATTAACTTTCATACAGATGGGATATGATCTGTTAATTTC
-AAACGTACATCCGAAGCTCTCTCTTTTTATATTTGGATAA
->gntR-family-regulatory-protein_dt-negative__291
-AATATGCTGACCCGCTATGTTGGTGACCCTTCTGCCTGATCTTTTCGCCTGCGTGAGCATCGCAGGCGCTTCAACCAATT
-CTTCAATTCTATTAATCACGTCCAGTAACGATCTAACCACGATCTTGATGTAGATCCCACTCCTGCATCTTTCCTGAGAA
-ACGATTTGACTTAGTTTTTGTATGGGAATAATTTCTCCCTGTCAACATTGGATACAATATCATATATCATTGATTGGATA
-ATTATAAATATAGAACCCATTACCCTTACCTTATGTTTATTGGTGTTCGCT
->O:22-gene1__1071
-GCCAGGGGCGGTAGCGTATATAAAAATAATTTTTGTTTATTAATAGGAGATATGAGTATGTTAGTTTTAATCACTGGCGG
-TGCAGGCTATATAGGTTCACATACTATTATACCCCTATTAGAAAATAATCATGATGTAATTGTACTTGATAATTTGTGTA
-ATTCATCAATTGAATCTATAAAACGAGTCGAATATCTTACTAAGAAACAAGTAACTTTATATATAGGTGATGTTCGTGAT
-CGGGATTTATTGAATAAAATATTTATGTCTCATCAAATTGATGCAGTTATGCACTTTGCTGCTTTAAAGTCAGTGGGAGA
-GTCAAATAATATTCCGCTAACTTATTATTCTAATAATATTACAGGCACGCTTAACTTACTTGAAAGCATGCAGCGATATA
-ACGTAAAAAAATTAATATTTAGTTCTTCTGCAACCGTCTATACTGCCGGGAATAAGATGCCAAATACAGAAAGTGATAAA
-ACTGGAATAGCTAAAAATCCTTATGGCACATCGAAGTTTATTATGGAAACTATACTGAAAGATATTAGTAAAAGTGATCC
-GAGTTTCTCCATTATTTCTTTAAGATATTTTAACCCTACAGGAGCTCACCCTTCAGGTATGATTGGAGAGAACCCTAACG
-GCATACCTAATAATCTTATCCCTTACGTTGCAAAAGTTGCACAGAATACACTCCCCGTTTTACATATTTATGGCAACGAT
-TACCCAACGAAGGATGGCACCGGTGTAAGAGACTATATACATGTAATGGATTTAGCTTTGGGACATGTAAAAGCTTTGGA
-TTATATCTTTCTAAATAAGATTAATTATGAGGTTTTTAATTTAGGAACTGGACGCGGGTATTCAGTGCTCGATGTTGTTT
-ATCTGTTCGAAAAAGTTTCACAAAAAAAAATATCATATGTCTTCTGTGATAAAAGAGAAGGGGACGTTGCAGTTTCATGG
-GCATGCCCTCAACTAGCTAATGAAAAATTAAAATGGCAGGCAACTAAAGATTTAGAGGAAATGTTGAAAGACGTCTGGCA
-TTGGCAAACAAAAAATCCGAATGGTTATTAA
->fljB_z39_Salmonella.enterica_II.43:d:z39_AY353345_other.z39__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAATAACCTGCAGCGTGTACGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGATGGTAGTGGTGGTAAGACATTAAATATTAGTGGTCTTGATGCTGCTGCAATTAAAACCGCTGTTGGAGGGACACCAA
-CTGGTACTGGCGAAATTAAGGATAATAAGGTTTATCACAATAGTACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAATGGCTTCTATGAGGTAGATGCAAATCCTGCTGACGGTACAGTTACATTTGCTACCGGTGCTACGAA
-AATAACGGCTAAACCTGCTGATGTTGAAGAGGTTACAACTGTCCAATCAAAACCTATAGCTCTCAGTGCTGAGGTTAAAA
-CACAATTAACTGCTAATGGAGTTAGCACAGCGGCCGCTGATAAAGGCCAATTGCTCACAATGTCTTATACAGATAAAAAT
-GGTAAGACTATTGATGGTGGCTTCGGTGTTAAAGTTGGCGCTGATATTTATGCTGCAACTAAGAATAAAGATGGCTCTTT
-TAGTATCAATACCACGAAATATACTGATAAAGACGGTAATACCCAAACTACACTGAATAAACTTGGTGGCGTTGATGGTA
-AAACTGAAGTTGTTTCGATTGAAGGTAAAACCTACACCGCAGCGAAAGCAAAAGATCATAATTTCAAAGCCGATCCTGAT
-CTAGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCTGCG
-TTCCGATCTGGGTGCGGTACAGAACCGTTTCAATTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGTCTGAAG
-CGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAGGCCGGT
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_z39_Salmonella.enterica_II.4,12:g,m,t:z39_AY353346_other.z39__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTACAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-TGATGGTAGTGGTGGTAAGACATTAAATATTAGTGGTCTTGATGCTGCTGCAATTAAAACCGCTGTTGGAGGGACACCAA
-CTGGTACTGGCGAAATTAAGGATAATAAGGTTTATCACAATAGTACTGATGGTAAATATTATGTTGAAGTTGCTGGTTAT
-ACCTCAGGGGAGAATGGCTTCTATGAGGTAGATGCAAATCCTGCTGATGGTACAGTTACATTTGCTACCGGTGCTACGAA
-AATAACGGCTAAACCTGCTGATGTTGAAGAGGTTACAACTGTCCAATCAAAACCTATAGCTCTCAGTGCTGATGTTAAAA
-CACAATTAACTGCTAATGGAGTTAGCACAGCGGCCGCTGATAAAGGCCAATTGGTCACAATGTCTTATACAGATAAAAAT
-GGTAAGACTATTGATGGTGGCTTCGGTGTTAAAGTTGGCGCTGATATTTATGCTGCAACTAAGAATAAAGATGGCTCTTT
-TAGTATCAATACCACGAAATATACTGATAAAGACGGTAATACCCAAACTACACTGAATAAACTTGGTGGCGTTGATGGTA
-AAACTGAAGTTGTTTCGATTGAAGGTAAAACCTACACCGCAGCGAAAGCAAAAGATCATAATTTCAAAGCCGATCCTGAT
-CTAGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCTGCG
-TTCCGATCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACTTGTCTGAAG
-CACGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATCCTGCAGCAGGCCGGT
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_z_Salmonella.enterica_IIIb.53:z:1,5,7_AY353338_k,z__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGTTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGTACAGCTATTAAAACTGGCGTTGCTGGAGCTACCACTACAACTG
-GTTCCATTAAAGATGACAAAGTATATTATGATAGTGCTACTAAAAATTATTATGCTGAAGTGAACTTTACAGATGCCGCT
-GATACCGCTAAAAATGGTTTCTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCTTCGACTACTAAAGA
-AGCTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCATCTGCAGATGTGAAAG
-CTGCTCTGACTGCTGGAGGTATTGATACTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTACACCGATAAAAAC
-GGTAAGACGATTGATGGCGGTTACGCTGTAAAAGTGGGCGATAACTACTATGCCGCTACCCAGAAAAAAGATGGTAGCTT
-TAGTGTTAACACCACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCCTGAACCAACTTGGTGGCGCAGACGGTA
-AAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACG
-TTCTGACTTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTG
-CACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,2_from-Brazzaville_SRR2058145_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGACAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAATGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-CACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCAGGCCTTGATGATGCAGCTATTAAAGCGGCTACAGGTG
-GTACGGCTGGTACGGCTTCTGTAACAGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATCGGT
-GGTTTTACTGGCGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTAACCCTTGCGAC
-TGGCGCAACTAAAACTACAATGCCTGCAGGTGCTGCAACCAAAACAGAAGTGCAGGAATTAAAAGATACACCGGCAGTTG
-TATCAGCCGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAACGACAGGAGCCATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACCAAAACTGCGGCTAATC
-AACTTGGCGGCGTAGACGGAAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCGGGTCAT
-GATTTCAAAGCACAGCCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAAAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACTTGTCTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATCCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_z_Salmonella.enterica_IIIb.50:k:z_AY353337_k,z__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTTTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGTACAGCTATTAAAACTGGCGTTGCTGGAGCTACCACTACAACTG
-GTTCCATTAAAGATGACAAAGTATATTATGATAGTGCTACTAAAAATTATTATGCTGAAGTGAACTTTACAGATGCCGCT
-GATACCGCTAAAAATGGTTTCTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCTTCGACTACTAAAGA
-AGCTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCATCTGCAGATGTGAAAG
-CTGCTCTGACTGCTGGAGGTATTGATACTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTACACCGATAAAAAC
-GGTAAGACGATTGATGGCGGTTACGCTGTAAAAGTGGGCGATAACTACTACGCCGCTACCCAGAAAAAAGATGGTAGCTT
-TAGTGTTAACACCACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCCTGAACCAACTTGGTGGCGCAGACGGTA
-AAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACG
-TTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTG
-CACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->O:22-gene3__411
-GCAGAAAAACCTTTTATTTCACCTAAAAAACGAATATTTTTAAAATCCTTGAACTGGGCTTTGAGAGATTCTAACTGTTC
-TCCCCCTCCAACAATATCCAGCTTATATTGCGGTTTTTTTGATATCACTTGGGCCAATAAACATGGGCGCTTAGGATGTG
-TCAATCTACCAACAAACAAAATTTTATATTCCAAACACTCTTTTAAACGAGCAGGCATGGGTGGAACAGCATTCGTAGCT
-GTAATAATCTTACCCTCATCAATTCCTATTTTTTTTATAGCTTTTTCTCTATCACTTTCAGAAATACACCAGATGACATC
-CGTTAATTTGGAAAGGTATTTTTCTATTTTGCAAAATATACTTTTTAGCCGACCACCATTATATAAGCATGACCACCCAT
-GTGAAACGTAA
->fliC_d_Salmonella.enterica_Livingstone_SRR1299429__1521
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATTGATATTGATTTA
-AAAGAAATTAGCTCTAAAACGCTGGGACTTGATAAACTTAATGTACAGGATGCTTACACACCTAAAGAAACTGCTGTAAT
-AGTTGATAGGACTACCTATAAAGATGGTACAGATACTATCTCAGCCCAGAGCAATGCGGATATCCAAACTGCAATTGGCG
-GTGGTGCGACGGGTGTTACTGGGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGTGGTGCTGCT
-GCTGGCATTTATAAAGCAACTTATGATGAAACTACCAAGAAAGTTAGTATAGATACAACTGATAAAACTCCGTTAACAGG
-TACGGCTGCTGCAGATATTCAGGCAACAACTGCCATAACTAAGAACCAAGTTGCTGAAGTAACAAAAGGTAATGCTGATA
-CAACCACAGTTGCGGCTCAACTTGCTGCAGCAGGGGTTACTGGTGCCGATAAGGACAATACTAGCCTTGTAAAACTATCG
-TTTGAGGATAAAAACGGTAAGGTTATTGATGGTGGCTATGCAGTGAAAATGGGCGACGATTTCTATGCCGCTACATATGA
-TGAGAAAACAGGTACAATTACTGCTAAAACAACTACTTATACAGATGGTGCTGGCGTTGCTCAAACTGGAGCTGTGAAAT
-TTGGTGGCGCAAATGGTAAATCTGAAGTTGTTACTGCTACCGATGGTAAAACTTACTTAGCAAGCGACCTTGACAAACAT
-AACTTCAGAACAGGCGGTGAGCTTAAAGAGGTTAATACAGATAAGACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTT
-GGCGCAGGTTGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACTTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->O:23-gene3__454
-CCAATGAGAAACATCATTCACATATCCTACATAGTTAATTATTTCTTCTTTAATAATTGTATCAAGTTCATTTTGTTTTA
-GACTACCAGGGTTTGCTGGATCAATATTACCCAGCACATTAAACGTCACCCCTTCAAATCTTTCTTTTATATTTTTAGCA
-GCAGCGATAAATTCATAAATCCCCTTTTCTCTGAGCAATCGGCCAATGAAAATAAAAGAAATTGGTTCAAGTGGTGCTGG
-TGAATACTTGTAATGCTCTAAATTTATTCCAATACCCCCCAATACATATACTTTTCTATCTTCTATACAACCAGCGTTAA
-GTAAATCATTCCTATCATCTTCATTAAGTACAATAAGTGTATTAATTTTCTTAAAAGCTATTCTATAGAGCAGAATCTGT
-ATTCTTTTTAGGATTTTTGTCTTTTGGGGAATCCCAGATGGTTGTTCGGTAAAT
->fljB_e,n,x_Hadarstr_AOZE01000017_e__1496
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGTGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->gntR-family-regulatory-protein_dt-positive__291
-AATATGCTGACCCGCTATGTTGGTGACCCTTCTGCCTGATCTTTTCGCCTGCGTGAGCATCGCAGGCGCTTCAACCAATT
-CTTCAATTCTATTAATCACGTCCAGTAACGATCTAACCACGATCTTGATGTAGATCCCACTCCTGCATCTTTCCTGAGAA
-ACGATTTGACTTAGTTTTTGTATGGGAATAATTTCTCCCTGTCAACATTGGATACAATATCATATATCATTGATTGGATA
-ATTATAAATATGGAACCCATTACCCTTACCTTATGTTTATTGGTGTTCGCT
->fliC_z4,z23_Namurstr_AWGG01000011_z4,z23__1257
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTAAACGAAATTAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGCGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGCGGCGGCTAAATACTATGCAGCTACCGTA
-GATATGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGACTCCACCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAAATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGACTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_g,s,t_Salmonella.enterica_Senftenberg_AY353406_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATTCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTGACAACTGACGATGCGGAG
-AACAACACTGCGGTTAACCTATTCAAGACGACTAAATCTACTGCTGGTACCGATGAAGCCAAAGCGATAGCTAGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTAATGACGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCAGCGAATGTT
-AATGATGCCACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,z13,z28_Salmonella.enterica_Connecticut_AY353452_l,v__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAATC
-TGACCTCGACTCCATCCAGGCGGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTTTCTGGCCAGACCCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAGGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAGTACCACTGGTCTTGATGATGCAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAAGATGGTAAGGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAATGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCGCCGC
-GAAAGTGACAGGTGGCATACCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAG
-TTAAAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAG
-ACGGTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAG
-CCAGAGCTGGCTGAAGCGGCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAAGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,q_Salmonella.enterica_Moscow_AY353403_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGGCGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGAATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_f,g,m,t_Salmonella.enterica_II.6,8:f,g,m,t:.e,n,x_AY353382_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGATGGTATCTCCATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTACGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATTCAGGTTGGTGCTAACGATGGTGAATCTATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTGACGGGGTACGATACCTATGCAGCTGGTGCCGATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGCAGCAGCCCCGGATAAAGTATATGTAAATGCTGCAAACGGTCAGTTGACAACTGATGATGCGCAA
-AATAACACTGCAGTTGCTCTATTCAATACCACTAAATCTACTGCTGGTACCGATGACGCCAAAGCGATAGCTAATGTCAT
-TAAGGGTGGTAAAGAGGGAGATACCTTTGATTATAAAGGCGTATCTTTTACTATTGATACAAAAACTGGTAATGATGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGCGGCGAATGTT
-AATGATGCTACCTTACAATCAAGCAGAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAATGAGAGTGCGAAACTTTCTGATTTGGAAGCAAATAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCAGCTAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCGCTGGGGGCAATTCAGAACCGCTTTGATTCTGCCATTACCAACCTTGGTAATACGG
-TAAATAACTTATCTTCTGCCCGTAGTCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,m,s_Salmonella.enterica_Amsterdam.var.O15+_AY353394_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTGCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTATGACACCTATGCAGCGGGTGCCAATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAATGGTCAGTTGACAACTGACGATGCGGAA
-AATAACACTGCGGTTAACCTATTCAAGACGACTAAATCTGCTGCTGGTACCGATGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z44_Salmonella.enterica_Quinhon_AY353513_k,z__1491
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGCACGGATATTAAAACTGGCGTTGATGGAGCTACCACTACGAGTG
-ACTCCATTAAAGATGGCAAAGTATACTATGATGGTGCTGCTAAAAATTATTATGTTGAAGTAGACTTTTCTGATACTGCT
-AAAAATGGCTACTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCCTCGACTACTAAAGAACCTGCGAA
-ACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGACGTCTGCTGAGGTGAAAGCTGCTTTGA
-CTGCTGGTGGTGTCGATACTGCTGATGTAGCTACGGCAGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACG
-ATTGATGGTGGTTATGCTGTAAAAGTAGGCGATAGCTACTATGCCGCTACCCAGAAAAAAGACGGTAGTTTCAGTGTTAA
-TACTACTTCTTACACTGATAAAGACGGCAACACTAAATCTGCACTGAACCAACTGGGTGGCGTAGACGGTAAAACCGAAG
-TTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCTGAA
-GCAGCCGCTAAAACCACCGAAAATCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGACCT
-GGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCC
-GTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCTGGTACTTCCGTT
-CTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z10_Mbandakastr_AMRS01000012_other.z10__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAGCACTGGCGTTAC
-TCAATCTCTTGATTTAAAAACTGCTGGAATTACTGGTGCTACATTAAAAGCTGGTATTACTGGTACAACGACAGAAACCG
-GTAGCGTTAAAGATGGTAAAGTCTACTATGATGCAGATAGCAAAAATTACTATGTAGAGGTTGATTTTACTGATACTACG
-GATAAAGCAGCGCATGCTGGTTTCTACAAAGCTGACGTCGATGCTGACGGTAATGTTTCTTTAGCAACTGGTGCGACTAA
-AGAAGCAAAACCAACGAATGCAGTTGAAGTTGAAAAAACTATTGATGAAAAACCGCTGAAAGCATCAAGTAGTGTTCAGG
-ATGCCTTAAAAGCGAGTGGTATTGCTGATGCGGTTGCAGAAGCTGCGACGGTAGTGAAAATGTCGTACACTGATAAGAAT
-GGTAAAACTATTGATGGTGGATACGGTATTAAAGTAGGTGATGACTACTATGCTGCAACTAAAGAAAAAGACGGCAGCTA
-TAGTATTAATAGTACTTCTTATACCGATAAAGACGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGTA
-AAACTGAAGTTGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAGCCTGAT
-CTGGCGGAAGCGGCTGCTACAACTACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCTGCG
-TTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCTGGT
-ACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z4,z32_Salmonella.enterica_IIIa.41:z4,z32:-_AY353509_z4,z23__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTATCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATTGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCAAAGATGCAAAAACCGGCGGTCCGGCTGCGGATAAATTAT
-CTCTGACACAAGATGATAAAGGCAATTACTTTGTCAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTAGAT
-ACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAACCCT
-ATCACGCGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAGATGATAAGGGTAAAG
-ATCTCTATGCTATCCAAACGTTAGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAAACT
-ACGGAGGGCGCTGCCGTAGCCTTAGCTGCAAACGTCGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACTGTTGACGC
-ATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATAACTAACCTGGGCAACACGGTAAATAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCACAGATTCTGCAGCAG
-GCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_z10_Salmonella.enterica_IIIb.28:z10:z57_AY353473_other.z10__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATAACCCAGCGTCTGAACGAAATCGATCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACACCACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATGCGCTGAATGTGCAGAAAAAATATGATGTTGATAGTACCGGTGTTAC
-TCAATCTCTTGATTTAAAAACTGCTGGAATTACTGGTGCTACATTAAAAACAAGCATTACTGGTACTACGACAGAAACTG
-GTAGTGTTAAAGATGGTAAAGTTTACTACGATAAAGATAGTAAAAATTACTATGTAGAAGTTGATTTTACTGATACTACG
-GATAAAACAGCGCATGCTGGCTTCTATAAAGCTGACGTTGATGCTGACGGCAATGTTGTTTTGGCGGCTGGTGCTACTAA
-AGAAACAAAACCAACGAATGCAGTTGAAGTTAAGAAAACTATTGATGAAAAACCACTGAAAGCATCAAGTGATGTTCAGG
-ATGCCTTAAAAGCGAGTGGTATTGCTGATGCAGTTGCAGAAGCGGCGACAGTAGTGAAGATGTCGTACACTGATAAAAAT
-GGTAAAACCATTGATGGTGGATATGGTATTAAAGTAGGTAATGATTACTATGCTGCAACCAAAGAAAAAGACGGCAGCTA
-TAGTATTAATACTACTTCTTACACTGATAAAGACGGCAATACTAAATCCGCACTGAACCAACTGGGTGGTGCAGACGGTA
-AAACTGAAGTCGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGAT
-CTGGCGGAAGCGGCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACG
-TTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z24_Salmonella.enterica_IIIa.53:z4,z24:-_AY353505_z4,z23__1281
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTAGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACAACGGGTGGCCCCGCAGCAGATAAAT
-TATCTTTGGTAAAAGATGATAAAGGAAACTATCTTGTTAAAGATGTTACTGTCACTGCTACTCCTAAATATTATGCCGCT
-ACCGTAGATAATAGTACTGGGGAAATTAGCTTTGATTCGGCTAAAGAAGTCACTTTAGCTGGTGGTGCTTCAACCCCAAG
-TGCGGTTGATACTTTATCACGCGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAG
-ATGATAAGGGTAAAGATCTCTATGCTATCCAAACTTTGGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCC
-TCTGACGGTAAAACTACGGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCT
-TAAAACCGTTGACGCATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACA
-CGGTAAATAACCTGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCTAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->fliC_z38_Salmonella.enterica_Fresno_AY353487_z36,z38__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATCAACAACAACCTGCAGCGCGTGCGCGAACTGTCCGTCCAGGCAGCAAACGGCTCGAACTCTGATTC
-TGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAGCAAACCGATTTTAACG
-GGAAAAAAGTCTTAAGCCAGGATGGACAGTTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGTTTAGATAAATTAGATGTGACTAAAGGGATTGCCACAACCGTTAAAGAAGGTAC
-GAAGCTTACAGCCGATTTTGCAGTTAAGGATGCCGATTTTGATGATAAATCAACTGGTACAAAAGTAACTGCAAACTTAG
-AATTAAAGCAGGATAAATCCGGAAATTATTTTGCCTACGATAAAACAGCCAGTAAATACTATGATGCGACTGTAGATACT
-GCTACAGGTAAAATAGAATTTACTTCTGGGACAGGTAAAGAGACAACGAAAGATACATCTAAACTTACGGATGTTACTTC
-TTTGTCCAAAGAAGTAACGATAGATAGTGGACTTACGGATGATAAATCATTAGTAAAATACAAAGGGGATGATGGTAAAG
-AACAGTATGCCGTTCAAACTCTTGATAATAAAGGTAATGCGACCTATAAGACTGCCGTTATAGCGCGTGACGGCAAAGTA
-ACAGAGGGCACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGACGC
-TTTCCGTAGCCAGTTGGGGGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACTTGGGCAACACCGTCAACAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATTCTGCAGCAG
-GCAGGGACGTCCGTACTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_Ajiobo_AY353493_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGCGGCGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGACTCCGCCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGACTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGGGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATTCTGCAG
-CAGGCAGGGACGTCCGTACTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z_Salmonella.enterica_II.40:z:z42_AY353470_k,z__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGATGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACTATCCAGGTTGGCGCCAACGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-CGGTGTTTCTACTTTGGATACTGCAGGACTTACTGGCGCAGCTATTAAAACTGGCGTTGATGGAGCTACCACTACGAGTG
-GTTCCATTAAAGATGGCAAAGTATACTTTGATGATGCTACTAAAAATTATTATGTTGAAGTAGAGTTTTCTGATGCCGCT
-GATACTGCTAAAAATGGCTACTATAAAGTCAATGTTGCTGATGATGGTACTGTTACAATGGGGGCTTCGACTACTAAAGA
-AGCCGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCGTCTGTTGATGTGAAAG
-CTGCTCTGACTGCTGGTGGCGTTGATACTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTACACCGATAAAAAT
-GGTAAGACGATTGACGGAGGTTATGCTGTAAAAGTGGGTGATAACTACTATGCTGCGACCCAGAAAAAAGATGGTAGCTT
-TAGTGTTAATACCACGTCTTACATCGCAACTGACGGTACTACCAAAACAGCACTGAACCAACTGGGTGGCGCAGACGGTA
-AAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGTAGCTACTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCGCAGGTTGACACATTACG
-TTCTGACCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,z28_Salmonella.enterica_Javiana_AY353455_l,v__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACAAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAGGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAGTACCACTGGTCTTGATGATACAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAAGATGGTAAAGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAATTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAATGTTGCAGATGATGGTACTGTTACAATGCCGGCAACCGCCGC
-GAAAGTGACAGGTGGCATACCAGCCACGGCGACTGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAG
-TTAAAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTAAACCAACTGGGTGGCGCAG
-ACGGTAAAACTGAAGTTGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTTAAAGCACAG
-CCAGAGCTGGCTGAAGCGGCTGCTGCAACCACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATCCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCACAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_r,i_Salmonella.enterica_Hidalgo_AY353464_r,i__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGACAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTCACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCTGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCTAAAGCCGCATTGACAG
-CAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGTGGTTTA
-GCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAAATACAC
-TGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTATTGGTG
-GTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCTACAACC
-ACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGTACAGAA
-CCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAGATTCCG
-ACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATCCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAAC
-CAGGTTCCACAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_k_Salmonella.enterica_IIIb.61:k:1,5_AY353539_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATGCGCTGAATGTGCAGAAAGCTTATGATGTAGATAGCAAACCAGCGCA
-GAGCATTAAACTGGATACCAGTGCTCTTACTGCTACTGCAATTAAAAATGGTGTAACTGGTGCATCGACAGATGGTGCCC
-TAAAAGACGGTAAAGTTTACTCTAATGGCACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGATACTGCTAAA
-GGTGGTTTCCTTAAAGTAGATGTTGATTCCGCTACTGGTGCAGTTACCGTTCCGGGTACGGCAGCAACAGCAGCTGCAAC
-TAAACCTGCCGGTGTGAAAGAGGTTACAGAAGTACAAGGTAAAATCCCAGCATCTACTGCTATTCAAGACCAATTGAAAG
-CAGGCGGTGTGACTACTGCAGATGCAGCTACTGCTGAAGTTGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTATGCTGTAAAAGTAGGCAATGACTACTACGCCGCTACTCAGAAAAAAGATGGTAGCTTTAGTGTTAACAC
-TACGTCTTACACCGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCCGATCTGGCGGAAGCG
-GCTACCACAACAACCGAAAACCCGCTGCAGAAAATTGATGCTGCGTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACTTGGGCAACACCGTAAWCAACYTGACTTCTGCCCGTAGCYGTA
-TCGAAGATTCCGACTATGCGWCCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAAGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_I.47:z4,z23:-_AY353549_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTAAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACTGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCTGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAACAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGTTACTGCGACGGCTAAATACTATGCAGCTACCGTA
-GATATGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAGCTGCGGGGACTCCGTCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGACTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_f,g,t_Salmonella.enterica_II.1,40:f,g,t:z42_AY353535_g,m__1518
-ATGGCACAAGTCATTAACACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCACACTGAGTTC
-CGCCATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGTGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATTGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCCCCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTAATGACGGTA
-ATGGTACGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCGGCAGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAATGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGTGAAAGTAAGATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCGCTGGGGGCAATTCAGAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCCGGTACCTCTGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_IIIa.40:z4,z23:-_AY353496_z4,z23__1242
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGTGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATTGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCTGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATACTGCTGCAGCTAAATACTATGCAGCTACCGTAGATACGACAACGGGTAAAATCAGTTTT
-GATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAACCCTATCACGCGAAGTGAAATTTGATGG
-AGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAGATGATAAGGGTAAAGATCTCTATGCTATCCAAACGTTAG
-ATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAAACTACGGAGGGCGCTGCCGTAGCCTTA
-GCTGCAAACGTCGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACTGTTGACGCATTCCGTAGCCAGTTGGGTGCGGT
-GCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAAATAACCTGTCTTCTGCACGTAGCCGTATCGAAG
-ATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGCACTTCCGTTCTGGCGCAG
-GCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z24_Salmonella.enterica_II.1,9,12,46,27:z4,z24:1,5_AY353504_z4,z23__1281
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGTTGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAAGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACAACGGGTGGTCCCGCAGCAGATAAAT
-TATCTTTGATAAAAGATGATAAAGGAAATTACCTTGTTAAAGATGTTACTGTCACTGCTACTCCTAAATATTATGCCGCT
-ACCGTAGATAATAGTACTGGGGAAATTAGCTTTGATTCGGCTAAAGAAGTTACTTTAGCTGGTGGTGCACCAGCTCCGAG
-TACGGTTGATACTTTGTCGCGTGAAGTGAAATTTGATGGAGCAAATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAG
-ATGATAAGGGTAAAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCC
-GCGGACGGTAAAACAACAGAGGGTACTACCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCT
-TAAAACCGTTGACGCTTTCCGTAGCCAGTTGGGGGCGGTGCAGAACCGTTTTGAATCTGCTATCACTAACTTGGGCAACA
-CCGTCAACAACCTGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->fliC_l,v_Salmonella.enterica_Give_AY353443_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAATACCACTGGTCTTAATGATGCAGCTCTTAAAACGGGTGTTGGTGGTGCAACAAACG
-GTACTGCTGCAATTAAGGATGGTAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTAGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGACAACCACGAA
-AGTGACAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGCCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCACAACTTCAAAGCACAGCCA
-GAGCTGGCTGAAGCGGCTGCTACAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCT
-GCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-48_unknown-from-serveral-cdc-new-genomes__4477
-CTGCAGCAAGCTCCTGAAGCTTATCCCCACCTTGAGCACCAAATTTCCAATTTTGTAAAATGTTACTCTTAAAGTTGCTA
-CAATAATCACACTCTCCACTATTATCAAAAACTATGTTAGGATCAGATGTATCCATAATACAATGGCTACAAACTTTATA
-ACTTTGATTTTCCATGTTCCCCCCTATTTAAAATGACTTTCATAACAATTTCATTAATTTCTTCTGTTTGTACTACATGT
-AATCCATGAAATAACACTAGTGTTCCCATTTCTTCATATTTATATGCAAGAGTTGATGGATATGAGATAACTACATCAAC
-CTTAGGAAAAAAGTTATCGTCTATAATAAAATTGAATTTAAATTGCCTGACTTTTGAGGAAGCTCTTGCCTTAGGATGCT
-CTTTATAATAAATAGAACAATTTTCAATTTGTTGATTAATTAGAGAGCAAATTTTTAGCTGACCTTTCTCACACAATGAA
-TGCCCAATAACTAACAATGTTAGCTGGTTCGATGATACTTGAGTAAGGGACAACATAGGTTTACTATATTCCACCTTTAT
-AATTTCGGCCAAATTATAATCCAGTATGTTGTTTATAAACAATTGAAATTCAACTTCATCGAAAACAATTATTTTATCCA
-AATGCTTTAATTTATATGGTATCTTAAAAAGTAAATAGGCACTTGAATCAAGGGCTCTCAAAGATCCATGCTGGATAAGA
-GTATATTGAATTCCTTTTTCTCCTAACATTGAATCAATCAGGACCGCCCAACGATCATAATGTTCACTACTTATAACCTT
-TCCTTGTATTCTATTCATCACTAATGCGACAAGGAACCAAGATGGAGCTGTGTATATTTGCAGGCACCATTTGATAGTAT
-GCTTCGATTTAAAAAAATAGAAAAACGCAAATATGCTTAGCAACATGCTTTTGAAAATATCTAAATACGAAGCCATCTCA
-TAAATTGAAATAACTGTAGCATCACTTCTATCATTACACGATGATAATTTAATAACATTTAACTTTTTTCCATCCGAAAT
-TTTACTATTATAATAATTAATTGCTTGCTCCGTACCTATTTCAGCGAATGAAAAATAGTAAAAGTCGCTTCTATCAATCA
-ATTTATTTTTATCTGTAATTATTTTTTTGTATAATGCAACTATACATTTTAATATAGGATAAAATATAAACCCCCCTAAT
-ATGAAGAAAATCATAAGAGAGATATATCCCCCCCACAATTTATGCCTCCCATATGCCCATTTGCTGATCCGAGGTAATGG
-TGGTATTCTACCTTTCATGCCAGCGATCAACAATTTATCAATAGAGATTTCATTTTCCGTAGCTAACATATAGTAGCGTA
-AATATGTTTTATAAGAAATTCTCATCCGACATGCCCGTCATTAATAATATGTAGACGCTCTAATTAATAATCAATTATTG
-ACTTTTTTAGAGATATTTGTAACTAGTTAACATGAAAAATTCATATAAAAATGCTAAGTCATCTTCTTATTTATATTTTT
-CTTGTTGACTAAATAAATTATCGATATAAAAATCATAACTGCTGACGGTGTAAAATACCCAGAACCTCTTAGCAAAAAAT
-ATATTATGCTCATTATTAAAACTATACTAAAAAACTTTATTTTTTTGTCATTGCATTTAAACCGCATGACACCTAAAAAT
-AATGTATAAAGAAAAAAAATGCCCCCTAAGATACCAAATTCAACAATCAATTTAGAAATAAATAGTCCACCATCATATAA
-GTTAGAATCTGTATTCCCTCCCCTTAACCGCCCAATGATTGATACAAACTCTCCTCTTTCATTTGCATATCCCATATTTT
-GTAAACCATAACCAAGGCCATAGCTATCTCGCAACGCTAGATATGCTTGTTCATATCCAGATAATAAAGTTAATGTTGAT
-GTATTTTTCGATTCTTGGCTTATATCTAATCGTTGCGAATAATAACTTAGTTTATCAATAGGTAAGATTCCAGCAATCAG
-CATACACGATGAAGATACGCAAATCATAATAATGAACATTGATTTAACTCTCATATAGTTTATAGCTATCGCTACAACAA
-TACCTATAATCAATGTTAAATTCTGGACAATAAGAGCCGTAAATAAAAGAGGAATTCCATAGAGCAAATTTAATTTTTTC
-TGAGATATCTTATAGCAATAAAAGATTGTAACTATTAGTGCATAATGAGAGGGCTCAGTAAAAAACAACATTTCCTTTGA
-AGTGCTACTGCTTGATAATATAAAAAGAGATGACAATACCCCCAAAGCTATTAGTAATTTAAATAATTTTGATACTATTC
-TATCAAACTCCTGGTGAGTAATATTATCAATTGCCACCGATGAAAAATAACATGCGAGTAAAATATAAAATAAGAATAAC
-AATGATGTAATATTCTTAGTGAAAGTAGTATTACCATTCTGAAATAGTAGACTACTTAACCCAAAATGAAACAATATTAG
-AAAAAAACTAATAACACTAAAAATTAAAAATGAATAACTTATAGTTAATTTATTAAAGCCAGAAATAACCACTAAAAATA
-ATATTATAGTTGATATAAAGAAAATACCAATGAAATTCGAACCAACTTTATCATTTAACACCATTAACAGGCCTGGAACC
-AGCACCATTCCATAAAAAAATATTGAGGTCAGAACTTTATTAGTATTAAATTGCATTATAGTTAAACCTTATTATTCCTT
-TTAATTACAATAAAAAATTATATAGCATAAGTATTTTAATTTAAAACAATTAAACTTTTCGTACTTTTCGTAGTTCATGC
-TTTTAATAATAAACTATGTATCTCACCGAGAAATTCGCTATAACAAACGTAACACTATGCATTTTATATCTATATAAAAT
-ACAATAGGTAAGATATCATCTATTAGAATAAAATAAACTCTCGCCGGCAGATCGTCTAATTATAACCAAGAGTTTTATAA
-ACATAGCCAGCTTTAAAAATAATAAAACTGAAAAAGAAATAATCATACCATAAGCAATGTAATTAATATTCGCGACCTTA
-AGTGCAATATAAAGAAAAGATGAAAACAGTAAAAAAGTTAAACACTGGCTCCAGACTATCATTTTATCTTTTCTTAGTGC
-ATACAGACCCAGATGTGGTATAAGGCTTAAACAATATATAAACGTCGCCACAATTAGCAACTGAAATAGTGGAAGTAATT
-CCCAATATTCGATCTTTCCAATCCACTGAATGAGGATATAACCGGTAAAAAAACAACAAATACATAACAGAAGCGACACT
-GCTATTAATTTGAATGCGAATGACTTCATTCCAGCGATGAATCCAATGTAGTCCTTTCGATAACACAATTTTGCCAATTT
-TGGGAATGAAAAAGATATTAGGATCGTATCGAGGAAAGATTGTATAGCCGCCGTCATACTAATAAACAAAGTATATACAC
-CAAGGATCTTTAGTCCAGCAATATGTTCAACGGCAAACCTATCAAATGTAAAAAAACCTCTGAGCGCCAAAGCGGCAATT
-AGCATTGGTGCGGAAAGGATAATTCCTCTCATTATCCAGCGCCAGCTAAATGGCGATGTAAACTTCCGTTTATTATTTTT
-TAGAATATAAAAAAAGCCCATTGCACTAGCACAGAATGTACCAAATAGCCATAATGTAAATACAATAAATAGATTTCTTG
-ACGTAGGAAATAATAGCATAATGGCTATCACGAGCCAGCACCAAAGTCCTTGTCGTATAAACAACACAAGACTTGCGAAA
-GCTTGATTCTCGAGAGTTATTAATATTCTATTAATTTCTTGAGCTATATGTTCAAAAAAGAGAATAGCAAGAAACCAGTA
-CTCACTTCCGTGGGGAAGAAAGGAATAATGTTGGATAACAATAAAAATGGGGATATAAAATATATATGATAATACATAAA
-AAAATGACTGATTTTTTAAAATAAAAAAAAGATCGTCACTTTTTGAGTTTATTATCTCTCTAGTACTATAAGTATAAAAT
-TCAAATCCAATAGCAAAAATTGCGTAGCCCACAGCGGCGCTTATAAGACCATAGACTCCCAAATCTGATGATTGCAACAA
-TTTTGCTAATAAAATTATAAACACAAACTTGCTTATCAAAGTAAAGCCACGTATACCTATACTTAAATAATATATAAAAA
-GAGATTTTTTCATTTGAATAAGCCAATAATGCTTAAAAATATCGTTAACATAATATTAAAAATAGGCCATATACTAATAG
-ATAGCTTTTTAGAAGTTTACAGATCATAGAATGCTTTGAAGCCTAGATTAGCAGGATCATTTGATAAAAATGCTTTAATT
-ATATCCACAATTCTATCTTTTACATTTTCCATAAAATATGGGTTTTTAGAGCTTTCTAGCTTAGAAATAAAAACTTTATC
-AGTCACACTCGAAATAGCTTCACGTATAGCATTTTTTTCACAAATAGTATCGACAACGCTTTCACCACGAATGCGCC
->O-4_wzx__1293
-GTGAAAGTTCAATTGTTAAAAATTCCGAGTCATTTAATTGTTGCAGGTTCATCATGGTTATCCAAAATAATAATTGCCGG
-GGTGCAGTTAGCAAGTATTTCATATCTTATTTCTATGCTAGGTGAAGAGAAATATGCAATCTTTAGTTTGTTAACTGGTT
-TATTAGTATGGTGTAGCGCTGTTGATTTTGGCATAGGTACAGGACTGCAAAATTATATATCAGAATGCAGAGCCAAAAAC
-AAAAGTTATGATGCATATATTAAATCAGCATTACATCTAAGCTTTATAGCTATTATTTTTTTTATTGCTTTATTTTATAT
-TTTTTCTGGGGTAATTTCCGCTAAATATCTTTCTTCTTTTCATGAGGTATTACAGGACAAAACCAGAATGCTCTTTTTTA
-CCTCATGTCTGGTTTTCAGTTCTATTGGAATCGGAGCTATTGCTTATAAAATACTTTTTGCCGAATTGGTCGGGTGGAAA
-GCTAATCTATTAAACGCATTATCTTATATGATAGGTATGCTCGGCTTGCTATATATATACTATAGGGGGATCTCAGTTGA
-CATAAAATTATCACTAATAGTCCTGTATCTTCCAGTGGGTATGATTTCATTGTGCTATATTGTATATAGATACATAAAGC
-TTTATCATGTTAAAACAACAAAATCTCATTATATAGCAATTTTACGTAGATCTTCAGGGTTTTTTCTTTTTACTTTATTA
-TCGATAGTGGTGCTTCAAACAGATTATATGGTCATTTCTCAAAGGCTAACTCCTGCTGATATTGTTCAATATACAGTAAC
-GATGAAAATTTTTGGTTTAGTCTTTTTTATTTATACTGCTATTTTGCAAGCATTATGGCCTATATGTGCTGAATTGAGAG
-TCAAACAGCAATGGAAAAAACTTAACAAAATGATAGGTGTCAATATTTTGCTTGGCTCACTATATGTTGTTGGATGTACA
-ATATTTATTTATTTATTTAAAGAACAGATATTTTCAGTAATAGCCAAAGATATTAATTATCAAGTTTCTATTTTATCTTT
-TATGTTAATTGGCATATATTTCTGTATTCGCGTTTGGTGTGACACTTATGCAATGTTATTGCAAAGTATGAATTATTTAA
-AAATACTTTGGATATTAGTACCACTACAAGCAATAATTGGTGGAATAGCACAATGGTATTTTTCTAGTACGCTTGGAATC
-AGTGGAGTGCTGCTTGGCTTGATTATATCTTTTGCTTTAACTGTTTTTTGGGGGCTTCCACTAACTTACTTAATTAAGGC
-AAATAAGGGATAA
->O-41_wzy__1221
-GTGTCGAAAAGTAATAGAATTTTAATCATTGCATTTTTGTTGTTATATATTATATCTGCGTTAATATCAATGTTTCAGAC
-TTTAACGCAAAATAACTATCCAGGCGAATTAGAAGAGTTCACAAGGTCTATCTCTACTGTTGAAGTTATCCTGTTGAGCA
-TGTTAAACATTATCTCATTCATACTTTGCTATTTTGTGTTTCTCGTGCTTTCTAGTTTTAGGCTTAAGCTTAATAAAAAT
-ATCAACGTGATTTTTAATAAGACAAAAATTAATAAATTATTCTTTTTCTTATTAATTGCACAAATATTTTTTTTAGTAAC
-AACGGGAGTAGGAAAAGTAACTACTAGTGCTAATGAAATTGCAACTTCCATTTACAGTCCTTTATTTTCTTTTCTGAAAC
-CTGAGCCGTTTATATATTTATTTTTTCTGTATTTTAGAATGGATAAGAATTTCTCTTATAAAGGTAATATTCTGTTTACA
-ATAAACATTGTATTATTTATTTTCTTTAAAATACTTCAAGGATGGACAAGTTTTCTTCTTATACTGTTTTTTTTAGAGAT
-GTACGCGCGATACCGCCTAAAAAATAAAAAAATTATTTTATTGCTACCCCTGTTTATTATTTTTTTTGGTGGCTGGGTAT
-ATCAGTATGCCTTTGTATTAAAAAATGAAATTCGTGGGAATGATGTGGCTCCTTTGAGTTATTACCAAGGGGTTGAACAG
-TTAACATCTAGGCTATCAATGAATCCTGTTTCATTAGGTGCTTATGAAAATTACGATACTGTAGTACATCTATATCAAAA
-AGAAAATAGAGTTTTTAAAGAATCTGGATCTTTATTGAGGCCAATACTACCTGCAGGTTTTATAAATAAAGATTTTAGAA
-TACTCAATAATAATGTTATGACATCATTTTATCCAGACTTAAATCCATATACGAGCTCTGATTTTGGTGTTGTAATGTAT
-TACAGCATATTGTTTAATTCTAGCCTACCTGGTTTTATACTGTTAACTATACTTACTATCCTGTTGTTTATTATAGCAAA
-AATATATTTTGATTCTATGTCGTCTTATAATGGGCAATATGATATCTTACTTTTTTTTATTATTTTTTATTCATTTTATA
-CAGTAAGTATAGAAAACGTATTTGGACAAGGGTTCTTTCCATACATATTTAGTACTTTATTTTTTTTCTTAACTGGTTGT
-ATCAAATTTAGCCGAAGGTAA
->O-41_wzy-from-Waycross-SRR1233896__1221
-CTATCTTCGGTTAAATTTGATCCCACCAGTTGCGTAAAAAAATATAGTACTAAATATGTATGGAAAGAATCCTTGTCCAA
-ATACGTTTTCTATACTTACTGTATAAAATGAATAAAAAACAATAAAAAAAAGTAAGATATCATATTGTCCATCATAAGAG
-GACATAGAATCAAAATATACTTTATCTATCAAAAACAACATTATAGTAAGTATTGTTAACAGTATAAAGTCAGGCAAACT
-GGAATTAAACAATATACTGTAATACATAACAATACCAAAATCAGAACTCGTATATGGGTTTAAATCCGGATAAAATGATG
-CCATGACATTATTATTAAGTATTCTAAAATCTTTATTTATAAAACCTCCAGGTAGTATTGGTCTCAATAAAGATTCCGAT
-TCTTTAAAAACTCTATTTTCTTTTTGATATAGATGCACAACCACATCGTAATTTTCATATGCACCTAAAGAAACAGGATT
-CATTGATAGCCTGGATGTTAGCTGCTCAACTCCCTGGTAATAACTCAAAGGAGCAACATCATTCCCACGAATTTCGTTTT
-TTAATACAAAGGCATACTGATATACCCAGCCACCAAAAAAAATAATAAACAGGGGTAATAATAAAATGATTTTTTTATTT
-TTTAGCCGATATCGAGCGTACATTTCTAAAAAAAATAGTATAAGAAGGAAGCTTGTCCACCCCTGAAGTATTTTAAAAAA
-AACAAACAATAGTATATTTGTTGTAAATAGAATATCGCCTTTGTAAGAGAAATTTTTATTCATTCGGAAATATAGAAAAA
-ATAAATATATAAAAGGCTCTGGTTTTAGAAAAGAAAATAAAGGACTGTAAATCGAAGTTGTAATTTCGTTAGCATTAGTA
-GTTACTTTTCCTACTCCCGTTGTTACTAAAAAAAATATTTGCGCTATTAATAAAAACAAAAATATCTTATTGATTCTTCT
-CTTATTAAAAATCACACTGATATTTTTATTAAATTTAAGTCTAAAGCTTGAAAGCACGAGAAACACGAAGTAGCAAACTA
-TGAACGAGATAATGTTTAACATGCTCAATAGAATAACTTCAACAGTAGATATAGATCGTGTGAATTCTTCTAATTCTCCC
-GGATAGTTATTTTGCGTTAAGGTCTGAAACATTGATATTAACGCAGATATGATATACAACAGCAAAAAGGAAATGATTAA
-AGTTCTATTACTTTTCGACAC
->O-16_wzy__1233
-ATGAATAACCAAGATTTAAAAATTGGTACTGCATTTATTTCAATGATTTATTTTCCCTTGGGATTTTTGGTATCACTTAT
-TGAAGTAATTAATGGATATAGGTGGGGAAACTTTCTATTCGCATTTATCTTGGGTCTATTAGCATTCTCACTAATACCGT
-ATAGTGATTGGGATCTAACAAGACATTATGAAACCTATTTAAGTTATAATAATACCTCTTTTAGTGAAGTATGGGAACAA
-AGTGATAATCGATATTTAGTAATAAATACTATAATTTATCTATTTAATACTTTCGCTATCAAAAAGGAGTTTTTACCGTT
-CTTTGCTGTTTTTATATCTTATTTGTTTTACTTAAATGTATTTTCGAAATTTATTAGAGAAAAAAAGCCTAATATTTTAA
-TCCGAAGCATCTATTTATATATTTTATTAACGGTAATACCTTTTTTTGCTATAGCTAGTTCACTACGACAATATTTAGCC
-TTCAGTATTATATTATATATAATAATTACCTACTGTAGTAAGCAAGATAGACGTACTTTCCTTATATCTTTCCCACTAGT
-TGTTATGGCAATAGGAATACATCCAAGCGTAATTCTGTTAATAGCACTGTTTCTATTTAGCAGATTTATACGCCTAAATC
-GAATAGTTGTGCTTCTTATTTTTTTCATATTAGTTCTAAATTTTAATGGTTATATTTCAATACAATTATTCAAGCTATTT
-AAACCATTATTAATGAATACAGGTTTTTATTATCCGGAATATATGGATGCAGAGGTTATTCATATGAATAACCAACTATT
-AAGCACGAATGAATTTATACTTAATAAATTGATTTTACCCAGTATATTTTATTTGTTAATCCCAGTCTTTTTGATTTTCT
-ATAAAAAATCAAACAGTAAACAGGAAAAGCAACTAAAAAACTATTGCGCACTACTCCTTTTGACTATATGCCTGTTATCT
-TTATCACCTGATCTTTTTTATCGATTTTCAATATTTTGGACATTATTCTATAGCTATATATATTTCACTTATGATAGTGA
-GAGAATGAGTTTGCCTGCCAAACAGTGCTATCTTGTAATTATAATTGTTGCATCATGTGTCATAAACTTAGCTCAAGCTA
-ATATGGGCAAGAAAATCATATATAATTCATGGGGATCATTTTTTTACCAACCTTCACTATTCGTGTTTGTTAAAGAAATC
-AAAACGACTGACTATATAAATGTGAGCCAATAA
->fliC_m,p,t,u_Salmonella.enterica_Haelsingborg_AY353409_g,m__1527
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGGTATGATACCTATGCTGTTGGTGCCAATAAATATCGCGTGGATGTCAACTCAGGGG
-CGGTAGTAACTGACACCACTGCTCCAACTGTTCCTGATAAAGTATACGTAAACGCTGCAAACGGTCAGTTGACAACTGCC
-GATGCGCAAAATAACACCGCGGTTGATTTGTTTAAATCTACTAAATCTGTTGCAGGTACTGACGATGCCAAGGCTATCGC
-AACTTCTATCAAAGGCGGAAAAGTTGGTGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATATAAAAGCTGGTG
-ATGACGGTAATGGTACGGTTTCTACTACCATCAATGGTGAAAAAGTTACATTAACAATTAGTGATATTAGCGTGGGTGCA
-GCAGACGTAAATAGCGCGAAGATTCAATCAAGTAAAGATGTTTATACTTCCGTTGTAAGCGGTCAGTTTACTTTTGCTGA
-TAAAACCAAAAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAA
-ATGGGGCTGAATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCT
-TCTGGCGTAAGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTC
-TGCATTGTCAAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTG
-GCAATACGGTAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCC
-AAAGCGCAGATCCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACT
-GCGTTAA
->fliC_k_Salmonella.enterica_IIIb.17:k:z_AY353437_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACTATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACCATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATGCGCTGAATGTGCAGAAAGCTTATGATGTAGATAGCAAACCAGCGCA
-GAGCATTAAACTGGATACCAGTGCTCTTACTGCTACTGCAATTAAAGATGGTGTAACTGGTGCATCGACAGATGGTGCCC
-TAAAAGACGGTAAAGTTTACTCTAATGGCACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGATACTGCTAAA
-GGTGGTTTCCTTAAAGTAGATGTTGATTCCGCTACTGGTGCAGTTACCGTTCCGGGTACGGCAGCAACAGCAGCTGCAAC
-TAAACCTGCCGGTGTGAAAGAGGTTACAGAAGTACAAGGTAAAATCCCAGCATCTACTGCTATTCAAGACCAATTGAAAG
-CAGGCGGTGTGACTACTGCAGATGCAGCTACTGCTGAAGTTGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTATGCTGTAAAAGTAGGCAATGACTACTACGCCGCTACTCAGAAAAAAGATGGTAGCTTTAGTGTTAACAC
-TACGTCTTACACTGCAGATGACGGTACATCCAAAACTGCACTAAACCAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_e,h_Salmonella.enterica_Newport_AY353379_e__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTATCAGCAACTGCTGCAAT
-GGATCCGAAATCATTTACTGACGGTACTAAAAATCTTACAGCGCCTGATGCTACTGCTATCAAAGCCGCGTTGGGAAATC
-CCGCGGCAACAGGCGATTCCTTGTCTGCTACGCTTTCGTTTAAAGATGGTAAGTATTACGCCACTGTTGCAGGGTATACG
-AATGCTGCCGATACCAGTAAGAATGGTAAATATGAAGTGAATGTTGATAGTGCGACAGGTGCGGTAACTTTCAATGCAGC
-ACCAACTAAAGCCACAGTAACTGGGGATACAACAGTAACCAAAGTACAGGTTAATGCTCCTGTTGCAGTCAGTACTGATG
-TTAAAAAAGCGCTAGAAGATGGTGGCGTTTCAAATGCGGACGCTACCGCAGCTAAATTAGTAAAAATGTCTTATACCGAT
-AAAAATGGAAAATCTATTGACGGTGGTTATGCGCTTGAAGCCGGTGGCAAGTACTATGCTGCAACCTATGACGAAGGTAC
-AGGTAAAATCACAGCTAATGTAACCACTTATACTGATTCCACGGGAGTCACAAAAACTGCGGCTAACCAACTTGGTGGCG
-TAGACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCTAGTAAAGCCGCTGGTCACGATTTCAAAGCG
-CAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGA
-TGCGTTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACT
-TGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATCCTGCAG
-CAGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-63_wzy__945
-ATGATAAACAAAAATCGATATAAAGGCTATTATTTAATTCTTTCGTTTTTTCTGACATTAATTTTTGCACTTCGGTTTTT
-TTATTTTTCCCATTATGAGATATTATTGGTCAGTGATACCTTAGAGTATTATAATAATTTTTCTGATATCGAAAATGATT
-TATTCCCATATGGCTTAGAAATATTGATGCCAATTTTAATGTTTTTTATAAAAGCGATAGGGGGAAATTTTTATGACTTT
-TTATTCTTTGTTTTAACACTATGGCTCCCGTTGATTTTTATTATTATTTATAGAAGTTGCTATAACCCATTATTTTTCAT
-AATAGTTTTTATTTCTTCGTTCTTTTATATGAACGCTGTATTAATTATTAGGCAATATATTTCTGGGGTTTTTTTTATTT
-ATTGTATGCTTTTTGCGTATCAACATAAAAAGATATCCTTATTTTTAGCATTTTTATCAATCTTATCTCATTCCTATGCA
-ATAGTATGGTTAATAGTTGTCGGACGTTGGTTTAGAAATTTTATCACCAATAAAATTATTTTAAGTGTTATTATACCAAT
-ATCATTATTTGCTGTAAGCTTCTCATTTTCTTCTTATCAATTGCAGTCAGTTTCTTCCTTTCTCCTCCAATACAATATGC
-CAGGTTTGTTACAAAGGAAAATACAATATTATAATAATAATAATGATCCTGTAGAGTCAGTTTCAAATATAAGTTTGATT
-CTTGTTGATATTATATTTATATTAAGTATAATAAACCTTTTGAAACAAAAAAATGAATTTGTTTTAAAGTTATCATCTCT
-CCTAATTTTTAATTCCTTTTGTTTCATTATGCTTGGTTCAAATATTGTTTCAGCGAGTCGTTTTGGCTTTTGGTCATACT
-ATTTTTCAATACCTTCATTAGTAATACTATTGTATTATTGTCTTAATCTTGTTAAAGATAAATAA
->O-9,46_wbaV__1002
-ATGAAGGTATCATTTTGTATCCCAACGTATAATCGAGTAAAATTCATTGAAGACCTTCTTGAAAGTATTAATAATCAATC
-TTCTCACTCCTTAATTGTAGAAGTATGTATTTCAGATAATGCATCAACTGATGGAACTGAAGAGTCAATAAATATCTGGA
-GAGATAGATTTAATTTTCCAATTTTGTATCAAAGGCATAACGAAAATATTGGGCCAGATAGGAATTATTTATCTGCAGTT
-AATATGGGGACTGGAGATTATTGTTGGATTTTCGGAAGTGATGATATTCTTACAAAAAATTCCCTTGCATTGATGGAAGA
-TAAATTGGCTGCCGGAAGTGGCATTTATTTATGTGACAGACGAGAATTAGATATTTCAATGACGAAAATATCTAATCCAC
-ATCGGCGATGGTTAAATGGTGGCAGTAGATTATTTTCTTTTAGCAATGAAGCTGATTTGATAGAGTACTTTAGTAAATGT
-AACTCAGTCGGCGGACTTTTTAGCTACTTAAGCTCTATTATAGTGAAAAGGAATAAATGGTCTGACGTCATATTTGACGA
-GTCATACATTGGTACAGCTTATGCGCATGTATATATTTTATTAAGAATAATTAACAATATGAATTCGACCCTGCAGTACA
-TATCACTGCCACTGGTTGATTGCAGAGGAAATAACGATACATTCGAAAGTAATGGGAAGGCTCGTCGAATAAAAATTGAT
-TTCATCGGTTATTTAAAACTGAGGGAGGATTTTTATAATAACAATACAAAAATATATATCTCATTTGGACGGGTTCTTAC
-AAAAGAGCGTCCTTGGTTTTATACTTCTTTAGCTATGGCATGTTATGGTGATTCCACCGATAGGGCTGAACTTGCATCAT
-TTTATAAGAAGTTGGGATATCCGAAAATAGCCACCAATTTAATATTTCGTCTTAAAGGGCTGGCTAGCTACACTAAAAAA
-ATAAAATTAGCAAAAATGGTAATAAAAAAAATATTTTCATAG
->O-65_wzy__1125
-ATGGTAATCTATCTGGTTCTTCTTATTTTTATTTTTTCTTTCTCTATAGTGATGATGTTAAATCCTTCGAAAAGGACTGC
-TAACAAATTTTTAGGCATATATGTATTGTTGCTATCACTATTTGCAGGTTTAAGATTTCATACTGGTTGGGATTGGGAAG
-CGTATGATTATTTTTTTAATCTATTAAATCAAGCTAACATTTATGATTTTTTTAGTTACAATATATTTAACTATGAACCC
-GGTTTTGTATTACTTTCATATATATCAATATTATTAAATATTCCACCTTTTCTGCTTTTTGCTATAATAACTGTATCTCT
-CATCGTATCCTCTGCTCATAAATACTTAGGTAAATTTGTCCCCTATATATTTTGTTTGATTTATCTGTATTATGGTTATT
-TTCATAACTTTTCAATAGTACGACAAGGAATAGCAGCTGCTTTATTTGCTTACTCTATTCGTTTTCTTATTGTTAGGAGT
-TACAAATTTTATTTTGTCATAATTTTTGCTTCGTTATTCCATATATCAGCAGCCATGTTACTAGCTATACCGTTACTCCT
-TGTGATAGCTAATCGGGTTCCGTTTTTTTTACTACTGCTATTATCTATATGTATGGTTCTTTTGCCTTTAAGTGATATGC
-TGGGCTTAAAATCATTAATGTCTAAAATACCGGCATTAAATATTTACCTAAATAATAGCACGTTAAGTTACAAAGTCGGA
-TTTTCATTAAAATACCTAGAGTTGCTAATTGTATTTTATTGTTATTATGAAAGAAAGTTTTTTTTGCCACTTATAAATAA
-TTTTGGAATAAGACAGTTTTGGATCTTTAAAGGGCTCATTATAATTGAGCTGATGATTTATTCTATTTTTAATGATTATA
-GTATCATTTATGAAAGATTGAGTGTATATTTTGAATTTTCACACGCTATCGCAATAGCAATGATCGTTTCAACTTTTAAA
-TATAAAAGAATACAATTTTTTCTAATGCTTATATTGCTTTTTTTTGTATTTGCAAGATACTATCAATTAGTTTATTCCCC
-TGTCCGAGTGCCAGGCGAAATGTCACATCTTGAACGATTCGAAAATTATTGTTCTATTTTTAACGAAAGAGAATGCCAAA
-GGTAA
->fliC_i_Salmonella.enterica_IIIb.57:i:e,n,x,z15_AY353432_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCAATACTGCGATTGCTTTAAACAATGGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACAG
-ACCAGCAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TGCAGGTGGATTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCCAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCCAGCAAAGCCGAAGGTCACAACTTTAAAGCACAGCCCGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,w_Salmonella.enterica_Ayton_AY353446_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCACAGGACAACACCCTGACCATCCAGGTCGGCGCGAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAATACCGCTGGTCTTAATGATACAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAACG
-GTACTGCTGCAATTAAGGATGGTAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTAGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCACTAA
-AGTGGCAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAGCCA
-GAGCTGGCTGAAGCGGCTGCTGCAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_m,p,t,u_Salmonella.enterica_Haelsingborg_AY353410_g,m__1527
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGGTATGATACCTATGCTGTTGGTGCCAATAAATATCGCGTGGATGTCAACTCAGGGG
-CGGTAGTAACTGACACCACTGCTCCAACTGTTCCTGATAAAGTATACGTAAACGCTGCAAACGGTCAGTTGACAACTGCC
-GATGCGCAAAATAACACCGCGGTTGATTTGTTTAAATCTACTAAATCTGTTGCAGGTACTGACGATGCCAAGGCTATCGC
-AACTTCTATCAAAGGCGGAAAAGTTGGTGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATATAAAAGCTGGTG
-ATGACGGTAATGGTACGGTTTCTACTACCATCAATGGTGAAAAAGTTACATTAACAATTAGTGATATTGGCGTGGGTGCA
-GCAGACGTAAATAGCGCGAAGATTCAATCAAGTAAAGATGTTTATACTTCCGTTGTAAGCGGTCAGTTTACTTTTGCTGA
-TAAAACCAAAAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAA
-ATGGGGCTGAATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCT
-TCTGGCGTAAGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTC
-TGCATTGTCAAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTG
-GCAATACGGTAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCC
-AAAGCGCAGATCCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACT
-GCGTTAA
->fliC_b_Salmonella.enterica_I.6,7:b:z33_AY353361_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCAGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGCTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTACAGGATGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAGAGATGTTACCACCTATAAAAATGGTGGTACTACTCTTACAGCACCTAACGCAGCAGCAATTGATACCGCTTTAGGTA
-CGACTGGTGCGGCGGGTACTGCGGCTGTGAAATTTAAAGACGGTAACTACTTCGTTGAGGTGACCGGTACAACTAAAGAT
-GGTCTGTATGAAGCGACAGTTGATGCAGCTGGCGCGGTGACAATGACCGCAAATAAAGCAACAGTAACTGGGGCTAGTAC
-AGTTACTGAAAACCAAATTGTAGACGCTGTTACACCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGACAGGTGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCG
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAAACTGGTGAGATAAAAGCTAAAACTGT
-AAATTATACTGACGCTACTGGTGCGACAAAAACCGGTGCTGTGAAATTTGGCGGTGCGAATGGTAAAACTGAAGTTGTGA
-CCACCGTTGATGGTAATACTTATCAGGCTAGTGATGTAAAAGGGCATAATTTCCAGAGTGGTGGCGCTTTAAGCGAGGCT
-GTAACCACTAAAACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAAGTTGATGCGCTGCGTTCTGACCTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACTTGGGCAATACCGTAAACAACCTGTCTGAAGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCCCGCGCGCAGATTCTGCAGCAGGCTGGTACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_c_Salmonella.enterica_Choleraesuis_AY353364_other.c__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACTCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTAGATACGCTGAATGTGCAGAAAAAATATGATGTGAGCGATACTGCTGTAGC
-TGCTTCCTATTCCGACTCGAAACAGAATATTGCTGTTCCTGATAAAACAGCTATTACTGCAAAAATTGGTGCAGCAACCA
-GTGGTGGTGCTGGTATAAAAGCAGATATTAGCTTTAAAGATGGCAAGTATTACGCGACTGTCAGTGGATACGATGATGCC
-GCAGATACAGATAAAAATGGAACCTATGAAGTCACTGTTGCCGCAGATACAGGAGCAGTTACTTTTGCGACTAGACCAAC
-AGTGGTTGACTTACCAACTGATGCAAAAGCAGTTTCAAAAGTTCAACAGAATGATACTGAAATAGCAGCAACAAATGCGA
-AAGCTGCATTAAAAGCTGCAGGAGTTGCAGATGCAGAAGCTGATACAGCTACTTTAGTGAAAATGTCTTATACAGATAAT
-AATGGCAAAGTTATTGATGGTGGGTTCGCATTTAAGACCTCCGGTGGTTATTATGCAGCATCTGTTGATAAATCTGGCGC
-AGCTAGCTTGAAAGTTACTAGCTACGTTGACGCTACCACTGGTACCGAAAAAACTGCTGCGAATAAATTAGGTGGCGCAG
-ACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGGCACAACTTCAAAGCACAG
-CCAGAGCTGGCGGAAGCGGCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGC
-GCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z36_Salmonella.enterica_Weslaco_AY353483_z36,z38__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCAAACTCTGACTC
-TGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATTGCTACAACAGTTAAAGAAGGTAC
-GAAGCTCACTGCCGATTTTGCAGTTAAGGTCGCAGATTTTGATGATCAAGCAACAACTGGTAAATTAACTGCAGACTTAG
-AATTGAAGCAGGATAAATCCGGAAACTACTTTGCCTTCGATAAAGCAAACAGTAAATATTACGACGCAACTGTGGATGCT
-GCTACAGGTAAAATAGAATTTACTTCTGGGACAGGTAAAGAGACAACGAAAGATACATCTAAACTTACGGATGTTACTTC
-TTTGTCCAAAGAAGTAACGATAGATAGTGGGCTCACGGATGATAAATTATTAGTAAAATACAAAGGGGATGATGGTAAAG
-AACAGTATGCCGTTCAAACTCTTGATAATAAAGGTAATGCGACCTATAAGACTGCCGTTATAGCGCGTGACGGCAAAGTG
-ACAGAGGGTACTGCCGTAGCCTTAGCTGCAAACGTCGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGACGC
-TTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAGTCTGCCATAACTAACCTGGGCAACACGGTAAATAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGCACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_IIIa.44:z4,z23:-_AY353497_z4,z23__1275
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAACAACTGGTGGTCCGGCTGCGGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTACTACTGGGGCGGCTAAATACTATGCAGCT
-ACCGTAGATACGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGACTCCGCCAGCAGT
-AACTACCTTATCACGCGAAGTGAAATTTGATGGAGCAGATTTAAAAGCCGATCAATCTTTAGTGAAATATAAAGATGATA
-AGGGTAAAGATCTCTATGCTATCCAAACTTTGGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGAC
-GGTAAAACTACGGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAAC
-CGTTGACGCATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAA
-ATAACCTGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATT
-CTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z_Salmonella.enterica_II.16:z:z42_AY353469_k,z__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-CGGTGTTTCTAATTTGGATACTACAGGTCTTACTGGCGCAGCTATTAAAACTGGCGTTGCTGGAGCTACCACTACGAGTG
-GTTCCATTAAAAATGACAAAGTATACTATGATGATGCTACTAAAAATTATTATGTTGAAGTAGACTTTTCTGATGCCGCT
-GATACTGCTAAAAATGGCTACTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCCTCGACTGCTAAAGA
-AGCCGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCGTCTGCTGATGTGAAAG
-CTGCTCTGACTGCTGGTGGCGTTGATACTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTACACCGATAAAAAT
-GGTAAGACGATTGACGGAGGTTATGCTGTAAAAGTGGGTGATAACTACTATGCTGCGACCCAGAAAAAAGATGGTAGCTT
-TAGTGTTAATACCACGTCTTACATCGCAACTGACGGTACTACCAAAACAGCACTGAACCAACTGGGTGGCGCAGACGGTA
-AAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGTAGCTACTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCGCAGGTTGACACATTACG
-TTCTGACCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,w_Salmonella.enterica_Glidji_AY353447_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATATCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAATACCGCTGGTCTTAATGATACAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAACG
-GTACTGCTGCAATTAAGGATGGTAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTAGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCACGAA
-AGTGACAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCACAACTTCAAAGCACAGCCA
-GAGCTGGCTGAAGCGGCTGCTACAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCT
-GCGTTCTGACTTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_y_Salmonella.enterica_Freetown_AY353466_other.y__1521
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGACAGGCAATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAACACGGCTGTCAC
-GAACCCTAATTATGTTGATGGTGCAGCGTTAAGCACTACGATGCCTACTGCGGCTGAGATTAAAACGGCTATTGGCACTG
-GTGCGGGAACTCCGGCAGTTAAAGGTAATGAAGTTCAATTTGATAAGAGCACTGGGAAGTATTACGTTGAAATTGAAGGA
-TATTCAGCTCCTGATGCAGCTAAAAACGGCATTTATGAAGCCAAAGTTGCTGATGATGGCACAATATCTTTGGAGACTGG
-GACCAAAAAAATTGGCACCGCAATGCCTGCTGGTGCTGAAGTTATTACTCACGTGCAGAAAAAAGATCAACCAGTTGTTG
-TTGATGCCAGCGTTAAAGATGCTCTAAAAGCTGGTGGGGTAGATGATGCAGTTGCAGATACCGCGCAATTAGTCAAAATG
-TCTTACACTGATAAGAATGGTAAAACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGCAAAACCGAAGTTGTTACTATCGATGGTAAAACCTATAATGCCAGCAAAGCTGAAGGTCAC
-AACTTTAAAGCACAGCCTGAACTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCT
-GGCGCAGGTTGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->fliC_b_Salmonella.enterica_from-cdc_Stk1415_b,d,j__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGCGTGCGTGAACTGGCAGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTGCAGGATGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAATGATGTTACCACCTATAAAAATGGTGGTACTACTCTCACAGCTCCTAACGCAGCAGCAATTGATACCGCTTTAGGTA
-CGACTGGTGCGGCGGGTTCTGCGGCTGTGAAATTTAAAGACGGTAACTACTTCGTTGAGGTGACTGGTACAGCTAAAGAT
-GGTCTGTATGAAGCGACAGTTGATGCAGCTGGCGCAGTGACAATGACCGCAAATAAATCGACAGTAACTGGGGCTAGCAC
-AGTTACCGAAAACCAAATTGTAGACGCTGTTACTCCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGACAGGGGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCA
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAAACTGGTGAGATAAAAGCTAAGACTGT
-AAATTATACTGACGCTACTGGTGCGACAAAAACTGGCGCTGTGAAATTTGGCGGTGCGAATGGTAAAACTGAAGTTGTGA
-CCACAGTTGATGGTAATACTTATCAGGCTAGTGATGTAAAAGGGCATAATTTCCAGAGTGGTGGTGCTTTAAGCGAGGCT
-GTGACTACTAAAACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACTGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAACAGGCCGGTACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-42_wzy__1017
-ATGCCAGTAAAAACTAACAACTTTCTTTATTTCATAATGGTCATAAGTGCTACCATTTTTGCTGTTAAAATAGTGCCTTA
-TTCGAATGACTATCAGGCATATATTGATTTATTCAAATATACAATTCAAGATCCTTCTTACGAGAGAATGGAAATTGGCT
-TTAAAAACCTTATTGGTTTTTCAAAATTTCTTGATTTGAATTTTGATGTATTATGGTTTTTAGTTGCTTTTATTTCTTTG
-TCGCTAAAATGTTATGTATTAAAATCCTATGATTCAGATATCCTTGTATTATTTTTGTTGTACTTTTTGTACGCTATATC
-ATTATTAGCTTTACACGAAACCACACAGATACGAGCGGCTATTGCAATTGCTTTAGGTATAGCAGGCTTTCGATGTACGA
-ATAAATTTGTTGGTATCTGTTTAATCCTTTCTTCTGTATTATTTCACTATTCAGCAATTTTATTTATTATTTTGTATACT
-TTGAGCTTTATAGTTAAACCGTATAAGTTCACATGGTTAATAGTTGTTGTTACTATGGCGATACTAATACCCTTGCTTCT
-GGAACAATACTCAGATCCATTAATTAGTATTAATCCATTATTTTCATTATATTTAGAAAACTCTGATAATGCCAAGGTAA
-ATAAATTTTCTTTTACTTTAATTCTTGCTACAATATTTTTTGTAATAAATTTTTTTATTGGAAGAAAAATTAACTATTAT
-AGCAATAATAATTTCATATTTAAGCAATATAATCTTTTTTCTTTTCTTTATCTTTCTAGCGTAGTACTTTTATCTGCGTT
-GTCTTTTTCGCCAGTCATTTCAATAAGATTATATGAGTTATTTTCGTTAAGCCCTTTTATTATTATCGCATGCCTTTATT
-CTAAAAGTATGAAATACGTTTTTTATTCTAATATAAATTTGCGCTTGCTAAGAAGAGTTTTGCTTTTAACATTATGGCTA
-ATCTCAGTGCATCGCTTTATTGCTTATTACTTTGTTAATCCAATCATTAAATTTTAA
->O-47_wzy__1095
-ATGATTGAAGGATATGTAGTATATAATAGTATTTTTCTTCTTGCCTTACTATTTGGCTTTATGAAGAATTACTGTCTTCG
-GAAATATTTTTTATTATGCTTATTCCTTGTCTTATGGGTTCCACTTGCCACTCGTTATGGCATTGGTCGTGACTATTTTA
-GCTATGTTGATATTTATAAAAATGTGTTAGTTACCAGAGATGGTATTGAAGTAGGTTTTTATTATCTAAATTATCTGTTG
-GCATATTTTGGTTTCCATTATCAATCTATATTTATATTGACATCTTTTATTACTGTCTATTTAAGTGTTAAAAGTTTTGA
-TAGAGAATATACAATAGTATCAATTATATTATTTGGGGTTTTGGTTTACTTACAGGCGTTTAGTATTGTTAGGCAAATGC
-TTGCTGTAGCCTTATGTCTTTATAGCTGTTCGTTATGGAATAAAGGTGTTAAGGTTAAAGCAATTATTTTTCTTATGCTG
-GCACCTTTGTTTCATTATTCTGCTGTAATAATATTTATATTGGCAATAATTAGCAGATGTGTTAAAATCGATACGTTTAA
-ATGTCTTGCTATGTTAGGGCTTAGCCTTATTTTTGTTTTTGTATTTAATGGGATCGATTTTATATTTTCAAATCCTATAC
-TATTAAATAGTAAGTATGGATATTATGTAACATCAGCCTTTAACAGACCGACTGAAATAGGTTCAGGCATTGGAGTGGCA
-ATAGCATTATTTCTTCCATTCTTGATTTTTATGAAAGCATCAAAAATATATAAACATAATAAAAATTATAATCTGATGCT
-ATTAATAAACCTTGTATATGTTGTTTCATTTGTTTTATCTTTGAAAATATATATATTCGCCAGATTCACTGATGCGCTAT
-CCTTTGTCCTGATATTACTTATCCCTGCTGCTCTTAAAATATCAAATACTAGAGGCCTATATTATAACTGTATGTTATCT
-GTTGTTATTCTTCACATTATGCTATTTGAAGTAAATCTTAAAGCAAATACAATTGCAGCTGGAGATATGTCTAATAGCGG
-GCTTGGAATCATGCCGTATAGCAACATAATAAACGCACATATGCTAAAATACTAG
->O-39_wzy__1341
-ATGCCTATAGCTGTACATTTGATTGAGCTAGCATATGTATTAATAATAATATCATTTATTATCTTGTTTTACATGAAAAA
-TGTCCCATTATTAGAGGGAGGGTTTTTATTACTTATTATTTGTTCACCTTACTCTATTTCAATTATACCATTTAGACAAG
-ATACAATAGAACTCTATGGATTGTATAGTAATAGCGGGCTTCTTAATTTATTTAATTTTTACAAAGTAGCCGGCTTATCT
-ATTTTAGATCTAATAGCATTACTAGTTATAGTGAAAAACTTTAAATTAGCATTGAAGATGCCAATCTTTTTTAAGTTTTT
-TTATATACTAATAAGTTTTTTTTCAATAATAGCTTATGCAATATCAGCTTATTTAATATGGTCTCCTGAACTAGATAATG
-TAATTCGCGCTTTATCTGTCTTCAAATCAATTATATATATAATAAGTATTTATTGTGTTATTGAGAAAATTTGTTCACGT
-ATTGGTTTTAAATTATTTCTCAAAATACTTATGAATATAATACTAACATATTGTATTATTAATTGTGTACTACTAAGTTT
-TCTCCCCAGCTGGTATACGTGGGTGAAATATTCATTCAATTATTTATTTCTTGACCAAACAGATCAATTCCTTGTTTTTT
-TATTTTGTCTGTTAACTTTTTGGGGGCCATTAAGTAAGCTATATCGTTATAAGCTGTATGCTTTTTTATTATGTATTATG
-CTTTTTCTTAGTGGAGGAAAGGCTGGAGTCTATTCAATAATGATATTAGCAATGGGATGGCTATATCAAAAAAGTAATAT
-TAAAGGCTCTAATCTTGGAGTAATTTTCCTCTGTGCTATGATATTTTCATGGCTATTATCATATTTTATTGGAGTATATG
-AACTAGATATATCAATATACAGTCGTTATTTTCAAGTACAGCAATTATTTCTTAATTACTCTAATAATATTCTTTTGGTA
-TTTTTTGGTATTGGACCCTCAAAAGCTTATATTTTTTATGATTTTCCAACTATATTCGATCCCGGAGCCTATACATCAGA
-AGAGTTAAGCTCCAGTTTTAGATTGGGTTTTCAAATGCCGTATTTATCATGGATTAAAAACTTTGGTCTGTCTGGAGTTA
-TATTGCTATTATTGGCACTTAATTATATTATTAAAGTCGCATGGTCATTTAAGAAAGACGATATATTTTTTTCTGGGGCA
-GTATATTCTTTAGGCTTATATTTTATTCTAATTGGATTCATGGATTTTCCTGCTTTTGGTTTAAAGACAATTATCCCAAT
-AAGTTTATATATATATATAATAAATAATAAGCTAACATATAAAAAACAGGAGATTATATGA
->O-17_wzx__1221
-ATGAAATTTTCCCATAATACTGTATTTTTTTATTTGTTAACTATCGTAAATGGTTTGGTTCCGTTAATAACAATTTCATT
-TATATCAAGGATAGTAACAAGTGAGCAGCTAGGTATCTATTTATTATCATTTACGATAATGAATGTTTTAGGCTTAGTTA
-TAGATTGGGGCTTTACAATATCTGGCATTAGATTTTTAAAAAATAGTAATAAAAAAATGCCTGAAACAATATTCGTTTCA
-ACTACTTTTTTTATTAAAATTACTATATCTTGTGTGGTTTTTATTTCATACTTCTTTTTTTATATATTTTACTCGCATGA
-TGAAGTGTCTTTTTTTTTAATAACTATAATAGGAGCCTTTGTTACGGGGTTAGATAGCATTTGGATTTTACAGGCAAATA
-ACCGATTAATGAAAGTTATAAAAAGGAGTTTATACTCAAATTTAATATATGTTATAAGCGTTTTACCTGTAATTATCTTT
-TATAAAAATATCTACTACATATTATGGTTGTTTATTATATATAAATCTTACATGTTTCTGATATCTTTCCATGAGGTGAG
-GGCTATATATGCTATTACTTGGCGAAATATCCACAAGGAAGAAGTTATTACTGTTTTTAAAAGTACATGCGGCGTAGCTA
-TATTTAGAATATTTGCGCTGTCCTATACATCCGCAAATGGTATTTTTCTTAATTATTTGACTAATAAATATCAAGTGGCC
-TTGTTTTTAGCTTTTGAAAAAATAAATAAAGCCATATTGTTTATTGCAACGCCAATTAGTCAGGCTTTGCTACCTTATTT
-TTCGGAAAAGTCTAATAAGAAAAAACTTACGCAATATATTCTTATTATATTTTGTTTTTGCAGTCTAGGACTAATTATTG
-GTAATATGTTTTCTCGGGATATAGTCGGAATTTTTATGGGGTATCCTTATCTAAGTGACAATACTGGCGAGTTATTTTTC
-TTTATGACAATTATAACGCCATTTATTTTAGTCAGTAATGCAATTGGCATGCTCTATATTATTCCTCAAAAACTTGATAA
-AGTATTAAATATAATTATTATTAGCGCTGCAGTGATAAATACATTACTTGTTTTTAATTTTGTTCATTCATCTACCGATG
-GTGCATTGCAAATGGCGAAAGTAATAGCATTTAGTGAGTTCTTTGTTATGTCTTTAATGATAATAGTAATGTTTATTCAT
-GGGAGGAAAAGTGGCGAATAG
->O-38_wzy__1083
-ATGATATATATTATAATAAATACTCTCACGACTATATTTTTATACTTATATAGTAGTTATAAGTATACCCCCTTAAGTCG
-ACTGTTTATTGGTGGCATGTGTATTTTTTTAATAGCACTGTTGCCCGCATTCCAGTATGGTGTCGGTACTGATTATTTTA
-GCTATCAAAATATATATAATAATGCCAATGTGCTAGATACTTTTTATCAAAATAAAGAATACTTATTCTATGCATATGTG
-AAATTTTTTCAATTTTTAGGGGGGGGATTTAAAACTTTTGTTATCTATACGTCTTTATTGCAATCATTATTAATATTTAT
-TATTATTACTCAGATGTGTAAAAATTATGGTCAATCGATTATCATAATATTTTTCCTTTTCTGGACTGTGACAAATTTAT
-TACACACTCAGATGAATATAATAAGGGCTTCGTTTGCTATATATATATTTATAATATCCATGCTTTTTAAGTTTAGAGGT
-AAAATAATTATTTGTTTTGCCTTAATGATTATTGCAATTGGATTTCATCGTTCAGCATTATTAGGGTTGTGTTTTGCATT
-AATTCCCTTAAAAACATATTACTTTGCATATAATCATGTTGTTAAATTTTATTTTTTATCTTTTTTGTTATTTGTTACCC
-CATTTTTACATCAGGTGGTGTTTTATATTGTTCAGGAGTTGTTTCCATATTATACACATTATCTATTTTCATTTGATGAA
-AATGCAGTGAGCTTTTGGAATGTGGCTACAAAAATATACTGGCTTCCGTTTGGGTTATTTTTTATATATTTAATTAAATG
-TAATGCTATTTTTATTAAGGGTTGTGAGCGTGGTTTGATTGGTTTGTGGATATTAACTGGGAATGTTTATTTATTAATTC
-TTAATTTTGATTTTGTTTCCAGAGTTAATTTTTATTTTGTGTTTTTCTATGTAATTCCTATTGCATATGTTTTTCGTTAC
-TTTATTAGAAATAAGAATGTTATTTTATTATATATTAGTGTGCTATATTGTTTTATACCGTATTTATTAAAAGTTACTTT
-GTTTCCTATAGCTGAATTTTATTATAAAACTTATCTTTTTTAA
->O-60_wzy__1050
-ATGGAATTCTATTTCATTATATTATTCTTTCTAAGCACTTTGGGACTGTTATCCTTAGCAAATAAAGAAAAAAATAATTT
-TTCGTTTTTTGCATGTTTTATAATATGCTTTTTTTTCATAGTGTTGTCTTCAATCAGATGGGATAGAGGTACTGACTGGT
-CCGCATATTATGAGATCTATCAGGCGACGAACATTATCGGCGTATGCTTGAAGATATATTGCATAGGTGTCGAACCCGGA
-TTTTATTTTATTAATTGGCTATTCTCCTCTTTTTATTCTTATAGCTTTTTTTTGTTTTTTTTAGCCTGCGTTATAATTCC
-ATTAAAAACGTTGTTTTTCTTTAAGAAAAGTGAATATCCATTTATTGCTTTATTATTATATTTTAGCATTTTAGTGTTTG
-ACATTTTTCCTGTTAGGCAAAGTTTATCTAGCTCTTTATGTCTTTTATTTTACTTGATCTATAAGAACCATAAAAAAAGT
-TCATTTTTAGTTGCTCTATTGGCATTAATGGTACATTATTCGGCAATAATATTTTTTATTGGTTTATTAGTCTGCTCAAC
-GAAAAAAATTCATAAGGGAAAAGTAGTAATTTTTTCAATTTTTATATTAGTTTTATTTTTTATAGTTGTTAAATACCCAC
-CTGAAATCCTTTCTAGTAGGATAAATGATTATATTATTAACCAAAAGGTTTACTCAGACGACATCACACCGTTGAGGAAT
-TTATTAAAATGCCTAGATCAAATATTTATTATGTTTCTATGTTGGCGCTTAATGTTAGTTGGTTGTGTCGATAAGATTAT
-TTTAAGATTATCAATATTTGGCTCATTTTTATTTATATCAGCTACGCTTCTTGCTCCTCAACTTGCTCGACTTGGGTTAT
-TCTTTGTTCCCTTTCAAATAATTACTTTATCTTCACTTATATTACTCTTCTCTAAAAATTCAAGACTTCTTGCTTATTTG
-ATTTTAGTAGTTTATGCGGCTATTAAATTGAATTTAATAATACGGCCTTTTTATGATTTATTTGTGCCATTCAAAACGTT
-TTTTATGTGA
->O-8_wzy__1200
-ATGCTGCCATTTCCACCAGGAGCAATCCTAAGGGATGTACTCAATGTATTTTTTGTGGCGTTAGTGCTAGTTCGATTTGT
-CATTGATAGGAAAAAAACTTATTTCCCGTTGGTTTTTACTATTTTTTCATGGTCGGCGGTAATACTATGGGTAATAGCGT
-TAACTATATTCTCACCGGATAAAATTCAAGCAATTATGGGGGGGCGGAGTTATATTTTATTCCCGGCAGTTTTCATAGCA
-TTAGTGATTTTAAAAGTATCATACCCGCAATCCTTAAATATTGAAAAAATAGTTTGCTACATAATTTTTCTAATGTTTAT
-GGTTGCGACAATATCTATTATTGATGTACTAATGAATGGAGAGTTCATTAAATTGCTCGGATATGATGAGCATTATGCAG
-GAGAACAATTAAACTTAATTAATAGCTATGATGGGATGGTCCGGGCTACAGGCGGTTTTAGTGATGCTCTCAATTTTGGA
-TATATGCTCACATTAGGTGTTTTGTTATGTATGGAGTGTTTTTCCCAAGGATATAAAAGATTATTGATGCTTATTATTAG
-TTTTGTGCTATTTATAGCGATCTGCATGAGTCTTACTAGAGGAGCAATACTTGTTGCTGCGCTTATTTACGCACTTTATA
-TAATTTCAAATCGGAAGATGCTTTTTTGTGGAATAACTTTATTTGTAATAATTATACCCGTTTTAGCAATTTCTACTAAT
-ATTTTTGACAACTATACAGAAATTTTGATCGGCAGGTTTACAGATTCGTCTCAGGCATCGCGTGGATCTACACAGGGGCG
-GATAGATATGGCAATTAATTCATTAAACTTCCTGTCAGAACATCCATCAGGTATAGGTCTGGGTACTCAAGGTTCAGGAA
-ACATGCTTTCGGTAAAAGATAATAGGTTAAATACGGATAATTATTTTTTCTGGATCGCCCTTGAGACTGGTATTATTGGC
-TTAATCATAAATATTATTTATCTGGCAAGTCAATTTTATTCTTCAACTTTACTAAATAGAATATATGGCAGTCATTGTAG
-CAATATGCACTATAGATTATATTTTCTCTTTGGAAGTATATATTTTATAAGTGCAGCGTTAAGTTCAGCACCTTCGTCAT
-CAACTTTTTCTATATATTATTGGACAGTTTTAGCTTTGATTCCATTTTTAAAATTAACAAATAGACGGTGCACGCGATAA
->O-59_wzy__1236
-ATGCTGTTATTTTATTGGTTCTTATATGTTTTTTCGTTATCAATTCCTATTTTTTATCATTCAGCGTTTCTGGTTGGATT
-CGTATCAGCCATCCATTACCTATTGATTTACAAAAGGAATTTATTAGTTTTAAGCAGATATCAAATATTTTATTTTTCTT
-CGTTTTTGCTTGGGTATATCATTGTCGGGTTAATAATTATTTTAAATGAGACATATGATATTAGCTTCTTTAAAACATAT
-ACTAACTCTTTTTTATCAGCAATAAGTGGCGTACCACTTGTTTTAATATTTTTAGAACGATTTGGGAAAAACGCCCCAGC
-TTATGTAATGAAATATACGTTTTATATTTTTATTATACAAAGCATAATTATAATATTGGTTCTGTTTGTACCTGCATTAA
-AACCTTTCGTTATGTATTTTCAGAGAAATGCTGAGTTAGCTAGCGAATTAGACCTTTTTTCTAATGGCTTAAGAACAAAT
-GCTCTGTCAGGAGGGTTATTTTATGGATTGAGCTTAAGCTTTAGTATGGCTATAATATTATATCTATATTATATTCTTGT
-TTATAAATTTCAACTTAAACTGAGATATGTTTTTCTTTTTACTTTGGTCAATATTGGCCTTATATGTACAGGTAGGTTTG
-GTTTTATATATGTTATATGTATAATCCCTATAATATGTACAATAAAAATCACAAGGAAGATTAAGCTTATACTCTTTTCG
-CTTTGCATGATAGTTTTGCTTTGTATATTGTTCTTCACACTATATGAGTTATTCCCACAAGTAAAAAAAATATATAATGA
-AACTATTTACCCCTATGCTTTTGAGTTTTTATCAAATTATCAAAAAAGTGGTGATTTCGATACAAGTTCAACAAACGAAT
-TGGCCTCAATGTATAATGTAACAATAACGGATAATACATGGTTTTTTGGGGATGGACTATACACAGGAAATGATGGCCTT
-TATTATCAACATACAGATGTAGGATATTTGAGGTTATTGTTGCTTGGTGGCGTTGGACTAAATATATACTTCATTTCCTT
-TACGGTTTTAATGCTAATACCAATATTAAAATCTACCTTGCCTAATAATAAATCATTATATTTTTCATTGCTCTTACTTT
-TTTTACTGTCACAGTTTAAAGGTGAGGCTATGATAACATTAGTGCAGTTAAATAATATGTGCTTTATATTATGCAGTACA
-ATCAGTTTTCTTTACAGAAAGGACGTGAATGAGTAA
->O-50_wzy__978
-ATGTTCAAAAAGAAAAGTATATTTGTTTTTTTAGGGCTTCTTAGCTCTATACTTCTTGCGTTACCTTTAGCTATGCAAGG
-CGGTTTTGATGATTCCTTAGTTTACTATTCACAAGCTGATTATATATGGAGTTACGGTTTATATGATGGACTAAGAGCTA
-TTTATATCCAAACAAATAAATTTGAGCCCGCTATGGGGCTACTATTTTTTATAGAAGGGTTTATTGTTACCGAAAAATTC
-TATTTTTTATTACTTAATTTAACACTAGTGAATTTTATTACAGTTTTGATATATATAAAAATTAATGAACAATCAAATAC
-AAGTATAAGTTTTATATATGCAATACTATTGCTCTCTACATATTATATTTTTTCTAATAATATTTACGTGTGGAGGACTA
-TCATTTCTTTATACTTTTTTATTTTGTTTGTTTTTTCTAAATCAAAGAGTTGCAAGGTTATTTTTTTCTCATTGGGGTTT
-TTGTTTCATTACTCATTTTTACTATTTTATTTTTGTTATATAATATGTAAATTTAATAAGTCAAGTTTGAAATTTTTTTT
-GATATATGCATTTTTATTTTCTTTATTTATTTCTAATGTATTAAATTTTTTAAGTTATTTTTCTTTTTTTGTTTCAGGGG
-GGGAACTAACGATCTTCTTGGATAAAAGTAGTGATAGTATTAAGAGGATTATTATTGGAGTATCATTCCTTATTATATTG
-ATTATGGTTAAGGTTGATAAGAAAAGTTATAGTTGGAGTCTTTATAAATTATCCTTGTTTTTCTGTATATTATCGATTGC
-GCTTTATCAAAACTGGCAGTTATCCTGGAGGGTATTTGTTCCCGCAGCTACTTTAGGGAGTGCTATAGTTTTAGCGAATA
-TAAGAAAGGATAATATAATCCCTTTTTTGGGGGTGGTTTTATCAACTATCCCCACAATGAGAATAATTTATAATTTATTA
-TATCTAGGACATCCATAA
->O-52_wzy__1065
-ATGAAAGGCGGTCTTATTGTTATTCTGTGGTATTCAGGCTTTTTATTTATTGCAGCAACAGGTTTAACCGGGCTTCAGGA
-GTTAAGTTCAAAATCTATACTAATGTATATTGCTTTTTTGTTTTGCTTCCTTTTAGGGATGGTACTATCTGGTGTATCCC
-TTTATGAACCGAAAAAGGAAATGCATCAGCAGATTCTCAAAAGAAAACATAACTTAGTGATAGTGAGTATATTCTATCTA
-TTTATAATATATTGTTTTTTAGTTGCATTAAATATTTATTTTTTCAATAAAGTTGATCTTTCGTCTTATAGGCAGGCATT
-CTTTGATGGCTCAAGAGATAATGTAAAGTTCTTTTTTGGTTCATTTGGATTTTATTTTTATTATTTCTTAAGTTTAATCA
-TTTATGCGTTAGTTCCATTTGTTGTTATAATGAATAATAAAAAAGTGTTATTCCTATGCTTTCTGTCATTATTGCTATAT
-GATATAATTTTTCTTTCGAGAACCGGAGTTTATTACTATATATTGTCATATATAGTGGCATGTATCATCCAGAAAAAGCA
-ATTAAAAAAAATAATTATTTTTATCGTGATTGCATTGCTGTTTTCTTTTGTAATAAGCTATACTCGCGATATGCAAAGTA
-ACATAATTAATTCAATTTTTAGCTCAATTATTAATTATCACGTAGCCCCTTTTATTCTATTAGATAACAACATAATTTCA
-AAAAATGTAATAACATACCATGGTGTTGGTTTAGCATCACTTGGTATATATAATATTATTTTCTTTCCTATAGATGTAAC
-AATAATGCAAACTATAAACGACTTTAGAACTCAGTTAAATATGTTCTATGATCTAGGATTAAAAGAATATTTACCATATA
-ATGCTTACTACACATCACTAGGGGGAGTATACATAGATAGTGGTTTTTTGGGATGCATGATAGTTACCTTTTTTTTCGGT
-TTTATTATCGTAGCAATAGAAAAAAAAGCTTATAAATCAAGAAAATACTTAGCGTCAACTGTGTTTTTTACAACATTATG
-CTTAGAGTCAATTTTGCTCCAATAA
->O:23-gene1__1029
-AAGGTGCGGATGATGATATTAGTCACTGGTGGAGCTGGTTATATAGGATCGCATACTTGTTTAGCGCTTATTGCCAAAGG
-GCACGACATTATTGTTATTGATAATTTAAGTAATTCCTCTTATGAGTCGATTAGGCGTGTTGAGAATTTAACCAATAAAA
-AAATAAAATTTATAAAAAGTGATATAAAAGAACGACATTGCCTGGATGAAGTGTTTAATAATTATTCGATAGAAGCAGTA
-ATACATTTTGCAGCATTAAAATCAGTAAGTGAGTCTGTTGAAAAACCATTGGTTTATTATGATAATAATATCACAGGTAC
-CTTGACTCTACTGGCTGCAATGCAAAGTGCAAATGTAAATAATTTGATTTTTAGTTCGTCTGCTACCGTATATGGTTGTT
-CTTCGATTGTTCCAAATAAAGAGAACGATACAATTGGGGGGACTACAAATCCCTATGGAACATCAAAATATTTTAGTGAG
-ATTATTCTGCAGGATTTTTGTAAGTCTAATGAGTTATTTTCCGCAGTAAGTCTTCGTTATTTTAATCCTACTGGTGCTCA
-TAAATCAGGTATGATTGGGGAAGATCCTAATGGAATACCAAATAACCTCATTCCATATATATCACAAGTTGCCACTGGAA
-AACTTAAATATTTAAATGTATATGGTGGTGATTATGACACAATTGATGGCACTGGCATGCGAGATTATATACATGTAGAT
-GATTTAGCTGAAGGACATGTCAAGACATTAGAATACATGTTATCAACAAAAGTAGGTTATGATGTTTTTAATTTGGGGTC
-AGGTCGAGCATATAGTGTTTTGCAAATCATTAAAGCTTTTGAGCTCGTCACTAAAAAAGAGATTCCCTATAATATTGTCG
-CACGAAGAAATGGTGATTTAGACAAATCTTGGGCTGATACTGAAAAAGCCAGAAACCTCCTGGGGTGGGAGGCAAAATAT
-GGAATAGAGGATATGTTGCAAGATGTTTGGAACTGGCAATCACACAATCCAAATGGTTATAGAGTTTAA
->O-11_wzy__1080
-ATGAATATATTATTTTTTTTGCTTCTAAGTGTTGGGTTATTATTTTCCCTCGCATATAAAAATAAAAATAAAAATATAAA
-TGATAGTATCATGTTTATGCTTGTCGTCCTGATGATATTAATGTCAGGCCTTAGAGTTAATGATAGTGATTATCTTGAGT
-ATAATAAAATGTATAATGAAGTTCCTTCATTATACAATTTTACGTTATCTGCGATAAAAGATATTCATGGAGAGATTGGC
-TATCTTTTCCTTTCATCTTTTTTTAAAACATTTGATTTACCGTTTCAGTTTTTTTTATTCTTTATAGCATCGTTATCTTT
-GATGCTTACTTATTTTTCTTTTAAAAAAGCAAGTATTATACCAATATTATCTCTAGTTTTTTATTTAAGTCATGCTTTTA
-TTGTTAGGGATATGATACAAATAAGAGCTGGATTAGCGGTGAGTATGTCTCTATACACAATTGTGACATATAAGAAAAAT
-CGAAATGTGATCACAGGGATACTGCTTGCATCGCTGATTCATTCTGGAGCAATTATAATTGCTATTTGCTACCCATTTAT
-AAGAAAAAGATATTTATCGTTAAAAAAAATATTTTCTCTTTTCTTGGTTGCCTTAATATTTTCTTATTTACATGGGCTCG
-ACTTTATATTAAACACCCTTATTCATTATAATCTTCTGCCAGATGCTGTTGCAAATTATATTGGGTGGGAAGAATATGAT
-TATAGAATTAATATTTTCACTAATCCAGTATTTATTAAAGGGATAATGATAGTTTTTTTAATGAGAAAATATATTAAAAC
-AAATATAAATAATGAAAATGATAAGGTGGTTATATTATATAATTTATATGTTTTAGGTGTTTTAGCAATGGTTGGGTTAA
-GTGAGATGGCTATACTTTCAGGACGTCTTTCATCGTTTTTAACACTAGGTGAAAGCATATTAATAGTATATAGTGTTTTT
-TATAAAAGAAATATCTCGGTAGGTTTTGTTTTCTTTTTGTTATTAACTTTCATACAGATGGGATATGATCTGTTAATTTC
-AAACGTACATCCGAAGCTCTCTCTTTTTATATTTGGATAA
->fljB_1,2_Newportstr_AYDZ01000021_1__1510
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAACCTACAATGCCAGCAAAGCCGCTGGTCATG
-ATTTCAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTG
-GCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATAC
-CGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGC
-AGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_z35_Salmonella.enterica_IIIb.35:z52:z35_AY353343_other.z35__1488
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-ACCTCCGGCAAAACTTGATATTGCAGGATTAACTGGAACTGCAATTAAAACGGGCGTTGATAGCGCTACGGTTGATACTG
-GCTCCATTAAAGATGGCAAAGTTTATTATAATAGTACCTCTAAGAACTATTACGTAGAGGTTGATTTTGGTACATCAGCC
-GATGCTGCTAAGAGTGGTTACTATAAAGTCAATGTTGCTGATGATGGTACAGTCTCAATGACAGCTTCTACCACTAAAGA
-GGCTACAACTCCTACTGGTATTACTGAAGTTACTCAGGTTCAAAAACCTGTAGCCGCTCCAGCCGCTATTCAGGCTCAGT
-TGACAGCTGCCCATGTGACCGGAGCTGATACTGCTGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTACGCTGTAAAAGTGGGTGATGACTACTACGCCGCTACCCAGAAAAAAGATGGTAGCTTTAGTATTAACAC
-CACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCCTGAACCAACTTGGTGGCGCAGACGGTAAAACCGAAGTCG
-TTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCTGAAGCA
-GCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,5_Infantisstr_AFYI01000002_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAATGACGGTATTTCTATTGCGCAAACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCACAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGACAGCTTATGCCGATAATGGTACTACACTGGATGTATCGGGTCTTACTGATGCAGCTATTAAAACGGCTACGGGTG
-GTACGACTGGTACGGCTTCTGTAACCGGTGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGG
-GGCTTTAGTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGCGTAACAACTAAAACAGAAGTACAGGAGTTAACAACTACACCGGTAGTTG
-CTTCAGCAGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGCCGCTACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->O-6,14_wzy__1344
-ATGAATAAAGAATATTATTTACTGCCTTCGAATAAATTAAGATTTAAACACTTGATTATATATCTTGTGGTATGCCTGTG
-CCTTTTTTCTGGCTTTCTTATCAATGATGCAAAGACTCAGATAGCTCAAGAAATTACTGATATATTAGCAATAATATCCA
-GCGCGTTGCTAATTGTGCTAATTCTGTATTATTATATATATCGGGTGCGCTTTTTTTCTCTGACGCTACTATTTTCTTTT
-GTTTTTTCACTAATAATTGGTTTGCCTTCGATATATCTCTTTTATTTTAAAAACACAGATAATGACTTTGGGATTATTTG
-TATATGGGCAATGCTAATTAATGTTGCTCTCTATCTACTTTCAACAAAAACTTTTTATAAAAAAGAAGAAAGGCGTTTAT
-CCAACCTCTTTTATGCGATATTTTTTATTGCAGCATTTTGCCAGATCTATAAGGTTATGATTTATTTTCTTTTTATTCTT
-AATTCTGGTGCCGGGCATCTCGCAATATATACAGAAAGCGAAGAGTTATTATCCCAAGTGCCCTTTGTTATACGTGCTAT
-AAGTGGTTTTACAGTAACTATGGCATTGGCTGTTTTTTATTTTAAAAGTCCAAGTATAATAAAATTTATTGCATTTATCC
-TGCTAGCTTCAGATTTAATTATAGGGATACGTAATAAATTCTTTTTTTCAATGATATGCATATTTATACTATATTTATAT
-TCAAATGAGATTAGAGTAAAGCATATTTTCAAAAAAATCTCAAAACCTACTGTTCTTCTGGTTGGTTTTATATTATTTTC
-TTTGGTTTCATATTTTAGAGAAGGCTACCAGATTAATTTTGTAAATTATATTGGTATTGTATTAGATTCTTTGTCGTCTA
-CTCTTGGTGGTATGCAGAATTTATTTAGTGGACAAATAGGGAGTTGGGATAAGTTAAGTCCTGAAGTCGTATTCACACAG
-ATATTGCCGTTAAGTGGTTTAGGTTTTATTAACAACCATCAAATTGCAAAGGATTTTTCTATCATTGTACTAGGCGATGT
-TTCATCAGGTATTGCATTGTCATCCTCCGGATTATTAGAGTCGACAATATTAAGCCTACACTTTGGATCTGTATTTTATT
-TAATCTATCTAATAGGCTTTATTTCATTAATAACACGCGCATTGAATAGTCAAAAAGTATTAATAAACTTCATTGCTATT
-TCAATGATTTCCGGTTTCTTCTATGCAGTGCGGGGAGAGTTGATATTACCTTTAGCTTTCTTATTAAAGTCTCTGCCTAT
-CGTTATAATATCCCCCTTGCTTGTAAAAGGGCATTTTAGGGCTTTGTCAGTAGAATCAAAATGA
->O-6,14_wzy-from-Stk2184__1344
-ATGAATAAAGAATATTATTTGCTGCCTTCGAATAAATTAAGATTTAAACACTTGATTATATATCTTGTAGTATGCCTGTG
-TCTTTTTTCTGGTTTTCTTATCGATAATGCAAAGACTCAGATAGCTCAAAAGATTACTGATATATTAGCAATAATATCCA
-GCGCGTTATTAATTGTGCTCATTCTGTATTATTATATATATCGAGTGCGCTTTTTTTCTCTAACGCTACTATTTTCTTTT
-GTTTTTTCACTAATAATCGGTTTGCCTTCGGTATATCTATTTTATTTTAAAAACACAGATAATGACTTTGGGATTATTTG
-TATATGGGCAATGCTAATTAATATTGTTCTCTATCTGCTTTCAACAAAAACTTTTTATAAAAAAGAAGAAAGATGTTTAT
-CTAGCCTTTTTTATGCGATATTTTTTATTGCGGCATTTTGCCAGATCTATAAGATTATAATTTATTTTATTTTTATTCTG
-AATTCTGGCGCTGGGCATCTCGCAATATATACAGAAAGCGAAGAGTTATTATCCCAAGTTCCCTTTGTTATACGTGCTAT
-AAGTGGTTTTACAGTAACTATGGCATTGGCTGTTTTTTATTTTAAAAGCCCAAGTATAATAAAATTTATTGCATTTATCT
-TGCTGGCTTCAGATTTAGTTATAGGAATACGTAATAAATTCTTTTTTTCAATGATATGCATATTTGTACTATATTTATAT
-TCAAATGAGATTAGAGTAAAGCATATTTTCAAAAAAATCTCAAAACCTACTGTACTTCTAGTTGGTTTTATATTGTTTTC
-TTTGGTCTCATATTTTAGAGAAGGCTATCAGATTAATTTTATAAATTATATTGGTATTGTATTAGACTCTTTGTCGTCTA
-CTCTTGGTGGTATGCAGAATCTATTTAGTGGACAAATAGGGTATTGGGATAAGTTAAGCCCTGAAGTCGTATTCACACAG
-ATATTACCGTTAAGTGGTTTAAGTTTTATTAACGACCACCAAATTGCAAAGGATTTTTCTATCATTGTACTAGGCGATGT
-TTCATCAGGTATTGCATTGTCATCCTCCGGGTTATTAGAGTCGACGATATTAAGCTTACATTTTGGATCTGTATTTTATT
-TAATCTATCTAGTGGGCTTTATTTCATTAATAACACGTGCATTGAATAGTCAAAAAGTATTAATAAACTTCATTGCTATC
-TCAATGATTTCCGGTTTCTTCTATGCAGTGCGTGGAGAGTTGATATTACCTTTAGCTTTCTTATTAAAGTCTCTGCCAAT
-CGTTATAATATCCCCCTTGCTTGTAAAAGGGCGTTTTGGGGCTTTATCAGTAGAATCAAAATGA
->O-55_wzy__1128
-ATGTTTGTTTTAATAAATGTATTTATCTTGTTGTTTTTTTCTTGTTTTTGGGGACGTTTTGATTTTAAGAGTAAAGTCAT
-TCTTAGGTTTCTAATATGGTCAGGGTTAGTATTCTCTTTTTCTTCATTTTATATCAATGGTGTTGATTGGACTGTTTATT
-TCAGCAAATTTAGTTATGAGGATAATTATTATTTATTTTTGTCATTTGAACCTGGTTTTGTCATCTTTTTAAAAGCATTG
-CTGTTCTTGACTTATGGTAATTTTGGGGGGGCTATTTTTTGTTTTTTCATGATTACATTTGGTTTTCTAATGTACTCATT
-AGAAAAATATAAAATTAATGAACCGCTGTTTCTTGCTGGATTAATATTGGCATGTGGATATACACTGATACTTGAGCAGC
-TTAGGCAATTTATAGCATGTCTTATTGTTTTTGTTTTTCTTATTAATTATAATAAAAATAAATCTTTAGTTAGATTAATT
-TTTGGTGTGACAATTGCTTCATTTTTTCATATTTCTGCACTTGTGGTAATTCCTGCCGTTATTCTATGTAATATTAAAAA
-TCGATTTGTATTTATTGTTACAACAATTATTTTTGGTATTCTGTTTGTTTTATTTTTATTTTTCGGTTTATATATACTGG
-AGCAAATTCCACAATTTGCTTTTGTAGTCCGGAAAATTAATTTTTATCTGGAACAAAACCCAACGATCTTACAACTGGGA
-TGGTTGAATTTATTCGTGCTTATTTATACGGTAGCTTATGTTTTTTTTAGCTATTCTATAGAAAGAAACTCGAATGCTAA
-TTTATTGAATCGTTTTATTTTTGTTGGTTCTATAATTTTTATTTTTAGTGGAACATTCCCTTTTTTGGGGCGGATGACGC
-TTTATTTCATATTTATCGCTCTTTATATAATCTCAGATCCTAAAAAGAATTGGCGAATTGGTAATGCGATAGTAGTAAAC
-GGATATTTTTCTATTTTCTTGGTGTTGAATTTTTCTTCATATTTTCGTAATGATTTAGCACCCGTAGACTTTGATAATTT
-AAATTATTGTTTTTTAAATTTGTTTGATAATAACTATATGCAGAAAATAGCGACTGAAAATTTACCTGAAATGTTAGTTG
-GAGAATAA
->O-3,10_not_in_1,3,19__1519
-TTTTATATTATATTTGGCAGAGTGTTAGTATAATTGTCATGTTCAGTTTGAGGTAATTTATGTACTAATTATCTTATATT
-GTAAATCATGTGCAATTATTTTCATATTTTTATATGAAAAACGTCCAGTATATATATTGAGAAACATTATTGTTATGGAG
-ACATCATCGGAGTTATGATGGAAAAAAACTCTTTTCCCATAAGCCACGAACATTCCTTAACTATGGATTATGTTAAAGCT
-TTTGGTATGATTTTCGTATTGGTTGGGCATATAAATAATGACATATTTAATGTTTATTATGCCTATCTTTTCCATATGCC
-ATTATTTTTCTTTATTGGTGGGGTTTTATATAAAGATACACGGTGTATAACAAATTTTACAGCGCATGTTATAAAAAAAC
-AGTTACCTTATCTTATAGTAACTTATTTGATTATTGGTTCTATTGCATTATTAATTAATGTACGTTATGGAATACACACA
-GGTGATGCTTTTTCGACAGGACTATATGAAACGGTTAAACTTGCTATAAAATCAAATTTTCATAACAATAAAATGTTTCT
-AACAGGTTGGTTTCTGTTTGCTTATATATTTGTGAGCATTTTGTCGGTGATTATAATAAAAAGCATAAAACGGGTCGTTG
-TTAGCAATGCTTTATTATTATCGGTATTGGTGGCGATTAGTGTATTATTAATAACTGTCTCAATAACATATTTATCCCCT
-CAATATATTCTGGTAAAAGACTATAAGCTGAATTTTATATGCCAAGTGTTAACCGGTATGTCGTTTTATATTTTTGGATA
-CGTGATCAGAAATCAGATATATAACTTATTAAATTTTTATGTTTTTATTTTATTAACTGTAATATTATATGTTTCGAAAA
-GTTATGGTTTCTCTACGCAGACAATTATGTCATGGAGTTATTATCCGGATGGGTTAATAATGTCTGTTATTAACGCGCTG
-ATAGGTATTTATGCTGTGTTTTTTATCTCTCTATTAATTACAAGGGGAATGAAAGAAATTAAGCTGCTAAAAATGATAGG
-TCAGAATTCAAGAGCTATCATGGCATATCATTTACTTGTATATGTAATTTTAGATATAATTGCTTCAATTTTAGGTGATT
-ATAGCCTATCGGGAACAGATGTATATGATAATCACTTTATCACTAAATGGTCCGTTCCTGTCTACATTGCATTAGGTTTG
-CTACTGCCTCTAATTTTTAGTATTCTGAAACAGAAAGTAATAGGGAAGATAAAATTTAAGCGGGATTTTAGAATCAATTA
-AAAGCTAATTTTAGCTTTAATGCAGCCTAATGTTTAAGTATTAATTTTTGGATAAATATCACATAATAGGTTACTCAGGA
-GATTTTTATTTAGTCTACCGACGCGTTCCCAGATAAGGATTCCGGTGTGTCGTAGGTAGAAATAGGTAATTAATGATTGT
-TTCTTCGGGCTTTAAGTCTGGGTTATCATATTATTCACTTTATCTCATTGGATATAGTTCCTATGAGTAACCACACCTG
->O-48_wzy-from-blake-2014K-0232__1194
-GTGATAATAAAAAAGTACAAAATTTTTTATTCAGCACTTAAAGTCTGGTTAATAGCCTCTTCATTGTATTATTTAAATGC
-TATTTTTTTAGGTGTTGATGCTTTAAAATATAATGAAGATTTGACGCAAAAGTTCATCAAATATGCAGTTTGTTTCATCA
-TAAGCATCTATATTCTGATCAATAATAAACGAGTCAAATATCTGTGGGCTTCATTTTTTTTCATAATTCTTTCTGTAGCT
-TCAGTAGTTATTGATAGTGTTGTAACGGTATATGCAACCACGATGTTGATAATTGCTACCATGCTTGGTTTTAGCCAAAT
-CATTGTTTATTTATCCAATGATATGTCGAGAATTAATATTGTTTTATTATGGACAGGTGTTATTGTAGGCACAATTTCTG
-TGTTAGAGCTGACTGTGTTCTACGATTATATGGTTTCATATTGGATTTCGACTGGCGGAATTCGATCAATATCTTCCCTT
-CTGAATCCTACAAATAGTGGAGCTTACTCAGCGATCATAATTTTAATTGCTTTAGCGACTAATATAAAGAATAAGTTTAG
-GAAAAGTTTATTTGTTTTAATGCCAATGATTACTTTAATCAGTAGTGGATCACGCACCGCATGGTTATCATTAGCATTAA
-CATTGTTATTGACAGTATTGTTAAATGATAAGGCTAGCATACGATTACGGAAAAAAATATTAGCTGTTGCAGGTATTGGA
-GCTATTTGTGGTCTATTATATGTAGTATTTTATATGAATGCTACCTCTAGCATTCAATCTCAATATCGAGGACTTGATAC
-ATATACCGCATCAATTCGGATTGAAAACTTTATATCGTATATAAATTCAATTGATCTTTGCATGTTATTTCCTGATTTTT
-TTGACAAAAATATTATTCTTATATCAGATAATTTTTACCTTGTTTTATTAAATTATTTTGGGATTATTGGTTTTTATATT
-ATTCTCTTAATGTCAATGTTGCTATTCTATTGTAATGTACAGATAAAGGATTTTAATGATATTATAAATGAAGATATTGC
-TATTTGGAGAGTAATCTTTATCTATTTTTTGATATCTGGTTTTTCAAACTCATTTATAAGTTCTTTTCCTGTAAACCAGC
-TATTCTTTATCTCATGCGGGTATTATGTGTATAAATATAAGTTAATAAAAGAAAATGTTGGAAAGTAAATATGA
->fliC_l,z13,z28_Salmonella.enterica_Hiduddify_DTU-unknown_l,v__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAGGCAGTTAA
-AAGCGGCGGTGGGACAACACTCAGTACCACTGGTCTTGATGATGCAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAAGATGGTAAAGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAATGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCGCTGC
-GAAAGTGACAGGTGGCATACCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAG
-TTAAAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGAT
-AAAAACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGG
-ATCGTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAG
-ACGGTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCACAACTTTAAAGCACAG
-CCTGATCTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_b_ParatyphiBstr_AOXH01000168_b,d,j__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACTTTAAGTGTACAGGATGCCTATACGCCAAAAGGTACCGCTGTTAC
-CAGAGATGTTACCACCTATAAAAATGGTGGTACTACTCTTACAGCACCTAACGCAGCAGCAATTGATACCGCTTTAGGTA
-CGACTGGTGCGGCGGGTACTGCGGCTGTGAAATTTAAAGACGGTAACTACTTCGTTGAGGTGACCGGTACAACTAAAGAT
-GGTCTGTATGAAGCGACAGTTGATGCAGCTGGCGCGGTGACAATGACCGCAAATAAAGCAACAGTAACTGGGGCTAGTAC
-AGTTACTGAAAACCAAATTGTAGACGCTGTTACACCGACGCCAGTTGATACAGTCGCAGCAGCTACTGCATTGACCAATG
-CAGGTGTGACAGGTGCGACAGGTAATACCAGCTTGGTTAAAATGTCATTTGAAGATAAAAATGGCAAAGTTACTGATGCG
-GGTTACGCGCTTAAAGTTGGAAATGATTATTATGCCGCTGATTACGATGAAAAAACTGGTGAGATAAAAGCTAAAACTGT
-AAATTATACTGACGCTACTGGTGCGACAAAAACCGGTGCTGTGAAATTTGGCGGTGCGAATGGTAAAACTGAAGTTGTGA
-CCACCGTTGATGGTAATACTTATCAGGCTAGTGATGTAAAAGGGCATAATTTCCAGAGTGGTGGCGCTTTAAGCGAGGCT
-GTAACCACTAAAACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAAGTTGATGCGCTGCGTTCTGACCTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCCCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_f,g_Rissenstr_AHUI01000019_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGTT
-TCACGTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAACGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-GTCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGAATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGACCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGCGGCGAATGTT
-GATGCTGCTACCTTACAATCAAGCAAAAATGTTTTTACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAAGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_g,m_Enteritidisstr_ALHY01000185_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGTT
-TCACGTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTAGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z41_Salmonella.enterica_Maska_AY353511_k,z__1491
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAGAAAGCGTATGATGTCGATAGCAAAGCTGTTAC
-TGCAACTCTTGATCTGGATGTGACAGATCTTGATACTAATGCTTTGAAAACCGCAACTGGTATCAGTGCAGGTAATCCTG
-CTGTTAAAGACGATAAAGTTTATTATGACAGCGCAAATAATAATTATTATGTAGAGGTTGAGGGCTTTACTGATAATACG
-AAAGATGGTTTCTACAAAGTTCAGGTTGGTGATGATGGCAAAGTGTCAATGGCCACAACTACCAATAAAGAAACAGCTAC
-TCCTCCCGGAATTGTTGAAGTAAGTAAAACTCATGATGAGAAAGCTCTTAAAGCTTCTGCAGAGGTTAAAGCAGCTCTGA
-TGGCTGGAAATATTGATACTGCTGATGCAGATGCTGCTGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACG
-ATTGATGGTGGTTATGCTGTAAAAGTAGGCGATAACTACTATGCCGCTACCCAGAAAAAAGACGGTAGTTTCAGTGTTAA
-TACTACTTCTTACACTGATAAAGACGGCAACACTAAATCTGCACTGAACCAACTTGGCGGCGTAGACGGCAAAACCGAAG
-TTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGAAGGTCACAACTTTAAAGCACAGCCAGAACTGGCGGAA
-GCGGCTACTGCAACCACCGAAAACCCGCTGCAGAAAATCGATGCTGCGCTGGCACAGGTTGATGCGCTGCGTTCTGACCT
-GGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGTCTGAAGCGCGTAGCC
-GTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTT
-CTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z32_Salmonella.enterica_IV.48:z4,z32:-_AY353548_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCAAACGACGGTATTTCCATTGCGCAGACGACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCGAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACTGATTTTAACG
-GTAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGTTCTGGAGC
-CTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACAACGGGTGGCCCCGCAGCAGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGTTACTGCGACGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAACTGCGGGGTCTCCGTCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGATTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,x_Salmonella.enterica_Kokomlemle_AY353319_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCTATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCGGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGTGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCTACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAGAATGTGCTGTCTCTGTTACGTTAA
->fljB_k_Salmonella.enterica_II.13,23:k:z41_AY353329_k,z__1488
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGGCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCACAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTGATAGCAAGGCTGCGCA
-AAGCGTTAAACTGGATACCAGTGCTCTTACTGCCGCTGCAATCAAAGGCGGCGTAACAGGTGCAACAACAGATGGTGCCC
-TCAAAGACGGTAAAGTTTACTCTAATGGCACAGACTATTATGTAGAAGTAAGCTTTGCTGATGCAACGGACTCTGCTAAA
-GGTGGTTTCCTTAAAGTAGATGTTGATTCCACTACTGGTAAAGTTACCGTACCGGGTACGGCAGCAGCAGCTTCTTCAAC
-TAAACCTGTTGGTGTGAACGAGGTTACAGAAGTACAAGGTAAAATCCCTGCATCTACTGCTATCCAGGACCAATTGAAAG
-CTGGTGGTGTGAGTAACGCAGATGCTGCTACTGCTGAGGTTGTCAAAATGTCTTATACCGATAAAAATGGTAAGACGATT
-GATGGCGGTTACGCTGTAAAAGTAGGTGATGACTACTATGCCGCTACCCAGAAAAAAGATGGTAGCTTTAGTGTTAACAC
-CACGTCTTACACCGATAAAGACGGCAACACTAAATCCGCACTGAACCAACTGGGTGGCGCAGACGGTAAAACCGAAGTCG
-TTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCTGAAGCA
-GCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATCGATGCCGCGCTGGCACAGGTTGACACGTTACGTTCCGACCTGGG
-TGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAATAACCTGACTTCTGCACGTAGTCGTA
-TCGAAGATTCTGACTATGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,z15_Salmonella.enterica_Sandiego.var.d+_AY353303_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATTAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAATGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATTGATATTGATTTA
-AAACAAATTAGCTCTAAAACACTGGGACTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGTTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAGGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fliC_z35_Sloterdijkstr_AOXT01000110_other.z35__1476
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTGCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAGAAAAAATATGATGTGAAGAGTGAAGCCGTCAC
-GCCTCCGGCAAAACTTGATATTACAGGATTAACTGGAGCTGATATTAAAACTGGCGTTGATGGCGCTACGGTTGATACTG
-GCTCAATTAAAGATGGCAAAGTTTATTATAATAGTACTTCTAAGGACTATTACGTACAGGTTGATTTTGGTACATCAGCT
-GATGCTGCTAAGAGCGGTTACTATAAGGTCAATGTTAATGATGATGGTACAGTCTCAATGACGGCTGATACCACCAAAGA
-AGCTACAACTCCTACTGATATTACTGAAGTTACTCAAGTTCAAAAACCTGTAGCTGCTCCAGCCGCTATCCAGGACCAGT
-TGACTGCCGCTCATGTCACCGGGGCTGATACAGCTGAAATGGTCAAGATGTCTTATACGGATAAAAACGGTAAGACGATT
-GATGGCGGCTTCGGTGTTAAAGTTGGAGACGATATTTATGCTGCAACTAAGAATAAAGATGGTTCTTTTAGTATCAACAC
-CACGAAATATACCGATAAAGACGGTAATACCCAAACTGCATTGAACAAACTTGGTGGTGTAGACGGTAAAACTGAAGTTG
-TTTCGATTGAAGGTAAAACCTACACTGCAGCGAAAGCAAAAGATCACGATTTCAAAGCGCAGCCAGAGCTGGCAGAAGCG
-GCTACTGCAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTAGCACAGGTTGATGCGCTGCGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_1,5_Salmonella.enterica_I.43:e,h:1,5_AY353284_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAATGACGGTATTTCTATTGCGCAAACTACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACTCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAACTTATGCCGATAATGGTATTACACTGGATGCCTCAGGCCTTGATGATGCAGCCATCAAAGCGGCCATTGGTG
-GTACGACTGGTACGGCTGCTGTTACGGGTGGTACAGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGG
-GGCTTTAGTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTCGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACCAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGTGGTTATGCGCTTAAAGCCGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAAGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_f,g_Salmonella.enterica_Derby_AY353380_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGTT
-TCACGTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAGGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-GTCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGTAGCACCGAATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGACCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGCGGCGAATGTT
-GATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAAGGCGAAAGTAAAATTACAGTAAACGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGGTCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,m,s_Salmonella.enterica_Amsterdam_AY353395_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTGCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTATGACACCTATGCAGCGGGTGCCAATAAATATCGTGTAGATATTAATTCAGGTG
-CTGTAGTAACTGATGATGCAGCACCGGATAAAGTATATGTAAATGCAGCAAATGGTCAGTTGACAACTGACGATGCGGAA
-AATAACACTGCGGTTAACCTATTCAAGACGACTAAATCTGCTGCTGGTACCGATGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCGCGGGTGATAAGGTCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_c_Salmonella.enterica_IIIb.57:c:e,n,x,z15_AY353370_other.c__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCACACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAGCGATACTGCTGTAGC
-TGCTTCCTATTCCGACTCGAAACAGAATATTGCTGTTCCTGATAAAGCAGCTATTACTGCAAAAATTGGTGCAGCAACCA
-GTGGTGGTGCTGGTATAAAAGCAGATATTAGCTTTAAAGATGGCAAGTATTACGCGACTGTCAGTGGATACGATGATGCC
-GCAGATACAGATAAAAATGGAACCTATGAAGTCACTGTTGCCGCAGATACAGGAGCAGTTACTTTTGCGACTACACCAAC
-AGTGGTTGACTTACCAACGGATGCAAAAGCAGTTTCAAAAGTTCAACAGAATGATACTGAAATAGCAGCAACAAATGCGA
-AAGCTGCATTAAAAGCTGCAGGAGTTGCAGATGCAGAAGCTGATACAGCTACTTTAGTGAAAATGTCTTATACAGATAAT
-AACGGCAAAGTTATTGATGGTGGGTTCGCATTTAAGACCTCCGGTGGTTATTATGCAGCATCTGTTGATAAATCTGGCGC
-AGCTAGCTTGAAAGTTACTAGCTACGTTGACGCTACCACTGGTACCGAAAAAACTGCTGCGAATAAATTAGGTGGCGCAG
-ACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGAAGGTCACAACTTTAAAGCACAG
-CCTGATCTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-62_wzy__1023
-ATGAATGGAGTAGCCAAACCCATTATAATTTTTTTGTTCGCCTGTTGTACTCTTGTGACTTTTCTTTCATGTAATTTAAA
-TTTATTTCCTGATTATTATTCATATCTAAATTGGTATGAGTTATCAGCATCCACAAATATGAATAATGATTGGGTCTTTT
-TTAAAGATCCTGGATTTTATCTGTTGTCAGTTATATCAAATAATTTTGGCTTTGGTGTCATTGGAGTGATTTTTTCGCTT
-TTTATAATATCACTTTCGTCTAAGATTTTTTTTTGTATTAAGTTACTTAATAGAGAAACTCTATTCTGGGTGCTACTTTT
-ATATCTGTCTAGGCTCTTTATTGTTCATGATCTTGTTCAATATCGAGCCGGTGCGTCAATTGGTTTGTCAGCATTATTTT
-TGTATTTTTATTTAGAGAAAAAAAAGTTTAAGTCTTTTTTTTTCTTATGCCTCGCACTTTCTATCCATCTTTCTAGTTTG
-CTGATTGTGTCAGTTATCCCTATAGTGTGGTATCTTAATAGGAATATAGGTAACAATATATTCAACCAGATAATAATAAT
-AAGTTTACTATTGTCTGTGATTTTACTTTTTGACCCTTACATTAATTTGCTAAGGTTGGTCGCAGAGTTTCCTATGATGC
-ATGAAAGAATTGCTCCATATTTGGATGGTTCATATGCTGTTAATAATGCACCAATGTTTAATAGCTTTGTAGTAATTAAA
-ATTATATCATATGTAATTTTTTTTATATGGATCTATAAAAATAAAAAAGTTGGTTTAACCATAGAAAACTACTTAATTTA
-TCTATGTTTCTTTCTGTCTATTGTAGGATTGTTTCTTTTTTGGTGTTTCAGAAGTAATGACTCGCTATCCATTAGATTTT
-CTGACTTTTTCGCCATATACGATATTATTTTTTTTGCTCTATTATTAAATGTTTTTGATGTGTTTGGGAAATTTATCTAT
-AGATACTATCTTTTAGTTATGATGATTGCTTTTTTTATATCTTCATTTAAGTTGATAAATTAG
->O-66_wzx__1257
-ATGCATAGTAAATTAAAAATGAAAAAATTATTAGACAATGCTATTGTTAAGAATATCTTGTGGCTTATAAGTGAGAAGCT
-ATATTTCGTTATTCTTATTTTTTTTGGCGAGGGGCTTATAAGTCGTACACTTGGAGTGAATGATTATGGTAAGTGGATTT
-ATTCCTTGAACATAATAATTATTATATCCTCAGTTGCACTAATTGCTGGAAGTGAGGTCATGGTGCCGGCTTTGAGCAAG
-AATAAAAAATTAGCAGGGGAATTAATAACTTCAGCTTTCATAATTAGATTCTCAGGCGCATTACTATCATTTTTGGTTTT
-GAATATATACTCTCTTGTGTTAGTAAATGATTTAGTGATACAACATATGCTTCTTTCTCTTTCGTTAGTGCTTTTATTCA
-ATGAGCCTTTCGGTGCGATAACTAACTATTTTCAAGCAAAAATAGACATGAAAAAAGTAGTTCTGGCTCGCTGCTTATCA
-CTAGCATTGCGTACAATATTTGTTTTGGTCGCATTTAAAATTTTCGAAAGTAATCTCATTTATTTTTCAAGAGCCAGTGA
-ATCTATTCTTTTGGCTCTAATACTATCATTGCTTTTATATAAAAGTAAAATAAGGCTGAATTTTTCAAAAAAAGTATTTT
-TAATAGTATTAAAAAGAGGGTGTTTATTATGGGTCCCTCTAATTAGTATGATGATTTATCTTAGAATTGACAGGTTTTTT
-GTTGAAAAGTACTTCTCTTATGAGACGTTAGCTATGTATGGCGTTGCTGTTCAGTTTATTGAACAGGCATTTTTATTATT
-AGTTATAGTGATTCAGACAATTTCCCCAAAATATATTTTTCAATCAATGCCAAAAAAAACAATGTTGAAAAATATAAAGC
-TTATATCTTTATTGCTCATTATGCTTGTTTTTATGATGCAGGTCTTTTGCTTGTTTTTTTTGAAAAGTATTATTACCATA
-GTATATGGGGATTCATATATTCAAGCAGCTACGTTGGCTATCTCGTTATTACCTTCATTATTATTTTATGCAGTAGATAC
-CATTCTTATGCAGGTGTTTTACAAGTATAGGAATAATAAAGCGATACTAACTAAATGGATTTCAATGATGTTTTTCTCCT
-GTGCGATGTATTACATTTGGTTCGACTTGCTTTCAAAATCTAATGTAACTATGGTTTTTAATATTAATTATTTGACTATG
-TCAGTAATTACATTTGTTTTATTTAGACGTGGATTAAAAGATTGCAAAAATGATTAA
->fliC_i_Salmonella.enterica_Lindenburg_AY353428_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTTTCTGGCCAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACTTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_k_Salmonella.enterica_IIIb.42:k:e,n,x,z15_AY353436_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATGCGCTGAATGTGCAGAAAGCTTATGATGTAGATAGCAAACCAGCGCA
-GAGCATTAAACTGGATACCAGTGCTCTTACTGCTACTGCAATTAAAAATGGTGTAACTGGTGCATCGACAGATGGTGCCC
-TAAAAGACGGTAAAGTTTACTCTAATGGCACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGATACTGCTAAA
-GGTGGTTTCCTTAAAGTAGATGTTGATTCCGCTACTGGTGCAGTTACCGTTCCGGGTACGGCAGCAACAGCAGCTGCAAC
-TAAACCTGCCGGTGTGAAAGAGGTTACAGAAGTACAAGGTAAAATCCCAGCATCTACTGCTATTCAAGACCAATTGAAAG
-CAGGCGGTGTGACTACTGCAGATGCAGCTACTGCTGAAGTTGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTATGCTGTAAAAGTAGGCAATGACTACTACGCCGCTACTCAGAAAAAAGATGGTAGCTTTAGTGTTAACAC
-TACGTCTTACACCGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_II.4,12,27:i:z35_AY353425_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAATGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCAATACTGCGATTGCTTTAAACAATGGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACAG
-ACCAGCAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TGCAGGTGGATTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCCAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCGAGCAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCAGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACTGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,t_Salmonella.enterica_II.16:g,t:1,5_AY353408_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATTGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTAATGACGGTA
-ATGGTACGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCGGCAGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAATGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGTGAAAGTAAGATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCGCTGGGGGCAATTCAGAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCCGGTACCTCTGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_g,z62_Salmonella.enterica_II.50:g,z62:e,n,x_AY353416_g,m__1515
-ATGGCACAAGTCATTAACACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAATAGTGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCACAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGTTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTGCTGCTGGTACCGCTGACGCCAAAGCGATAGCTAATGTCAT
-TAAGGGTGGTAAAGAGGGAGATACCTTTGATTATAAAGGCGTATCTTTTACTATTGATACAAAAACTGGTAATGATGGTA
-ATGGTACGGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGGTGGTGGTAGTGTTAAT
-GATGCTACCTTACAATCAAGCAGAAATGTTTATACATCTGCAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAAAAA
-TGAGAGTGCGAAACTTTCTGATTTGGAAGCAAATAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTGAAT
-ATACTGCTAACGCCGCGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTTAGT
-ACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTCAAA
-AGTGGACGCAGTTCGTTCTTCGCTGGGGGCAATTCAGAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGGTAA
-CCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAGATT
-CTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-57_wzy__1038
-ATGATACCATATATAATTGTATTTCTTATTTTTGCAACTATTGCTTTACTTAATTATGATAGGTGTAAACTATTTTACTC
-CTCCATGATTTTTTTGGGTTTTGCCTGTGTAATGAGAGGAAGTGACGTAGATAGGGATTACGAGACATATGTAAATATTT
-ATAATTATATAATTCATGGTTATAGTTATACAATTGAACCAACTTTTTTTATAATCTCAAAAATTTCTTATTTAGTGGCT
-GGGACCCCTTTTTTTATTTTTATTCTCTATGGCTTGCTGGCGATTTACTTTAAGGCTAAGTTTATAATCGATTGGTCTCC
-CTATCCTCTACTTTCTGTTATAGTTTACTTTTCAAATGTTTATCTCTTACATGAGATGACTCAAATAAGAATAGGTTTAG
-CCAGTGCGATTGGATTCTATAGCCTAAAATATCTTATTACTAATGAAAAAAGAAAATATTTTATATGTATCTTTGTTGCA
-ACCCTTTTTCATTATTCAATGGTTATTTTTTTGTTTCTTCCATTATTCAATGTAAGAAAAATATCGTCACAGTATAAATT
-ATTTTATTTTATTCTTATTGTATTATTATATTTTTTGTATCTGTTTAATATAGATTTATCACTTTTAATAAAATATATTG
-ATATAGGATTAATACAATCGAAATACAATATATATAAGGAACAGGTTATAGATAATGGTACTAATGTAAATGTCTTTTCA
-GTAATGCAAATATTAAATTTACTTATTATTTTTTTTGCTATGTCATATTCTTCGCATTTTAAAGAAAATAGAAAATTAAT
-TTTAATAGTAAAGGTTTTTTCATTAGGCCCTATCTCATTAATATTTTTCTCTGCAATTCCTGGATTTGCGTTAAGATTAA
-GTGAATTATTTACTGTAGGACAAATAGTATTACTTCCTATGCTTGTGAAGCAGATACGACAAGTAAAACTGGCTTATTTA
-GGTGTTATACTTTTATCGTTTATCATACTATTGAATAATTTATATTATCTGTCACTTGTTAAGGCATATTCTATTTAA
->fljB_l,w_Salmonella.enterica_Ohio_AY353331_l,v__1503
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGTGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCACAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAATACTGCTGGTCTTAATGATACAGCTCTTAAAGCGGGTGTTGGTGGTGCAACAAACG
-GTACTGCTGCAATTAAGGATGGTAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTAGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCACGAA
-AGTGGCAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAATTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACAAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCACTGAACCAACTGGGTGGCGCAGACG
-GTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGGCACAACTTCAAAGCACAGCCA
-GAGCTGGCGGAAGCGGCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGTGCGCAGATTCTGCAGCAGGCC
-GGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_z_Salmonella.enterica_IIIb.61:i:z_AY353335_k,z__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTTTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTAAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGTACAGCTATTAAAACTGGCGTTGCTGGAGCTACCACTACAACTG
-GTTCCATTAAAGATGACAAAGTATATTATGATAGTGCTACTAAAAATTATTATGCTGAAGTGAACTTTACAGATGCCGCT
-GATACCGCTAAAAATGGTTTCTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCTTCGACTACTAAAGA
-AGCTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCATCCGCAGATGTGAAAG
-CTGCTCTGACTGCTGGAGGTATTGATACTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTACACCGATAAAAAC
-GGTAAGACGATTGATGGCGGTTACGCTGTAAAAGTGGGCGATAACTACTATGCCGCTACCCAGAAAAAAGATGGTAGCTT
-TAGTGTTAACACCACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCTTGAACCAACTTGGTGGCGCAGACGGTA
-AAACCGAAGTCGTTACTATCAACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGCCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACG
-TTCTGACCTGGGTGCAGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTG
-CACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_Chester_AY353321_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCAGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCCGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x,z15_Salmonella.enterica_IIIb.42:k:e,n,x,z15_AY353309_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATTCACTGAATGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-TAGCTCTACCTATAGTGATGGTACTAAGGCTCTTACGGCACCAACTGCAACTGATATTAAAACTGCATTAGGCAACCCGA
-CGGTAACTGGTGATACATTAACTGCCACCGTATCCTTTAAGGATGGTAAATATTACGCCACCGTAGGTGGTTATACCGAT
-GCGGGGGATGTTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-GACTAAAGCTACAGTAACTGGGGATACAACCGTAACTAAAGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGAGGCGTCTCATCTGCGGACGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAATATTACGCTGCTGATTACAATGAAACTACAGG
-AGCTATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACTAAAACGGCGGCTAACCAACTTGGTGGCGCAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAG
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACAC
-GTTACGTTCTGACTTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCGGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x,z15_Salmonella.enterica_IIIb.57:i:e,n,x,z15_AY353312_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-TAGCTCTACCTATAGTGATGGTACTAAGGCTCTTACGGCACCAACTGCAACTGATATTAAAACTGCATTAGGCAACCCGA
-CGGTAACTGGTGATACATTAACTGCCACCGTATCCTTCAAGGATGGTAAATATTACGCCACCGTAGGTGGTTATACCGAT
-ACGGGGGATGCTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-GACTAAAGCTACAGTAACTGGGGATACAACCGTAACTAAAGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGAGGCGTCTCATCTGCGGACGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAATATTACGCTGCTGATTACAATGAAACTACAGG
-AGCTATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACTAAAACGGCGGCTAACCAACTTGGTGGCGCAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAG
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCGGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->O-43_wzy__1344
-ATGCAAATATTAAAAGCTAAAGAAAGTAATAAACAATCTGTTCTATTTATTTGCATGCTTGTTTTTTTTTACTTACTTAC
-TTTTGTTTTGTTTCTTTTAGATGAAGGTTTATTTAGTTTTCTTTTTTTTATTGAAGCTTTGCTGGTATTATTATGTTGCT
-TGTTTGTTGTGTTTTCAGAAAAGAAAAATGGTTTTTTAAATCCTTTATCTTTTTTTATTATATCAACATTTTTTTTTATA
-ATAGTTAGACCTATTTTCTATTCACTGAGTATAGCTGAAAATGTGAATGAGGTTATCACTGCTGGTTATTCTATAGATAA
-GAATTATTTATTTTATTCTTTATTTGTAGTGAATATTTGTTCAGCTTTGACGATACTTAGCTGTTTATTGCTAAGGCCAT
-TATGTAAATCTATTACTGTCAATATATATGACTTATATTTTTATAATGGAAATGTATCTCGTCTTTTTATGTTATCAGGA
-GTAATTTTTACAGGTGTTTTTTTAATAAAATCATATTCTAAATTTATCCTGTTAGGTGATGTTTCGGTTTTTGAGGTAGA
-TAAATATGGTTTACATGACGACCTTTACTGGTTCACATTTGCGAAATATTCATATATTGTGTCTTTGTTGTTTGCTAAAC
-GTAAAGATTTTATTTTTTACTCCCTTCTAATCTTTCTTGCATCTATAGGCTATATTATGGTAGGTCTAAGAGGGTATACT
-ATATCTTATGCTTTTCTATTGTTATTCTTTTTAGATCTTAGATATAAATTAAAGTTTAGGTATTTACTAGTTTTTGCTAT
-TCTGGTAGCTATAGTTTCATCTCTTATTCTTAATTACAGGATAGGTATCGAGGTAAATCGTGGCTTTTGGGAAATGATAT
-TTAATCCCTTATTACAGCAAGGGGCCTCTTTTGAAACCGTATATGGAGTTTTAAAATATCATAGTAGCGTACTTAATTGT
-ATTTCTTATTATGACTATTTTTTTTCAATTAAGGATATTGGCAGTTGTATTGATAGCGCGCGTGGTATATATTTTGCTGA
-AGGTGGAAGTTTTGCAACAAGCTTTTATAGTGAGTTGATATACTTTGGTTGGTTTATTGGAGGCATAGCCTTGCTTCTGT
-TTTCTTTCTCATTATCCTTTATTCAGTCCTGTTATGATTGTATTGTAAAAAACAAAAGAATATCAGAAAATTACACATAT
-AAATTAATTTTATTCCTATTATTACCAAACCTTATATACTTTGCTCGTTCTTCTCTATTTGATTTTAGTATTAAGCTGGT
-TTTTGTATTGTTTTTTATTATTCTTTTGTGGTTTATGAAAAAAACATTAGTGAATGTTAAATAA
->O-53_wzy__1119
-ATGTCTTATTTATATCTATTGTTTTCCGGTATCTCCTTAACCAGTAAATTGGGGGTCATAGTATTTTGGTTATCAATTCC
-TGTGATTTTTTTTTACTGTTTTGGAGTATCATTGCTTTATAATAGAAAAGTGCATAAAAAATACTTCATTATAGTTATTT
-GGAGTGTTTTTTTTATTCTTATGGCTGGTTTAAGCGGGTATTTTCTTGATGATTTTAATTCAAGGGTTATCAGTAATGTC
-TATTTATCTCTAGTTGGTCTATTTATGGCATTAGTGTTTTATAATAGGGGAAATAGCTCTAATGATAAATCCTTTCTTAC
-AGCGATAAAGATCACTATTTCTATAAATTTATGTGCTTTCTATATACAATTCGTTTCGTTCTATCTCTTTCATTACATCA
-TTGATTATAATTTATTAAGTGGAGGGCTGGGGGGACGTTTTTACTGGGGCGATCTTTTTCGGGCAGCAGGATTTTTTGAC
-GAGCCTGCTGTATATTCATTACATATGGTTGCTTTGACAGTAATGCTATATATGCAGGAGAGAAAATTTTCAATTCTAAT
-TATTGTTACATTGCTCAGTCTATTGCTATCTTTTTCGTTTATTGCTATTTTTCAAGCAATGATTTTGAGCTTGCTTTTTA
-TTAAAAATAAACGAGGCCTGCTTGTGCCTCTCGTAGTGTGTTTGGTTGTTGCATTACTATTTAAAGATAATATTTATGAG
-CGTTATTTACAATTCGTTAGTGGAGGTGATGGTAGCAACAATACTAAGTTAGATACTATTTATAACTTATTTCAGGGAGT
-AAAGTGGCTTTATGGCTATGGTCTTGTAGGATATTCACAATCATTCCCACTATACTATCAAGGTTTGTATGATTTAACAT
-TTTGGGGAGCAAATATAAGTTTATATGGGATAGTTTTAGGCTTAATTATAAATGTAACTGTATTATTCTTTCTGCTTAAA
-TTTACTATGAGGGACTTTTTATTAATAAACGTTGTCCTGTTGAAATTATCAACTCCCACATATGGAATATATTTTTGTTT
-TCTTTTTTTTCTACTATGGTATAAACAGAATATGGTAATTCGAGATGCCAAAAATATCAGTTTTAATGGCGATAAATAA
->O-30_wzx__1392
-ATGATTAAAGAAAAAATCAAAATATTATTTAAATATTGCACGTTAAGAAAATATAACACTACAACTGACTATGGTAGACA
-GCAAGAAAGATATAGGATTATTTCATTATCTATCATATCGAATTTTATTAGTAAACTATTAGCGCTACTTTCGCTTATTT
-TAACTGTTAGTCTGACTTTACCATATTTGGGGCAAGATCGTTTTGGAATATGGATGACAATCGCAAGCTTTAGTGCAGCT
-TTAACTTTTTTAGACTTAGGTATTGGAAATGCATTAACAAACAGGATTGCACATTCATTTGCGCGTGGCAAAAAAATTAG
-AATGATTAGACAGATTAGTGGAGGGTTGACTCTCCTCGCTATATTAGCATTCATCATTATTGCTATTTTCTTAACCATTG
-CTAATTTTGTCAACTGGGGAAGCTTGCTTAAAGGAATTAACGATAACACACATGATGAAGTACAGTTTGCTATAAAACTG
-TTCGCCATTATATTTGGTATTGGTATATTCTCGAATGGTGTTCAAAGAATTTATATGGGAATGCAAAAAGCATATATTAG
-TTATATATCTAATGCCTTCTTTATTTTAATATCTATAATATCTCTTTTTATTTCATCTAGGCTTCATGCAGGAATACCGA
-TGCTAATCCTTTCGACAATTGGTGTTCAATATCTTTCAGGCCTAAGCTTAACTATACTTCTAATTTATAAAAAACTTATA
-ACTCTTAATAAAATAAGAATAAATGTAAAAAAGGAAACGCCCTATTTAATCTCTAATGGTTTCTTCTTTTTCATTTTGCA
-GATGGGGACATTAGCAACTTGGAGTGGGGATAACTTTATAATATCTACAACATTAGGGGTGACATATGTATCAATATTGA
-GTATAACTCAGAGGCTTTTTCAAATTTCTACAGTACCTTTAACTATCTACAATGCACCGTTATGGGCAGCCTATGCTGAT
-GCGCATGCTCGCCATGATGTTGATTTTATAAGAAAAACTCTTTTAGGCTCACTTAAAATTGTTGGGATCTCTTCTACTAC
-TTTGGCATTAATATTAGTAATATTTGGTCAATCCATCATAGCAATATGGACTGGGGAAGAATTAAGAGTTCCGCAATCGC
-TTATTGTTGCTTACGCAGTCTGGTCTATTATTGATGCTTATTCAAATACATTATCAAGTTTTTTAAATGGCTTAAATATT
-ATTAAACAACAAGTTTTTGCAGTAGTTACTTTGATATTGATTTCAATTCCATCAAAATACTTTATCGTTAGTCACTTTGG
-ATTAACGGCTATGCTAAGTTGTTTTATTATTTTGTATGTAACTAATTATCTAATATGGTATAAATGTTCTTTTAAAAAGA
-GTATTCATTTACAGTTAAATATAAGAGGGTGA
->O-21_wzy__1089
-ATGAGAATAGCTATAGAGAATAGCGCTGTCTTTTTATTAACTGCGTTTTCTGGTATTTATTTACGTAGTACAATGATTAA
-GCCGGGGTATATAGCAGTTATTATATCAATGTTATTAATGGTAATTTTTATTGTTTATAGAAAAACTGTAATATCGGCCT
-TATTATGTTTTTTTATTCTTTTTTTTGTTGGTTATATATGGGGAACCCAGCCTTTTTTACAGGGGGAGTATGCAACGCTA
-ATTTTTACAAGCTCGATTATAATGTTGATTTTTCTGCCACAGATGATTAGAAAGAGTACATTTAATATAAATATAGCTTT
-TATAGTGATAATTATATTTTATTCTCTTGAGAGTTACATAAGGATAAAAAACCCCGATTATGATTTTGAGCCAAAAGAGA
-TTTCTAATAGCATTTTAGATACTTTTTATATTTATAAAGTAAATAGCATTGCGTTTGAAGATTCAAATTTTGTAGCTATG
-ATTTTAACATGCTATTATATTCTATGTAGGGTGTTGGGGAAAGAAAATGTATATGGCAAGACCAATGTTATTTATTCATT
-ATTATTTCTTGCTCTCATAGTATTGACATTTTCAAGATCTGCCTACATAGGGGTGATAGTTTTTGAGTCGCTAATGTTTT
-ATCAGTACTCCAAACGATATAGAGTCTTGTCTATCTTTTCTATAGTGATAGCAGTGATAGTGTTTTTATATTTTCTGCTT
-GATAAAATTCAATCAGACGGCAGTTTTCAAAGTAAGTTTTATATATTTGATTTGTTTTTAAACTATATCAAAGTTGCACC
-ACTATTTGATGTGTTAACGGGAGTTGGTTTCGGTAATACATTTTCATACATTGGTATTGGACCTCATAATATATATATAG
-CCTTATTTATTGAGACAGGATTAATCGGACTGATCTTATACTTATTAATTTTTATCTATATCTATATTAAATACAAGTTT
-TCTAGGCTAATTATTTTACCAATTATGATCATGGGATTATCGTTTTCGCCAATTGCGTTACCATATTTTTATGTTGCTCT
-ATCTTGGTTAATGTATTTAGAGAGAAAAAATGGATATTTTGAAAGGTAA
->O-28_wzy__1317
-ATGGAGTTTACTATAAATTTACTCATAATTTTATTGAGTTTTATTCCCGGTTACTACTTGGGGGTCTTTTATTTTAAACG
-ACTTAATTATTATTGCGTCCTTTTTTGGACTATGTTCTTATTTTGTGTTGTGGGATCGTTTATAATATATTCTGGCATAA
-TGGACAATTCATTTTTTGTCGAACCGATTGCGAATAATACAAAAGCAAAGAACCTTGGCCTTTTTATTACCACTATTTCT
-TTTTTTATATTTTTTCTTGCTGCTTTTATTGTTGAGATTTTTTATTCATTCTACACAAAAAATACCACTAGCAAAGTGAA
-TTGGGATAGGTACTACTCACGTTTGATACTTAATAGTAATAGCCTACTCATGTTAGTCTTATTTTTACTGTCGTGTATGC
-TGATTTTATATTATATAGTATCAATATACCCTGCCCCACTATTTATGGTACTCAAAGGAGCTTCTGCGGAAGAAATTGCC
-ATTCGAAGATTAGAAGTGACAAAAGATTATTCAGGAATCGGTTATTTCAAAACATTGGCTGGAATATTACCAACAATTTT
-TTCATATTATTGTTTTATTTCATATTTAAAATTCAAGAAACACTTTTTTATTTTTATCATTACTTTATTTCTCTCTATGT
-TAACATTAATTATAAATGGAGAGAAAGCACCGCTAGTTTTTTATTTTTTGGGGCTTTTAGTGTCATATTCATCTGTAAAA
-GACATTAGTAAAAAGATTTACTTTTTTGCGCTGTTATTAATATTTTCTTTGATTTTTTTGATGTATATTATTCTTTTTCA
-GTTTGATAGCTCAGATTATCTTCTGTATATACTTATTGAGAGATTATTTATTGCTCAGGAAGCCGCTGTATTCTATGCGG
-CAGATTACTTTTCAAGCCATAATGTTTTGGGTCTATCCAGTATGGATACGATTTTTAATAAATTATTGAATATTACTCCA
-GCACCTAGAGCATCAGAGATTTTCATGTACCAATATCTGCCAACAATGGTTGAAAATGGTGGTTGGAATGTGAATGGATT
-TTTTGCTCACGAAACTTTCTCCAATTTTGGTTACATAGGGGTTGTTTTTGGAAGTTTTTATGGTGGCATAGTAAATAGTT
-TGTTGTGTATATTTTTCCGGACAAGAAAAAAGACATTATTAACAATGAGTTTTTATAGCTTTTTCATCGTTTCCGTAACT
-ACGGTTATCAGTAATTTTAATGCGATGTTATTTAATACACAATTAATATTAATATTTATTATTTATATTTTATTGTCTTT
-TCTCGATAGGGGAGGTAAATATCATGTATCAAAGTGA
->fljB_e,n,x_Salmonella.enterica_Singapore_AY353305_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAAACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_Bessi_AY353317_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAATGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,6_Salmonella.enterica_Agama_AY353294_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-CACGAAAACTTATGCCGATAATGGTACTACACTGGATGCCTCAGGCCTTGATGATACAGCTATCAAAGCGGCTATAGGTG
-GTACGCTTGGCACGGCTTCTGTAACCGGTGGTACAGTTAAATTTGACGCAGATAATAATAAGTACTTTGTTACTATTGGT
-GGCTATACTGGTGCTGATGCCACCAAAAATGGCGATTATGAAGTTAACGTCGCTACTGACGGTAAAGTAACCCTTGCGCC
-TGGCGCAACTAAAACCACAATACCGGCAGGTGCTACAACCAAAACAGAAGTACAGGAGTTAAAAGATACACCGACAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGATGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,5_Salmonella.enterica_Rough:r:1,5_AY353281_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGTTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATACAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTGAAAGATACAGCAGCAAC
-AACGAAAGCTTATGCTGATAATGGTACTACACTGGATGTATCAGGTCTTGATGATGCAGCGATTAAAGCGGCTACGGGTG
-GTACGACTGGTGCGCCTACTGTAACGGGCGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGGTGATGCTGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTAACACTTGCGAC
-TGGTGCAACTAAAACCACAATGCCTGCAGGTGCTACAACCAAAACAGAAGTACAGGAATTAAAAGATACACCGGCAGTTG
-TATCAGCTGATGCTAAAAATGCTTTAATTGCTGCTGGCGTTGATACTACAGATGCAAATGCCGCGACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAATATTACGCTGCTGATTA
-CAATGAAACTACAGGAGCTATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACTAAAACGGCGGCTAACC
-AACTTGGTGGCGCAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCAT
-GATTTCAAAGCACAGCCAGATCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCT
-GGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACA
-CCGTAAACAACCTGACTTCTGCACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCGGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,5,7_Salmonella.enterica_Hisingen_AY353289_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGCCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCCAACATAAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGATGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCTGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGACTCACTGAATGTGCAGAAAGCGTATGATGTGAAAGACACAGCAGCAAC
-AACGAAAGCTTATGCTGATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCCATTAAAGCAGCTACGGGGG
-GGACGGCTGGTGCGCCTACTGTAACGGGCGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGTTGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGATGGTAAAGTAACACTTGCGAC
-TGGCGCAACTAAAACCACAATGCCTGCAGGTGCGACAACCAAAACAGAAGTACAGGAGTTGAAAGATACACCGGCAGTTG
-TATCAGCTGATGCTAAAAATGCTTTAATTGCTGGCGGTGTTGATACTACAGATGCAAATGCTGCGACACTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACTACAAGTTATACTGCTGCTGACGGCACTACCAAGACGGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGGCAT
-GATTTTAAAGCACAGCCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAATCCGTTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGTTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTGAAGCACGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATCCTGCAGCAGGCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAAAACGTGCTGTCTCTGCTACGTTA
-A
->fljB_z6_Salmonella.enterica_Bere_AY353352_k,z__1503
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAAACTACTGAAGGT
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTAGATAGTAAGGCTGTGAC
-AGTAGCTGCCAATTTAGATATTACTGATCTTAATAAAGACGCAGCCCTTAAAGCAGGCACTGGTGCTACAACAGGTACTG
-CAGCAATAAAAGATGGCAAAGTTTATTATGATAGTGCTAGCAAAAACTACTATGTTGAAGTTACCGGTCTGACCACCCCT
-GATGACGGTAAAAATGGCTTCTATAAAGTAAATGTCGCCGATGATGGTAAGGTGTCTATGACCGCTGGTACGGCTATGGA
-GGCGGGTAAACCAGCTGGTGCGGTAGAAGTAACAAAAACTCAGGAAGAAAAAAATCCATTACCATTATCAACAGATCTCA
-AAACCTCCCTTAAATCTGGCGGGATTACAGACCCAGAAATTGCTGCTGCCCAGGTTGTCAAAATGTCTTACACCGATAAA
-AATGGTAAGACGATTGATGGCGGTTACGCTGTAAAGGTGGGCGATAATTACTATGCCGCTACCCAGAAAAAAGATGGTAG
-CTTCAGTGTTAACACCACGTCTTACACCGCAGCTGACGGTACTACCAAAACTGCCCTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATTGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAGCCA
-GAGCTGGCGGAAGCAGCCGCTAAAACCACTGAAAATCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTG
-AAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,7_Gaminarastr_AOZF01000073_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCACAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTGCACCTAGTGTAACAGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATCTCGACAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGTT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fljB_z35_Salmonella.enterica_Tamilnadu_AY353340_other.z35__1488
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTTTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGCGTGCGTGAACTGGCAGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCATATGATGTGAAGAGTGAAGCTGTCAC
-GCCTCCGGCAAAACTTGATATTTCAGGATTAACTGGAACTGCAATTAAAACTGGTGTTGATGGTGCTACGGTTGATACAG
-GCTCCATTAAAGATGGCAAAGTTTATTATAATAGTACCTCTAAGGACTATTACGTAGAAGTTGATTTTGGTACATCAGCC
-GATGCTGCTAAGAGTGGTTACTATAAAGTCAACGTTGCTGATGATGGTACAGTCTCAATGGCAGCTTCTACCACTAAAGA
-GGGTACAACTCCTACTGGTATTACTGAAGTTACTCAGGTTCAAAAACCTGTAGCTGCTCCAGCCGCTATTCAGGCTCAGT
-TGACAGCTGCTCATGTGACTGGAGCTGATACTGCTGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATT
-GATGGCGGTTACGCTGTAAAAGTGGGGGATGACTACTACGCCGCTACCCAGAAAAAAGACGGTAGTTTCAGTGTAAATAC
-TACTTCTTACACTGATAAAGACGGCAATACTAAAACCGCACTGAACCAACTTGGCGGCGTAGACGGAAAAACCGAAGTCG
-TTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCGGGTCATGATTTCAAAGCACAGCCAGAGCTGGCGGAAGCA
-GCCGCTAAAACCACCGAAAACCCACTGCAGAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCGTTCTGATCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACTGAAGTTTCTAACATGTCTCGCGCGCAGATTCTGCAACAGGCCGGTACTTCCGTTCTG
-GCGCAGGCTAACCAGGTCCCACAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_Gatuni_AY353322_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCCGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,z15_Salmonella.enterica_Sanktgeorg_AY353326_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCAGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACAGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCTACCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAGGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ATGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCATGATTTTAAAGCACAG
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATCCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fliC_y_Bareillystr_AOZP01000027_other.y__1508
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAACACGGTTGTCAC
-GAACCCTAATTATGTTGATGGTGCAGCGTTAAGCACTACGATGCCTACTGCGGCTGAGATTAAAACGGCTATTGGCACTG
-GTGCGGGAACTCCGGCAGTTAAAGGTAATGAAGTTCAATTTGATAAGAGCACTGGGAAGTATTACGTTGAAATTGAAGGA
-TATTCAGCTCCTGATGCAGCTAAAAACGGCATTTATGAAGCCAAAGTTGCTGATGATGGCACAATATCTTTGGAGACTGG
-GACCAAAAAATTGGCACCGCAATGCCTGCTGGTGCTGAAGTTATTACTCACGTGCAGAAAAAAGATCAACCAGTTGTTGT
-TGATGCCAGCGTTAAAGATGCTCTAAAAGCTGGTGGGGTAGATGATGCAGTTGCAGATACCGCGCAATTAGTCAAAATGT
-CTTACACTGATAAGAATGGTAAAACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTAC
-GATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCA
-ACTGGGTGGCGTAGACGGCAAAACCGAAGTTGTTACTATCGATGGTAAAACCTATAATGCCAGCAAAGCTGAAGGTCACA
-ACTTTAAAGCACAGCCTGATCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCTGCTTTG
-GCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATAC
-CGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGC
-AGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_r_Salmonella.enterica_IIIb.35:r:z61_AY353460_r,i__1482
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTCACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTGCCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGGTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACCCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTACC
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTGGCGCAG
-GCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z10_Salmonella.enterica_Harrisonburg_AY353472_other.z10__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAGCACTGGCGTTAC
-TCAATCTCTTGATTTAAAAACTGCTGGAATTACCGGTGCTACATTAAAAACCAGTATTACTGGTACAACAACAGAAACCG
-GTAGCGTTAAAGATGGTAAAGTCTACTATGATGCAGATAGCAAAAATTACTATGTAGAGGTTGACTTTACTGATACTACG
-GATAAAGCAGCGCATGCTGGTTTCTACAAAGCTGACGTCGATGCTGACGGTAATGTTTCTTTAGCAACTGGTGCGACTAA
-AGAAGCAAAACCAACGAATGCAGTTGAAGTTGAAAAAACTATTGATGAAAAACCGCTGAAAGCATCAAGTAGTGTTCAGG
-ATGCCTTAAAAGCGAGTGGTATTGCTGATGCGGTTGCAGAAGCTGCGACGGTAGTGAAAATGTCGTACACTGATAAGAAT
-GGTAAAACTATTGATGGTGGATACGGTATTAAAGTAGGTGATGACTACTATGCTGCAACTAAAGAAAAAGACGGCAGCTA
-TACTATTAATAGTACTTCTTATACCGATAAAGACGGCAACACTAAAACTGCACTAAACCAATTGGGTGGCGCAGACGGTA
-AAACTGAAGTTGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCACAACTTCAAAGCACAGCCTGAT
-CTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCTGCG
-TTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGT
-ACCTCCGTTCTGGCGCAAGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,z13,z28_Salmonella.enterica_from-CDC_2011K-0215_l,v__1506
-TTAACGCAGTAAAGAGAGGACGTTTTGCGGAACCTGGTTAGCCTGCGCCAGGACGGAAGTCCCTGCCTGCTGCAGAATCT
-GCGCGCGAGACATGTTGGAGACTTCGGTCGCGTAGTCGGAATCTTCGATACGGCTACGGGCAGAAGTCAGGTTGTTTACG
-GTGTTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTTTGTACCGCACCCAGGTCAGAACGTAACGTGTCAACCTGTGC
-CAAAGCAGCATCAATTTTCTGCAGCGGGTTTTCGGTGGTTGCGGTAGCCGCTTCCGCCAGATCAGGCTGTGCTTTAAAGT
-TGTGACCTTCGGCTTTGCTGGCATTGTAGGTTTTACCGTCGATAGAAACGACTTCAGTTTTACCGTCTGCGCCACCCAGT
-TGGTTCAGTGCGGATTTAGTGTTGCCATCTTTATCGGTGTATTTCGTGGTGTTAATGCTGAACGAGCCATCTTTATTTTT
-TGTTGCAGCATAAATATCAGCCCCAACTTTAACACCGAAACCGCCATCAATAGTCTTACCGTTTTTATCCGTATAAGACA
-TCGTAACTAATTGACCTTTTGCAGCATCAGCAGTACTAATACCGCTGTCAGTCAACTGAGCTTTAACTTCAGTACTGAGA
-GCTACAGGTTTTGGCTGCGTTTCGGTTACTGCCGTCGCCGTTGCTGGCATACCACCTGTCACTTTCGTGGTGGTTGCCGG
-CATTGTAACAGTACCATCATCTGCAACATTAACTTCATAAACACCATTTTTACCAGCGTCGCCAACGGTTAAACCTTCTA
-CTTCAATAAAATATTTATTATCAGTTGCATCGAAGAAGACTTTACCATCCTTAATTGCAGCGGTACCGCTTGTTGCACCA
-CCAATACCTGCTTTAAGAGCTGCATCATCAAGACCTGTGGTATTGAGTGTTGCCCCACCGCCGCTTTTAACTGCCTCACT
-CTTCACATCATATTTTTTCTGCACATTCAGCGTATCCAGACCCAGGGTCTGAGAGTTGATCTGCTTCAGATCGATATCAA
-TAGTTTCACCGTCGTTGGCGCCAACCTGGATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACGCCGTTGAACTGAGTC
-TGGCCGGATACACGGTCGATTTCGTTCAGGCGCTGGGTGATTTCAGCCTGGATAGAGTCGAGGTCAGACTGGGAGTTGGT
-GCTGTTAGCAGACTGAACCGCCAGTTCACGCACACGCTGCAGGTTGTTGTTGATTTCGTTCAGCGCGCCTTCAGTGGTCT
-GCGCAATAGAAATACCGTCGTTAGCGTTACGGGAAGCCTGAGTCAGGCCTTTGATGTTCGCGGTGAAACGGTTAGCAATC
-GCCTGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCGGAAGACAGACGCTCGATAGCGGTGCCCAGTGCGGA
-CTGGGATTTGTTCAGGTTATTCTGGGTCAACAGCGACAGGCTGTTTGTATTAATGACTTGTGCCAT
->fliC_k_Salmonella.enterica_Blockley_AY353442_k,z__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCACAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTTCAAGCTACAGTTGAAAA
-CAGTGTCAAACTGGATACTAGTGCTCTTACTGCCGATGCAATTAAAGGTGGCGTAACAGGTGCGACAACAGCTGGTGCCC
-TCAAGGACGGTAAAGTTTACTCTAATGGTACAGATTACTATGTAGAAGTAAGCTTTGCTGATGCGACTGACTCAGGTAAA
-AATGGTTTCCTTAAAGTTGACGTTAATACAACTACTGGAGCGGTTACAGTTCCTGCAGCAGCAGCAAATACTGTAGCAGC
-AAAACCAGCAGGTGTGTCTGAAGTTACTGAAGTTCAGGGACTAAATACACCGAGTTCGGCTGTACAAGATCAGTTAACAG
-CTGCAGGTGTAAGTGCCGCTGATGCTGCTAAATCTGAAGTTGTGAAAATGTCTTACACGGATAAAAACGGTAAGACGATT
-GATGGCGGCTTCGGTGTTAAAGTTGGAGACGATATTTATGCTGCAACTAAAAATAAAGATGGATCGATCAGCATTAACGC
-CACTGAATATACCGATAAAGACGGCAACACAAAAACTGCACTGAACCAACTGGGTGGCGTAGACGGTAAAACCGAAGTTG
-TTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAGCTGGCGGAAGCG
-GCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCGCAGGTGGATGCGCTGCGTTCTGACCTGGG
-TGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCTGGTACTTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_l,z13_Salmonella.enterica_Westerstede_AY353450_l,v__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAAGAGCGAAGCAGTTAA
-AAGCGGCGGTGGGGCAACACTCAGTACCACTGGTCTTGATGATGCAGCTCTTAAAACGGGTGTTGGTGGTGCAACAAGCG
-GTACCGCTGCAATTAAGGATGGTAAAGTCTTCTTTGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACC
-GCTGGCGACGCTACTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGCACTGTTACAATGCCGGCAACCACGAA
-AGTGGCAGGAGGCATGCCAGCCACGGCGACGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACAGCAGTTA
-AAGATCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTTACGATGTCTTATACGGATAAA
-AACGGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTAATATTTATGCTGCAACGAAAAATAAAGATGGATC
-GTTCAGCATTAACACCACTGAATATACCGATAAAGGCGGCAACACTAAAACTGCTCTGAACCAACTGGGTGGCGCAGACG
-GTAAAACTGAAGTCGTTTCTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCACAACTTTAAAGCACAGCCA
-GAGCTGGCGGAAGCGGCTGCTGCAACCACTGAAAACCCGCTGGCTAAAATTGATGCCGCGCTGGCGCAGGTTGATGCGCT
-GCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTT
-CTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCC
-GGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z47_Salmonella.enterica_IIIb.38:z47:z53_AY353514_l,v__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACCATTGATATCGATCTG
-AAAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGGCAGAAAAAATATGATGTGAAGAGTGAGGCTGTTAAAAG
-CGGCGGTGGGGCAACACTAAGTACCACTGGTCTTAATGATGCAGCTCTTAAAACGGGTGTTGGTGGTGCAACAAGCGGTA
-CTGCTGCCATTAAAGATAATAAAGTCTTCTTCGATGCAACTGATAATAAATATTTTATTGAAGTTGAAGGTTTAACCGCT
-GGCGACGCTGCTAAAAATGGTGTTTATGAAGTTAGTGTTGCAGATGATGGTACTGTTACAATGCCGGCAACCACGAAAGT
-GGCAGGTGGTATGCCAGCAACGGCGGCGGCAGTAACCGAAACGCAGCCAAAACCTGTAGCTCTCAGTACTGAAGTTAAAG
-CTCAGTTGACCGACAGTGGTATTAGTGCTGCTGATGCTGCAAAAGGTCAATTAGTCACAATGTCTTATACTGATAAAAAC
-GGTAAGACTATTGATGGCGGTTTCGGTGTTAAAGTTGGGGCTGATATTTATGCTGCAACAAAAAATAAAGATGGATCGAT
-CAGCATTAACACCACTAAATATACCGATAAAGACGGCAATACTAAATCCGCACTAAACCACTGGGTGGCGCAAGACGGCA
-AAACCGAAGTTGTTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGAT
-CTGGCGGAAGCGGCTACCACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACG
-TTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTG
-CCCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_f,g,t_Salmonella.enterica_II.17:f,g,t:e,n,x,z15_AY353534_g,m__1518
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCTCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAGTTCAACG
-GCGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTGGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGTGTGTCTTTTACTATTGATACAAAAGCTGGTAATGACGGTA
-ATGGTACGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCGCTGGTGCGGCAGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAATGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGTGAAAGTAAGATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAATCCACTGGCTGCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCGCTGGGGGCAATTCAGAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z32_Salmonella.enterica_IIIa.63:z4,z32:-_AY353508_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TAACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACCGGCGGTCCGGCTGCGGATAAATTAT
-CTCTGACACAAGATGATAAAGGCAATTACTTTGTCAAAGATGATACTGCTGCTGCAGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAAC
-CCTATCACGCGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTGGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAA
-ACTACGGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAAATAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_IV.1,40:z4,z23:-_AY353492_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCAAACGACGGTATTTCCATTGCGCAGACGACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCGAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACTGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCCGCTGATTTCGATAACGCAAAAGCAACTGGTGGTCCGGCTGCAGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGATACTGGGGCGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCAGATAAAGATGCAACTGCAACTGCGGGGACTCCGCCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z23_Salmonella.enterica_Ekotedo_AY353494_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCGAACGGCTCAAACTCTGGTTC
-CGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACTGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-CTCGGTAGTTGGTGATGTAAAAATTGCGGCAGCTGATTTCGATAACGCAAAAACAACTGGTGGTCCGGCTGCAGATAAAT
-TATCTCTGACAAAAGATGATAAAGGTAATTACTTTGTCAAAGATGTTACTGCGACGGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATTAGTTTTGATTCGGATAAAGATGTAACTGCAGCTGCGGGGACTCCGTCAGCAGTAACTAC
-CTTATCACGTGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGATCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACCTTAGATAAAGACGGAAATGCAACTTTCAAATCTGTCACGTTTGCCGCGGACGGTAAA
-ACAACAGAGGGCACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCTTTCCGTAGCCAGTTGGGGGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATTCTGCAG
-CAGGCAGGGACGTCCGTACTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,x_Salmonella.enterica_from-CDC_Stk0811_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACTCAGAATAACCTGAACAAATCCCAGTCTGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGCGTGCGTGAACTGGCAGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACCCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAATGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAACCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCACTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAACGACAGG
-AGCCATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACCAAAACTGCGGCTAACCAACTTGGCGGCGTAG
-ACGGAAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCGGGTCATGATTTCAAAGCACAG
-CCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCACTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGTTCTGATCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACTGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACTGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAACAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAAAACGTGCTGTCGCTGTTACGTTAA
->O-18_wzy__1323
-ATGACTCTATTATCTGAACGGCAAACATCAGTTAAAAACTTTTCAAGATATATTCCACTGTACTTTTGTTTATGCTTAGC
-TATCGCATTGTTATTGTGTGAGAGTATATTCACTCAAGCATTATACGAGGTGATACTTAAGGTGGTTTCATCATCATTGT
-CAGCTTTATTAATTGTTATTATTGCTTACTTTTATATTAAGAGAGCTTATTTTTTTTCATTGCAGTTAATGTATGCATAC
-GCCTTTTCTTTAATAATAGGAATACCTTCCGTATACTTACTCAATTTTGGCGAAGCAAAGGGAGGTTTTGAATTAGTATG
-CTTATGGTGTATATTATTAAATATTATATTATATTTTTCTGCATGCTCTAGTAAAGTAATAGAACAAAAAAAAACGGTTA
-ATAAAATATTTGTTGTGATATTTTTCGTTGTCGGTTTTTGTCAGTTAGTTAAAACGTTGCTCTATTTTAGATTTATTATT
-GACTCAGGCTTAGGTCATTTGGCTATTTATACTGAAGGCGAAATTTTAACCGCCCAAGTGCCCTTTGTTATTAGAGCCAT
-TAGCGGCCTTTCATTAATCATGTCACTAGCGACGTTTTATTTTAAGGCACCAAGATATTTAAGGTGGATAGGGTTTATAT
-TATTAGCATCTGAACTTTTGATTGGGATAAGAAGTAAATTCTTTTTCTCATTGATTTGTATTATTGCTTTATCCTTATAT
-AGTAATAGACACTTAATTCAATCAAAATTCGTAAAACTTTCCAAGATACAATATTTATTAATTGGATTCATATTATTCTC
-CTTAATTTCTTATTTTAGGGAGGGTTACGAAATTAATTTCATTAACTATTTAGTCATAGTATTAGACTCACTCTCTTCGA
-CGCTAGCAGGTTTACAAGATGTATTTCTTTTACCGACAGCGCAGGGTTGGGATAAAATAGATGCACATGTTATATTAACG
-CAAATATTACCAATAAGCGGTTTTGGATTTATAAGCGATTCTCAAATTTATAAGCAATTTTCTATCATAGTGCTCGGAGA
-TATTTCAAGTGGTATTGCACTATCATCTTCTGGAATTCTAGAAGCAACAGTTTTAAATATAAAGTTTGGTTTTTTTATTT
-ATTTATTTTATCTTTTAATTATGCTTGCATTGATCCAGAAATGTCTAAATAGCTCGCTTAATTTGTTGAATTTTATTGCT
-ATCGCGATGTTGCCCGGATTATTATATTCAATTCGGGGAGAGTTGGTTTTACCTTTTGCATATATAATAAAATCACTACC
-CATTATATTTCTATCTCCTTTTTTAACTTCAACAAATAAATAA
->O-40_wzy-from-blake-2014K-0489__1368
-ATGTTTCAGATTAAAACCAGAAAAAAACCATTGTTGATATTATATTTAACTTTGCTATTAAGTGTTTTAGTGTCATTGAT
-TATCGATGATGGTACAAATCGATCCTTATACATACTTTTTATATCCACACTAAGTGTTTTTTTTATCTGCTATTCTTGTA
-ATAAAATAACTTCTCCTGCAAGTTTGTTAATTATATCTTCATTTGTTTTTCTTGGTTGTAGACCATTTCTCTCATTATTT
-ACAAGTTTCGATTATAGAAATGGCGATTGGTTTATAACTGGTTATTTAGATAAGGATGTTATCTATGCTAATTATGCTAT
-TTCTTTTATGTATTTTGGGTATAGTGTTGCATTAATACTAAGTAATAATAATTCAACACGTAGAGAATGTTACAGTTTAA
-ATCAAATAAATCCTAATATTAGATTTTTGTTTGTACTCTTTCTTTTTGGCTCTTTAGGCCAAATCCTTAAAGGTTTGTAT
-TTTTATTCTTTCATTGAGTCGAATAGTTATGTTGGAATTTATCAAGATAAAGTAAATTTACCAATGGGATATGATTTTTT
-ATCATATCTATTTTATTGCTCCTTTTTCCTCATATGCGCATTTTATGATAAACTTCGTGTTAATAAATTATTTTTATTGA
-TATCTATATTGATTGCCGCTTTTAGTGCCATGAAAGGCAGTCGAGGGGAGTTTATTACATTTCTGCTTACGGTTTTTTGT
-ATTTATTATAATGAGAGAAAAGTAAGTAACATTAGATTGCTATTAAAAATGTTTTTAATATTTATTGCTATTTTCACTGT
-TAGTGAATTTGTTTCGATGTGGCGGTCAGGCGGCAGCTTTATTGCTCTTATTGAAGGCGATAATCCACTTTTGCAATTTA
-TATATGGAATGGGAGTGTCATATATTGCAATTTACCAATCGGTTAAAATAACTTTAATTTCTGGAGTGTTTGATTTTCAT
-TATTTAATCAGTCAACTATTAATTACTATATCTTCTGTGTTAGGGGTTCAGGTGTATTTACCTGACATTAGTTATAGCCA
-TTTGGTGTCTAAGACTGCTAACCCACAATTATACCAACAAGGGTTTGGATTAGGAGGAAGCTATCTTGGTGAATCATTTT
-TAGCTATGGGGCTAATAGGGTGTTTTATCATTCCATTTATAGTTTTGTTTCTTATTAATAATTTAGAGCGATTTACTAAA
-TATAATAAAACTTTTTATTTTTTATATTATAGCTCTCTGCCATCTGTTTTATTTATACCCAGAGAAACTTTGCTCTATTT
-TTTCCCTTATGTAATTAAAGGTATTGTTGTGGCATTTTTGTTTATATGCTATTCAAATATTAAAATGAGAAGATTTAATA
-ATGGTTGA
->fliC_l,v_from-Nchanga_SRR1153349__1503
-TTAACGCAGTAAAGAGAGGACGTTTTGCGGAACCTGGTTCGCCTGCGCCAGAACGGAAGTACCAGCCTGCTGCAGAATCT
-GCGCGCGAGACATGTTGGAGACTTCGGTCGCGTAGTCGGAATCTTCGATACGGCTACGGGCAGAAGACAGGTTATTTACG
-GTATTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTCTGAACCGCACCCAGGTCAGAACGCAGCGCATCCACCTGCGC
-CAAAGCAGCATCAATTTTCTGCAGCGGGTTTTCAGTGGTTGTAGCAGCCGCTTCCGCCAGCTCTGGCTGTGCTTTGAAGT
-TGTGCCCAGCGGCTTTGCTGGCATTGTAGGTTTTACCGTCGATAGAAACGACTTCAGTTTTACCGTCTGCGCCACCCAGT
-TGGTTCAGTGCAGTTTTAGTGTTGCCGCCTTTATCGGTATATTCAGTGGTGTTAATGCTGAACGATCCATCTTTATTTTT
-TGTTGCAGCATAAATATTAGCCCCAACTTTAACACCGAAACCGCCATCAATAGTCTTACCGTTTTTATCCGTATAAGACA
-TCGTAACTAATTGACCTTTTGCAGCATCAGCAGCACTAATACCACTGTCGGTCAACTGATCTTTAACTGCTGTACTGAGA
-GCTACAGGTTTTGGCTGCGTTTCGGTTACTGCCGTCGCCGTGGCTGGCATGCCTCCTGTCACTTTCGTGGTTGCCGGCAT
-TGTAACAGTGCCATCATCTGCAACACTAACTTCATAAACACCATTTTTAGTAGCGTCGCCAGCGGTTAAACCTTCTACTT
-CAATAAAATATTTATTATCAGTTGCATCGAAGAAGACTTTACCATCCTTAATTGCAGCAGTACCGTTTGTTGCACCACCA
-ACACCCGTTTTAAGAGCTGCATCATTAAGACCAGTGGTATTGAGTGTTGCCCCACCGCCGCTTTTAACTGCTTCGCTCTT
-CACATCATATTTTTTCTGCACATTCAGCGTATCCAGACCCAGGGTCTGAGAGTTGATCTGCTTCAGATCGATATCGATGG
-TTTCACCGTCGTTGGCACCAACCTGGATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACGCCGTTGAACTGAGTCTGG
-CCGGATACACGGTCGATTTCGTTCAGGCGCTGGGTGATTTCAGCCTGGATGGAGTCAAGGTCAGACTGGGAGTTGGTGCT
-GTTAGCAGACTGAACCGCCAGTTCACGCACACGCTGCAGGTTGTTGTTGATTTCGTTCAGCGCGCCTTCAGTGGTCTGCG
-CAATGGAGATACCGTCGTTAGCGTTACGGGAAGCCTGAGTCAGACCTTTGATGTTCGCGGTGAAACGGTTAGCAATTGCC
-TGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCGGAAGACAGACGCTCGATAGCGGTACCCAGAGCAGACTG
-GGATTTGTTCAGGTTATTCTGGGTCAACAGCGACAGGCTGTTTGTATTAATGACTTGTGCCAT
->tyr-O-9__609
-ATGAAGCTTTTAATTACCGGTGGATGTGGCTTCCTTGGGAGTAATCTTGCCTCCTTTGCTTTAAGTCAAGGGATTGATTTAATTGTATTCGATAATCTATCACGTAAAGGTGCAACAGATAATTTACATTGGTTATCCTCCTTAGGAAACTTTGAGTTTGTACATGGTGATATTCGCAACAAAAATGATGTTACAAGATTAATAACTAAGTATATGCCTGATAGCTGTTTTCATCTTGCAGGTCAAGTGGCAATGACTACATCTATTGACAATCCTTGTATGGATTTTGAAATTAATGTAGGTGGAACTTTAAATTTACTTGAGGCAGTACGGCAGTATAATTCAAATTGTAATATAATTTATTCATCAACAAATAAAGTATACGGCGATCTTGAGCAATATAAATACAATGAAACAGAAACTAGATACACTTGTGTAGATAAGCCTAATGGATATGATGAGAGCACACAATTAGATTTCCACTCACCATATGGTTGTTCAAAAGGTGCTGCAGACCAATACATGCTTGATTATGCAAGGATTTTTGGTTTGAATACAGTGGTGTTCAGGCATTCATCAATGTATGGTGGGAGACAGTTTGCTACTTAT
->O:23-gene2__1146
-CCGGAATTTTATAAAAAGAATATGAAAATATTAATGATTGGTACTACGGTGCAATCTTTATTAGGATTCAGATATGAATT
-ACTTAAAGATTTAGTTAGCGCAGGACATGAAGTATATGCGTTATCTGTTGATTATGATTACAAATCGAAGCAGACATTGA
-TTGATATCGGTGTCGTACCGATAGATTATACAATAAGTCGCTCAGGAATTAATCCCTTCAAGGATTTTGTTAATTTTATT
-TTTTTATATAAGCTAATAAAAAAAATAACACCAGACATCGTTTTTTCTTATTTTACTAAGCCTTGTATTTGGGGATCGCT
-TGCCGCATATTATGCTGGTGTTCATAAGATTATCGCGATGCTTGAAGGGTTAGGTTTTTTATTTACCGAACAACCATCTG
-GGATTCCCCAAAAGACAAAAATCCTAAAAAGAATACAGATTCTGCTCTATAGAATAGCTTTTAAGAAAATTAATACACTT
-ATTGTACTTAATGAAGATGATAGGAATGATTTACTTAACGCTGGTTGTATAGAAGATAGAAAAGTATATGTATTGGGGGG
-TATTGGAATAAATTTAGAGCATTACAAGTATTCACCAGCACCACTTGAACCAATTTCTTTTATTTTCATTGGCCGATTGC
-TCAGAGAAAAGGGGATTTATGAATTTATCGCTGCTGCTAAAAATATAAAAGAAAGATTTGAAGGGGTGACGTTTAATGTG
-CTGGGTAATATTGATCCAGCAAACCCTGGTAGTCTAAAACAAAATGAACTTGATACAATTATTAAAGAAGAAATAATTAA
-CTATGTAGGATATGTGAATGATGTTTCTCATTGGTTAAGTAAGAGCAGTGTTTTCGTTTTACCTTCTTATAGAGAAGGAT
-TTCCTCGAAGTACACAGGAGGCTATGGCTATAGGAAGAGCTGTAATAACTACCGATGTTCCTGGATGTAGAGATACTGTT
-GTTAATAATTCTAATGGTTTTTTAATACAACGGTGGTCTAGCGATGCTCTTGCAGAGGCGATGGAAAAATTTATTTTATC
-TAAAGAATTGATTCGCGACTGTGGTAAAGAAAGTGCCAGGATAGCTAAAGAAAAATTTGACACCCGAATTACCAATAAGA
-AAATAATTACTATATTATTGTCTTAA
->fliC_f,g,s_Salmonella.enterica_DTU-genomes_unknown_g,m__1518
-atggcacaagtcattaatacaaacagcctgtcgctgttgacccagaataacctgaacaaatctcagtcctcactgagttc
-cgctattgagcgtctgtcctctggtctgcgtatcaacagcgcgaaagacgatgcggcaggccaggcgattgctaaccgct
-tcacttctaatatcaaaggtctgactcaggcttcccgtaacgctaacgacggcatttctattgcgcagaccactgaaggt
-gcgctgaatgaaattaacaacaacctgcagcgtgtgcgtgagttgtctgtgcaggccactaacgggactaactctgattc
-cgatctgaaatctatccaggatgaaattcagcaacgtctggaagaaatcgatcgcgtttctaatcagactcaatttaacg
-gtgttaaagtcctgtctcaggacaaccagatgaaaatccaggttggtgctaacgatggtgaaaccattaccatcgatctg
-caaaaaattgatgtgaaaagccttggccttgatgggttcaatgttaatgggccaaaagaagcgacagtgggtgatctgaa
-atccagcttcaagaatgttacgggttatgacacctatgcagcgggtgccaataaatatcgtgtagatattaattcaggtg
-ctgtagtaactgatgatgcagcaccggataaagtatatgtaaatgcagcaaatggtcagttgacaactgacgatgcggaa
-aataacactgcggttaacctattcaagacgactaaatctgctgctggtaccgatgaagccaaagcgatagctggtgccat
-taagggtggtaaggaaggagatacctttgattataaaggcgtgacttttactattgatacaaaaactggtaatgacggta
-atggtaaggtttctactaccatcaatggtgaaaaagttacgttaactgtcgctgatattaccggtggtgcggcgaatgtt
-gatgctgctaccttacaatcaagcaaaaatgtttttacatctgtagtgaacggtcagtttacttttgatgataaaaccaa
-aaacgagagtgcgaaactttctgatttggaagcaaacaatgctgttaaaggcgaaagtaaaattacagtaaatggggctg
-aatatactgctaacgccacgggtgataaggtcaccttagcaggcaaaaccatgtttattgacaaaacagcttctggcgtt
-agtacattaatcaatgaagacgctgccgctgctaagaaaagtaccgctaacccactggcttcaattgattctgcattgtc
-aaaagtggacgcagttcgttcttctctgggggcaattcaaaaccgttttgattcagccattaccaaccttggcaatacgg
-taaccaatctgaactccgcgcgtagccgtatcgaagatgctgactatgcaacggaagtttctaatatgtctaaagcgcag
-attctgcagcaggctggtacttccgttctggcgcaggctaaccaggttccgcaaaacgtcctctctttactgcgttaa
->fliC_g,z51_Salmonella.enterica_Travis_AY353413_g,m__1515
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGACGCAGGCTTCCCGTAACGCTAACGACGGTATCTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAATGGTACTAACTCTGATTC
-CGATTTGAAATCCATTCAGGATGAAATCCAGCAGCGCTTATCGGAAATCGACCGTGTTTCTAACCAGACTCAGTTTAACG
-GTGTTAAAGTCCTGTCTCAGGATAATCAGATGAAAATTCAGGTGGGCGCTAACGATGGCGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGTCTGGATGGATTCAATGTTAACGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGATACGTATACTGCTGGTGCTAATACTTATCGCGTAGATATTAATTCTGGAG
-CAGTAACTGATGATGCTGGTACCGATAAGATTTACGTAAATGCAGCAAACGGTCAGCTCACAACTGATGATGCACAGAAT
-AACACTGCAGTTGATCTATTTAAGACAGCAAAATCATCAGCAGGTACAGCTGAATCTAAAGCAATAGCTGGCGCTATTAA
-AGGTGGTAAAGAAGGAGATACTTTTGATTATAAAGGTGTTTCTTTCACCATTGATACAAAGAATGGCGCTGACGGTAATG
-GTACTGTTTCCACTATGATCAATGGTGAAAAAGTTACGTTGACTGTTGCTGATATTACCACTGGTGCGGCGGACGTTAAT
-GCGGCTACCTTACAATCAAGTAAAAATGTTTATACATCTGTAGTAAACGGCCAGTTTACTTTTGATGATAAAACCAAAAA
-CGAGAGTGCGAAACTTTCTGATTTAGAAGCAAATAATGCTGTTAAAGGTGAAAGTAAAATCACGGTAAACGGCGCTGAGT
-ATACAGCTAACGCTGAAGGTGATAAAGTTACCTTAGCAGGTAAAACCATGTTTATTGATAAGACCGCTTCTGGCGTTAGC
-ACATTAATCAATGAAGATGCTGCTGCTGCTAAGAAGAGTACAGCTAATCCACTGGCTTCAATTGATTCTGCATTGTCAAA
-AGTGGATGCTGTACGTTCTTCACTGGGGGCGATCCAGAATCGCTTTGATTCTGCCATCACTAACCTGGGCAACACGGTAA
-ATAACCTGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATT
-CTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAGCGTCCTCTCTTTACTGCGTTAA
->fliC_c_Salmonella.enterica_IIIb.41:c:e,n,x,z15_AY353369_other.c__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGTACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAGCGATACTGCTGTAGC
-TGCTTCCTATTCCGACTCGAAACAGAATATTGCTGTTCCTGATAAAGCAGCTATTACTGCAAAAATTGGTGCAGCAACCA
-GTGGTGGTGCTGGTATAAAAGCAGATATTAGCTTTAAAGATGGCAAGTATTACGCGACTGTCAGTGGATACGATGATGCC
-GCAGATACAGATAAAAATGGAACCTATGAAGTCACTGTTGCCGCAGATACAGGAGCAGTTACTTTTGCGACTACACCAAC
-AGTGGTTGACTTACCAACGGATGCAAAAGCAGTTTCAAAAGTTCAACAGAATGATACTGAAATAGCAGCAACAAATGCGA
-AAGCTGCATTAAAAGCTGCAGGAGTTGCAGATGCAGAAGCTGATACAGCTACTTTAGTGAAAATGTCTTATACAGATAAT
-AACGGCAAAGTTATTGATGGTGGGTTCGCATTTAAGACCTCCGGTGGTTATTATGCAGCATCTGTTGATAAATCTGGCGC
-AGCTAGCTTGAAAGTTACTAGCTACGTTGACGCTACCACTGGTACCGAAAAAACTGCTGCGAATAAATTAGGTGGCGCAG
-ACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGAAGGTCACAACTTTAAAGCACAG
-CCTGATCTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_c_Salmonella.enterica_Jericho_AY353367_other.c__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACCATCGATATCGATCTG
-AAACAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAGCGATACTGCTGTAGC
-TGCTTCCTATTCCGACTCGAAACAGAATATTGCTGTTCCTGATAAAACAGCTATTACTGCAAAAATTGGTGCAGCAACCA
-CTGGTGGTGCTGGTATAAAAGCAGATATTAGCTTTAAAGATGGCAAGTATTACGCGACTGTCAGTGGATACGATGATGCC
-GCAGATACAGATAAAAATGGAACCTATGAAGTCACTGTTGCCGCAGATACAGGAGCAGTTACTTTTGCGACTACACCAAC
-AGTGGTTGACTTACCAACGGATGCAAAAGCAGTTTCAAAAGTTCAACAGAATGATACTGAAATAGCAGCAACAAATGCGA
-AAGCTGCATTAAAGGCTGCAGGAGTTGCAGATGCAGAAGCTGATACAGCTACTTTAGTGAAAATGTCTTATACAGATAAT
-AACGGCAAAGTTATTGATGGTGGGTTCGCATTTAAGACCTCCGGTGGTTATTATGCAGCATCTGTTGATAAATCTGGCGC
-AGCTAGCTTGAAAGTTACTAGCTACGTTGACGCTACCACTGGTACCGAAAAAACTGCTGCGAATAAATTAGGTGGCGCAG
-ACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGGCACAACTTCAAAGCACAG
-CCAGAGCTGGCGGAAGCGGCTGCTACAACCACTGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAAGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAATAACCTGT
-CTTCTGCTCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTTTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_c_Salmonella.enterica_Goeteborg_AY353368_other.c__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGGATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTGAGCGATACTGCTGTAGC
-TGCTTCCTATTCCGACTCGAAACAGAATATTGCTGTTCCTGATAAAGCAGCTATTACTGCAAAAATTGGTGCAGCAACCA
-GTGGTGGTGCTGGTATAAAAGCAGATATTAGCTTTAAAGATGGCAAGTATTACGCGACTGTCAGTGGATACGATGATGCC
-GCAGATACAGATAAAAATGGAACCTATGAAGTCACTGTTGCCGCAGATACAGGAGCAGTTACTTTTGCGACTACACCAAC
-AGTGGTTGACTTACCAACTGATGCAAAAGCAGTTTCAAAAGTTCAACAGAATGATACTGAAATAGCAGCAACAAATGCGA
-AAGCTGCATTAAAAGCTGCAGGAGTTGCAGATGCAGAAGCTGATACAGCTACTTTAGTGAAAATGTCTTATACAGATAAT
-AATGGCAAAGTTATTGATGGTGGGTTCGCATTTAAGACCTCCGGTGGTTATTATGCAGCATCTGTTGATAAATCTGGCGC
-AGCTAGCTTGAAAGTTACTAGCTACGTTGACGCTACCACTGGTACCGAAAAAACTGCTGCGAATAAATTAGGTGGCGCAG
-ACGGTAAAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGGCACAACTTCAAAGCACAG
-CCAGAGCTGGCGGAAGCGGCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGATGC
-GCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGT
-CTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->tyr-O-2__608
-ATGAAGCTTTAATTACCGGTGGATGTGGCTTCCTTGGGAGTAATCTTGCCTCCTTTGCTTTAAGTCAAGGGATTGATTTAATTGTATTCGATAATCTATCACGTAAAGGTGCAACAGATAATTTACATTGGTTATCCTCCTTAGGAAACTTTGAGTTTGTACATGGTGATATTCGCAACAAAAATGATGTTACAAGATTAATAACTAAGTATATGCCTGATAGCTGTTTTCATCTTGCAGGTCAAGTGGCAATGACTACATCTATTGACAATCCTTGTATGGATTTTGAAATTAATGTAGGTGGAACTTTAAATTTACTTGAGGCAGTACGGCAGTATAATTCAAATTGTAATATAATTTATTCATCAACAAATAAAGTATACGGCGATCTTGAGCAATATAAATACAATGAAACAGAAACTAGATACACTTGTGTAGATAAGCCTAATGGATATGATGAGAGCACACAATTAGATTTCCACTCACCATATGGTTGTTCAAAAGGTGCTGCAGACCAATACATGCTTGATTATGCAAGGATTTTTGGTTTGAATACAGTGGTGTTCAGGCATTCATCAATGTATGGTGGGAGACAGTTTGCTACTTAT
->fliC_y_Pomonastr_AHIA01000046_other.y__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGACAGGCAATTGCTAACCGTT
-TTACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAACACGGCTGTCAC
-GAACCCTAATTATGTTGATGGTGCAGCGTTAAGCACTACGATGCCTACTGCGGCTGAGATTAAAACGGCTATTGGCACTG
-GTGCGGGAACTCCGGCAGTTAAAGGTAATGAAGTTCAATTTGATAAGAGCACTGGGAAGTATTACGTTGAAATTGAAGGA
-TATTCAGCTCCTGATGCAGCTAAAAACGGCATTTATGAAGCCAAAGTTGCTGATGATGGCACAATATCTTTGGAGACTGG
-GACCAAAAAAATTGGCACCGCAATGCCTGCTGGTGCTGAAGTTATTACTCACGTGCAGAAAAAAGATCAACCAGTTGTTG
-TTGATGCCAGCGTTAAAGATGCTCTAAAAGCTGGTGGGGTAGATGATGCAGTTGCAGATACCGCGCAATTAGTCAAAATG
-TCTTACACTGATAAGAATGGTAAAACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGCAAAACCGAAGTTGTTACTATCGATGGTAAAACCTATAATGCCAGCAAAGCTGAAGGTCAC
-AACTTTAAAGCACAGCCTGAACTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCCGCGCT
-GGCGCAGGTTGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_r_Weltevredenstr_ABFF01000030_r,i__1470
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCGAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCTGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCT
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-TCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAG
-GCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_y_Hartfordstr_ALPO01000014_other.y__1509
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAACACGGTTGTCAC
-GAACCCTAATTATGTTGATGGTGCAGCGTTAAGCACTACGATGCCTACTGCGGCTGAGATTAAAACGGCTATTGGCACTG
-GTGCGGGAACTCCGGCAGTTAAAGGTAATGAAGTTCAATTTGATAAGAGCACTGGGAAGTATTACGTTGAAATTGAAGGA
-TATTCAGCTCCTGATGCAGCTAAAAACGGCATTTATGAAGCCAAAGTTGCTGATGATGGCACAATATCTTTGGAGACTGG
-GACCAAAAAAATTGGCACCGCAATGCCTGCTGGTGCTGAAGTTATTACTCACGTGCAGAAAAAAGATCAACCAGTTGTTG
-TTGATGCCAGCGTTAAAGATGCTCTAAAAGCTGGTGGGGTAGATGATGCAGTTGCAGATACCGCGCAATTAGTCAAAATG
-TCTTACACTGATAAGAATGGTAAAACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGTGTAGACGGCAAAACCGAAGTTGTTACTATCGATGGTAAAACCTATAATGCCAGCAAAGCTGAAGGTCAC
-AACTTTAAAGCACAGCCTGATCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCTGCTTT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_g,z51_50_g,z51_-str_AOXJ01000042_g,m__1503
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCTCACTGAGTTC
-CGCTATCGAGCGTTTGTCCTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATCAAAGGCCTGACTCAGGCTTCCCGTAATGCGAACGACGGTATCTCCATTGCGCAGACCACCGAAGGG
-GCGTTGAATGAAATTAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATTCAGGATGAAATTCAGCAGCGCTTATCGGAAATTGACCGTGTTTCTAACCAGACTCAGTTTAACG
-GTGTTAAAGTCCTGTCTCAGGATAATCAGATGAAAATTCAGGTGGGCGCTAACGATGGCGAGACTATTACCATTGATCTA
-CAAAAAATTGATGTGAAAAGTCTTGGTCTGGATGGGTTCAACGTGAATGGGCCTAAACAAGCAACCGCTGGGGATTTGAA
-ATCTAATTTCAAAAACGTTACTGGTTATGATACGTATGCTGTTGGTGCTGATAGTTATCGTGTAGATATTAATTCTGGAG
-CAGTAACTGATGATGCTGGTACCGATAAGATTTACGTAAACGCAGCAAACGGTAAACTCACAACTGATGATGCACAGAAT
-AACACCCCAGTTGATCTATTTAAGACAACAAAATCATCAGCCGGTACAGCTGAATCTAAAGCAATTGCTACCGCTATTAA
-AGGTGGTAAAGAAGGAGATACTTTTGATTATAAAGGTGTTTCTTTTACCATTGATACAAAGAATGGCACTGACGGTAATG
-GTACAGTTTCTACTACTATCAATGGTGAAAAAGTTACGTTGACTGTCGCTGACATTACCACGGGTGCGGCAGACGTTAAT
-GCGGCAACCTTACAATCAAGTAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACCTTTGATGATAAAACGAAAAA
-CGAAGGTGCGAAATTATCTGATTTAGAAGCAAATAATGCTGTTAAAGGTGAAAGTAAAATCACGGTAAACGGTGCTGAAT
-ATACAGCTAACGCTGAGGGTGATAAAATTACCTTAGCAGGTAAAACCATGTTTATTGATAAGACAGCCTCTGGCGTTAGC
-ACATTAATTAATGAAGATGCTGCTGCAGCTAAGAAGAGTACCGCTAATCCACTCGCTTCAATTGATTCTGCATTGTCAAA
-AGTGGATGCTGTACGTTCTTCATTGGGGGCTATTCAGAACCGTTTTGATTCTGCCATTACCAACTTGGGTAATACGGTAA
-ATAATCTGACTTCCGCACGTAGCCGTATCGAAGATGCTGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATT
-CTGCAGCAGGCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_g,m_Enteritidisstr_ALGW01000034_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGACGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_z_Salmonella.enterica_IIIb.48:z:1,5,7_AY353339_k,z__1500
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGTTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGTACAGCTATTAAAACTGGCGTTGCTGGAGCTACCACTACAACTG
-GTTCCATTAAAGATGACAAAGTATATTATGATAGTGCTACTAAAAATTATTATGCTGAAGTGAACTTTACAGATGCCGCT
-GATACCGCTAAAAATGGTTTCTATAAAGTCAATGTTGCTGATGATGGCACTGTTACAATGGGGGCTTCGACTACTAAAGA
-AGCTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACCCAAGAAGAGAAAGCAATTAAGGCATCTGCAGATGTGAAAG
-CTGCTCTGACTGCTGGAGGTATTGATACTGCTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTATACCGATAAAAAC
-GGTAAGACGATTGATGGCGGTTACGCTGTAAAAGTGGGCGATAACTACTATGCCGCTACCCAGAAAAAAGATGGTAGCTT
-TAGTGTTAACACCACGTCTTACACCGCAGCGGACGGTACATCCAAAACTGCCCTGAACCAACTTGGTGGCGCAGACGGTA
-AAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAGCCAGAG
-CTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACG
-TTCTGACTTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTG
-CACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCGGGG
-ACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGCTACGTTAA
->oafA__1830
-ATGATCTACAAGAAATTCAGACTCGATATAAATGGGCTAAGAGCTTTTGCATTGATAAGTGTTGTGCTGTATCACTTCGG
-TGTACCTTATGTGTCAGGTGGCTTTATAGGTGTAGATGTTTTCTTTGTAATTTCTGGTTTTCTTATGACTGGAATTGTCC
-TTGAACGCGTAGACCACAAAGGAGTACTTGATTTTTATATTGCAAGATTCCTAAGAATTGTACCAGCTCTGGTATTTGCA
-ATTCTCTTGTTGATGATTTTCGGTTTATTTACACTAAGTACAAATGAATACGAAGCACTTAGCAAGAACGCAATATCGTC
-TTTACTTTTTTATTCAAATAATTATTACGCAATTCACTCTAGTTATTTCGACTCATCATCAGAGTTCAACTTTTTGCTTC
-ACACCTGGTCACTATCAGTTGAGTGGCAATTTTATATTTTATATCCTTTATTAGTCATTATAGTTAAAAAATTACGGTTT
-CCTGTTGGACTCTCATTATCTGTAATTTTAGCCATGTCACTTGCAATTACACTTATGCGAGTGACTGGAACCAAAGAAGA
-TATTTTCTATCTTATCCCTACCAGGGCATGGGAAATGCTGGCTGGCGGCCTTGTATACATAGCATCTGTACGTTACAAAA
-TGCCAGAATGGATAAAGCATTGTGAGGTTTATGGGATAGTCCTCATTGTTGTTCGTGTTGTTATACTCGACAGTAATGGT
-TACTGGCCAAGCTATTCAGCACTCGCTCCCGTGCTGGGTGCTTCGATGGTTATTCTGGCTAACAAACAGAACTCTTTATT
-CACATCAAACAGAATTGCACAGTGGGTGGGTAAGATTTCTTACTCAGTTTATTTATGGCACTGGCCTGTAATTGTAGCGA
-TGAAACATTATGATATTGAGTTCAGCGCTATAAATATTTTCTTTGGTGTAATTGTGTCTTTTGCGCTTGGGGATATTTCA
-GACAGAACAATTGAAAACACGCTCAGGAAACGAGTTAAGCTACAATTTAATATTGTATTATTTTCCTCTACTCTGGCTCT
-ATGCTTGTTTGTCATGTTCACAAAAGGTGTTAGTTTTAGATTTTCAGACACCCTAAAGCAAGTCGTTGAGTATCGTATGG
-ACAACTCTCCCTGGAGGCCTGATATTTGCTTCCTCAATCCAGATCAAGATTATTCAGCATTCTCAAAATGTCAGGATAAA
-ATGACTGAAAAGTCTTTTGTTGTATGGGGTGACTCGCATGCCGCACATCTTATGCCAGGGCTGAAATCGGTATTTGGAAA
-TTCACTTAACATTACGCAGAGAACTGCAAGCTTGTGCCCACCAATCATTGGGCTTCAAAAAGATGACAGGCCGTATTGCA
-AAGACATCAATGATATGGTAGCCAAGGAAATTTCAGACAACAAGCCTACTACGGTATTAATGTCCGCGTTGTGGCCTGTC
-TATCCTATGCGTGATTATCTGCCTGAGACTATTAAATTCCTGAAGGATAACAAAGTAAAAAACATCATCATTGTTGGCCC
-GTTCCCGGTTTGGAAGAAAACGATGATTGATACTATTGAGGATATGGGGATTAATTCCGGAAGGACCGTTCCATGGAGCA
-TGACGGATGAAACCCGTAATCTGAGAGATAATGACAAATATCTTAGAGAGCTGGCGAAAGAGCATTCCCTTACTTATATT
-TCACCACTTGAGACTATGTGTACAGAAAGTTATTGCAAAGCAATAATAGGGAATAGAATTGCTTACCCTATACAATATGA
-CAATGCGCACCTAACACCAGAAGGCTCAGGGTGGTTTATTGAGGAAGTGAGAAAGCAGATTTCAAAATAA
->fljB_e,n,x,z15_Salmonella.enterica_IIIb.47:i:e,n,x,z15_AY353313_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-TAGCTCTACCTATAGTGATGGTACTAAGGCTCTTACGGCACCAACTGCAACTGATATTAAAACTGCATTAGGCAACCCGA
-CGGTAACTGGTGATACATTAACTGCCACCGTATCCTTCAAGGATGGTAAATATTACGCCACCGTAGGTGGTTATACCGAT
-ACGGGGGATGCTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-GACTAAAGCTACAGTAACTGGGGATACAACCGTAACTAAAGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGAGGCGTCTCATCTGCGGACGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAATATTACGCTGCTGATTACAATGAAACTACAGG
-AGCTATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACTAAAATGGCGGCTAACCAACTTGGTGGCGCAG
-ACGGTAAAACCGAAGTCGTTACTATCAACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGCCATGATTTCAAAGCACAG
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCGGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,5_from-Ibadan-micro-assembly_SRR1753831_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCACAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCGATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCCATCAAAGCGGCCATAGGTG
-GTACGACTGGTACGCCTGCTGTAACGGGCGGTACAGTTAAATTTGACGCAGATAATAATAAGTATTTTGTTTCTATTGGT
-GGCTATACTGGTGCTGATGCATCCAAAAATGGCGATTATGAAGTTAACGTTGCTGCTGACGGTAAAGTTACACTTGCTAC
-AGGTGCAACTAAAACCACAATACCGGCAGGTGCTACAACCAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACACTGCTGATGCAAATGCCGCCGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACCATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGTT
-GGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,5,7_Salmonella.enterica_IIIb.47:r:1,5,7_AY353291_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTTTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATACGTTGAATGTGCAAAAAGCGTATGATGTGAAAGATACAGCAGCAAC
-AACGAAAGCTTATGCTGATAATGGTACTACACTGGATGTATCAGGTCTTGATGATGCAGCGATTAAAGCGGCTACGGGTG
-GTACGACTGGTGCGCCTACTGTAACGGGCGGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGGTGATGCTGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTAACACTTGCGAC
-TGGTGCAACTAAAACCACAATGCCTGCAGGTGCTACAACCAAAACAGAAGTACAGGAATTAAAAGATACACCGGCAGTTG
-TATCAGCTGATGCTAAAAATGCTTTAATTGCTGCTGGCGTTGATACTACAGATGCAAATGCCGCGACATTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAATATTACGCTGCTGATTA
-CAATGAAACTACAGGAGCTATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACTAAAACGGCGGCTAACC
-AACTTGGTGGCGCAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCAT
-GATTTCAAAGCACAGCCAGATCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCT
-GGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACA
-CCGTAAACAACCTGACTTCTGCACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCGGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTA
-A
->fljB_1,5_from-Infantis-micro-assembly_SRR1106258_1__1521
-TTAACGTAACAGAGACAGCACGTTCTGCGGGACCTGGTTAGCCTGCGCCAGAACGGAAGTACCGGCCTGCTGCAGAATCT
-GCGCGCGAGACATGTTGGAAACTTCGGTCGCGTAGTCGGAATCTTCGATACGGCTACGCGCTTCAGACAGGTTGTTTACG
-GTATTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTTTGTACCGCACCCAGATCAGAGCGCAGCGCATCCACCTGCGC
-CAGCGCGGCATCAATTTTCTGCAGCGGGTTTTCGGTGGTTTTAGCGGCTGCTTCCGCCAGCTCTGGTTGTGCTTTGAAAT
-CATGACCAGCGGCTTTGCTGGCATTGTAGGTTTTACCGTCGATAGTAACGACTTCGGTTTTACCGTCTACGCCACCCAGT
-TGGTTAGCTGCTGTTTTGGTAGTGCCGTCAGCAGCAGTATAACTTGTGGTTTTAGCTTTAATTGCTCCTGTCGCTTCATC
-GTAATCTGCGGCGTAATACTTATCGCCAGCTTTAAGCGCATAACCGCCTTCAATTGTCTTACCATTTTTATCGGTATAAG
-ACATTTTGACCAACTCAGCGCCATTAGCATCGGTAGCGTCAACGCCGCCAGCAATTAAGGCATTTTTAGCATCTGCTGAA
-ACAACTGCCGGTGTATCTTTTAACTCCTGTACTTCTGTTTTAGTTGTCGCACCAGCAGGCATTGTGGTTTTAGTTGCGCC
-AGCCGCAAGGGTTACTGTACCGTCAGTAGCAACGTTAACTTCATAATCGCCATTTTTGGCGGCATCAGCACCAGTAAAGC
-CACCAATAGTAACAAAGTACTTGTTATTATCTGCGTCAAATTTAACCGCACCACCGGTTACAGCAGCCGTACCAGTCGTA
-CCACCCGTAGCCGTTTTAATAGCTGCATCAGTAAGACCCGATACATCCAGTGTAGTACCATTATCGGCATAAGCTTTCGT
-TGTTACTGCTGTATCTTTCACATCATACGCTTTCTGCACGTTCAGTGAGTCCAGACCCAGGGTCTGAGAGTTGATCTGCT
-TCAGATCGATATCGATAGTTTCACCGTCGTTGGCACCAACCTGGATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACG
-CCGTTGAACTGAGTCTGGCCGGATACACGGTCGATTTCGTTCAGGCGCTGGGTGATTTCAGCCTGGATGGAGTCGAGGTC
-AGACTGGGAGTTGGTGCTGTTAGCAGACTGAACCGCCAGTTCACGCACACGCTGCAGGTTGTTGTTGATTTCGTTCAGCG
-CGCCTTCAGTGGTCTGCGCAATGGAGATACCGTCGTTAGCGTTACGGGAAGCCTGAGTCAGACCTTTGATGTTCGCGGTA
-AAACGGTTAGCAATCGCCTGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCAGAAGACAGACGCTCGATAGC
-GGTGCCCAGTGCGGACTGGGATTTGTTCAGGTTATTCTGGGTCAGCAGCGACAGACTGTTAGTGTTGATTACTTGTGCCA
-T
->fljB_1,5_Javiana_SAMN02902435_1__1511
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCGATAATGGTACTACACTGGATGCCTCAGGCCTTGATGATGCGGCCATCAAAGCAGCCATTGGTG
-GTACGACTGGTACGGCTGCTGTAACGGGTGGTACAGTTAAATTTGACGCAGATAATAATAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATGCCGCCAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTAAAGTTACACTTGCTAC
-GGGTGCAACTAAAACCACAATGCCTGCTGGCGCGGCAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATCGCTGGCGGCGTTGACACTGCCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATATTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACTACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCTGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATCCTGCAGCAGGCCGGTACTTCCGTTCTGGCACAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCT
->fliC_r_Virchowstr_ABFH02000002_r,i__1470
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACTAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATTACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTACCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGCTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACTCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCTGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTGCT
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAG
-GCGAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_g,m_Enteritidisstr_ALGQ01000046_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGTTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACGATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGTA
-AGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_d_Muenchenstr_ARYW01000085_b,d,j__1496
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACGGTACTAACTCCCAGTC
-TGACCTTGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGTGATATTGATTTAAAAGAAATTAGCT
-CTAAAACACTGGGACTTGATAAGCTTAATGTCCAGGATGCCTACACCCCGAAAGAAACTGCTGTAACCGTTGATAAAACT
-ACCTATAAAAATGGTACAGATACTATTACAGCCCAGAGCAATACTGATATCCAAACTGCAATTGGCGGTGGTGCAACGGG
-GGTTACTGGGGCTGATATCAAATTTAAAGATGGTCAATACTATTTAGATGTTAAAGGCGGTGCTTCTGCTGGTGTTTATA
-AAGCCACTTATGATGAAACTACAAAGAAAGTTAATATTGATACGACTGATAAAACTCCGTTAGCAACTGCGGAAGCTACA
-GCTATTCGGGGAACGGCCACTATAACCCACAACCAAATTGCTGAAGTAACAAAAGAGGGTGTTGATACGACCACAGTTGC
-GGCTCAACTTGCTGCTGCAGGGGTTACTGGTGCCGATAAGGACAATACTAGCCTTGTAAAACTATCGTTTGAGGATAAAA
-ACGGTAAGGTTATTGATGGTGGCTATGCAGTGAAAATGGGCGACGATTTCTATGCCGCTACATATGATGAGAAAATAGGT
-ACAATTACTGCTAAAACAACCACTTATACAGATGGTGCTGGCGTTGCTCAAACTGGAGCTGTGAAATTTGGTGGCGCAAA
-TGGTAAATCTGAAGTTGTTACTGCTACCGATGGTAAAACTTACTTAGCAAGCGACCTTGACAAACATAACTTCAGAACAG
-GCGGTGAGCTTAAAGAGGTTAATACAGATAAGACTGAAAACCCACTGCAGAAAATTGATGCTGCCTTGGCACAGGTTGAT
-ACACTTCGTTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCT
-GTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGC
-AGGCCGGTACCTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fljB_e,n,x,z15_Salmonella.enterica_16:z10:e,n,x,z15_AY353306_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGATAACACCCTGACCATCCAGGTTGGTGCCAATGACGGTGAAACCATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACTCTGGGTCTGGATTCACTGAATGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-TAGCTCTACCTATAGTGATGGTACTAAGGCTCTTACGGCACCAACTGCAACTGATATTAAAACTGCATTAGGCAACCCGA
-CGGTAACTGGTGATACATTAACTGCCACCGTATCCTTCAAGGATGGTAAATATTACGCCACCGTAGGTGGTTATACCGAT
-ACGGGGGATGCTGCCAAAAATGGCAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACTCC
-GACTAAAGCTACAGTAACTGGGGATACAACCGTAACTAAAGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGAGGCGTCTCATCTGCGGACGCAAATGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAATATTACGCTGCTGATTACAATGAAACTACAGG
-AGCTATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGTACTACTAAAACGGCGGCTAACCAACTTGGTGGCGCAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGCACAG
-CCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACAC
-GTTACGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAATTCCGCCATCACCAACCTGGGCAACACCGTAAACAACCTGA
-CTTCTGCACGTAGCCGTATCGAAGATTCTGACTACGCGACTGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCGGGGACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCACAAAACGTGCTGTCTCTGTTACGTTAA
->fljB_e,n,x_Salmonella.enterica_Bonn_AY353308_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGATATTAAAGCTGCATTAGGCAACCCGA
-CAGTAACTGGCGATACATTGACTGCCGCCGTATCCTTTAAGGATGGTAAATATTATGCCACTGTAAGTGGTTATACCGAT
-GCGGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGCTACAGGGGCTGTATCATTCGGTGCTACCCC
-AACTAAATCTACTGTTACAGGTGATACCGCTGTTACTAAGGTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCCACGA
-AAAAAGCCTTACAAGATGGGGGCGTTTCATCTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAA
-AATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCTGCAGATTACGATGAAGCGACAGG
-AGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCATGATTTCAAAGCACAA
-CCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCTGGCGCAGGTGGATGC
-GCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCTGCTATCACCAACCTGGGCAATACCGTAAACAACCTGT
-CTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fljB_1,7_Salmonella.enterica_from-cdc_Stk1415_1__1521
-TTAACGTAACAGCGACAGCACGTTTTGCGGGACCTGGTTAGCCTGCGCCAGAACGGAAGTACCGGCCTGTTGCAGAATCT
-GCGCGCGAGACATGTTGGAAACTTCAGTCGCATAGTCGGAATCTTCGATACGGCTACGCGCTTCAGACAGGTTGTTTACA
-GTATTGCCCAGGTTGGTGATAGCGGAGTTGAAACGGTTCTGTACCGCACCCAGATCAGAACGCAGCGCATCAACCTGCGC
-CAGCGCGGCATCAATTTTCTGCAGTGGGTTTTCGGTGGTTTTAGCGGCTGCTTCCGCCAGCTCTGGCTGTGCTTTGAAAT
-CATGACCCGCGGCTTTGCTGGCATTATAGGTTTTACCGTCGATAGTAACGACTTCGGTTTTTCCGTCTACGCCGCCAAGT
-TGGTTAGCCGCAGTTTTGGTAGTACCGTCAGCAGCAGTATAACTTGTGGTTTTAGCTTTAATGGCTCCTGTCGTTTCATC
-GTAATCTGCGGCGTAATACTTATCGCCAGCTTTAAGCGCATAACCGCCTTCAATTGTCTTACCATTTTTATCGGTATAAG
-ACATTTTGACCAATGTCGCAGCATTTGCATCTGTAGTATCAACGCCAGCAGAAATTAAAGCATTTTTAGCATCGGCTGAT
-ACAACTGCCGGTGTATCTTTTAATTCCTGCACTTCTGTTTTGGTTGCAGCACCTGCAGGCATTGTGGTTTTAGTTGCACC
-CGTAGCAAGTGTAACTTTACCGTCAGTAGCAACGTTAACTTCATAATCGCCATTTTTGGCGGCATCAGCGCCAGTAAAAC
-CACCGATAGTAACAAAATACTTGTTATTATCTGCGTCAAATTTAACCGCACTACCTGTTACACTAGGTGCACCATTCGTA
-CCACCCGTAGCCGCTTTAATAGCTGCATCATCAAGGCCTGATACATCCAGTGTAGTACCATTATTGGCATAAGCTTTCGT
-GGTTACTGCTGTATCTTTCACATCATACGCTTTCTGCACATTCAGTGAATCCAGACCCAGGGTCTGAGAGTTGATCTGCT
-TCAGATCGATGTCGATAGTTTCACCGTCATTGGCGCCAACCTGGATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACG
-CCGTTGAACTGGGTCTGGCCGGATACACGGTCGATTTCGTTCAGACGCTGGGTGATTTCAGCCTGGATGGAGTCGAGGTC
-AGACTGGGAGTTGGTGCTGTTAGCAGACTGAACTGCCAGTTCACGCACGCGCTGCAGGTTGTTGTTGATTTCGTTCAGCG
-CGCCTTCAGTGGTCTGCGCAATAGAAATACCGTCGTTAGCGTTACGGGAAGCCTGAGTCAGACCTTTAATGTTCGCGGTG
-AAACGGTTAGCAATCGCCTGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCAGAAGACAGACGCTCGATAGC
-GGTGCCCAGAGCAGACTGGGATTTGTTCAGGTTATTCTGAGTCAGCAGCGACAGACTGTTAGTGTTGATTACTTGTGCCA
-T
->fljB_1,5_Muenster_DTU-unknown(tail&head may be fliC due to extract by mapping)_1__1521
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGCCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-CACGAAAACTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCCATCAAAGCGGCCATAGGTG
-GTACGACTGGTACGCCTGCTGTAACGGGCGGTACAGTTAAATTTGACGCAGATAATAATAAGTATTTTGTTTCTATTGGT
-GGCTATACTGGTGCTGATGCATCCAAAAATGGCGATTATGAAGTTAACGTTGCTGCTGACGGTAAAGTTACACTTGCTAC
-AGGTGCAACTAAAACCACAATACCGGCAGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCAACAGTTG
-TTTCAGCAGATGCGAAAAATGCCTTAATCGCTGGCGGCGTGGATGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACCGCTGCTGACGGCGCTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCCGCTGGTCAT
-GATTTCAAAGCACAACCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTACAGAACCGTTTTAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->fljB_1,7_Salmonella.enterica_Nola_AY353298_1__1521
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATTAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAAACTACTGAAGGT
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTGAAAGATACAGCAGTAAC
-AACGAAAGCTTATGCCAATAATGGTACTACACTGGATGTATCGGGTCTTGATGATGCAGCTATTAAAGCGGCTACGGGTG
-GTACGAATGGTGCACCTAGTGTAACAGGTAGTGCGGTTAAATTTGACGCAGATAATAACAAGTACTTTGTTACTATTGGT
-GGCTTTACTGGTGCTGATCTCGACAAAAATGGCGATTATGAAGTTAACGTTGCTACTGACGGTACAGTAACCCTTGCGGC
-TGGCGCAACTAAAACCACAATGCCTGCTGGTGCGACAACTAAAACAGAAGTACAGGAGTTAAAAGATACACCGGCAGTTG
-TTTCAGCAGATGCTAAAAATGCCTTAATTGCTGGCGGCGTTGACGCTACCGATGCTAATGGCGCTGAGTTGGTCAAAATG
-TCTTATACCGATAAAAATGGTAAGACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACCGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACCTATAATGCCAGCAAAGCCGCTGGTCAT
-GATTTTAAAGCACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCCGCGCT
-GGCGCAGGTTGATGCGCTGCGCTCTGACCTGGGTGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTCTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTA
-A
->fliC_g,m_Enteritidisstr_ALHD01000038_g,m__1507
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGCT
-TCACTTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAAGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-ATCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGCAGCACCGGATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGATCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAAGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTGATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTGCCACTGGCGCGACGGATGTT
-AATGCTGCTACCTTACAATCAAGACAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCA
-AAAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAGGGCGAAAGTAAAATTACAGTAAATGGGGCT
-GAATATACTGCTAACGCCACGGGTGATAAGATCACCTTAGCTGGCAAAACCATGTTTATTGATAAAACAGCTTCTGGCGT
-AAGTACATTAATCAATGAAGACGCTGCCGCAGCCAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGT
-CAAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACG
-GTAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCA
-GATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_r_Salmonella.enterica_IIIb.38:r:e,n,x,z15_AY353462_r,i__1482
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATCGACATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTCACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTGCCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGGTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACCCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCCGATCTGGCGGAAGCGGCTACC
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAAACCGTTTAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTGGCGCAG
-GCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_y_Salmonella.enterica_Giza_AY353465_other.y__1521
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAAAATATGATGTTGATAACACGGTTGTCAC
-GAACCCTAATTATGTTGATGGTGCAGCGTTAAGCACTACGATGCCTACTGCGGCTGAGATTAAAACGGCTATTGGCACTG
-GTGCGGGAACTCCGGCAGTTAAAGGTAATGAAGTTCAATTTGATAAGAGCACTGGGAAGTATTACGTTGAAATTGAAGGA
-TATTCAGCTCCTGATGCAGCTAAAAACGGCATTTATGAAGCCAAAGTTGCTGATGATGGCACAATATCTTTGGAGACTGG
-GACCAAAAAAATTGGCACCGCAATGCCTGCTGGTGCTGAAGTTATTACTCACGTGCAGAAAAAAGATCAACCAGTTGTTG
-TTGATGCCAGCGTTAAAGATGCTCTAAAAGCTGGTGGGGTAGATGATGCAGTTGCAGATACCGCGCAATTAGTCAAAATG
-TCTTACACTGATAAGAATGGTAAAACAATTGAAGGCGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTA
-CGATGAAGCGACAGGAGCAATTAAAGCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACC
-AACTGGGTGGCGTAGACGGCAAAACCGAAGTTGTTACTATCGATGGTAAAACCTATAATGCCAGCAAAGCTGAAGGTCAC
-AACTTTAAAGCACAGCCTGATCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGGCTAAAATTGATGCTGCTTT
-GGCGCAGGTGGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATA
-CCGTAAATAACCTGTCTTCTGCCCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCG
-CAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTA
-A
->fliC_r_Salmonella.enterica_IIIb.58:r:z53:z47_AY353461_r,i__1482
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCACTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACTGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATTTCTATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCTATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGTCAGACTCAGTTCAACG
-GCGTGAAAGTTCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGCGCCAATGACGGTGAAACTATTGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTCACTGGCTATACAGATTCTGCTACTGCTATTGACAAATCTACGTTTGCTGCATCAGCAACTGCCTTAGGTGGTACTC
-CTGCTATTACTGGTGATCTGAAGTTTGATGATACTACTGGAAAATATTACGCTGATGTTTCAGGTACTACGGCTAAAGAT
-GGTGTTTATGAAGTAACAGTTGCAGCCGATGGAAAAGTCACTTTAACTGGCACACCAACAGGACCAATTACTGGTGGCTT
-CCCTTCAACTGCAACAAAAGATGTTAAACAAACCCAGCAAGAAAACGCTGATTTGACAGAGGCCAAAGCCGCATTGACAG
-CAGCGGGTGTTGCAGCGGCCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATTGATGGT
-GGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGCTCCATAAGTATTAATACTACGAA
-ATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTGTTTCTA
-TTGGTGGTAAAACTTACGCTGCGAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCGGCTACC
-ACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCGCTGGCACAGGTTGACACGTTACGTTCTGACCTGGGTGCGGT
-ACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTATCGAAG
-ATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCAGGGACTTCCGTTCTGGCGCAG
-GCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_Bandia_AY353421_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTCGACTCCATCCAGGCTGAAATCACCCAGCGTCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCGCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGATGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGATACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_i_Salmonella.enterica_Idikan_AY353422_r,i__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCAATTGCTAACCGTT
-TCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAGGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTCCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAACAAAAATATAAGGTCAGCGATACGGCTGCAAC
-TGTTACAGGATATGCCGATACTACGATTGCTTTAGACAATAGTACTTTTAAAGCCTCGGCTACTGGTCTTGGTGGTACTG
-ACCAGAAAATTGATGGCGATTTAAAATTTGATGATACGACTGGAAAATATTACGCCAAAGTTACCGTTACGGGGGGAACT
-GGTAAAGATGGCTATTATGAAGTTTCCGTTGATAAGACGAACGGTGAGGTGACTCTTGCTGGCGGTGCGACTTCCCCGCT
-TACAGGTGGACTACCTGCGACAGCAACTGAGGATGTGAAAAATGTACAAGTTGCAAATGCTGATTTGACAGAGGCTAAAG
-CCGCATTGACAGCAGCAGGTGTTACCGGCACAGCATCTGTTGTTAAGATGTCTTATACTGATAATAACGGTAAAACTATT
-GATGGTGGTTTAGCAGTTAAGGTAGGCGATGATTACTATTCTGCAACTCAAAATAAAGATGGTTCCATAAGTATTAATAC
-TACGAAATACACTGCAGATGACGGTACATCCAAAACTGCACTAAACAAACTGGGTGGCGCAGACGGCAAAACCGAAGTTG
-TTTCTATTGGTGGTAAAACTTACGCTGCAAGTAAAGCCGAAGGTCACAACTTTAAAGCACAGCCTGATCTGGCGGAAGCG
-GCTGCTACAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTGGCACAGGTTGACACGTTACGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATTACCAACCTGGGCAACACCGTAAACAACCTGACTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z4,z32_Salmonella.enterica_IIIa.18:z4,z32:-_AY353543_z4,z23__1269
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAATAAATCCCAGTCCGCTCTGGGCAC
-CGCTATCGAGCGTCTCTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATCGCGCAGACTACCGAAGGC
-GCATTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCAGCAAACGGCTCGAACTCTGGTTC
-AGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTAACTAAAGGAATCGCAACCACTGTAAGCTCTGGAGC
-TTCGGTAGTTGGTGATGTTAAGATCAAAGAAGCTGATTTCAAAGATGCAAAAACCGGCGGTCCGGCTGCGGATAAATTAT
-CTCTGACACAAGATGATAAAGGCAATTACTTTGTCAAAGATGATACTGCTGCTGCAGCTAAATACTATGCAGCTACCGTA
-GATACGACAACGGGTAAAATCAGTTTTGATTCGGATAAAGATGTAACAGCTAGCGCAGGGACACCAACAGCAGTGTCAAC
-CCTATCACGCGAAGTGAAATTTGATGGAGCAGATCTAAAAGCCGACCAGTCTTTAGTGAAATATAAAGATGATAAGGGTA
-AAGATCTCTATGCTATCCAAACTTTGGATAAAGACGGAAATGCAAGTTTTAAATCTGTAACATTTTCCTCTGACGGTAAA
-ACTACGGAGGGTACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGA
-CGCATTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACGGTAAATAACC
-TGTCTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAG
-CAGGCCGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_f,g_Derbystr_AOZH01000145_g,m__1506
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCTCAGTCCTCACTGAGTTC
-CGCTATTGAGCGTCTGTCCTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGCCAGGCGATTGCTAACCGTT
-TCACGTCTAATATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGCATTTCTATTGCGCAGACCACTGAAGGT
-GCGCTGAATGAAATCAACAACAACCTGCAGCGTGTGCGTGAGTTGTCTGTTCAGGCCACTAACGGGACTAACTCTGATTC
-CGATCTGAAATCTATCCAGGATGAAATTCAGCAACGTCTGGAGGAAATCGATCGCGTTTCTAATCAGACTCAATTTAACG
-GTGTTAAAGTCCTGTCTCAGGACAACCAGATGAAAATCCAGGTTGGTGCTAACGATGGTGAAACCATTACCATCGATCTG
-CAAAAAATTGATGTGAAAAGCCTTGGCCTTGATGGGTTCAATGTTAATGGGCCAAAAGAAGCGACAGTGGGTGATCTGAA
-GTCCAGCTTCAAGAATGTTACGGGTTACGACACCTATGCAGCGGGTGCCGATAAATATCGTGTAGATATTAATTCCGGTG
-CTGTAGTGACTGATGCAGTAGCACCGAATAAAGTATATGTAAATGCAGCAAACGGTCAGTTAACAACTGACGATGCGGAA
-AATAACACTGCGGTTGACCTCTTTAAGACCACTAAATCTACTGCTGGTACCGCTGAAGCCAAAGCGATAGCTGGTGCCAT
-TAAGGGTGGTAAGGAAGGAGATACCTTTGATTATAAAGGCGTGACTTTTACTATTGATACAAAAACTGGTAATGACGGTA
-ATGGTAAGGTTTCTACTACCATCAATGGTGAAAAAGTTACGTTAACTGTCGCTGATATTACCAGTGGTGCGGCGAATGTT
-GATGCTGCTACCTTACAATCAAGCAAAAATGTTTATACATCTGTAGTGAACGGTCAGTTTACTTTTGATGATAAAACCAA
-AAACGAGAGTGCGAAACTTTCTGATTTGGAAGCAAACAATGCTGTTAAAGGCGAAAGTAAAATTACAGTAAACGGGGCTG
-AATATACTGCTAACGCCACGGGTGATAAGGTCACCTTAGCAGGCAAAACCATGTTTATTGACAAAACAGCTTCTGGCGTT
-AGTACATTAATCAATGAAGACGCTGCCGCTGCTAAGAAAAGTACCGCTAACCCACTGGCTTCAATTGATTCTGCATTGTC
-AAAAGTGGACGCAGTTCGTTCTTCTCTGGGGGCAATTCAAAACCGTTTTGATTCAGCCATTACCAACCTTGGCAATACGG
-TAACCAATCTGAACTCCGCGCGTAGCCGTATCGAAGATGCTGACTATGCAACGGAAGTTTCTAATATGTCTAAAGCGCAG
-ATTCTGCAGCAGGCTGGTACTTCCGTTCTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCT
->fliC_z38_Salmonella.enterica_Lille_AY353488_z36,z38__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-TGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCGAACGACGGTATTTCCATTGCGCAGACCACTGAAGGC
-GCGTTGAATGAAATCAACAACAACCTGCAGCGCGTGCGCGAACTGTCCGTCCAGGCAGCAAACGGCTCGAACTCTGATTC
-TGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAGCAAACCGATTTTAACG
-GGAAAAAAGTCTTAAGCCAGGATGGACAGTTGACCATTCAGGTTGGGGCGAATGACGGCGAAACTATCACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGTTTAGATAAATTAGATGTGACTAAAGGGATTGCCACAACCGTTAAAGAAGGTAC
-GAAGCTTACAGCCGATTTTGCAGTTAAGGATGCCGATTTTGATGATAAATCAACTGGTACAAAAGTAACTGCAAACTTAG
-AATTAAAGCAGGATAAATCCGGAAATTATTTTGCCTACGATAAAACAGCCAGTAAATACTATGATGCGACTGTAGATACT
-GCTACAGGTAAAATAGAATTTACTTCTGGGACAGGTAAAGAGACAACGAAAGATACATCTAAACTTACGGATGTTACTTC
-TTTGTCCAAAGAAGTAACGATAGATAGTGGACTTACGGATGATAAATCATTAGTAAAATACAAAGGGGATAATGGTAAAG
-AACAGTATGCCGTTCAAACTCTTGATAATAAAGGTAATGCGACCTATAAGACTGCCGTTATAGCGCGTGACGGCAAAGTA
-ACAGAGGGCACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATCGATGATGCGCTTAAAACCGTTGACGC
-TTTCCGTAGCCAGTTGGGGGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTTTCCAACATGTCTCGTGCGCAGATTCTGCAGCAG
-GCAGGGACGTCCGTACTGGCGCAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z35_Salmonella.enterica_Tienba_AY353481_other.z35__1488
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTGCTCTGGGTAC
-CGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGACGGTATCTCCATTGCGCAGACCACTGAAGGC
-GCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTGAACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTC
-TGACCTTGACTCCATCCAAGCTGAAATCACCCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACG
-GCGTGAAAGTGCTGGCGCAGGACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTG
-AAGCAGATCAACTCTCAGACCCTGGGTCTGGATACGCTGAATGTTCAGAAAAAATATGATGTGAAGAGTGAAGCCGTCAC
-GCCTCCGGCAAAACTTGATATTACAGGATTAACTGGAGCTGATATTAAAACTGGCGTTGATGGCGCTACGGTTGATACTG
-GCTCAATTAAAGATGGCAAAGTTTATTATAATAGTACTTCTAAGGACTATTACGTACAGGTTGATTTTGGTACATCAGCT
-GATGCTGCTAAGAGCGGTTACTATAAGGTCAATGTTAATGATGATGGTACAGTCTCAATGACGGCTGATACCACCAAAGA
-AGCTACAACTCCTACTGATATTACTGAAGTTACTCAAGTTCAAAAACCTGTAGCTGCTCCAGCCGCTATCCAGGACCAGT
-TGACTGCCGCTCATGTCACCGGGGCTGATACAGCTGAAATGGTCAAGATGTCTTATACGGATAAAAACGGTAAGACGATT
-GATGGCGGCTTCGGTGTTAAAGTTGGAGACGATATTTATGCTGCAACTAAGAATAAAGATGGTTCTTTTAGTATCAACAC
-CACGAAATATACCGATAAAGACGGTAATACCCAAACTGCATTGAACAAACTTGGTGGTGTAGACGGTAAAACTGAAGTTG
-TTTCGATTGAAGGTAAAACCTACACTGCAGCGAAAGCAAAAGATCACGATTTCAAAGCGCAGCCAGAGCTGGCAGAAGCG
-GCTACTGCAACCACCGAAAACCCGCTGCAGAAAATTGATGCTGCTTTAGCACAGGTTGATGCGCTGCGTTCTGACCTGGG
-TGCGGTACAGAACCGTTTCAACTCCGCTATCACCAACCTGGGCAATACCGTAAATAACCTGTCTTCTGCCCGTAGCCGTA
-TCGAAGATTCCGACTACGCGACCGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTG
-GCGCAGGCGAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fliC_z36,z38_Salmonella.enterica_IV.1,53:z36,z38:-_AY353485_z36,z38__1266
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCCGCTCTGGGCAC
-CGCTATTGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGGTCAGGCGATTGCTAACCGTT
-TCACGTCTAACATTAAAGGTCTGTCTCAGGCTTCCCGTAATGCAAACGACGGTATTTCCATTGCGCAGACGACTGAAGGC
-GCGTTGAACGAAATCAACAACAACCTGCAGCGTGTGCGCGAACTGTCTGTCCAGGCAGCAAACGGCTCAAACTCTGACTC
-TGATCTTAAATCCATCCAGGATGAAATCGATCAGCGCCTGAACGAAATTAACCGTGTCGCGGAACAAACCGATTTTAACG
-GGAAAAAAGTATTAAGCCAGGATGGACAGCTGACCATTCAGGTTGGGGCGAATGACGGTGAAACTATTACAATCGATCTT
-CAGAAAATCGATAAAACCGAGCTGGGCTTAGATAAATTAGATGTGACTAAAGGAATTGCTACAACAGTTAAAGAAGGTAC
-GAAGCTCACTGCCGATTTTGCAGTTAAGGTCGCAGATTTTGATGATAAAGCAACAACTGGTAAATTAACTGCAAACTTAG
-AATTGAAGCAGGATAAATCCGGAAATTATTTTGCCTACGATAAAACAGCCAGTAAATACTATGATGCGACTGTAGATACT
-GCTACAGGTAAAATAGAATTTACTTCTGGGGCAGGTAAAGAGACAACGAAAGATACATCTAAACTTACGGATGTTACTTC
-TTTGTCCAAAGAAGTAACGATAGATAGTGGACTTACGGATGATAAATCATTAGTAAAATACAAAGGGGATGATGGTAAAG
-AACAGTATGCCGTTCAAACTCTTGATAATAAAGGTAATGCGACCTATAAGACTGCCGTTATAGCGCGTGACGGCAAAGTG
-ACAGAGGGCACTGCCGTAGCCTTGGCTGCAAACGTTGATCCGCTGGCAAAAATTGATGATGCGCTTAAAACCGTTGACGC
-TTTCCGTAGCCAGTTGGGTGCGGTGCAGAACCGTTTTGAATCTGCCATCACTAACCTGGGCAACACCGTCAACAACCTGT
-CTTCTGCACGTAGCCGTATCGAAGATTCCGACTATGCGACCGAAGTCTCCAACATGTCTCGCGCGCAGATTCTGCAGCAG
-GCAGGGACTTCTGTTCTGGCACAGGCTAACCAGGTTCCGCAAAACGTCCTCTCTTTACTGCGTTAA
->O-9,46_wzy_partial__216
-TCAACCATTATTTTTAAGTGGGAGTAAATTATAGATGAAATAAAAAATCATCATAAATATGAACAAAAGA
-GAAATATATTTAACACCATAGGTGAGGTCTTTTCTCATTGCAACAAATATTAGGGAAATAATTGGAAAAT
-GATAAATTATGAGTCTGCTTTTCTTGGCTACAAGATAAAATACTATTAGCATTACGCCCAAGATTAAACC
-ATCAGG
->fliC_z_6,14:z:l,z13,z28_inhouse_k,z__1500
-ATGGCACAAGTCATTAATACAAACAGCCTGTCGCTGTTGACCCAGAATAACCTGAACAAATCCCAGTCTG
-CTCTGGGTACCGCTATCGAGCGTCTGTCTTCCGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGG
-TCAGGCAATTGCTAACCGTTTCACCGCGAACATCAAAGGCCTGACTCAGGCTTCCCGTAACGCTAACGAC
-GGTATCTCCATTGCGCAGACCACTGAAGGCGCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTG
-AACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTCTGACCTTGACTCCATCCAGGCTGAAATCAC
-CCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACGGCGTGAAAGTCCTGGCGCAG
-GACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTGAAGCAGATCA
-ACTCTCAGACCCTGGGTCTGGATACGCTGAATGTGCAGAAAGCGTATGATGTAGATAGCAAAGCTGTGAC
-TGGTGTTTCTACTTTGGATACTACAGGTCTTACTGGCGCGAATATTAAAACTGGCGTTGATGGAGCTACC
-ACTACGAGTGGCTCCATTAAAGATGGCAAAGTATACTATGATGGTGCTACTAAAAATTATTATGTTGAAG
-TAGACTTTTCTGATGCCGCTGATACTGCTAAAAATGGCTACTATAAAGTCAATGTTGCTGATGATGGCAC
-TGTTACAATGGGGGCCTCGACTACTAAAGAAACTGCGAAACCTGCAGGTGTTGTTGAAGTAACGAAAACC
-CAAGAAGAGAAAGCAATTAAGGCGTCTGCTGAGGTGAAAGCTGCTTTGACTGCTGGTGGCGTCGATGCTG
-CTGATGCAGCTACGGCAGAAATGGTCAAAATGTCTTATACCGATAAAAACGGTAAGACGATTGATGGTGG
-TTATGCTGTAAAAGTAGGCGATAGCTACTATGCCGCTACCCAGAAAAAAGATGGTAGTTTCAGTGTTAAT
-ACTACTTCTTACACTGATAAAGACGGCAACACTAAATCTGCACTAAACCAACTGGGTGGCGTAGACGGTA
-AAACCGAAGTTGTTACTATCGACGGTAAAACCTACAATGCCAGCAAAGCTGCTGGTCATGATTTCAAAGC
-ACAGCCAGAGCTGGCTGAAGCAGCCGCTAAAACCACCGAAAATCCGCTGCAGAAAATTGATGCCGCGCTG
-GCGCAGGTTGATGCGCTGCGTTCTGACCTGGGTGCGGTTCAGAACCGTTTCAACTCCGCTATCACCAACC
-TGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGACCGAAGT
-CTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACCTCCGTTCTGGCGCAGGCGAACCAAGTT
-CCGCAAAACGTCCTCTCTTTACTGCGTTAA
->fljB_e,n,z15_47:l,z13,z28:e,n,z15_inhouse_e__1506
-ATGGCACAAGTAATCAACACTAACAGTCTGTCGCTGCTGACCCAGAATAACCTGAACAAATCCCAGTCCG
-CACTGGGCACCGCTATCGAGCGTCTGTCTTCTGGTCTGCGTATCAACAGCGCGAAAGACGATGCGGCAGG
-TCAGGCGATTGCTAACCGTTTTACCGCGAACATCAAAGGTCTGACTCAGGCTTCCCGTAACGCTAACGAC
-GGTATTTCTATTGCGCAGACCACTGAAGGCGCGCTGAACGAAATCAACAACAACCTGCAGCGTGTGCGTG
-AACTGGCGGTTCAGTCTGCTAACAGCACCAACTCCCAGTCTGACCTTGACTCCATCCAGGCTGAAATCAC
-CCAGCGCCTGAACGAAATCGACCGTGTATCCGGCCAGACTCAGTTCAACGGCGTGAAAGTCCTGGCGCAG
-GACAACACCCTGACCATCCAGGTTGGTGCCAACGACGGTGAAACTATCGATATCGATCTGAAGCAGATCA
-ACTCTCAGACCCTGGGTCTGGATTCACTGAACGTGCAGAAAGCGTATGATGTTTCTGCGACAGACGTTAT
-CAGCTCTACCTATAGTGATGGTACTCAGGCGCTTACGGCACCAACTGCAACTGAGATTAAAGCTGCATTA
-GGCAACCCGACAGTAACTGGCGATACATTGACTGCCACCGTATCCTTTAAGGATGGTAAATATTATGCCA
-CTGTAGGTGGTTATACCGATGCAGGGGATACTGCCAAAAATGGTAAATATGAAGTTACCGTTGATAGTGC
-TACAGGGGCTGTATCATTCGGTGCTACTCCAACTAAATCTACTGTTACAGGTGATACCACTGTTACTAAG
-GTACAGGTTAATGCTCCTGTAGCAGCAGATGCTGCTACGAAAAAAGCCTTACAAGATGGGGGCGTTTCAT
-CTGCGGATGCAAGTGCCGCGACATTGGTCAAAATGTCTTATACCGATAAAAATGGTAAGACAATTGAAGG
-TGGTTATGCGCTTAAAGCTGGCGATAAGTATTACGCCGCAGATTACGATGAAGCGACAGGAGCAATTAAA
-GCTAAAACCACAAGTTATACTGCTGCTGACGGCACTACCAAAACAGCGGCTAACCAACTGGGTGGCGTAG
-ACGGTAAAACCGAAGTCGTTACTATCGACGGTAAAACTTACAATGCCAGCAAAGCCGCTGGTCATGATTT
-CAAAGCACAACCAGAGCTGGCGGAAGCAGCCGCTAAAACCACCGAAAACCCGCTGCAGAAAATTGATGCC
-GCGCTGGCGCAGGTGGATGCGCTGCGCTCTGATCTGGGTGCGGTACAAAACCGTTTCAACTCCGCTATCA
-CCAACCTGGGCAATACCGTAAACAACCTGTCTGAAGCGCGTAGCCGTATCGAAGATTCCGACTACGCGAC
-CGAAGTTTCCAACATGTCTCGCGCGCAGATTCTGCAGCAGGCCGGTACTTCCGTTCTGGCGCAGGCTAAC
-CAGGTCCCGCAGAACGTGCTGTCTCTGTTACGTTAA
->fliC_b_Wien_CDC_b,d,j__1488
-TTAACGCAGTAAAGAGAGGACGTTTTGCGGAACCTGGTTAGCCTGCGCCAGAACGGAAGTACCGGCCTGC
-TGCAGAATCTGCGCGCGAGACATGTTGGAGACTTCGGTCGCGTAGTCGGAATCTTCGATACGGCTACGCG
-CTTCAGACAAGTTGTTTACGGTATTGCCCAGATTGGTGATAGCGGAGTTGAAACGGTTCTGAACCGCACC
-CAGGTCAGAACGCAGCGCATCAACCTGCGCCAGCGCGGCATCAATTTTAGCCAGCGGGTTTTCAGTTTTA
-GTAGTCACAGCCTCACTTAAAGCGCCACCACTCTGGAAATTATGCCCTTTCACATCACTAGCCTGATAAG
-TATTACCATCAACTGTAGTCACAACTTCAGTTTTACCATTCGCGCCGCCAAATTTCACAGCACCAGTTTT
-TGTTGCACCAGTAGCGTCAGTATAATTTACAGTCTTAGCTTTTATCTCACCAGTCTTTTCATCGTAATCA
-GCGGCATAATAATCATTTCCAACTTTAAGCGCGTAACCCGCATCAGTAACTTTGCCATTTTTATCTTCAA
-ATGACATTTTAACCAAGCTGGTATTACCTGTCGCACCTGTCACACCTGCATTGGTCAATGCAGTAGCTGC
-TGCGACTGTATCAACTGGTGCCGGAGTAACAGCGTCTACAATTTGGTTTTTGGTAACTGTGCCGGCCCCA
-GTTACTGTTGATTTATTTGCGGTCATTGTCACCGCGCCAGCTGCATCAACTGTCGCTTCATACAGACCAT
-TTTTAGCAGTTGTACCGGTCACCTCAACGAAGTAGTTACCGTCTTTAAATTTCACAGCCGCAGTACCCGT
-CGCACCAGTCAAACCTAAGGCGGTATCAATTTCTGCTGCGGTAGGTGCTGTAAGAGTAGTACCACCATCT
-TTATAGGTGGTAACATCCCTGGTAACAGCGGTACCTTTTGGCGTATAGGCGTCCTGTACACTTAAAGTAT
-CCAGACCCAGGGTCTGAGAGTTGATCTGCTTCAGATCGATATCAATAGTTTCACCATCGTTGGCGCCAAC
-CTGGATGGTCAGGGTGTTGTCCTGCGCCAGGACTTTCACGCCGTTGAACTGAGTCTGGCCGGATACACGG
-TCGATTTCGTTCAGACGCTGGGTGATTTCAGCCTGGATGGAGTCGAGGTCAGACTGGGAGTTGGTGCTGT
-TAGCAGACTGAACCGCCAGTTCACGCACACGCTGCAGGTTGTTGTTGATTTCGTTCAGCGCGCCTTCAGT
-GGTCTGCGCAATGGAGATACCGTCGTTAGCGTTACGGGAAGCCTGCGTCAGGCCTTTGATGTTCGCGGTG
-AAACGGTTAGCAATCGCCTGACCTGCCGCATCGTCTTTCGCGCTGTTGATACGCAGACCAGAAGACAGAC
-GCTCGATAGCGGTGCCCAGTGCGGACTGGGATTTGTTCAGGTTATTCTGGGTCAACAGCGACAGGCTGTT
-TGTATTAATGACTTGTGCCAT
-
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/seqsero2_db/antigens.pickle
Binary file build/lib/seqsero2_db/antigens.pickle has changed
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/seqsero2_db/invA_mers_dict
Binary file build/lib/seqsero2_db/invA_mers_dict has changed
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/seqsero2_db/special.pickle
Binary file build/lib/seqsero2_db/special.pickle has changed
diff -r d0350fe29fdf -r 8e36dd436ac4 build/lib/version.py
--- a/build/lib/version.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-SeqSero2_version = '1.1.0'
diff -r d0350fe29fdf -r 8e36dd436ac4 build/scripts-3.6/Initial_Conditions.py
--- a/build/scripts-3.6/Initial_Conditions.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,109 +0,0 @@
-#!/gal2001/Seqserotest/env/bin/python
-
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-
-remove_list=['Schleissheim', 'Sendai', 'Blegdam', 'Naestved', 'Rostock', 'Moscow', 'Antarctica', 'Rosenberg', 'Chittagong', 'Bilu', 'Dessau', 'Cannonhill', 'Ilugun']
-
-rename_dict={'Nitra': 'Enteritidis',
- 'Kiel': 'Dublin',
- 'Koessen': 'Panama',
- 'Phaliron': 'Kalumburu',
- 'Istanbul': 'Hadar',
- 'Haardt': 'Blockley',
- 'Ferruch': 'Kottbus',
- 'Sanga': 'Eboko',
- 'Pakistan': 'Litchfield',
- 'Bellevue': 'Lezennes',
- 'Sunnycove': 'Daarle',
- 'Noya': 'Akanji',
- 'Virginia': 'Muenchen',
- 'Djelfa': 'Skansen',
- 'Konstanz': 'Gatuni',
- 'Bardo': 'Newport',
- 'Houston': 'Panama',
- 'Martonos': 'Finkenwerder',
- 'Midway': 'Florida',
- 'Lindern': 'Charity',
- 'Bahrenfeld': 'Onderstepoort',
- 'Schalkwijk': 'Moussoro',
- 'Amberg': 'Boecker',
- 'Madelia': 'Carrau',
- 'Soahanina': 'Sundsvall',
- 'Stafford': 'Poano',
- 'Chichiri': 'Uzaramo',
- 'II 16:g,[m],[s],t:[e,n,x]': 'II 16:g,[m],[s],t:[1,5]',
- 'Hindmarsh':'Bovismorbificans',
- 'Yovokome': 'Manhattan'}
-
- #potential merge for O22 and O23
- #'Ibadan': 'Mississippi',
- #'Bracknell': 'Oudwijk',
- #'Vaertan': 'Ullevi',
- #'Bahati': 'Durham',
- #'Wichita': 'Friedenau',
- #'Diguel': 'Telelkebir',
- #'II 13,22:l,z28:1,5': 'II 13,23:l,z28:1,5',
- #'Washington': 'Kintambo',
- #'II 13,23:m,t:z42': 'II 13,22:m,t:z42:z39',
- #'Serenli': 'Winslow',
- #'Farmsen': 'Poona',
- #'Durance': 'Ivrysurseine',
- #'Agoueve': 'Cubana',
- #'II 13,23:z29:1,5': 'II 13,22:z29:1,5',
- #'II 13,23:z29:e,n,x': 'II 13,22:z29:e,n,x',
- #'Picpus': 'Mampong',
- #'Anna': 'Nimes',
- #'Fanti': 'Leiden',
- #'Ried': 'Ajiobo',
-
- #potential O68 list
- #'Djelfa': 'Skansen',
- #'Korbol': 'Nagoya',
- #'Sanga': 'Eboko',
- #'Konstanz': 'Gatuni',
- #'Presov': 'Shipley',
- #'Heistopdenberg': 'Bukuru',
- #'Tounouma': 'Banalia',
- #'Gaillac': 'Utah',
- #'Santiago': 'Belem',
- #'Virginia': 'Muenchen',
- #'Yovokome': 'Manhattan',
- #'Portanigra': 'Dunkwa',
- #'Bardo': 'Newport',
- #'Ferruch': 'Kottbus',
- #'Alminko': 'Nanergou',
- #'Bargny': 'Takoradi',
- #'Magherafelt': 'Cyprus',
- #'Haardt': 'Blockley',
- #'Pakistan': 'Litchfield',
- #'Yokoe': 'Bassa',
- #'Noya': 'Akanji',
- #'Lamphun': 'Giza',
- #'Tananarive': 'Brunei',
- #'Inchpark': 'Alagbon',
- #'Sunnycove': 'Daarle',
- #'Sindelfingen': 'Benue',
- #'Phaliron': 'Kalumburu',
- #'Bazenheid': 'Zerifin',
- #'Paris': 'Mapo',
- #'Istanbul': 'Hadar',
- #'Chomedey': 'Glostrup',
- #'Wippra': 'Molade',
- #'Uno': 'Tamale',
- #'Kolda': 'Yarm',
- #'Bellevue': 'Lezennes',
- #'Albany':'Duesseldorf'
diff -r d0350fe29fdf -r 8e36dd436ac4 build/scripts-3.6/SeqSero2_package.py
--- a/build/scripts-3.6/SeqSero2_package.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1575 +0,0 @@
-#!/gal2001/Seqserotest/env/bin/python
-
-import sys
-import time
-import random
-import os
-import subprocess
-import gzip
-import io
-import pickle
-import argparse
-import itertools
-from distutils.version import LooseVersion
-from distutils.spawn import find_executable
-sys.path.insert(1,sys.path[0]+'/..')
-
-try:
-    from .version import SeqSero2_version
-except Exception: #ImportError
-    from version import SeqSero2_version
-
-### SeqSero Kmer
-def parse_args():
-    "Parse the input arguments, use '-h' for help."
-    parser = argparse.ArgumentParser(usage='SeqSero2_package.py -t <data_type> -m <mode> -i <input_data> [-d <output_directory>] [-p <number of threads>] [-b <BWA_algorithm>]\n\nDevelopper: Shaokang Zhang (zskzsk@uga.edu), Hendrik C Den-Bakker (Hendrik.DenBakker@uga.edu) and Xiangyu Deng (xdeng@uga.edu)\n\nContact email:seqsero@gmail.com\n\nVersion: v1.1.0')#add "-m <data_type>" in future
-    parser.add_argument("-i",nargs="+",help="<string>: path/to/input_data",type=os.path.abspath)  ### add 'type=os.path.abspath' to generate absolute path of input data.
-    parser.add_argument("-t",choices=['1','2','3','4','5','6'],help="<int>: '1' for interleaved paired-end reads, '2' for separated paired-end reads, '3' for single reads, '4' for genome assembly, '5' for nanopore fasta, '6' for nanopore fastq")
-    parser.add_argument("-b",choices=['sam','mem'],default="mem",help="<string>: algorithms for bwa mapping for allele mode; 'mem' for mem, 'sam' for samse/sampe; default=mem; optional; for now we only optimized for default 'mem' mode")
-    parser.add_argument("-p",default="1",help="<int>: number of threads for allele mode, if p >4, only 4 threads will be used for assembly since the amount of extracted reads is small, default=1")
-    parser.add_argument("-m",choices=['k','a'],default="a",help="<string>: which workflow to apply, 'a'(raw reads allele micro-assembly), 'k'(raw reads and genome assembly k-mer), default=a")
-    parser.add_argument("-n",help="<string>: optional, to specify a sample name in the report output")
-    parser.add_argument("-d",help="<string>: optional, to specify an output directory name, if not set, the output directory would be 'SeqSero_result_'+time stamp+one random number")
-    parser.add_argument("-c",action="store_true",help="<flag>: if '-c' was flagged, SeqSero2 will only output serotype prediction without the directory containing log files")
-    parser.add_argument("-s",action="store_true",help="<flag>: if '-s' was flagged, SeqSero2 will not output header in SeqSero_result.tsv")
-    parser.add_argument("--check",action="store_true",help="<flag>: use '--check' flag to check the required dependencies")
-    parser.add_argument('-v', '--version', action='version', version='%(prog)s ' + SeqSero2_version)
-    return parser.parse_args()
-
-### check paths of dependencies
-check_dependencies = parse_args().check
-dependencies = ['bwa','samtools','blastn','fastq-dump','spades.py','bedtools','SalmID.py']
-if check_dependencies:
-    for item in dependencies:
-        ext_path = find_executable(item)
-        if ext_path is not None:
-            print ("Using "+item+" - "+ext_path)
-        else:
-            print ("ERROR: can not find "+item+" in PATH")
-    sys.exit()
-### end of --check
-
-def reverse_complement(sequence):
-    complement = {
-        'A': 'T',
-        'C': 'G',
-        'G': 'C',
-        'T': 'A',
-        'N': 'N',
-        'M': 'K',
-        'R': 'Y',
-        'W': 'W',
-        'S': 'S',
-        'Y': 'R',
-        'K': 'M',
-        'V': 'B',
-        'H': 'D',
-        'D': 'H',
-        'B': 'V'
-    }
-    return "".join(complement[base] for base in reversed(sequence))
-
-
-def createKmerDict_reads(list_of_strings, kmer):
-    kmer_table = {}
-    for string in list_of_strings:
-        sequence = string.strip('\n')
-        for i in range(len(sequence) - kmer + 1):
-            new_mer = sequence[i:i + kmer].upper()
-            new_mer_rc = reverse_complement(new_mer)
-            if new_mer in kmer_table:
-                kmer_table[new_mer.upper()] += 1
-            else:
-                kmer_table[new_mer.upper()] = 1
-            if new_mer_rc in kmer_table:
-                kmer_table[new_mer_rc.upper()] += 1
-            else:
-                kmer_table[new_mer_rc.upper()] = 1
-    return kmer_table
-
-
-def multifasta_dict(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r') if len(line.strip()) > 0
-    ]
-    headers = [i for i in multifasta_list if i[0] == '>']
-    multifasta_dict = {}
-    for h in headers:
-        start = multifasta_list.index(h)
-        for element in multifasta_list[start + 1:]:
-            if element[0] == '>':
-                break
-            else:
-                if h[1:] in multifasta_dict:
-                    multifasta_dict[h[1:]] += element
-                else:
-                    multifasta_dict[h[1:]] = element
-    return multifasta_dict
-
-
-def multifasta_single_string(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r')
-        if (len(line.strip()) > 0) and (line.strip()[0] != '>')
-    ]
-    return ''.join(multifasta_list)
-
-
-def chunk_a_long_sequence(long_sequence, chunk_size=60):
-    chunk_list = []
-    steps = len(long_sequence) // 60  #how many chunks
-    for i in range(steps):
-        chunk_list.append(long_sequence[i * chunk_size:(i + 1) * chunk_size])
-    chunk_list.append(long_sequence[steps * chunk_size:len(long_sequence)])
-    return chunk_list
-
-
-def target_multifasta_kmerizer(multifasta, k, kmerDict):
-    forward_length = 300  #if find the target, put forward 300 bases
-    reverse_length = 2200  #if find the target, put backward 2200 bases
-    chunk_size = 60  #it will firstly chunk the single long sequence to multiple smaller sequences, it controls the size of those smaller sequences
-    target_mers = []
-    long_single_string = multifasta_single_string(multifasta)
-    multifasta_list = chunk_a_long_sequence(long_single_string, chunk_size)
-    unit_length = len(multifasta_list[0])
-    forward_lines = int(forward_length / unit_length) + 1
-    reverse_lines = int(forward_length / unit_length) + 1
-    start_num = 0
-    end_num = 0
-    for i in range(len(multifasta_list)):
-        if i not in range(start_num, end_num):  #avoid computational repetition
-            line = multifasta_list[i]
-            start = int((len(line) - k) // 2)
-            s1 = line[start:k + start]
-            if s1 in kmerDict:  #detect it is a potential read or not (use the middle part)
-                if i - forward_lines >= 0:
-                    start_num = i - forward_lines
-                else:
-                    start_num = 0
-                if i + reverse_lines <= len(multifasta_list) - 1:
-                    end_num = i + reverse_lines
-                else:
-                    end_num = len(multifasta_list) - 1
-                target_list = [
-                    x.strip() for x in multifasta_list[start_num:end_num]
-                ]
-                target_line = "".join(target_list)
-                target_mers += [
-                    k1 for k1 in createKmerDict_reads([str(target_line)], k)
-                ]  ##changed k to k1, just want to avoid the mixes of this "k" (kmer) to the "k" above (kmer length)
-        else:
-            pass
-    return set(target_mers)
-
-
-def target_read_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = []
-    if file.endswith(".gz"):
-        file_content = io.BufferedReader(gzip.open(file))
-    else:
-        file_content = open(file, "r").readlines()
-    for line in file_content:
-        start = int((len(line) - k) // 2)
-        if i % 4 == 2:
-            if file.endswith(".gz"):
-                s1 = line[start:k + start].decode()
-                line = line.decode()
-            else:
-                s1 = line[start:k + start]
-            if s1 in kmerDict:  #detect it is a potential read or not (use the middle part)
-                n_reads += 1
-                total_coverage += len(line)
-                target_mers += [
-                    k1 for k1 in createKmerDict_reads([str(line)], k)
-                ]  #changed k to k1, just want to avoid the mixes of this "k" (kmer) to the "k" above (kmer length)
-        i += 1
-        if total_coverage >= 4000000:
-            break
-    return set(target_mers)
-
-
-def minion_fasta_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = {}
-    for line in open(file):
-        if i % 2 == 0:
-            for kmer, rc_kmer in kmers(line.strip().upper(), k):
-                if (kmer in kmerDict) or (rc_kmer in kmerDict):
-                    if kmer in target_mers:
-                        target_mers[kmer] += 1
-                    else:
-                        target_mers[kmer] = 1
-                    if rc_kmer in target_mers:
-                        target_mers[rc_kmer] += 1
-                    else:
-                        target_mers[rc_kmer] = 1
-        i += 1
-    return set([h for h in target_mers])
-
-
-def minion_fastq_kmerizer(file, k, kmerDict):
-    i = 1
-    n_reads = 0
-    total_coverage = 0
-    target_mers = {}
-    for line in open(file):
-        if i % 4 == 2:
-            for kmer, rc_kmer in kmers(line.strip().upper(), k):
-                if (kmer in kmerDict) or (rc_kmer in kmerDict):
-                    if kmer in target_mers:
-                        target_mers[kmer] += 1
-                    else:
-                        target_mers[kmer] = 1
-                    if rc_kmer in target_mers:
-                        target_mers[rc_kmer] += 1
-                    else:
-                        target_mers[rc_kmer] = 1
-        i += 1
-    return set([h for h in target_mers])
-
-
-def multifasta_single_string2(multifasta):
-    single_string = ''
-    with open(multifasta, 'r') as f:
-        for line in f:
-            if line.strip()[0] == '>':
-                pass
-            else:
-                single_string += line.strip()
-    return single_string
-
-
-def kmers(seq, k):
-    rev_comp = reverse_complement(seq)
-    for start in range(1, len(seq) - k + 1):
-        yield seq[start:start + k], rev_comp[-(start + k):-start]
-
-
-def multifasta_to_kmers_dict(multifasta,k_size):#used to create database kmer set
-    multi_seq_dict = multifasta_dict(multifasta)
-    lib_dict = {}
-    for h in multi_seq_dict:
-        lib_dict[h] = set(
-            [k for k in createKmerDict_reads([multi_seq_dict[h]], k_size)])
-    return lib_dict
-
-
-def Combine(b, c):
-    fliC_combinations = []
-    fliC_combinations.append(",".join(c))
-    temp_combinations = []
-    for i in range(len(b)):
-        for x in itertools.combinations(b, i + 1):
-            temp_combinations.append(",".join(x))
-    for x in temp_combinations:
-        temp = []
-        for y in c:
-            temp.append(y)
-        temp.append(x)
-        temp = ",".join(temp)
-        temp = temp.split(",")
-        temp.sort()
-        temp = ",".join(temp)
-        fliC_combinations.append(temp)
-    return fliC_combinations
-
-
-def seqsero_from_formula_to_serotypes(Otype, fliC, fljB, special_gene_list,subspecies):
-    #like test_output_06012017.txt
-    #can add more varialbles like sdf-type, sub-species-type in future (we can conclude it into a special-gene-list)
-    from Initial_Conditions import phase1,phase2,phaseO,sero,subs,remove_list,rename_dict
-    rename_dict_not_anymore=[rename_dict[x] for x in rename_dict]
-    rename_dict_all=rename_dict_not_anymore+list(rename_dict) #used for decide whether to 
-    seronames = []
-    seronames_none_subspecies=[]
-    for i in range(len(phase1)):
-        fliC_combine = []
-        fljB_combine = []
-        if phaseO[i] == Otype: # no VII in KW, but it's there
-            ### for fliC, detect every possible combinations to avoid the effect of "["
-            if phase1[i].count("[") == 0:
-                fliC_combine.append(phase1[i])
-            elif phase1[i].count("[") >= 1:
-                c = []
-                b = []
-                if phase1[i][0] == "[" and phase1[i][-1] == "]" and phase1[i].count(
-                        "[") == 1:
-                    content = phase1[i].replace("[", "").replace("]", "")
-                    fliC_combine.append(content)
-                    fliC_combine.append("-")
-                else:
-                    for x in phase1[i].split(","):
-                        if "[" in x:
-                            b.append(x.replace("[", "").replace("]", ""))
-                        else:
-                            c.append(x)
-                    fliC_combine = Combine(
-                        b, c
-                    )  #Combine will offer every possible combinations of the formula, like f,[g],t: f,t  f,g,t
-            ### end of fliC "[" detect
-            ### for fljB, detect every possible combinations to avoid the effect of "["
-            if phase2[i].count("[") == 0:
-                fljB_combine.append(phase2[i])
-            elif phase2[i].count("[") >= 1:
-                d = []
-                e = []
-                if phase2[i][0] == "[" and phase2[i][-1] == "]" and phase2[i].count(
-                        "[") == 1:
-                    content = phase2[i].replace("[", "").replace("]", "")
-                    fljB_combine.append(content)
-                    fljB_combine.append("-")
-                else:
-                    for x in phase2[i].split(","):
-                        if "[" in x:
-                            d.append(x.replace("[", "").replace("]", ""))
-                        else:
-                            e.append(x)
-                    fljB_combine = Combine(d, e)
-            ### end of fljB "[" detect
-            new_fliC = fliC.split(
-                ","
-            )  #because some antigen like r,[i] not follow alphabetical order, so use this one to judge and can avoid missings
-            new_fliC.sort()
-            new_fliC = ",".join(new_fliC)
-            new_fljB = fljB.split(",")
-            new_fljB.sort()
-            new_fljB = ",".join(new_fljB)
-            if (new_fliC in fliC_combine
-                    or fliC in fliC_combine) and (new_fljB in fljB_combine
-                                                  or fljB in fljB_combine):
-              ######start, remove_list,rename_dict, added on 11/11/2018
-              if sero[i] not in remove_list:
-                temp_sero=sero[i]
-                if temp_sero in rename_dict:
-                  temp_sero=rename_dict[temp_sero] #rename if in the rename list
-                if temp_sero not in seronames:#the new sero may already included, if yes, then not consider
-                  if subs[i] == subspecies:
-                    seronames.append(temp_sero)
-                  seronames_none_subspecies.append(temp_sero)
-                else:
-                  pass
-              else:
-                pass
-              ######end, added on 11/11/2018
-    #analyze seronames
-    subspecies_pointer=""
-    if len(seronames) == 0 and len(seronames_none_subspecies)!=0:
-      # ed_SL_12182019: modified to fix the subspecies output problem
-      #seronames=seronames_none_subspecies
-      seronames=["N/A"]
-      #subspecies_pointer="1"
-      subspecies_pointer="0"
-    if len(seronames) == 0:
-        seronames = [
-            "N/A (The predicted antigenic profile does not exist in the White-Kauffmann-Le Minor scheme)"
-        ]
-    star = ""
-    star_line = ""
-    if len(seronames) > 1:  #there are two possible predictions for serotypes
-        star = "*"
-        #changed 04072019
-        #star_line = "The predicted serotypes share the same general formula:\t" + Otype + ":" + fliC + ":" + fljB + "\n"
-    if subspecies_pointer=="1" and len(seronames_none_subspecies)!=0:
-      star="*"
-      star_line="The predicted O and H antigens correspond to serotype '"+(" or ").join(seronames)+"' in the Kauffmann-White scheme. The predicted subspecies by SalmID (github.com/hcdenbakker/SalmID) may not be consistent with subspecies designation in the Kauffmann-White scheme. " + star_line
-      #star_line="The formula with this subspieces prediction can't get a serotype in KW manual, and the serotyping prediction was made without considering it."+star_line
-    if  Otype=="":
-      Otype="-"
-    predict_form = Otype + ":" + fliC + ":" + fljB
-    predict_sero = (" or ").join(seronames)
-    ###special test for Enteritidis
-    if predict_form == "9:g,m:-":
-        sdf = "-"
-        for x in special_gene_list:
-            if x.startswith("sdf"):
-                sdf = "+"
-                #star_line="Detected sdf gene, a marker to differentiate Gallinarum and Enteritidis"
-                star_line="sdf gene detected. "
-        #predict_form = predict_form + " Sdf prediction:" + sdf
-        predict_form = predict_form #changed 04072019
-        if sdf == "-":
-            star = "*"
-            #star_line="Didn't detected sdf gene, a marker to differentiate Gallinarum and Enteritidis"
-            star_line="sdf gene not detected. "
-            #changed in 04072019, for new output
-            #star_line = "Additional characterization is necessary to assign a serotype to this strain.  Commonly circulating strains of serotype Enteritidis are sdf+, although sdf- strains of serotype Enteritidis are known to exist. Serotype Gallinarum is typically sdf- but should be quite rare. Sdf- strains of serotype Enteritidis and serotype Gallinarum can be differentiated by phenotypic profile or genetic criteria.\n"
-            #predict_sero = "Gallinarum/Enteritidis" #04132019, for new output requirement
-            predict_sero = "Gallinarum or Enteritidis"
-    ###end of special test for Enteritidis
-    elif predict_form == "4:i:-":
-        predict_sero = "I 4,[5],12:i:-" # change serotype name
-    elif predict_form == "4:r:-":
-        predict_sero = "N/A (4:r:-)"
-    elif predict_form == "4:b:-":
-        predict_sero = "N/A (4:b:-)"
-    #elif predict_form == "8:e,h:1,2": #removed after official merge of newport and bardo
-        #predict_sero = "Newport"
-        #star = "*"
-        #star_line = "Serotype Bardo shares the same antigenic profile with Newport, but Bardo is exceedingly rare."
-    claim = "The serotype(s) is/are the only serotype(s) with the indicated antigenic profile currently recognized in the Kauffmann White Scheme. New serotypes can emerge and the possibility exists that this antigenic profile may emerge in a different subspecies.  Identification of strains to the subspecies level should accompany serotype determination; the same antigenic profile in different subspecies is considered different serotypes.\n"
-    if "N/A" in predict_sero:
-        claim = ""
-    #special test for Typhimurium
-    if "Typhimurium" in predict_sero or predict_form == "4:i:-":
-        normal = 0
-        mutation = 0
-        for x in special_gene_list:
-            if "oafA-O-4_full" in x:
-                normal = float(special_gene_list[x])
-            elif "oafA-O-4_5-" in x:
-                mutation = float(special_gene_list[x])
-        if normal > mutation:
-            pass
-        elif normal < mutation:
-            #predict_sero = predict_sero.strip() + "(O5-)"
-            predict_sero = predict_sero.strip() #diable special sero for new output requirement, 04132019
-            star = "*"
-            #star_line = "Detected the deletion of O5-."
-            star_line = "Detected a deletion that causes O5- variant of Typhimurium. "
-        else:
-            pass
-    #special test for Paratyphi B
-    if "Paratyphi B" in predict_sero or predict_form == "4:b:-":
-        normal = 0
-        mutation = 0
-        for x in special_gene_list:
-            if "gntR-family-regulatory-protein_dt-positive" in x:
-                normal = float(special_gene_list[x])
-            elif "gntR-family-regulatory-protein_dt-negative" in x:
-                mutation = float(special_gene_list[x])
-        #print(normal,mutation)
-        if normal > mutation:
-            #predict_sero = predict_sero.strip() + "(dt+)" #diable special sero for new output requirement, 04132019
-            predict_sero = predict_sero.strip()+' var. L(+) tartrate+' if "Paratyphi B" in predict_sero else predict_sero.strip()
-            star = "*"
-            #star_line = "Didn't detect the SNP for dt- which means this isolate is a Paratyphi B variant L(+) tartrate(+)."
-            star_line = "The SNP that causes d-Tartrate nonfermentating phenotype of Paratyphi B was not detected. "
-        elif normal < mutation:
-            #predict_sero = predict_sero.strip() + "(dt-)" #diable special sero for new output requirement, 04132019
-            predict_sero = predict_sero.strip()
-            star = "*"
-            #star_line = "Detected the SNP for dt- which means this isolate is a systemic pathovar of Paratyphi B."
-            star_line = "Detected the SNP for d-Tartrate nonfermenting phenotype of Paratyphi B. "
-        else:
-            star = "*"
-            #star_line = " Failed to detect the SNP for dt-, can't decide it's a Paratyphi B variant L(+) tartrate(+) or not."
-            star_line = " " ## ed_SL_05152019: do not report this situation.
-    #special test for O13,22 and O13,23
-    if Otype=="13":
-      #ex_dir = os.path.dirname(os.path.realpath(__file__))
-      ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019
-      f = open(ex_dir + '/special.pickle', 'rb')
-      special = pickle.load(f)
-      O22_O23=special['O22_O23']
-      if predict_sero.split(" or ")[0] in O22_O23[-1] and predict_sero.split(" or ")[0] not in rename_dict_all:#if in rename_dict_all, then it means already merged, no need to analyze 
-        O22_score=0
-        O23_score=0
-        for x in special_gene_list:
-            if "O:22" in x:
-                O22_score = O22_score+float(special_gene_list[x])
-            elif "O:23" in x:
-                O23_score = O23_score+float(special_gene_list[x])
-        #print(O22_score,O23_score)
-        for z in O22_O23[0]:
-          if predict_sero.split(" or ")[0] in z:
-            if O22_score > O23_score:
-              star = "*"
-              #star_line = "Detected O22 specific genes to further differenciate '"+predict_sero+"'." #diabled for new output requirement, 04132019
-              predict_sero = z[0]
-            elif O22_score < O23_score:
-              star = "*"
-              #star_line = "Detected O23 specific genes to further differenciate '"+predict_sero+"'." #diabled for new output requirement, 04132019
-              predict_sero = z[1]
-            else:
-              star = "*"
-              #star_line = "Fail to detect O22 and O23 differences." #diabled for new output requirement, 04132019
-    if " or " in predict_sero:
-      star_line = star_line + "The predicted serotypes share the same general formula: " + Otype + ":" + fliC + ":" + fljB + "."
-    #special test for O6,8 
-    #merge_O68_list=["Blockley","Bovismorbificans","Hadar","Litchfield","Manhattan","Muenchen"] #remove 11/11/2018, because already in merge list
-    #for x in merge_O68_list:
-    #  if x in predict_sero:
-    #    predict_sero=x
-    #    star=""
-    #    star_line=""
-    #special test for Montevideo; most of them are monophasic
-    #if "Montevideo" in predict_sero and "1,2,7" in predict_form: #remove 11/11/2018, because already in merge list
-      #star="*"
-      #star_line="Montevideo is almost always monophasic, having an antigen called for the fljB position may be a result of Salmonella-Salmonella contamination."
-    return predict_form, predict_sero, star, star_line, claim
-### End of SeqSero Kmer part
-
-### Begin of SeqSero2 allele prediction and output
-def xml_parse_score_comparision_seqsero(xmlfile):
-  #used to do seqsero xml analysis
-  from Bio.Blast import NCBIXML
-  handle=open(xmlfile)
-  handle=NCBIXML.parse(handle)
-  handle=list(handle)
-  List=[]
-  List_score=[]
-  List_ids=[]
-  List_query_region=[]
-  for i in range(len(handle)):
-    if len(handle[i].alignments)>0:
-      for j in range(len(handle[i].alignments)):
-        score=0
-        ids=0
-        cover_region=set() #fixed problem that repeated calculation leading percentage > 1
-        List.append(handle[i].query.strip()+"___"+handle[i].alignments[j].hit_def)
-        for z in range(len(handle[i].alignments[j].hsps)):
-          hsp=handle[i].alignments[j].hsps[z]
-          temp=set(range(hsp.query_start,hsp.query_end))
-          if len(cover_region)==0:
-            cover_region=cover_region|temp
-            fraction=1
-          else:
-            fraction=1-len(cover_region&temp)/float(len(temp))
-            cover_region=cover_region|temp
-          if "last" in handle[i].query or "first" in handle[i].query:
-            score+=hsp.bits*fraction
-            ids+=float(hsp.identities)/handle[i].query_length*fraction
-          else:
-            score+=hsp.bits*fraction
-            ids+=float(hsp.identities)/handle[i].query_length*fraction
-        List_score.append(score)
-        List_ids.append(ids)
-        List_query_region.append(cover_region)
-  temp=zip(List,List_score,List_ids,List_query_region)
-  Final_list=sorted(temp, key=lambda d:d[1], reverse = True)
-  return Final_list
-
-
-def Uniq(L,sort_on_fre="none"): #return the uniq list and the count number
-  Old=L
-  L.sort()
-  L = [L[i] for i in range(len(L)) if L[i] not in L[:i]]
-  count=[]
-  for j in range(len(L)):
-    y=0
-    for x in Old:
-      if L[j]==x:
-        y+=1
-    count.append(y)
-  if sort_on_fre!="none":
-    d=zip(*sorted(zip(count, L)))
-    L=d[1]
-    count=d[0]
-  return (L,count)
-
-def judge_fliC_or_fljB_from_head_tail_for_one_contig(nodes_vs_score_list):
-  #used to predict it's fliC or fljB for one contig, based on tail and head score, but output the score difference,if it is very small, then not reliable, use blast score for whole contig to test
-  #this is mainly used for 
-  a=nodes_vs_score_list
-  fliC_score=0
-  fljB_score=0
-  for z in a:
-    if "fliC" in z[0]:
-      fliC_score+=z[1]
-    elif "fljB" in z[0]:
-      fljB_score+=z[1]
-  if fliC_score>=fljB_score:
-    role="fliC"
-  else:
-    role="fljB"
-  return (role,abs(fliC_score-fljB_score))
-
-def judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(node_name,Final_list,Final_list_passed):
-  #used to predict contig is fliC or fljB, if the differnce score value on above head_and_tail is less than 10 (quite small)
-  #also used when no head or tail got blasted score for the contig
-  role=""
-  for z in Final_list_passed:
-    if node_name in z[0]:
-      role=z[0].split("_")[0]
-      break
-  return role
-
-def fliC_or_fljB_judge_from_head_tail_sequence(nodes_list,tail_head_list,Final_list,Final_list_passed):
-  #nodes_list is the c created by c,d=Uniq(nodes) in below function
-  first_target=""
-  role_list=[]
-  for x in nodes_list:
-    a=[]
-    role=""
-    for y in tail_head_list:
-      if x in y[0]:
-        a.append(y)
-    if len(a)==4:
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-    elif len(a)==3:
-      ###however, if the one with highest score is the fewer one, compare their accumulation score
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-      ###end of above score comparison
-    elif len(a)==2:
-      #must on same node, if not, then decide with unit blast score, blast-score/length_of_special_sequence(30 or 37)
-      temp=[]
-      for z in a:
-        temp.append(z[0].split("_")[0])
-      m,n=Uniq(temp)#should only have one choice, but weird situation might occur too
-      if len(m)==1:
-        pass
-      else:
-        pass
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-        ###need to desgin a algorithm to guess most possible situation for nodes_list, See the situations of test evaluation
-    elif len(a)==1:
-      #that one
-      role,diff=judge_fliC_or_fljB_from_head_tail_for_one_contig(a)
-      if diff<20:
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-      #need to evaluate, in future, may set up a cut-off, if not met, then just find Final_list_passed best match,like when "a==0"
-    else:#a==0
-      #use Final_list_passed best match
-      for z in Final_list_passed:
-        if x in z[0]:
-          role=z[0].split("_")[0]
-          break
-    #print x,role,len(a)
-    role_list.append((role,x))
-  if len(role_list)==2:
-    if role_list[0][0]==role_list[1][0]:#this is the most cocmmon error, two antigen were assigned to same phase
-      #just use score to do a final test
-      role_list=[]
-      for x in nodes_list: 
-        role=judge_fliC_or_fljB_from_whole_contig_blast_score_ranking(x,Final_list,Final_list_passed)
-        role_list.append((role,x))
-  return role_list
-
-def decide_contig_roles_for_H_antigen(Final_list,Final_list_passed):
-  #used to decide which contig is FliC and which one is fljB
-  contigs=[]
-  nodes=[]
-  for x in Final_list_passed:
-    if x[0].startswith("fl") and "last" not in x[0] and "first" not in x[0]:
-      nodes.append(x[0].split("___")[1].strip())
-  c,d=Uniq(nodes)#c is node_list
-  #print c
-  tail_head_list=[x for x in Final_list if ("last" in x[0] or "first" in x[0])]
-  roles=fliC_or_fljB_judge_from_head_tail_sequence(c,tail_head_list,Final_list,Final_list_passed)
-  return roles
-
-def decide_O_type_and_get_special_genes(Final_list,Final_list_passed):
-  #decide O based on Final_list
-  O_choice="?"
-  O_list=[]
-  special_genes={}
-  nodes=[]
-  for x in Final_list_passed:
-    if x[0].startswith("O-"):
-      nodes.append(x[0].split("___")[1].strip())
-    elif not x[0].startswith("fl"):
-      special_genes[x[0]]=x[2]#08172018, x[2] changed from x[-1]
-  #print "special_genes:",special_genes
-  c,d=Uniq(nodes)
-  #print "potential O antigen contig",c
-  final_O=[]
-  O_nodes_list=[]
-  for x in c:#c is the list for contigs
-    temp=0
-    for y in Final_list_passed:
-      if x in y[0] and y[0].startswith("O-"):
-        final_O.append(y)
-        break
-  ### O contig has the problem of two genes on same contig, so do additional test
-  potenial_new_gene=""
-  for x in final_O:
-    pointer=0 #for genes merged or not
-    #not consider O-1,3,19_not_in_3,10, too short compared with others
-    if "O-1,3,19_not_in_3,10" not in x[0] and int(x[0].split("__")[1].split("___")[0])*x[2]+850 <= int(x[0].split("length_")[1].split("_")[0]):#gene length << contig length; for now give 300*2 (for secureity can use 400*2) as flank region
-      pointer=x[0].split("___")[1].strip()#store the contig name
-      print(pointer)
-    if pointer!=0:#it has potential merge event
-      for y in Final_list:
-        if pointer in y[0] and y not in final_O and (y[1]>=int(y[0].split("__")[1].split("___")[0])*1.5 or (y[1]>=int(y[0].split("__")[1].split("___")[0])*y[2] and y[1]>=400)):#that's a realtively strict filter now; if passed, it has merge event and add one more to final_O
-          potenial_new_gene=y
-          #print(potenial_new_gene)
-          break
-  if potenial_new_gene!="":
-    print("two differnt genes in same contig, fix it for O antigen")
-    print(potenial_new_gene[:3])
-    pointer=0
-    for y in final_O:
-      if y[0].split("___")[-1]==potenial_new_gene[0].split("___")[-1]:
-        pointer=1
-    if pointer!=0: #changed to consider two genes in same contig
-      final_O.append(potenial_new_gene)
-  ### end of the two genes on same contig test
-  final_O=sorted(final_O,key=lambda x: x[2], reverse=True)#sorted
-  if len(final_O)==0 or (len(final_O)==1 and "O-1,3,19_not_in_3,10" in final_O[0][0]):
-    #print "$$$No Otype, due to no hit"#may need to be changed
-    O_choice="-"
-  else:
-    highest_O_coverage=max([float(x[0].split("_cov_")[-1].split("_")[0]) for x in final_O if "O-1,3,19_not_in_3,10" not in x[0]])
-    O_list=[]
-    O_list_less_contamination=[]
-    for x in final_O:
-      if not "O-1,3,19_not_in_3,10__130" in x[0]:#O-1,3,19_not_in_3,10 is too small, which may affect further analysis; to avoid contamination affect, use 0.15 of highest coverage as cut-off
-        O_list.append(x[0].split("__")[0])
-        O_nodes_list.append(x[0].split("___")[1])
-        if float(x[0].split("_cov_")[-1].split("_")[0])>highest_O_coverage*0.15:
-          O_list_less_contamination.append(x[0].split("__")[0])
-    ### special test for O9,46 and O3,10 family
-    if ("O-9,46_wbaV" in O_list or "O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254" in O_list) and O_list_less_contamination[0].startswith("O-9,"):#not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-      if "O-9,46_wzy" in O_list or "O-9,46_wzy_partial" in O_list:#and float(O946_wzy)/float(num_1) > 0.1
-        O_choice="O-9,46"
-        #print "$$$Most possilble Otype:  O-9,46"
-      elif "O-9,46,27_partial_wzy" in O_list:#and float(O94627)/float(num_1) > 0.1
-        O_choice="O-9,46,27"
-        #print "$$$Most possilble Otype:  O-9,46,27"
-      else:
-        O_choice="O-9"#next, detect O9 vs O2?
-        O2=0
-        O9=0
-        for z in special_genes:
-          if "tyr-O-9" in z:
-            O9=special_genes[z]
-          elif "tyr-O-2" in z:
-            O2=special_genes[z]
-        if O2>O9:
-          O_choice="O-2"
-        elif O2<O9:
-          pass
-        else:
-          pass
-          #print "$$$No suitable one, because can't distinct it's O-9 or O-2, but O-9 has a more possibility."
-    elif ("O-3,10_wzx" in O_list) and ("O-9,46_wzy" in O_list) and (O_list[0].startswith("O-3,10") or O_list_less_contamination[0].startswith("O-9,46_wzy")):#and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-      if "O-3,10_not_in_1,3,19" in O_list:#and float(O310_no_1319)/float(num_1) > 0.1
-        O_choice="O-3,10"
-        #print "$$$Most possilble Otype:  O-3,10 (contain O-3,10_not_in_1,3,19)"
-      else:
-        O_choice="O-1,3,19"
-        #print "$$$Most possilble Otype:  O-1,3,19 (not contain O-3,10_not_in_1,3,19)"
-    ### end of special test for O9,46 and O3,10 family
-    else:
-      try: 
-        max_score=0
-        for x in final_O:
-          if x[2]>=max_score and float(x[0].split("_cov_")[-1].split("_")[0])>highest_O_coverage*0.15:#use x[2],08172018, the "coverage identity = cover_length * identity"; also meet coverage threshold
-            max_score=x[2]#change from x[-1] to x[2],08172018
-            O_choice=x[0].split("_")[0]
-        if O_choice=="O-1,3,19":
-          O_choice=final_O[1][0].split("_")[0]
-        #print "$$$Most possilble Otype: ",O_choice
-      except:
-        pass
-        #print "$$$No suitable Otype, or failure of mapping (please check the quality of raw reads)"
-  if O_choice=="O-9,46,27" and len(O_list)==2 and "O-4_wzx" in O_list: #special for very low chance sitatuion between O4 and O9,27,46, this is for serotypes like Bredeney and Schwarzengrund (normallly O-4 will have higher score, but sometimes sequencing quality may affect the prediction)
-    O_choice="O-4"
-  #print "O:",O_choice,O_nodes_list
-  Otypes=[]
-  for x in O_list:
-    if x!="O-1,3,19_not_in_3,10":
-      if "O-9,46_" not in x:
-        Otypes.append(x.split("_")[0])
-      else:
-        Otypes.append(x.split("-from")[0])#O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254
-  #Otypes=[x.split("_")[0] for x in O_list if x!="O-1,3,19_not_in_3,10"]
-  Otypes_uniq,Otypes_fre=Uniq(Otypes)
-  contamination_O=""
-  if O_choice=="O-9,46,27" or O_choice=="O-3,10" or O_choice=="O-1,3,19":
-    if len(Otypes_uniq)>2:
-      contamination_O="potential contamination from O antigen signals"
-  else:
-    if len(Otypes_uniq)>1:
-      if O_choice=="O-4" and len(Otypes_uniq)==2 and "O-9,46,27" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      elif O_choice=="O-9,46" and len(Otypes_uniq)==2 and "O-9,46_wbaV" in Otypes_uniq and "O-9,46_wzy" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      else:
-        contamination_O="potential contamination from O antigen signals"
-  return O_choice,O_nodes_list,special_genes,final_O,contamination_O,Otypes_uniq
-### End of SeqSero2 allele prediction and output
-
-def get_input_files(make_dir,input_file,data_type,dirpath):
-  #tell input files from datatype
-  #"<int>: '1'(pair-end reads, interleaved),'2'(pair-end reads, seperated),'3'(single-end reads), '4'(assembly),'5'(nanopore fasta),'6'(nanopore fastq)"
-  for_fq=""
-  rev_fq=""
-  os.chdir(make_dir)
-  if data_type=="1":
-    input_file=input_file[0].split("/")[-1]
-    if input_file.endswith(".sra"):
-      subprocess.check_call("fastq-dump --split-files "+input_file,shell=True)
-      for_fq=input_file.replace(".sra","_1.fastq")
-      rev_fq=input_file.replace(".sra","_2.fastq")
-    else:
-      core_id=input_file.split(".fastq")[0].split(".fq")[0]
-      for_fq=core_id+"_1.fastq"
-      rev_fq=core_id+"_2.fastq"
-      if input_file.endswith(".gz"):
-        subprocess.check_call("gzip -dc "+input_file+" | "+dirpath+"/deinterleave_fastq.sh "+for_fq+" "+rev_fq,shell=True)
-      else:
-        subprocess.check_call("cat "+input_file+" | "+dirpath+"/deinterleave_fastq.sh "+for_fq+" "+rev_fq,shell=True)
-  elif data_type=="2":
-    for_fq=input_file[0].split("/")[-1]
-    rev_fq=input_file[1].split("/")[-1]
-  elif data_type=="3":
-    input_file=input_file[0].split("/")[-1]
-    if input_file.endswith(".sra"):
-      subprocess.check_call("fastq-dump --split-files "+input_file,shell=True)
-      for_fq=input_file.replace(".sra","_1.fastq")
-    else:
-      for_fq=input_file
-  elif data_type in ["4","5","6"]:
-    for_fq=input_file[0].split("/")[-1]
-  os.chdir("..")
-  return for_fq,rev_fq
-
-def predict_O_and_H_types(Final_list,Final_list_passed,new_fasta):
-  #get O and H types from Final_list from blast parsing; allele mode
-  from Bio import SeqIO
-  fliC_choice="-"
-  fljB_choice="-"
-  fliC_contig="NA"
-  fljB_contig="NA"
-  fliC_region=set([0])
-  fljB_region=set([0,])
-  fliC_length=0 #can be changed to coverage in future; in 03292019, changed to ailgned length
-  fljB_length=0 #can be changed to coverage in future; in 03292019, changed to ailgned length
-  O_choice="-"#no need to decide O contig for now, should be only one
-  O_choice,O_nodes,special_gene_list,O_nodes_roles,contamination_O,Otypes_uniq=decide_O_type_and_get_special_genes(Final_list,Final_list_passed)#decide the O antigen type and also return special-gene-list for further identification
-  O_choice=O_choice.split("-")[-1].strip()
-  if (O_choice=="1,3,19" and len(O_nodes_roles)==1 and "1,3,19" in O_nodes_roles[0][0]) or O_choice=="":
-    O_choice="-"
-  H_contig_roles=decide_contig_roles_for_H_antigen(Final_list,Final_list_passed)#decide the H antigen contig is fliC or fljB
-  #add alignment locations, used for further selection, 03312019
-  for i in range(len(H_contig_roles)):
-    x=H_contig_roles[i]
-    for y in Final_list_passed:
-      if x[1] in y[0] and y[0].startswith(x[0]):
-        H_contig_roles[i]+=H_contig_roles[i]+(y[-1],)
-        break
-  log_file=open("SeqSero_log.txt","a")
-  extract_file=open("Extracted_antigen_alleles.fasta","a")
-  handle_fasta=list(SeqIO.parse(new_fasta,"fasta"))
-
-  #print("O_contigs:")
-  log_file.write("O_contigs:\n")
-  extract_file.write("#Sequences with antigen signals (if the micro-assembled contig only covers the flanking region, it will not be used for contamination analysis)\n")
-  extract_file.write("#O_contigs:\n")
-  for x in O_nodes_roles:
-    if "O-1,3,19_not_in_3,10" not in x[0]:#O-1,3,19_not_in_3,10 is just a small size marker
-      #print(x[0].split("___")[-1],x[0].split("__")[0],"blast score:",x[1],"identity%:",str(round(x[2]*100,2))+"%",str(min(x[-1]))+" to "+str(max(x[-1])))
-      log_file.write(x[0].split("___")[-1]+" "+x[0].split("__")[0]+"; "+"blast score: "+str(x[1])+" identity%: "+str(round(x[2]*100,2))+"%; alignment from "+str(min(x[-1]))+" to "+str(max(x[-1]))+" of antigen\n")
-      title=">"+x[0].split("___")[-1]+" "+x[0].split("__")[0]+"; "+"blast score: "+str(x[1])+" identity%: "+str(round(x[2]*100,2))+"%; alignment from "+str(min(x[-1]))+" to "+str(max(x[-1]))+" of antigen\n"      
-      seqs=""
-      for z in handle_fasta:
-        if x[0].split("___")[-1]==z.description:
-          seqs=str(z.seq)
-      extract_file.write(title+seqs+"\n")
-  if len(H_contig_roles)!=0:
-    highest_H_coverage=max([float(x[1].split("_cov_")[-1].split("_")[0]) for x in H_contig_roles]) #less than highest*0.1 would be regarded as contamination and noises, they will still be considered in contamination detection and logs, but not used as final serotype output
-  else:
-    highest_H_coverage=0
-  for x in H_contig_roles:
-    #if multiple choices, temporately select the one with longest length for now, will revise in further change
-    if "fliC" == x[0] and len(x[-1])>=fliC_length and x[1] not in O_nodes and float(x[1].split("_cov_")[-1].split("_")[0])>highest_H_coverage*0.13:#remember to avoid the effect of O-type contig, so should not in O_node list
-      fliC_contig=x[1]
-      fliC_length=len(x[-1])
-    elif "fljB" == x[0] and len(x[-1])>=fljB_length and x[1] not in O_nodes and float(x[1].split("_cov_")[-1].split("_")[0])>highest_H_coverage*0.13:
-      fljB_contig=x[1]
-      fljB_length=len(x[-1])
-  for x in Final_list_passed:
-    if fliC_choice=="-" and "fliC_" in x[0] and fliC_contig in x[0]:
-      fliC_choice=x[0].split("_")[1]
-    elif fljB_choice=="-" and "fljB_" in x[0] and fljB_contig in x[0]:
-      fljB_choice=x[0].split("_")[1]
-    elif fliC_choice!="-" and fljB_choice!="-":
-      break
-  #now remove contigs not in middle core part
-  first_allele="NA"
-  first_allele_percentage=0
-  for x in Final_list:
-    if x[0].startswith("fliC") or x[0].startswith("fljB"):
-      first_allele=x[0].split("__")[0] #used to filter those un-middle contigs
-      first_allele_percentage=x[2]
-      break 
-  additional_contigs=[]
-  for x in Final_list:
-    if first_allele in x[0]:
-      if (fliC_contig == x[0].split("___")[-1]): 
-        fliC_region=x[3]
-      elif fljB_contig!="NA" and (fljB_contig == x[0].split("___")[-1]):
-        fljB_region=x[3]
-      else:
-        if x[1]*1.1>int(x[0].split("___")[1].split("_")[3]):#loose threshold by multiplying 1.1
-          additional_contigs.append(x)
-        #else:
-          #print x[:3]
-  #we can just use the fljB region (or fliC depends on size), no matter set() or contain a large locations (without middle part); however, if none of them is fully assembled, use 500 and 1200 as conservative cut-off
-  if first_allele_percentage>0.9:
-    if len(fliC_region)>len(fljB_region) and (max(fljB_region)-min(fljB_region))>1000:
-      target_region=fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region)))) #fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region))))
-    elif len(fliC_region)<len(fljB_region) and (max(fliC_region)-min(fliC_region))>1000:
-      target_region=fliC_region|(fljB_region-set(range(min(fliC_region),max(fliC_region))))  #fljB_region|(fliC_region-set(range(min(fljB_region),max(fljB_region))))
-    else:
-      target_region=set()#doesn't do anything
-  else:
-    target_region=set()#doesn't do anything
-  #print(target_region)
-  #print(additional_contigs)
-  target_region2=set(list(range(0,525))+list(range(1200,1700)))#I found to use 500 to 1200 as special region would be best
-  target_region=target_region2|target_region
-  for x in additional_contigs:
-    removal=0
-    contig_length=int(x[0].split("___")[1].split("length_")[-1].split("_")[0])
-    if fljB_contig not in x[0] and fliC_contig not in x[0] and len(target_region&x[3])/float(len(x[3]))>0.65 and contig_length*0.5<len(x[3])<contig_length*1.5: #consider length and alignment length for now, but very loose,0.5 and 1.5 as cut-off
-      removal=1
-    else:
-      if first_allele_percentage > 0.9 and float(x[0].split("__")[1].split("___")[0])*x[2]/len(x[-1])>0.96:#if high similiarity with middle part of first allele (first allele >0.9, already cover middle part)
-        removal=1
-      else:
-        pass
-    if removal==1:
-      for y in H_contig_roles:
-        if y[1] in x[0]:
-          H_contig_roles.remove(y)
-    else:
-      pass
-      #print(x[:3],contig_length,len(target_region&x[3])/float(len(x[3])),contig_length*0.5,len(x[3]),contig_length*1.5)
-  #end of removing none-middle contigs
-  #print("H_contigs:")
-  log_file.write("H_contigs:\n")
-  extract_file.write("#H_contigs:\n")
-  H_contig_stat=[]
-  H1_cont_stat={}
-  H2_cont_stat={}
-  for i in range(len(H_contig_roles)):
-    x=H_contig_roles[i]
-    a=0
-    for y in Final_list_passed:
-      if x[1] in y[0] and y[0].startswith(x[0]):
-        if "first" in y[0] or "last" in y[0]: #this is the final filter to decide it's fliC or fljB, if can't pass, then can't decide
-          for y in Final_list_passed: #it's impossible to has the "first" and "last" allele as prediction, so re-do it
-            if x[1] in y[0]:#it's very possible to be third phase allele, so no need to make it must be fliC or fljB
-              #print(x[1],"can't_decide_fliC_or_fljB",y[0].split("_")[1],"blast_score:",y[1],"identity%:",str(round(y[2]*100,2))+"%",str(min(y[-1]))+" to "+str(max(y[-1])))
-              log_file.write(x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n")
-              H_contig_roles[i]="can't decide fliC or fljB, may be third phase"
-              title=">"+x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antiten\n"
-              seqs=""
-              for z in handle_fasta:
-                if x[1]==z.description:
-                  seqs=str(z.seq)
-              extract_file.write(title+seqs+"\n")
-              break
-        else:
-          #print(x[1],x[0],y[0].split("_")[1],"blast_score:",y[1],"identity%:",str(round(y[2]*100,2))+"%",str(min(y[-1]))+" to "+str(max(y[-1])))
-          log_file.write(x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n")
-          title=">"+x[1]+" "+x[0]+" "+y[0].split("_")[1]+"; "+"blast score: "+str(y[1])+" identity%: "+str(round(y[2]*100,2))+"%; alignment from "+str(min(y[-1]))+" to "+str(max(y[-1]))+" of antigen\n"
-          seqs=""
-          for z in handle_fasta:
-            if x[1]==z.description:
-              seqs=str(z.seq)
-          extract_file.write(title+seqs+"\n")
-        if x[0]=="fliC":
-          if y[0].split("_")[1] not in H1_cont_stat:
-            H1_cont_stat[y[0].split("_")[1]]=y[2]
-          else:
-            H1_cont_stat[y[0].split("_")[1]]+=y[2]
-        if x[0]=="fljB":
-          if y[0].split("_")[1] not in H2_cont_stat:
-            H2_cont_stat[y[0].split("_")[1]]=y[2]
-          else:
-            H2_cont_stat[y[0].split("_")[1]]+=y[2]
-        break
-  #detect contaminations
-  #print(H1_cont_stat)
-  #print(H2_cont_stat)
-  H1_cont_stat_list=[x for x in H1_cont_stat if H1_cont_stat[x]>0.2]
-  H2_cont_stat_list=[x for x in H2_cont_stat if H2_cont_stat[x]>0.2]
-  contamination_H=""
-  if len(H1_cont_stat_list)>1 or len(H2_cont_stat_list)>1:
-    contamination_H="potential contamination from H antigen signals"
-  elif len(H2_cont_stat_list)==1 and fljB_contig=="NA":
-    contamination_H="potential contamination from H antigen signals, uncommon weak fljB signals detected"
-  #get additional antigens
-  """
-    if ("O-9,46_wbaV" in O_list or "O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254" in O_list) and O_list_less_contamination[0].startswith("O-9,"):#not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-      if "O-9,46_wzy" in O_list:#and float(O946_wzy)/float(num_1) > 0.1
-        O_choice="O-9,46"
-        #print "$$$Most possilble Otype:  O-9,46"
-      elif "O-9,46,27_partial_wzy" in O_list:#and float(O94627)/float(num_1) > 0.1
-        O_choice="O-9,46,27"
-        #print "$$$Most possilble Otype:  O-9,46,27"
-    elif ("O-3,10_wzx" in O_list) and ("O-9,46_wzy" in O_list) and (O_list[0].startswith("O-3,10") or O_list_less_contamination[0].startswith("O-9,46_wzy")):#and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-      if "O-3,10_not_in_1,3,19" in O_list:#and float(O310_no_1319)/float(num_1) > 0.1
-        O_choice="O-3,10"
-        #print "$$$Most possilble Otype:  O-3,10 (contain O-3,10_not_in_1,3,19)"
-      else:
-        O_choice="O-1,3,19"
-        #print "$$$Most possilble Otype:  O-1,3,19 (not contain O-3,10_not_in_1,3,19)"
-    ### end of special test for O9,46 and O3,10 family
-
-    if O_choice=="O-9,46,27" or O_choice=="O-3,10" or O_choice=="O-1,3,19":
-    if len(Otypes_uniq)>2:
-      contamination_O="potential contamination from O antigen signals"
-  else:
-    if len(Otypes_uniq)>1:
-      if O_choice=="O-4" and len(Otypes_uniq)==2 and "O-9,46,27" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-      elif O_choice=="O-9,46" and len(Otypes_uniq)==2 and "O-9,46_wbaV" in Otypes_uniq and "O-9,46_wzy" in Otypes_uniq: #for special 4,12,27 case such as Bredeney and Schwarzengrund
-        contamination_O=""
-  """
-  additonal_antigents=[]
-  #print(contamination_O)
-  #print(contamination_H)
-  log_file.write(contamination_O+"\n")
-  log_file.write(contamination_H+"\n")
-  log_file.close()
-  return O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H,Otypes_uniq,H1_cont_stat_list,H2_cont_stat_list
-
-def get_input_K(input_file,lib_dict,data_type,k_size):
-  #kmer mode; get input_Ks from dict and data_type
-  kmers = []
-  for h in lib_dict:
-      kmers += lib_dict[h]
-  if data_type == '4':
-      input_Ks = target_multifasta_kmerizer(input_file, k_size, set(kmers))
-  elif data_type == '1' or data_type == '2' or data_type == '3':#set it for now, will change later
-      input_Ks = target_read_kmerizer(input_file, k_size, set(kmers))
-  elif data_type == '5':#minion_2d_fasta
-      input_Ks = minion_fasta_kmerizer(input_file, k_size, set(kmers))
-  if data_type == '6':#minion_2d_fastq
-      input_Ks = minion_fastq_kmerizer(input_file, k_size, set(kmers))
-  return input_Ks
-
-def get_kmer_dict(lib_dict,input_Ks):
-  #kmer mode; get predicted types
-  O_dict = {}
-  H_dict = {}
-  Special_dict = {}
-  for h in lib_dict:
-      score = (len(lib_dict[h] & input_Ks) / len(lib_dict[h])) * 100
-      if score > 1:  # Arbitrary cut-off for similarity score very low but seems necessary to detect O-3,10 in some cases
-          if h.startswith('O-') and score > 25:
-              O_dict[h] = score
-          if h.startswith('fl') and score > 40:
-              H_dict[h] = score
-          if (h[:2] != 'fl') and (h[:2] != 'O-'):
-              Special_dict[h] = score
-  return O_dict,H_dict,Special_dict
-
-def call_O_and_H_type(O_dict,H_dict,Special_dict,make_dir):
-  log_file=open("SeqSero_log.txt","a")
-  log_file.write("O_scores:\n")
-  #call O:
-  highest_O = '-'
-  if len(O_dict) == 0:
-      pass
-  else:
-      for x in O_dict:
-          log_file.write(x+"\t"+str(O_dict[x])+"\n")
-      if ('O-9,46_wbaV__1002' in O_dict and O_dict['O-9,46_wbaV__1002']>70) or ("O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002" in O_dict and O_dict['O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002']>70):  # not sure should use and float(O9_wbaV)/float(num_1) > 0.1
-          #if 'O-9,46_wzy__1191' in O_dict or "O-9,46_wzy_partial__216" in O_dict:  # and float(O946_wzy)/float(num_1) > 0.1
-          #modified to fix miscall of O-9,46
-          if ('O-9,46_wzy__1191' in O_dict and O_dict['O-9,46_wzy__1191']>40) or ("O-9,46_wzy_partial__216" in O_dict and O_dict["O-9,46_wzy_partial__216"]>40):  # and float(O946_wzy)/float(num_1) > 0.1
-              highest_O = "O-9,46"
-          elif "O-9,46,27_partial_wzy__1019" in O_dict:  # and float(O94627)/float(num_1) > 0.1
-              highest_O = "O-9,46,27"
-          else:
-              highest_O = "O-9"  # next, detect O9 vs O2?
-              O2 = 0
-              O9 = 0
-              for z in Special_dict:
-                  if "tyr-O-9" in z:
-                      O9 = float(Special_dict[z])
-                  if "tyr-O-2" in z:
-                      O2 = float(Special_dict[z])
-              if O2 > O9:
-                  highest_O = "O-2"
-      elif ("O-3,10_wzx__1539" in O_dict) and (
-              "O-9,46_wzy__1191" in O_dict
-      ):  # and float(O310_wzx)/float(num_1) > 0.1 and float(O946_wzy)/float(num_1) > 0.1
-          if "O-3,10_not_in_1,3,19__1519" in O_dict:  # and float(O310_no_1319)/float(num_1) > 0.1
-              highest_O = "O-3,10"
-          else:
-              highest_O = "O-1,3,19"
-      ### end of special test for O9,46 and O3,10 family
-      else:
-          try:
-              max_score = 0
-              for x in O_dict:
-                  if float(O_dict[x]) >= max_score:
-                      max_score = float(O_dict[x])
-                      #highest_O = x.split("_")[0]
-                      # ed_SL_12182019: modified to fix the O-9,46 error example1
-                      if (x == 'O-9,46_wbaV__1002' or x == 'O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002') and ('O-9,46_wzy__1191' not in O_dict and 'O-9,46_wzy_partial__216' not in O_dict):
-                          highest_O = "O-9"
-                      else:
-                          highest_O = x.split("_")[0]
-              if highest_O == "O-1,3,19":
-                  highest_O = '-'
-                  max_score = 0
-                  for x in O_dict:
-                      if x == 'O-1,3,19_not_in_3,10__130':
-                          pass
-                      else:
-                          if float(O_dict[x]) >= max_score:
-                              max_score = float(O_dict[x])
-                              #highest_O = x.split("_")[0]
-                              # ed_SL_12182019: modified to fix the O-9,46 error example1
-                              if (x == 'O-9,46_wbaV__1002' or x == 'O-9,46_wbaV-from-II-9,12:z29:1,5-SRR1346254__1002') and ('O-9,46_wzy__1191' not in O_dict and 'O-9,46_wzy_partial__216' not in O_dict):
-                                  highest_O = "O-9"
-                              else:
-                                  highest_O = x.split("_")[0]
-          except:
-              pass
-  #call_fliC:
-  if len(H_dict)!=0:
-    highest_H_score_both_BC=H_dict[max(H_dict.keys(), key=(lambda k: H_dict[k]))] #used to detect whether fljB existed or not
-  else:
-    highest_H_score_both_BC=0
-  highest_fliC = '-'
-  highest_fliC_raw = '-'
-  highest_Score = 0
-  log_file.write("\nH_scores:\n")
-  for s in H_dict:
-      log_file.write(s+"\t"+str(H_dict[s])+"\n")
-      if s.startswith('fliC'):
-          if float(H_dict[s]) > highest_Score:
-              highest_fliC = s.split('_')[1]
-              highest_fliC_raw = s
-              highest_Score = float(H_dict[s])
-  #call_fljB
-  highest_fljB = '-'
-  highest_fljB_raw = '-'
-  highest_Score = 0
-  for s in H_dict:
-      if s.startswith('fljB'):
-          if float(H_dict[s]) > highest_Score and float(H_dict[s]) > highest_H_score_both_BC * 0.65: #fljB is special, so use highest_H_score_both_BC to give a general estimate of coverage, currently 0.65 seems pretty good; the reason use a high (0.65) is some fliC and fljB shared with each other
-              #highest_fljB = s.split('_')[1]
-              #highest_fljB_raw = s
-              #highest_Score = float(H_dict[s])
-              if s.split('_')[1]!=highest_fliC:
-                  highest_fljB = s.split('_')[1]
-                  highest_fljB_raw = s
-                  highest_Score = float(H_dict[s])
-  log_file.write("\nSpecial_scores:\n")
-  for s in Special_dict:
-    log_file.write(s+"\t"+str(Special_dict[s])+"\n")
-  log_file.close()
-  return highest_O,highest_fliC,highest_fljB
-
-def get_temp_file_names(for_fq,rev_fq):
-  #seqsero2 -a; get temp file names
-  sam=for_fq+".sam"
-  bam=for_fq+".bam"
-  sorted_bam=for_fq+"_sorted.bam"
-  mapped_fq1=for_fq+"_mapped.fq"
-  mapped_fq2=rev_fq+"_mapped.fq"
-  combined_fq=for_fq+"_combined.fq"
-  for_sai=for_fq+".sai"
-  rev_sai=rev_fq+".sai"
-  return sam,bam,sorted_bam,mapped_fq1,mapped_fq2,combined_fq,for_sai,rev_sai
-
-def map_and_sort(threads,database,fnameA,fnameB,sam,bam,for_sai,rev_sai,sorted_bam,mapping_mode):
-  #seqsero2 -a; do mapping and sort
-  print("building database...")
-  subprocess.check_call("bwa index "+database+ " 2>> data_log.txt",shell=True)
-  print("mapping...")
-  if mapping_mode=="mem":
-    subprocess.check_call("bwa mem -k 17 -t "+threads+" "+database+" "+fnameA+" "+fnameB+" > "+sam+ " 2>> data_log.txt",shell=True)
-  elif mapping_mode=="sam":
-    if fnameB!="":
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameA+" > "+for_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameB+" > "+rev_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa sampe "+database+" "+for_sai+" "+ rev_sai+" "+fnameA+" "+fnameB+" > "+sam+ " 2>> data_log.txt",shell=True)
-    else:
-      subprocess.check_call("bwa aln -t "+threads+" "+database+" "+fnameA+" > "+for_sai+ " 2>> data_log.txt",shell=True)
-      subprocess.check_call("bwa samse "+database+" "+for_sai+" "+for_fq+" > "+sam)
-  subprocess.check_call("samtools view -@ "+threads+" -F 4 -Sh "+sam+" > "+bam,shell=True)
-  ### check the version of samtools then use differnt commands
-  samtools_version=subprocess.Popen(["samtools"],stdout=subprocess.PIPE,stderr=subprocess.PIPE)
-  out, err = samtools_version.communicate()
-  version = str(err).split("ersion:")[1].strip().split(" ")[0].strip()
-  print("check samtools version:",version)
-  ### end of samtools version check and its analysis
-  if LooseVersion(version)<=LooseVersion("1.2"):
-    subprocess.check_call("samtools sort -@ "+threads+" -n "+bam+" "+fnameA+"_sorted",shell=True)
-  else:
-    subprocess.check_call("samtools sort -@ "+threads+" -n "+bam+" >"+sorted_bam,shell=True)
-
-def extract_mapped_reads_and_do_assembly_and_blast(current_time,sorted_bam,combined_fq,mapped_fq1,mapped_fq2,threads,fnameA,fnameB,database,mapping_mode):
-  #seqsero2 -a; extract, assembly and blast
-  subprocess.check_call("bamToFastq -i "+sorted_bam+" -fq "+combined_fq,shell=True)
-  #print("fnameA:",fnameA)
-  #print("fnameB:",fnameB)
-  if fnameB!="":
-    subprocess.check_call("bamToFastq -i "+sorted_bam+" -fq "+mapped_fq1+" -fq2 "+mapped_fq2 + " 2>> data_log.txt",shell=True)#2> /dev/null if want no output
-  else:
-    pass
-  outdir=current_time+"_temp"
-  print("assembling...")
-  if int(threads)>4:
-    t="4"
-  else:
-    t=threads
-  if os.path.getsize(combined_fq)>100 and (fnameB=="" or os.path.getsize(mapped_fq1)>100):#if not, then it's "-:-:-"
-    if fnameB!="":
-      subprocess.check_call("spades.py --careful --pe1-s "+combined_fq+" --pe1-1 "+mapped_fq1+" --pe1-2 "+mapped_fq2+" -t "+t+" -o "+outdir+ " >> data_log.txt 2>&1",shell=True)
-    else:
-      subprocess.check_call("spades.py --careful --pe1-s "+combined_fq+" -t "+t+" -o "+outdir+ " >> data_log.txt 2>&1",shell=True)
-    new_fasta=fnameA+"_"+database+"_"+mapping_mode+".fasta"
-    #new_fasta=fnameA+"_"+database.split('/')[-1]+"_"+mapping_mode+".fasta" # change path to databse for packaging
-    subprocess.check_call("mv "+outdir+"/contigs.fasta "+new_fasta+ " 2> /dev/null",shell=True)
-    #os.system("mv "+outdir+"/scaffolds.fasta "+new_fasta+ " 2> /dev/null") contigs.fasta
-    subprocess.check_call("rm -rf "+outdir+ " 2> /dev/null",shell=True)
-    print("blasting...","\n")
-    xmlfile="blasted_output.xml"#fnameA+"-extracted_vs_"+database+"_"+mapping_mode+".xml"
-    subprocess.check_call('makeblastdb -in '+new_fasta+' -out '+new_fasta+'_db '+'-dbtype nucl >> data_log.txt 2>&1',shell=True) #temp.txt is to forbid the blast result interrupt the output of our program###1/27/2015
-    subprocess.check_call("blastn -query "+database+" -db "+new_fasta+"_db -out "+xmlfile+" -outfmt 5 >> data_log.txt 2>&1",shell=True)###1/27/2015; 08272018, remove "-word_size 10"
-  else:
-    xmlfile="NA"
-  return xmlfile,new_fasta
-
-def judge_subspecies(fnameA):
-  #seqsero2 -a; judge subspecies on just forward raw reads fastq
-  salmID_output=subprocess.Popen("SalmID.py -i "+fnameA,shell=True,stdout=subprocess.PIPE,stderr=subprocess.PIPE)
-  out, err = salmID_output.communicate()
-  out=out.decode("utf-8")
-  file=open("data_log.txt","a")
-  file.write(out)
-  file.close()
-  salm_species_scores=out.split("\n")[1].split("\t")[6:]
-  salm_species_results=out.split("\n")[0].split("\t")[6:]
-  max_score=0
-  max_score_index=1 #default is 1, means "I"
-  for i in range(len(salm_species_scores)):
-    if max_score<float(salm_species_scores[i]):
-      max_score=float(salm_species_scores[i])
-      max_score_index=i
-  prediction=salm_species_results[max_score_index].split(".")[1].strip().split(" ")[0]
-  #if float(out.split("\n")[1].split("\t")[4]) > float(out.split("\n")[1].split("\t")[5]): #bongori and enterica compare
-  if float(out.split("\n")[1].split("\t")[4]) > 10 and float(out.split("\n")[1].split("\t")[4]) > float(out.split("\n")[1].split("\t")[5]): ## ed_SL_0318: change SalmID_ssp_threshold
-    prediction="bongori" #if not, the prediction would always be enterica, since they are located in the later part
-  #if max_score<10:  ## ed_SL_0318: change SalmID_ssp_threshold
-  if max_score<60:
-    prediction="-"
-  return prediction
-
-def judge_subspecies_Kmer(Special_dict):
-  #seqsero2 -k;
-  max_score=0
-  prediction="-" #default should be I
-  for x in Special_dict:
-    #if "mer" in x: ## ed_SL_0318: change ssp_threshold
-    if "mer" in x and float(Special_dict[x]) > 60:
-      if max_score<float(Special_dict[x]):
-        max_score=float(Special_dict[x])
-        prediction=x.split("_")[-1].strip()
-      if x.split("_")[-1].strip()=="bongori" and float(Special_dict[x])>95:#if bongori already, then no need to test enterica
-        prediction="bongori"
-        break
-  return prediction
-
-## ed_SL_11232019: add notes for missing antigen
-def check_antigens(ssp,O_antigen,H1_antigen,H2_antigen,NA_note):
-  antigen_note = ''
-  if ssp != '-':
-    if O_antigen != '-' and H1_antigen == '-' and H2_antigen == '-': # O:-:-
-      antigen_note = 'H antigens were not detected. This is an atypical result that should be further investigated. Most Salmonella strains have at least fliC, encoding the Phase 1 H antigen, even if it is not expressed. '
-      NA_note = ''
-    elif O_antigen != '-' and H1_antigen == '-' and H2_antigen != '-': # O:-:H2
-      antigen_note = 'fliC was not detected. This is an atypical result that should be further investigated. Most Salmonella strains have fliC, encoding the Phase 1 H antigen, even if it is not expressed. '
-      NA_note = ''
-    elif O_antigen == '-' and H1_antigen != '-': # -:H1:X
-      antigen_note = 'O antigen was not detected. This result may be due to a rough strain that has deleted the rfb region. For raw reads input, the k-mer workflow is sometimes more sensitive than the microassembly workflow in detecting O antigen. Caution should be used with this approach because the k-mer result may be due to low levels of contamination. '
-      NA_note = ''
-    elif O_antigen == '-' and H1_antigen == '-' and H2_antigen == '-': # -:-:-
-      antigen_note = 'No serotype antigens were detected. This is an atypical result that should be further investigated. '
-      NA_note = ''
-  else:
-    antigen_note = 'The input genome cannot be identified as Salmonella. Check the input for taxonomic ID, contamination, or sequencing quality. '
-    NA_note = ''
-#    if [O_antigen, H1_antigen, H2_antigen].count('-') >= 2:
-#      antigen_note = 'No subspecies marker was detected and less than 2 serotype antigens were detected; further, this genome was not identified as Salmonella. This is an atypical result that should be further investigated. '
-#    else:
-#      antigen_note = 'No subspecies marker was detected. This genome may not be Salmonella. This is an atypical result that should be further investigated. '
-  return (antigen_note,NA_note)
-
-def main():
-  #combine SeqSeroK and SeqSero2, also with SalmID
-  args = parse_args()
-  input_file = args.i
-  data_type = args.t
-  analysis_mode = args.m
-  mapping_mode=args.b
-  threads=args.p
-  make_dir=args.d
-  clean_mode=args.c
-  sample_name=args.n
-  ingore_header=args.s
-  k_size=27 #will change for bug fixing
-  dirpath = os.path.abspath(os.path.dirname(os.path.realpath(__file__)))
-  ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019: add ex_dir for packaging
-  seqsero2_db=ex_dir+"/H_and_O_and_specific_genes.fasta" # ed_SL_11092019: change path to database for packaging
-  database="H_and_O_and_specific_genes.fasta"
-  note="Note:	"
-  NA_note="This predicted serotype is not in the Kauffman-White scheme. " # ed_SL_09272019: add for new output format
-  if len(sys.argv)==1:
-    subprocess.check_call(dirpath+"/SeqSero2_package.py -h",shell=True)#change name of python file
-  else:
-    request_id = time.strftime("%m_%d_%Y_%H_%M_%S", time.localtime())
-    request_id += str(random.randint(1, 10000000))
-    if make_dir is None:
-      make_dir="SeqSero_result_"+request_id
-    if os.path.isdir(make_dir):
-      pass
-    else:
-      subprocess.check_call(["mkdir",make_dir])
-    #subprocess.check_call("cp "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True)
-    #subprocess.check_call("ln -sr "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True)
-    subprocess.check_call("ln -f -s "+seqsero2_db+" "+" ".join(input_file)+" "+make_dir,shell=True) # ed_SL_11092019: change path to database for packaging 
-    #subprocess.check_call("ln -f -s "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True) ### use -f option to force the replacement of links, remove -r and use absolute path instead to avoid link issue (use 'type=os.path.abspath' in -i argument).
-  ############################begin the real analysis 
-    if analysis_mode=="a":
-      if data_type in ["1","2","3"]:#use allele mode
-        for_fq,rev_fq=get_input_files(make_dir,input_file,data_type,dirpath)
-        os.chdir(make_dir)
-        ###add a function to tell input files
-        fnameA=for_fq.split("/")[-1]
-        fnameB=rev_fq.split("/")[-1]
-        current_time=time.strftime("%Y_%m_%d_%H_%M_%S", time.localtime())
-        sam,bam,sorted_bam,mapped_fq1,mapped_fq2,combined_fq,for_sai,rev_sai=get_temp_file_names(fnameA,fnameB) #get temp files id
-        map_and_sort(threads,database,fnameA,fnameB,sam,bam,for_sai,rev_sai,sorted_bam,mapping_mode) #do mapping and sort
-        ### avoid error out when micro assembly fails. ed_SL_03172020
-        try:
-          xmlfile,new_fasta=extract_mapped_reads_and_do_assembly_and_blast(current_time,sorted_bam,combined_fq,mapped_fq1,mapped_fq2,threads,fnameA,fnameB,database,mapping_mode) #extract the mapped reads and do micro assembly and blast
-        except (UnboundLocalError, subprocess.CalledProcessError):
-          xmlfile="NA"
-          H1_cont_stat_list=[]
-          H2_cont_stat_list=[]
-        ###
-        if xmlfile=="NA":
-          O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H=("-","-","-",[],"","")
-        else:
-          Final_list=xml_parse_score_comparision_seqsero(xmlfile) #analyze xml and get parsed results
-          file=open("data_log.txt","a")
-          for x in Final_list:
-            file.write("\t".join(str(y) for y in x)+"\n")
-          file.close()
-          Final_list_passed=[x for x in Final_list if float(x[0].split("_cov_")[1].split("_")[0])>=0.9 and (x[1]>=int(x[0].split("__")[1]) or x[1]>=int(x[0].split("___")[1].split("_")[3]) or x[1]>1000)]
-          O_choice,fliC_choice,fljB_choice,special_gene_list,contamination_O,contamination_H,Otypes_uniq,H1_cont_stat_list,H2_cont_stat_list=predict_O_and_H_types(Final_list,Final_list_passed,new_fasta) #predict O, fliC and fljB
-        subspecies=judge_subspecies(fnameA) #predict subspecies
-        ###output
-        predict_form,predict_sero,star,star_line,claim=seqsero_from_formula_to_serotypes(O_choice,fliC_choice,fljB_choice,special_gene_list,subspecies)
-        claim="" #04132019, disable claim for new report requirement
-        contamination_report=""
-        H_list=["fliC_"+x for x in H1_cont_stat_list if len(x)>0]+["fljB_"+x for x in H2_cont_stat_list if len(x)>0]
-        if contamination_O!="" and contamination_H=="":
-          contamination_report="#Potential inter-serotype contamination detected from O antigen signals. All O-antigens detected:"+"\t".join(Otypes_uniq)+"."
-        elif contamination_O=="" and contamination_H!="":
-          contamination_report="#Potential inter-serotype contamination detected or potential thrid H phase from H antigen signals. All H-antigens detected:"+"\t".join(H_list)+"."
-        elif contamination_O!="" and contamination_H!="":
-          contamination_report="#Potential inter-serotype contamination detected from both O and H antigen signals.All O-antigens detected:"+"\t".join(Otypes_uniq)+". All H-antigens detected:"+"\t".join(H_list)+"."
-        if contamination_report!="":
-          #contamination_report="potential inter-serotype contamination detected (please refer below antigen signal report for details)." #above contamination_reports are for back-up and bug fixing #web-based mode need to be re-used, 04132019
-          contamination_report="Co-existence of multiple serotypes detected, indicating potential inter-serotype contamination. See 'Extracted_antigen_alleles.fasta' for detected serotype determinant alleles. "
-        #claim="\n"+open("Extracted_antigen_alleles.fasta","r").read()#used to store H and O antigen sequeences #04132019, need to change if using web-version
-        #if contamination_report+star_line+claim=="": #0413, new output style
-        #  note=""
-        #else:
-        #  note="Note:"
-
-        ### ed_SL_11232019: add notes for missing antigen
-        if O_choice=="":
-          O_choice="-"
-        antigen_note,NA_note=check_antigens(subspecies,O_choice,fliC_choice,fljB_choice,NA_note)
-        if sample_name:
-          print ("Sample name:\t"+sample_name)
-        ###
-
-        if clean_mode:
-          subprocess.check_call("rm -rf ../"+make_dir,shell=True)
-          make_dir="none-output-directory due to '-c' flag"
-        else:
-          new_file=open("SeqSero_result.txt","w")
-          ### ed_SL_01152020: add new output
-          conta_note="yes" if "inter-serotype contamination" in contamination_report else "no"
-          tsv_file=open("SeqSero_result.tsv","w")
-          if ingore_header:
-            pass
-          else:
-            tsv_file.write("Sample name\tOutput directory\tInput files\tO antigen prediction\tH1 antigen prediction(fliC)\tH2 antigen prediction(fljB)\tPredicted subspecies\tPredicted antigenic profile\tPredicted serotype\tPotential inter-serotype contamination\tNote\n")
-          if sample_name:
-            new_file.write("Sample name:\t"+sample_name+"\n")
-            tsv_file.write(sample_name+'\t')
-          else:
-            tsv_file.write(input_file[0].split('/')[-1]+'\t')
-          ###
-          if "N/A" not in predict_sero:
-            new_file.write("Output directory:\t"+make_dir+"\n"+
-                           "Input files:\t"+"\t".join(input_file)+"\n"+
-                           "O antigen prediction:\t"+O_choice+"\n"+
-                           "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                           "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                           "Predicted subspecies:\t"+subspecies+"\n"+
-                           "Predicted antigenic profile:\t"+predict_form+"\n"+
-                           "Predicted serotype:\t"+predict_sero+"\n"+
-                           note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-            tsv_file.write(make_dir+"\t"+" ".join(input_file)+"\t"+O_choice+"\t"+fliC_choice+"\t"+fljB_choice+"\t"+subspecies+"\t"+predict_form+"\t"+predict_sero+"\t"+conta_note+"\t"+contamination_report+star_line+claim+antigen_note+"\n")
-          else:
-            #star_line=star_line.strip()+"\tNone such antigenic formula in KW.\n"
-            star_line="" #04132019, for new output requirement, diable star_line if "NA" in output
-            new_file.write("Output directory:\t"+make_dir+"\n"+
-                           "Input files:\t"+"\t".join(input_file)+"\n"+
-                           "O antigen prediction:\t"+O_choice+"\n"+
-                           "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                           "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                           "Predicted subspecies:\t"+subspecies+"\n"+
-                           "Predicted antigenic profile:\t"+predict_form+"\n"+
-                           "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, add subspecies
-                           note+NA_note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-            tsv_file.write(make_dir+"\t"+" ".join(input_file)+"\t"+O_choice+"\t"+fliC_choice+"\t"+fljB_choice+"\t"+subspecies+"\t"+predict_form+"\t"+subspecies+' '+predict_form+"\t"+conta_note+"\t"+NA_note+contamination_report+star_line+claim+antigen_note+"\n")
-          new_file.close()
-          tsv_file.close()
-          #subprocess.check_call("cat Seqsero_result.txt",shell=True)
-          #subprocess.call("rm H_and_O_and_specific_genes.fasta* *.sra *.bam *.sam *.fastq *.gz *.fq temp.txt *.xml "+fnameA+"*_db* 2> /dev/null",shell=True)
-          subprocess.call("rm H_and_O_and_specific_genes.fasta* *.sra *.bam *.sam *.fastq *.gz *.fq temp.txt "+fnameA+"*_db* 2> /dev/null",shell=True)
-        if "N/A" not in predict_sero:
-          #print("Output_directory:"+make_dir+"\nInput files:\t"+for_fq+" "+rev_fq+"\n"+"O antigen prediction:\t"+O_choice+"\n"+"H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+"H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+"Predicted antigenic profile:\t"+predict_form+"\n"+"Predicted subspecies:\t"+subspecies+"\n"+"Predicted serotype(s):\t"+predict_sero+star+"\nNote:"+contamination_report+star+star_line+claim+"\n")#+##
-          print("Output directory:\t"+make_dir+"\n"+
-                "Input files:\t"+"\t".join(input_file)+"\n"+
-                "O antigen prediction:\t"+O_choice+"\n"+
-                "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                "Predicted subspecies:\t"+subspecies+"\n"+
-                "Predicted antigenic profile:\t"+predict_form+"\n"+
-                "Predicted serotype:\t"+predict_sero+"\n"+
-                note+contamination_report+star_line+claim+antigen_note+"\n")#+##
-        else:
-          print("Output directory:\t"+make_dir+"\n"+
-                "Input files:\t"+"\t".join(input_file)+"\n"+
-                "O antigen prediction:\t"+O_choice+"\n"+
-                "H1 antigen prediction(fliC):\t"+fliC_choice+"\n"+
-                "H2 antigen prediction(fljB):\t"+fljB_choice+"\n"+
-                "Predicted subspecies:\t"+subspecies+"\n"+
-                "Predicted antigenic profile:\t"+predict_form+"\n"+
-                "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-                note+NA_note+contamination_report+star_line+claim+antigen_note+"\n")
-      else:
-        print("Allele modes only support raw reads datatype, i.e. '-t 1 or 2 or 3'; please use '-m k'")
-    elif analysis_mode=="k":
-      #ex_dir = os.path.dirname(os.path.realpath(__file__))
-      ex_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.dirname(__file__)),'seqsero2_db')) # ed_SL_09152019: change ex_dir for packaging
-      #output_mode = args.mode
-      for_fq,rev_fq=get_input_files(make_dir,input_file,data_type,dirpath)
-      input_file = for_fq #-k will just use forward because not all reads were used
-      os.chdir(make_dir)
-      f = open(ex_dir + '/antigens.pickle', 'rb')
-      lib_dict = pickle.load(f)
-      f.close
-      input_Ks=get_input_K(input_file,lib_dict,data_type,k_size)
-      O_dict,H_dict,Special_dict=get_kmer_dict(lib_dict,input_Ks)
-      highest_O,highest_fliC,highest_fljB=call_O_and_H_type(O_dict,H_dict,Special_dict,make_dir)
-      subspecies=judge_subspecies_Kmer(Special_dict)
-      if subspecies=="IIb" or subspecies=="IIa":
-        subspecies="II"
-      predict_form,predict_sero,star,star_line,claim = seqsero_from_formula_to_serotypes(
-          highest_O.split('-')[1], highest_fliC, highest_fljB, Special_dict,subspecies)
-      claim="" #no claim any more based on new output requirement
-      #if star_line+claim=="": #0413, new output style
-      #  note=""
-      #else:
-      #  note="Note:"
-
-      ### ed_SL_11232019: add notes for missing antigen
-      if highest_O.split('-')[-1]=="":
-        O_choice="-"
-      else:
-        O_choice=highest_O.split('-')[-1]
-      antigen_note,NA_note=check_antigens(subspecies,O_choice,highest_fliC,highest_fljB,NA_note)
-      if sample_name:
-        print ("Sample name:\t"+sample_name)
-      ###
-
-      if clean_mode:
-        subprocess.check_call("rm -rf ../"+make_dir,shell=True)
-        make_dir="none-output-directory due to '-c' flag"
-      #  ### ed_SL_05282019, fix the assignment issue of variable 'O_choice' using "-m k -c"
-      #  if highest_O.split('-')[-1]=="":
-      #    O_choice="-"
-      #  else:
-      #    O_choice=highest_O.split('-')[-1]
-      #  ###
-      else:
-      #  if highest_O.split('-')[-1]=="":
-      #    O_choice="-"
-      #  else:
-      #    O_choice=highest_O.split('-')[-1]
-        #print("Output_directory:"+make_dir+"\tInput_file:"+input_file+"\tPredicted subpecies:"+subspecies + '\tPredicted antigenic profile:' + predict_form + '\tPredicted serotype(s):' + predict_sero)
-        new_file=open("SeqSero_result.txt","w")
-        #new_file.write("Output_directory:"+make_dir+"\nInput files:\t"+input_file+"\n"+"O antigen prediction:\t"+O_choice+"\n"+"H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+"H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+"Predicted antigenic profile:\t"+predict_form+"\n"+"Predicted subspecies:\t"+subspecies+"\n"+"Predicted serotype(s):\t"+predict_sero+star+"\n"+star+star_line+claim+"\n")#+##
-        ### ed_SL_01152020: add new output
-        tsv_file=open("SeqSero_result.tsv","w")
-        if ingore_header:
-          pass
-        else:
-          tsv_file.write("Sample name\tOutput directory\tInput files\tO antigen prediction\tH1 antigen prediction(fliC)\tH2 antigen prediction(fljB)\tPredicted subspecies\tPredicted antigenic profile\tPredicted serotype\tNote\n")
-        if sample_name: 
-          new_file.write("Sample name:\t"+sample_name+"\n")
-          tsv_file.write(sample_name+'\t')
-        else:
-          tsv_file.write(input_file.split('/')[-1]+'\t')
-        ###
-        if "N/A" not in predict_sero:
-          new_file.write("Output directory:\t"+make_dir+"\n"+
-                         "Input files:\t"+input_file+"\n"+
-                         "O antigen prediction:\t"+O_choice+"\n"+
-                         "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-                         "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-                         "Predicted subspecies:\t"+subspecies+"\n"+
-                         "Predicted antigenic profile:\t"+predict_form+"\n"+
-                         "Predicted serotype:\t"+predict_sero+"\n"+
-                         note+star_line+claim+antigen_note+"\n")#+##
-          tsv_file.write(make_dir+"\t"+input_file+"\t"+O_choice+"\t"+highest_fliC+"\t"+highest_fljB+"\t"+subspecies+"\t"+predict_form+"\t"+predict_sero+"\t"+star_line+claim+antigen_note+"\n")
-        else:
-          #star_line=star_line.strip()+"\tNone such antigenic formula in KW.\n"
-          star_line = "" #changed for new output requirement, 04132019
-          new_file.write("Output directory:\t"+make_dir+"\n"+
-                         "Input files:\t"+input_file+"\n"+
-                         "O antigen prediction:\t"+O_choice+"\n"+
-                         "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-                         "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-                         "Predicted subspecies:\t"+subspecies+"\n"+
-                         "Predicted antigenic profile:\t"+predict_form+"\n"+
-                         "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-                         note+NA_note+star_line+claim+antigen_note+"\n")#+##
-          tsv_file.write(make_dir+"\t"+input_file+"\t"+O_choice+"\t"+highest_fliC+"\t"+highest_fljB+"\t"+subspecies+"\t"+predict_form+"\t"+subspecies+' '+predict_form+"\t"+NA_note+star_line+claim+antigen_note+"\n")
-        new_file.close()
-        tsv_file.close()
-        subprocess.call("rm *.fasta* *.fastq *.gz *.fq temp.txt *.sra 2> /dev/null",shell=True)
-      if "N/A" not in predict_sero:
-        print("Output directory:\t"+make_dir+"\n"+
-              "Input files:\t"+input_file+"\n"+
-              "O antigen prediction:\t"+O_choice+"\n"+
-              "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-              "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-              "Predicted subspecies:\t"+subspecies+"\n"+
-              "Predicted antigenic profile:\t"+predict_form+"\n"+
-              "Predicted serotype:\t"+predict_sero+"\n"+
-              note+star_line+claim+antigen_note+"\n")#+##
-      else:
-        print("Output directory:\t"+make_dir+"\n"+
-              "Input files:\t"+input_file+"\n"+
-              "O antigen prediction:\t"+O_choice+"\n"+
-              "H1 antigen prediction(fliC):\t"+highest_fliC+"\n"+
-              "H2 antigen prediction(fljB):\t"+highest_fljB+"\n"+
-              "Predicted subspecies:\t"+subspecies+"\n"+
-              "Predicted antigenic profile:\t"+predict_form+"\n"+
-              "Predicted serotype:\t"+subspecies+' '+predict_form+"\n"+ # add serotype output for "N/A" prediction, subspecies
-              note+NA_note+star_line+claim+antigen_note+"\n")#+##
-
-if __name__ == '__main__':
-  main()
diff -r d0350fe29fdf -r 8e36dd436ac4 build/scripts-3.6/SeqSero2_update_kmer_database.py
--- a/build/scripts-3.6/SeqSero2_update_kmer_database.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,113 +0,0 @@
-#!/gal2001/Seqserotest/env/bin/python
-
-import argparse
-import os,subprocess
-import pickle
-
-### SeqSero Kmer
-def parse_args():
-    "Parse the input arguments, use '-h' for help."
-    parser = argparse.ArgumentParser(usage='Just type "SeqSero2_update_kmer_database.py", it will update kmer database automatically')
-    return parser.parse_args()
-
-def reverse_complement(sequence):
-    complement = {
-        'A': 'T',
-        'C': 'G',
-        'G': 'C',
-        'T': 'A',
-        'N': 'N',
-        'M': 'K',
-        'R': 'Y',
-        'W': 'W',
-        'S': 'S',
-        'Y': 'R',
-        'K': 'M',
-        'V': 'B',
-        'H': 'D',
-        'D': 'H',
-        'B': 'V'
-    }
-    return "".join(complement[base] for base in reversed(sequence))
-
-def multifasta_dict(multifasta):
-    multifasta_list = [
-        line.strip() for line in open(multifasta, 'r') if len(line.strip()) > 0
-    ]
-    headers = [i for i in multifasta_list if i[0] == '>']
-    multifasta_dict = {}
-    for h in headers:
-        start = multifasta_list.index(h)
-        for element in multifasta_list[start + 1:]:
-            if element[0] == '>':
-                break
-            else:
-                if h[1:] in multifasta_dict:
-                    multifasta_dict[h[1:]] += element
-                else:
-                    multifasta_dict[h[1:]] = element
-    return multifasta_dict
-
-def createKmerDict_reads(list_of_strings, kmer):
-    kmer_table = {}
-    for string in list_of_strings:
-        sequence = string.strip('\n')
-        for i in range(len(sequence) - kmer + 1):
-            new_mer = sequence[i:i + kmer].upper()
-            new_mer_rc = reverse_complement(new_mer)
-            if new_mer in kmer_table:
-                kmer_table[new_mer.upper()] += 1
-            else:
-                kmer_table[new_mer.upper()] = 1
-            if new_mer_rc in kmer_table:
-                kmer_table[new_mer_rc.upper()] += 1
-            else:
-                kmer_table[new_mer_rc.upper()] = 1
-    return kmer_table
-
-def multifasta_to_kmers_dict(multifasta):
-    multi_seq_dict = multifasta_dict(multifasta)
-    lib_dict = {}
-    for h in multi_seq_dict:
-        lib_dict[h] = set(
-            [k for k in createKmerDict_reads([multi_seq_dict[h]], 27)])
-    return lib_dict
-
-def get_salmid_invA_database(ex_dir):
-  # read invA kmer and return it
-  a = open(ex_dir + '/invA_mers_dict', 'rb')
-  invA_dict = pickle.load(a)
-  try:
-    del invA_dict['version']
-  except:
-    pass
-  return invA_dict
-
-def get_salmid_rpoB_database(ex_dir):
-  # read invA kmer and return it
-  a = open(ex_dir + '/rpoB_mers_dict', 'rb')
-  rpoB_dict = pickle.load(a)
-  try:
-    del rpoB_dict['version']
-  except:
-    pass
-  return rpoB_dict
-
-def main():
-  args = parse_args()
-  ex_dir = os.path.dirname(os.path.realpath(__file__))
-  lib_dict = multifasta_to_kmers_dict(ex_dir + '/H_and_O_and_specific_genes.fasta')
-  invA_dict=get_salmid_invA_database(ex_dir)
-  #rpoB_dict=get_salmid_rpoB_database(ex_dir)
-  lib_dict_new = lib_dict.copy()
-  #print(len(lib_dict_new))
-  lib_dict_new.update(invA_dict)
-  #print(len(lib_dict_new))
-  #lib_dict_new.update(rpoB_dict)
-  #print(len(lib_dict_new))
-  f = open(ex_dir + '/antigens.pickle', "wb")
-  pickle.dump(lib_dict_new, f)
-  f.close()
-
-if __name__ == '__main__':
-  main()
diff -r d0350fe29fdf -r 8e36dd436ac4 build/scripts-3.6/deinterleave_fastq.sh
--- a/build/scripts-3.6/deinterleave_fastq.sh	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,30 +0,0 @@
-#!/bin/bash
-# Usage: deinterleave_fastq.sh < interleaved.fastq f.fastq r.fastq [compress]
-# 
-# Deinterleaves a FASTQ file of paired reads into two FASTQ
-# files specified on the command line. Optionally GZip compresses the output
-# FASTQ files using pigz if the 3rd command line argument is the word "compress"
-# 
-# Can deinterleave 100 million paired reads (200 million total
-# reads; a 43Gbyte file), in memory (/dev/shm), in 4m15s (255s)
-# 
-# Latest code: https://gist.github.com/3521724
-# Also see my interleaving script: https://gist.github.com/4544979
-# 
-# Inspired by Torsten Seemann's blog post:
-# http://thegenomefactory.blogspot.com.au/2012/05/cool-use-of-unix-paste-with-ngs.html
-
-# Set up some defaults
-GZIP_OUTPUT=0
-PIGZ_COMPRESSION_THREADS=10
-
-# If the third argument is the word "compress" then we'll compress the output using pigz
-if [[ $3 == "compress" ]]; then
-  GZIP_OUTPUT=1
-fi
-
-if [[ ${GZIP_OUTPUT} == 0 ]]; then
-  paste - - - - - - - -  | tee >(cut -f 1-4 | tr "\t" "\n" > $1) | cut -f 5-8 | tr "\t" "\n" > $2
-else
-  paste - - - - - - - -  | tee >(cut -f 1-4 | tr "\t" "\n" | pigz --best --processes ${PIGZ_COMPRESSION_THREADS} > $1) | cut -f 5-8 | tr "\t" "\n" | pigz --best --processes ${PIGZ_COMPRESSION_THREADS} > $2
-fi
diff -r d0350fe29fdf -r 8e36dd436ac4 salmid/__init__.py
diff -r d0350fe29fdf -r 8e36dd436ac4 salmid/core.py
--- a/salmid/core.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,386 +0,0 @@
-#!/usr/bin/env python3
-
-
-import gzip
-import io
-import pickle
-import os
-import sys
-
-from argparse import ArgumentParser
-try:
-    from .version import SalmID_version
-except ImportError:
-    SalmID_version = "version unknown"
-
-
-def reverse_complement(sequence):
-    """return the reverse complement of a nucleotide (including IUPAC ambiguous nuceotide codes)"""
-    complement = {'A': 'T', 'C': 'G', 'G': 'C', 'T': 'A', 'N': 'N', 'M': 'K', 'R': 'Y', 'W': 'W',
-                            'S': 'S', 'Y': 'R', 'K': 'M', 'V': 'B', 'H': 'D', 'D': 'H', 'B': 'V'}
-    return "".join(complement[base] for base in reversed(sequence))
-
-
-def parse_args():
-    "Parse the input arguments, use '-h' for help."
-    parser = ArgumentParser(description='SalmID - rapid Kmer based Salmonella identifier from sequence data')
-    # inputs
-    parser.add_argument('-v', '--version', action='version', version='%(prog)s ' + SalmID_version)
-    parser.add_argument(
-        '-i', '--input_file', type=str, required=False, default='None', metavar='your_fastqgz',
-        help='Single fastq.gz file input, include path to file if file is not in same directory ')
-    parser.add_argument(
-        '-e', '--extension', type=str, required=False, default='.fastq.gz', metavar='file_extension',
-        help='File extension, if specified without "--input_dir", SalmID will attempt to ID all files\n' +
-             ' with this extension in current directory, otherwise files in input directory')
-
-    parser.add_argument(
-        '-d', '--input_dir', type=str, required=False, default='.', metavar='directory',
-        help='Directory which contains data for identification, when not specified files in current directory will be analyzed.')
-    parser.add_argument(
-        '-r', '--report', type=str, required=False, default='percentage', metavar='percentage, coverage or taxonomy',
-        help='Report either percentage ("percentage") of clade specific kmers recovered, average kmer-coverage ("cov"), or '
-             'taxonomy (taxonomic species ID, plus observed mean k-mer coverages and expected coverage).')
-    parser.add_argument(
-        '-m', '--mode', type=str, required=False, default='quick', metavar='quick or thorough',
-        help='Quick [quick] or thorough [thorough] mode')
-    if len(sys.argv) == 1:
-        parser.print_help(sys.stderr)
-        sys.exit(1)
-    return parser.parse_args()
-
-
-def get_av_read_length(file):
-    """Samples the first 100 reads from a fastq file and return the average read length."""
-    i = 1
-    n_reads = 0
-    total_length = 0
-    if file.endswith(".gz"):
-        file_content = io.BufferedReader(gzip.open(file))
-    else:
-        file_content = open(file, "r").readlines()
-    for line in file_content:
-        if i % 4 == 2:
-            total_length += len(line.strip())
-            n_reads += 1
-        i += 1
-        if n_reads == 100:
-            break
-    return total_length / 100
-
-
-def createKmerDict_reads(list_of_strings, kmer):
-    """Count occurence of K-mers in a list of strings
-
-    Args:
-        list_of_strings(list of str): nucleotide sequences as a list of strings
-        kmer(int): length of the K-mer to count
-
-    Returns:
-        dict: dictionary with kmers as keys, counts for each kmer as values"""
-    kmer_table = {}
-    for string in list_of_strings:
-        sequence = string.strip('\n')
-        if len(sequence) >= kmer:
-            for i in range(len(sequence) - kmer + 1):
-                new_mer = sequence[i:i + kmer]
-                new_mer_rc = reverse_complement(new_mer)
-                if new_mer in kmer_table:
-                    kmer_table[new_mer.upper()] += 1
-                else:
-                    kmer_table[new_mer.upper()] = 1
-                if new_mer_rc in kmer_table:
-                    kmer_table[new_mer_rc.upper()] += 1
-                else:
-                    kmer_table[new_mer_rc.upper()] = 1
-    return kmer_table
-
-
-def target_read_kmerizer_multi(file, k, kmerDict_1, kmerDict_2, mode):
-    mean_1 = None
-    mean_2 = None
-    i = 1
-    n_reads_1 = 0
-    n_reads_2 = 0
-    total_coverage_1 = 0
-    total_coverage_2 = 0
-    reads_1 = []
-    reads_2 = []
-    total_reads = 0
-    if file.endswith(".gz"):
-        file_content = io.BufferedReader(gzip.open(file))
-    else:
-        file_content = open(file, "r").readlines()
-    for line in file_content:
-        start = int((len(line) - k) // 2)
-        if i % 4 == 2:
-            total_reads += 1
-            if file.endswith(".gz"):
-                s1 = line[start:k + start].decode()
-                line = line.decode()
-            else:
-                s1 = line[start:k + start]
-            if s1 in kmerDict_1:
-                n_reads_1 += 1
-                total_coverage_1 += len(line)
-                reads_1.append(line)
-            if s1 in kmerDict_2:
-                n_reads_2 += 1
-                total_coverage_2 += len(line)
-                reads_2.append(line)
-        i += 1
-        if mode == 'quick':
-            if total_coverage_2 >= 800000:
-                break
-
-    if len(reads_1) == 0:
-        kmer_Dict1 = {}
-    else:
-        kmer_Dict1 = createKmerDict_reads(reads_1, k)
-        mers_1 = set([key for key in kmer_Dict1])
-        mean_1 = sum([kmer_Dict1[key] for key in kmer_Dict1]) / len(mers_1)
-    if len(reads_2) == 0:
-        kmer_Dict2 = {}
-    else:
-        kmer_Dict2 = createKmerDict_reads(reads_2, k)
-        mers_2 = set([key for key in kmer_Dict2])
-        mean_2 = sum([kmer_Dict2[key] for key in kmer_Dict2]) / len(mers_2)
-    return kmer_Dict1, kmer_Dict2, mean_1, mean_2, total_reads
-
-
-def mean_cov_selected_kmers(iterable, kmer_dict, clade_specific_kmers):
-    '''
-    Given an iterable (list, set, dictrionary) returns mean coverage for the kmers in iterable
-    :param iterable: set, list or dictionary containing kmers
-    :param kmer_dict: dictionary with kmers as keys, kmer-frequency as value
-    :param  clade_specific_kmers: list, dict or set of clade specific kmers
-    :return: mean frequency as float
-    '''
-    if len(iterable) == 0:
-        return 0
-    return sum([kmer_dict[value] for value in iterable]) / len(clade_specific_kmers)
-
-
-def kmer_lists(query_fastq_gz, k,
-               allmers, allmers_rpoB,
-               uniqmers_bongori,
-               uniqmers_I,
-               uniqmers_IIa,
-               uniqmers_IIb,
-               uniqmers_IIIa,
-               uniqmers_IIIb,
-               uniqmers_IV,
-               uniqmers_VI,
-               uniqmers_VII,
-               uniqmers_VIII,
-               uniqmers_bongori_rpoB,
-               uniqmers_S_enterica_rpoB,
-               uniqmers_Escherichia_rpoB,
-               uniqmers_Listeria_ss_rpoB,
-               uniqmers_Lmono_rpoB,
-               mode):
-    dict_invA, dict_rpoB, mean_invA, mean_rpoB, total_reads = target_read_kmerizer_multi(query_fastq_gz, k, allmers,
-                                                                                         allmers_rpoB, mode)
-    target_mers_invA = set([key for key in dict_invA])
-    target_mers_rpoB = set([key for key in dict_rpoB])
-    if target_mers_invA == 0:
-        print('No reads found matching invA, no Salmonella in sample?')
-    else:
-        p_bongori = (len(uniqmers_bongori & target_mers_invA) / len(uniqmers_bongori)) * 100
-        p_I = (len(uniqmers_I & target_mers_invA) / len(uniqmers_I)) * 100
-        p_IIa = (len(uniqmers_IIa & target_mers_invA) / len(uniqmers_IIa)) * 100
-        p_IIb = (len(uniqmers_IIb & target_mers_invA) / len(uniqmers_IIb)) * 100
-        p_IIIa = (len(uniqmers_IIIa & target_mers_invA) / len(uniqmers_IIIa)) * 100
-        p_IIIb = (len(uniqmers_IIIb & target_mers_invA) / len(uniqmers_IIIb)) * 100
-        p_VI = (len(uniqmers_VI & target_mers_invA) / len(uniqmers_VI)) * 100
-        p_IV = (len(uniqmers_IV & target_mers_invA) / len(uniqmers_IV)) * 100
-        p_VII = (len(uniqmers_VII & target_mers_invA) / len(uniqmers_VII)) * 100
-        p_VIII = (len(uniqmers_VIII & target_mers_invA) / len(uniqmers_VIII)) * 100
-        p_bongori_rpoB = (len(uniqmers_bongori_rpoB & target_mers_rpoB) / len(uniqmers_bongori_rpoB)) * 100
-        p_Senterica = (len(uniqmers_S_enterica_rpoB & target_mers_rpoB) / len(uniqmers_S_enterica_rpoB)) * 100
-        p_Escherichia = (len(uniqmers_Escherichia_rpoB & target_mers_rpoB) / len(uniqmers_Escherichia_rpoB)) * 100
-        p_Listeria_ss = (len(uniqmers_Listeria_ss_rpoB & target_mers_rpoB) / len(uniqmers_Listeria_ss_rpoB)) * 100
-        p_Lmono = (len(uniqmers_Lmono_rpoB & target_mers_rpoB) / len(uniqmers_Lmono_rpoB)) * 100
-        bongori_invA_cov = mean_cov_selected_kmers(uniqmers_bongori & target_mers_invA, dict_invA, uniqmers_bongori)
-        I_invA_cov = mean_cov_selected_kmers(uniqmers_I & target_mers_invA, dict_invA, uniqmers_I)
-        IIa_invA_cov = mean_cov_selected_kmers(uniqmers_IIa & target_mers_invA, dict_invA, uniqmers_IIa)
-        IIb_invA_cov = mean_cov_selected_kmers(uniqmers_IIb & target_mers_invA, dict_invA, uniqmers_IIb)
-        IIIa_invA_cov = mean_cov_selected_kmers(uniqmers_IIIa & target_mers_invA, dict_invA, uniqmers_IIIa)
-        IIIb_invA_cov = mean_cov_selected_kmers(uniqmers_IIIb & target_mers_invA, dict_invA, uniqmers_IIIb)
-        IV_invA_cov = mean_cov_selected_kmers(uniqmers_IV & target_mers_invA, dict_invA, uniqmers_IV)
-        VI_invA_cov = mean_cov_selected_kmers(uniqmers_VI & target_mers_invA, dict_invA, uniqmers_VI)
-        VII_invA_cov = mean_cov_selected_kmers(uniqmers_VII & target_mers_invA, dict_invA, uniqmers_VII)
-        VIII_invA_cov = mean_cov_selected_kmers(uniqmers_VIII & target_mers_invA, dict_invA, uniqmers_VIII)
-        S_enterica_rpoB_cov = mean_cov_selected_kmers((uniqmers_S_enterica_rpoB & target_mers_rpoB), dict_rpoB,
-                                                      uniqmers_S_enterica_rpoB)
-        S_bongori_rpoB_cov = mean_cov_selected_kmers((uniqmers_bongori_rpoB & target_mers_rpoB), dict_rpoB,
-                                                     uniqmers_bongori_rpoB)
-        Escherichia_rpoB_cov = mean_cov_selected_kmers((uniqmers_Escherichia_rpoB & target_mers_rpoB), dict_rpoB,
-                                                       uniqmers_Escherichia_rpoB)
-        Listeria_ss_rpoB_cov = mean_cov_selected_kmers((uniqmers_Listeria_ss_rpoB & target_mers_rpoB), dict_rpoB,
-                                                       uniqmers_Listeria_ss_rpoB)
-        Lmono_rpoB_cov = mean_cov_selected_kmers((uniqmers_Lmono_rpoB & target_mers_rpoB), dict_rpoB,
-                                                 uniqmers_Lmono_rpoB)
-        coverages = [Listeria_ss_rpoB_cov, Lmono_rpoB_cov, Escherichia_rpoB_cov, S_bongori_rpoB_cov,
-                     S_enterica_rpoB_cov, bongori_invA_cov, I_invA_cov, IIa_invA_cov, IIb_invA_cov,
-                     IIIa_invA_cov, IIIb_invA_cov, IV_invA_cov, VI_invA_cov, VII_invA_cov, VIII_invA_cov]
-        locus_scores = [p_Listeria_ss, p_Lmono, p_Escherichia, p_bongori_rpoB, p_Senterica, p_bongori,
-                        p_I, p_IIa, p_IIb, p_IIIa, p_IIIb, p_IV, p_VI, p_VII, p_VIII]
-    return locus_scores, coverages, total_reads
-
-
-def report_taxon(locus_covs, average_read_length, number_of_reads):
-    list_taxa = [ 'Listeria ss', 'Listeria monocytogenes', 'Escherichia sp.',  # noqa: E201
-                  'Salmonella bongori (rpoB)', 'Salmonella enterica (rpoB)',
-                  'Salmonella bongori (invA)', 'S. enterica subsp. enterica (invA)',
-                  'S. enterica subsp. salamae (invA: clade a)', 'S. enterica subsp. salamae (invA: clade b)',
-                  'S. enterica subsp. arizonae (invA)', 'S. enterica subsp. diarizonae (invA)',
-                  'S. enterica subsp. houtenae (invA)', 'S. enterica subsp. indica (invA)',
-                  'S. enterica subsp. VII (invA)', 'S. enterica subsp. salamae (invA: clade VIII)' ]  # noqa: E202
-    if sum(locus_covs) < 1:
-        rpoB = ('No rpoB matches!', 0)
-        invA = ('No invA matches!', 0)
-        return rpoB, invA, 0.0
-    else:
-        # given list of scores get taxon
-        if sum(locus_covs[0:5]) > 0:
-            best_rpoB = max(range(len(locus_covs[1:5])), key=lambda x: locus_covs[1:5][x]) + 1
-            all_rpoB = max(range(len(locus_covs[0:5])), key=lambda x: locus_covs[0:5][x])
-            if (locus_covs[best_rpoB] != 0) & (all_rpoB == 0):
-                rpoB = (list_taxa[best_rpoB], locus_covs[best_rpoB])
-            elif (all_rpoB == 0) & (round(sum(locus_covs[1:5]), 1) < 1):
-                rpoB = (list_taxa[0], locus_covs[0])
-            else:
-                rpoB = (list_taxa[best_rpoB], locus_covs[best_rpoB])
-        else:
-            rpoB = ('No rpoB matches!', 0)
-        if sum(locus_covs[5:]) > 0:
-            best_invA = max(range(len(locus_covs[5:])), key=lambda x: locus_covs[5:][x]) + 5
-            invA = (list_taxa[best_invA], locus_covs[best_invA])
-        else:
-            invA = ('No invA matches!', 0)
-        if 'Listeria' in rpoB[0]:
-            return rpoB, invA, (average_read_length * number_of_reads) / 3000000
-        else:
-            return rpoB, invA, (average_read_length * number_of_reads) / 5000000
-
-
-def main():
-    ex_dir = os.path.dirname(os.path.realpath(__file__))
-    args = parse_args()
-    input_file = args.input_file
-    if input_file != 'None':
-        files = [input_file]
-    else:
-        extension = args.extension
-        inputdir = args.input_dir
-        files = [inputdir + '/' + f for f in os.listdir(inputdir) if f.endswith(extension)]
-    report = args.report
-    mode = args.mode
-    f_invA = open(ex_dir + "/invA_mers_dict", "rb")
-    sets_dict_invA = pickle.load(f_invA)
-    f_invA.close()
-    allmers = sets_dict_invA['allmers']
-    uniqmers_I = sets_dict_invA['uniqmers_I']
-    uniqmers_IIa = sets_dict_invA['uniqmers_IIa']
-    uniqmers_IIb = sets_dict_invA['uniqmers_IIb']
-    uniqmers_IIIa = sets_dict_invA['uniqmers_IIIa']
-    uniqmers_IIIb = sets_dict_invA['uniqmers_IIIb']
-    uniqmers_IV = sets_dict_invA['uniqmers_IV']
-    uniqmers_VI = sets_dict_invA['uniqmers_VI']
-    uniqmers_VII = sets_dict_invA['uniqmers_VII']
-    uniqmers_VIII = sets_dict_invA['uniqmers_VIII']
-    uniqmers_bongori = sets_dict_invA['uniqmers_bongori']
-
-    f = open(ex_dir + "/rpoB_mers_dict", "rb")
-    sets_dict = pickle.load(f)
-    f.close()
-
-    allmers_rpoB = sets_dict['allmers']
-    uniqmers_bongori_rpoB = sets_dict['uniqmers_bongori']
-    uniqmers_S_enterica_rpoB = sets_dict['uniqmers_S_enterica']
-    uniqmers_Escherichia_rpoB = sets_dict['uniqmers_Escherichia']
-    uniqmers_Listeria_ss_rpoB = sets_dict['uniqmers_Listeria_ss']
-    uniqmers_Lmono_rpoB = sets_dict['uniqmers_L_mono']
-    # todo: run kmer_lists() once, create list of tuples containing data to be used fro different reports
-    if report == 'taxonomy':
-        print('file\trpoB\tinvA\texpected coverage')
-        for f in files:
-            locus_scores, coverages, reads = kmer_lists(f, 27,
-                                                        allmers, allmers_rpoB,
-                                                        uniqmers_bongori,
-                                                        uniqmers_I,
-                                                        uniqmers_IIa,
-                                                        uniqmers_IIb,
-                                                        uniqmers_IIIa,
-                                                        uniqmers_IIIb,
-                                                        uniqmers_IV,
-                                                        uniqmers_VI,
-                                                        uniqmers_VII,
-                                                        uniqmers_VIII,
-                                                        uniqmers_bongori_rpoB,
-                                                        uniqmers_S_enterica_rpoB,
-                                                        uniqmers_Escherichia_rpoB,
-                                                        uniqmers_Listeria_ss_rpoB,
-                                                        uniqmers_Lmono_rpoB,
-                                                        mode)
-            pretty_covs = [round(cov, 1) for cov in coverages]
-            report = report_taxon(pretty_covs, get_av_read_length(f), reads)
-            print(f.split('/')[-1] + '\t' + report[0][0] + '[' + str(report[0][1]) + ']' + '\t' + report[1][0] +
-                  '[' + str(report[1][1]) + ']' +
-                  '\t' + str(round(report[2], 1)))
-    else:
-        print(
-        'file\tListeria sensu stricto (rpoB)\tL. monocytogenes (rpoB)\tEscherichia spp. (rpoB)\tS. bongori (rpoB)\tS. enterica' +  # noqa: E122
-        '(rpoB)\tS. bongori (invA)\tsubsp. I (invA)\tsubsp. II (clade a: invA)\tsubsp. II' +  # noqa: E122
-        ' (clade b: invA)\tsubsp. IIIa (invA)\tsubsp. IIIb (invA)\tsubsp.IV (invA)\tsubsp. VI (invA)\tsubsp. VII (invA)' +  # noqa: E122
-        '\tsubsp. II (clade VIII : invA)')
-        if report == 'percentage':
-            for f in files:
-                locus_scores, coverages, reads = kmer_lists(f, 27,
-                                                            allmers, allmers_rpoB,
-                                                            uniqmers_bongori,
-                                                            uniqmers_I,
-                                                            uniqmers_IIa,
-                                                            uniqmers_IIb,
-                                                            uniqmers_IIIa,
-                                                            uniqmers_IIIb,
-                                                            uniqmers_IV,
-                                                            uniqmers_VI,
-                                                            uniqmers_VII,
-                                                            uniqmers_VIII,
-                                                            uniqmers_bongori_rpoB,
-                                                            uniqmers_S_enterica_rpoB,
-                                                            uniqmers_Escherichia_rpoB,
-                                                            uniqmers_Listeria_ss_rpoB,
-                                                            uniqmers_Lmono_rpoB,
-                                                            mode)
-                pretty_scores = [str(round(score)) for score in locus_scores]
-                print(f.split('/')[-1] + '\t' + '\t'.join(pretty_scores))
-        else:
-            for f in files:
-                locus_scores, coverages, reads = kmer_lists(f, 27,
-                                                            allmers, allmers_rpoB,
-                                                            uniqmers_bongori,
-                                                            uniqmers_I,
-                                                            uniqmers_IIa,
-                                                            uniqmers_IIb,
-                                                            uniqmers_IIIa,
-                                                            uniqmers_IIIb,
-                                                            uniqmers_IV,
-                                                            uniqmers_VI,
-                                                            uniqmers_VII,
-                                                            uniqmers_VIII,
-                                                            uniqmers_bongori_rpoB,
-                                                            uniqmers_S_enterica_rpoB,
-                                                            uniqmers_Escherichia_rpoB,
-                                                            uniqmers_Listeria_ss_rpoB,
-                                                            uniqmers_Lmono_rpoB,
-                                                            mode)
-                pretty_covs = [str(round(cov, 1)) for cov in coverages]
-                print(f.split('/')[-1] + '\t' + '\t'.join(pretty_covs))
-
-
-if __name__ == '__main__':
-    main()
-
diff -r d0350fe29fdf -r 8e36dd436ac4 salmid/invA_mers_dict
Binary file salmid/invA_mers_dict has changed
diff -r d0350fe29fdf -r 8e36dd436ac4 salmid/rpoB_mers_dict
Binary file salmid/rpoB_mers_dict has changed
diff -r d0350fe29fdf -r 8e36dd436ac4 salmid/version.py
--- a/salmid/version.py	Mon Apr 27 01:11:53 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-SalmID_version = '0.1.23'