# HG changeset patch # User fubar # Date 1692164952 0 # Node ID ef644fd49e989f0f0dc846b3bb7460dea79c2f86 first commit diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/Galaxy-History-cmsearch.tar.gz Binary file cmsearch_tblout_deoverlap_tool/Galaxy-History-cmsearch.tar.gz has changed diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/LICENSE --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmsearch_tblout_deoverlap_tool/LICENSE Wed Aug 16 05:49:12 2023 +0000 @@ -0,0 +1,47 @@ +MIT License + +Copyright (c) 2023 Ross + +Permission is hereby granted, free of charge, to any person obtaining a copy +of this software and associated documentation files (the "Software"), to deal +in the Software without restriction, including without limitation the rights +to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +copies of the Software, and to permit persons to whom the Software is +furnished to do so, subject to the following conditions: + +The above copyright notice and this permission notice shall be included in all +copies or substantial portions of the Software. + +THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE +SOFTWARE. + +The wrapped perl script has the following license + +============================================================== + PUBLIC DOMAIN NOTICE + National Center for Biotechnology Information + +This software is a "United States Government Work" under the terms of +the United States Copyright Act. It was written as part of the +authors' official duties as United States Government employees and +thus cannot be copyrighted. This software is freely available to the +public for use. The National Library of Medicine and the +U.S. Government have not placed any restriction on its use or +reproduction. + +Although all reasonable efforts have been taken to ensure the accuracy +and reliability of the software and data, the NLM and the U.S. +Government do not and cannot warrant the performance or results that +may be obtained by using this software or data. The NLM and the U.S. +Government disclaim all warranties, express or implied, including +warranties of performance, merchantability or fitness for any +particular purpose. + +Please cite the authors in any work or product based on this material. + +============================================================== diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/README.md --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmsearch_tblout_deoverlap_tool/README.md Wed Aug 16 05:49:12 2023 +0000 @@ -0,0 +1,20 @@ +# cmsearch_tblout_deoverlap_tool +Galaxy tool wrapper for https://github.com/nawrockie/cmsearch_tblout_deoverlap + +Tool form currently looks like: + +![Sample out](cmsearch_toolform.png) + +Output looks like: + +![Sample out](cmsearch_sampleout.png) + +Suggestions appreciated. + + +## Tool made with the Galaxy ToolFactory: https://github.com/fubar2/galaxy_tf_overlay + +Importing the Galaxy history in this repository into a ToolFactory instance will allow you to "redo" +the generating job and update anything you want. If you want a new tool, change the tool_id. +Otherwise a new version will be created and ready to distribute. +Keep that updated history because it's the easiest way to adapt the tool starting with the original ToolFactory form. diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/cmsearch-deoverlap_ross.pl --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmsearch_tblout_deoverlap_tool/cmsearch-deoverlap_ross.pl Wed Aug 16 05:49:12 2023 +0000 @@ -0,0 +1,923 @@ +#!/usr/bin/env perl +# +# cmsearch-deoverlap.pl: remove lower scoring overlaps from cmsearch +# --tblout files. +# +# EPN, Mon May 8 08:41:36 2017 +# +# +# Without --maxkeep this script will exactly reproduce how cmscan removes overlapping hits. +# With --maxkeep, it won't. Here's an example to explain the difference: +# +##target name accession query name accession mdl mdl from mdl to seq from seq to strand trunc pass gc bias score E-value inc description of target +##------------------- --------- -------------------- --------- --- -------- -------- -------- -------- ------ ----- ---- ---- ----- ------ --------- --- --------------------- +#1. contig--151565 - LSU_rRNA_eukarya RF02543 hmm 632 2329 410 1883 + - 6 0.48 1.1 726.0 1.1e-216 ! - +#2. contig--151565 - LSU_rRNA_archaea RF02540 hmm 170 2084 12 1882 + - 6 0.47 3.0 490.0 2.3e-145 ! - +#3. contig--151565 - LSU_rRNA_bacteria RF02541 hmm 187 2005 10 1883 + - 6 0.47 5.7 331.4 1.8e-97 ! - +#4. contig--151565 - LSU_rRNA_eukarya RF02543 hmm 29 431 12 366 + - 6 0.41 7.8 100.0 6.3e-28 ! - +# +# hit 1: 410..1883 euk +# hit 2: 12..1182 arc +# hit 3: 10..1883 bac +# hit 4: 12..366 euk +# +# Without --maxkeep (default behavior) hits 2, 3, and 4 will be removed because for all 3, there is a better scoring hit +# that overlaps. +# +# With --maxkeep only hits 2 and 3 will be removed because only those 2 have +# higher scoring hits that overlap with them AND are not removed. If we remove only hits 2 and 3 +# hits 1 and 4 no longer overlap. +# +use strict; +use warnings; +use Getopt::Long; + +my $in_tblout = ""; # name of input tblout file + +my $usage; +$usage = "cmsearch-deoverlap v0.09 [Aug 2023]\n\n"; +$usage .= "Usage:\n\n"; +$usage .= "cmsearch-deoverlap.pl [OPTIONS] \n\tOR\n"; +$usage .= "cmsearch-deoverlap.pl -l [OPTIONS] \n\n"; +$usage .= "\tOPTIONS:\n"; +$usage .= "\t\t-l : single command line argument is a list of tblout files, not a single tblout file\n"; +$usage .= "\t\t-s : sort hits by bit score [default: sort by E-value]\n"; +$usage .= "\t\t-d : run in debugging mode (prints extra info)\n"; +$usage .= "\t\t-v : run in verbose mode (prints all removed and kept hits)\n"; +$usage .= "\t\t--noverlap : define an overlap as >= or more overlapping residues [1]\n"; +$usage .= "\t\t--nhmmer : tblout files are from nhmmer v3.x\n"; +$usage .= "\t\t--hmmsearch : tblout files are from hmmsearch v3.x\n"; +$usage .= "\t\t--cmscan : tblout files are from cmscan v1.1x, not cmsearch\n"; +$usage .= "\t\t--fcmsearch : assert tblout files are cmsearch not cmscan\n"; +$usage .= "\t\t--besthmm : with --hmmsearch, sort by evalue/score of *best* single hit not evalue/score of full seq\n"; +$usage .= "\t\t--clanin : only remove overlaps within clans, read clan info from file [default: remove all overlaps]\n"; +$usage .= "\t\t--invclan : w/--clanin, invert clan behavior: do not remove overlaps within clans, remove all other overlaps\n"; +$usage .= "\t\t--maxkeep : keep hits that only overlap with other hits that are not kept [default: remove all hits with higher scoring overlap]\n"; +$usage .= "\t\t--overlapout : create new tabular file with overlap information in \n"; +$usage .= "\t\t--mdllenin : w/--overlapout, read model lengths from two-token-per-line-file \n"; +$usage .= "\t\t--dirty : keep intermediate files (sorted tblout files)\n\n"; + +my $do_listfile = 0; # set to '1' if -l used +my $rank_by_score = 0; # set to '1' if -s used, rank by score, not evalues +my $do_debug = 0; # set to '1' if -d used +my $be_verbose = 0; # set to '1' if -v used +my $do_cmscan = 0; # set to '1' if --cmscan used +my $do_fcmsearch = 0; # set to '1' if --fcmsearch used +my $noverlap = 1; # set to if --noverlap used +my $in_clanin = undef; # defined if --clanin option used +my $do_invclan = 0; # set to '1' if --invclan used +my $do_nhmmer = 0; # set to '1' if --nhmmer used, input tblout file(s) are from hmmer3's nhmmer +my $do_hmmsearch = 0; # set to '1' if --hmmsearch used, input tblout file(s) are from hmmer3's hmmsearch +my $do_besthmm = 0; # set to '1' if --besthmm used, sorting by evalue/score of best hit with --hmmsearch +my $do_maxkeep = 0; # set to '1' if --maxkeep, only remove hits that have + # higher scoring overlap that is not removed +my $do_dirty = 0; # set to '1' if --dirty used, keep intermediate files +my $out_overlap = undef; # defined if --overlapout used +my $in_mdllen = undef; # defined if --mdllenin used + +&GetOptions( "l" => \$do_listfile, + "s" => \$rank_by_score, + "d" => \$do_debug, + "v" => \$be_verbose, + "cmscan" => \$do_cmscan, + "fcmsearch" => \$do_fcmsearch, + "noverlap=s" => \$noverlap, + "nhmmer" => \$do_nhmmer, + "hmmsearch" => \$do_hmmsearch, + "besthmm" => \$do_besthmm, + "clanin=s" => \$in_clanin, + "invclan" => \$do_invclan, + "maxkeep" => \$do_maxkeep, + "overlapout=s" => \$out_overlap, + "mdllenin=s" => \$in_mdllen, + "dirty" => \$do_dirty, + "in_tblout=s" => \$in_tblout); + +#if(scalar(@ARGV) != 1) { die $usage; } +# ($in_tblout) = @ARGV; + +if($do_hmmsearch && $do_nhmmer) { + die "ERROR, --hmmsearch and --nhmmer cannot be used in combination. Pick one."; +} +if($do_besthmm && (! $do_hmmsearch)) { + die "ERROR, --besthmm requires --hmmsearch."; +} +if($do_invclan && (! defined $in_clanin)) { + die "ERROR, --invclan requires --clanin"; +} +my @tblout_file_A = (); + +if($do_listfile) { + # read the list file + my $list_file = $in_tblout; + open(IN, $list_file) || die "ERROR unable to open $list_file for reading"; + while(my $line = ) { + if($line =~ m/\w/ && $line !~ m/^\#/) { + chomp $line; + if(! -e $line) { die "ERROR file $line read from $list_file does not exist"; } + if(! -s $line) { die "ERROR file $line read from $list_file is empty"; } + push(@tblout_file_A, $line); + } + } + close(IN); +} +else { + $tblout_file_A[0] = ($in_tblout); +} + +my %mdllen_H = (); +if(defined $in_mdllen) { # read this file too + open(IN, $in_mdllen) || die "ERROR unable to open $in_mdllen for reading"; + while(my $line = ) { + chomp $line; + if($line =~ /^(\S+)\s+(\d+)$/) { + $mdllen_H{$1} = $2; + } + else { + die "ERROR unable to parse line in $in_mdllen\n$line\n"; + } + } + close(IN); +} + +my %clan_H = (); # key: model name, value: clan name +if(defined $in_clanin) { + %clan_H = (); + parse_claninfo($in_clanin, \%clan_H) +} + +my $sort_cmd = undef; # command used to sort the tblout file +my $sorted_tblout_file = undef; # sorted tblout file to create, temporarily +my $output_file = undef; # name of output file we create +my $out_FH = undef; # output file handle +my $nkept = undef; # number of sequences kept from a file +my $nremoved = undef; # number of sequences removed from a file + +my $overlap_FH = undef; +if(defined $out_overlap) { + open($overlap_FH, ">", $out_overlap) || die "ERROR unable to open $out_overlap for writing"; + my @fields_A = (); + my %fields_H = (); + push(@fields_A, "target"); + $fields_H{"target"} = "sequence name"; + push(@fields_A, "strand"); + $fields_H{"strand"} = "strand (+ or -)"; + push(@fields_A, "mdl1"); + $fields_H{"mdl1"} = "name of model 1"; + push(@fields_A, "mdl2"); + $fields_H{"mdl2"} = "name of model 2"; + push(@fields_A, "hitlen1"); + $fields_H{"hitlen1"} = "length in sequence positions of hit to model 1"; + push(@fields_A, "hitlen2"); + $fields_H{"hitlen2"} = "length in sequence positions of hit to model 2"; + push(@fields_A, "nres_olap"); + $fields_H{"nres_olap"} = "number of residues that overlap between hit to model 1 and hit to model 2 in 'target' on strand 'strand'"; + push(@fields_A, "score1"); + $fields_H{"score1"} = "score of hit to model 1"; + push(@fields_A, "score2"); + $fields_H{"score2"} = "score of hit to model 2"; + push(@fields_A, "evalue1"); + $fields_H{"evalue1"} = "E-value of hit to model 1"; + push(@fields_A, "evalue2"); + $fields_H{"evalue2"} = "E-value of hit to model 2"; + push(@fields_A, "seqfrom1"); + $fields_H{"seqfrom1"} = "start position in 'target' of hit to model 1"; + push(@fields_A, "seqto1"); + $fields_H{"seqto1"} = "end position in 'target' of hit to model 1"; + push(@fields_A, "seqfrom2"); + $fields_H{"seqfrom2"} = "start position in 'target' of hit to model 2"; + push(@fields_A, "seqto2"); + $fields_H{"seqto2"} = "end position in 'target' of hit to model 2"; + push(@fields_A, "olap-frac-of-hit1"); + $fields_H{"olap-frac-of-hit1"} = "'nres_olap'/'hitlen1'"; + push(@fields_A, "olap-frac-of-hit2"); + $fields_H{"olap-frac-of-hit2"} = "'nres_olap'/'hitlen2'"; + push(@fields_A, "mdllen1"); + $fields_H{"mdllen1"} = "length of model 1 (\"-\" if not available)"; + push(@fields_A, "mdllen2"); + $fields_H{"mdllen2"} = "length of model 2 (\"-\" if not available)"; + push(@fields_A, "olap-frac-of-mdl1"); + $fields_H{"olap-frac-of-mdl1"} = "'nres_olap'/'mdllen1'"; + push(@fields_A, "olap-frac-of-mdl2"); + $fields_H{"olap-frac-of-mdl2"} = "'nres_olap'/'mdllen2'"; + push(@fields_A, "mhitlen1"); + $fields_H{"mhitlen1"} = "length in model positions of hit to model 1"; + push(@fields_A, "mhitlen2"); + $fields_H{"mhitlen2"} = "length in model positions of hit to model 2"; + push(@fields_A, "mhit-frac-of-mdl1"); + $fields_H{"mhit-frac-of-mdl1"} = "'mhitlen1'/'mdllen1'"; + push(@fields_A, "mhit-frac-of-mdl2"); + $fields_H{"mhit-frac-of-mdl2"} = "'mhitlen2'/'mdllen2'"; + push(@fields_A, "desc1"); + $fields_H{"desc1"} = "description for hit to model 1"; + push(@fields_A, "desc2"); + $fields_H{"desc2"} = "description for hit to model 2"; + my $fidx = 1; + my $all_header_line = "#"; + print $overlap_FH ("# cmsearch-deoverlap.pl --overlapout output file\n# Explanation of fields:\n"); + foreach my $field (@fields_A) { + printf $overlap_FH ("# %d. %-20s: %s\n", $fidx, "'" . $field . "'", $fields_H{$field}); + $all_header_line .= sprintf("%s%d:%s", ($fidx == 1) ? "" : " ", $fidx, $field); + $fidx++; + } + print $overlap_FH $all_header_line . "\n"; +} + +foreach my $tblout_file (@tblout_file_A) { + if(! -e $tblout_file) { die "ERROR tblout file $tblout_file does not exist"; } + if(! -s $tblout_file) { die "ERROR tblout file $tblout_file is empty"; } + + # if($rank_by_score): + # sort tblout file by target sequence name, then score, then E-value + # else: + # sort tblout file by target sequence name, then E-value, then score + # + # keys to sort by depend on input tblout file type, which + # is controlled by + # $do_hmmsearch + # $do_nhmmer + # or default if both of those are false + # + $sorted_tblout_file = $tblout_file . ".sort"; + # the 'sed' calls replace multiple spaces with a single one, because sort is weird about multiple spaces sometimes + if($do_hmmsearch) { + if($do_besthmm) { + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 9,9rn -k 8,8g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 8,8g -k 9,9rn > $sorted_tblout_file"; + } + else { # sort by full sequence evalue/score + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 6,6rn -k 5,5g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 5,5g -k 6,6rn > $sorted_tblout_file"; + } + } + elsif($do_nhmmer) { + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 14,14rn -k 13,13g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 13,13g -k 14,14rn > $sorted_tblout_file"; + } + elsif($do_cmscan) { + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 3,3 -k 15,15rn -k 16,16g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 3,3 -k 16,16g -k 15,15rn > $sorted_tblout_file"; + } + else { + # cmsearch, default + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 15,15rn -k 16,16g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 16,16g -k 15,15rn > $sorted_tblout_file"; + } + run_command($sort_cmd, $do_debug); + $output_file = $tblout_file . ".deoverlapped"; + $out_FH = undef; + open($out_FH, ">", $output_file) || die "ERROR unable to open $output_file for writing"; + + ($nkept, $nremoved) = parse_sorted_tblout_file($sorted_tblout_file, + (defined $in_clanin) ? \%clan_H : undef, + (defined $in_mdllen) ? \%mdllen_H : undef, + $do_cmscan, $do_nhmmer, $do_hmmsearch, $do_besthmm, $rank_by_score, $do_maxkeep, $do_debug, $be_verbose, + $out_FH, + (defined $out_overlap) ? $overlap_FH : undef); + close $out_FH; + if(defined $out_overlap) { close $overlap_FH; } + if(! $do_dirty) { + unlink $sorted_tblout_file; + } + printf("Saved %5d hits (%5d removed) to $output_file\n", $nkept, $nremoved); + if(defined $out_overlap) { + printf("Saved tabular information on overlaps to $out_overlap\n"); + } +} + +################################################################# +# Subroutine : parse_sorted_tblout_file() +# Incept: EPN, Mon May 8 08:57:54 2017 +# +# Purpose: Parse a sorted tabular output file, and output +# all hits that do not have a higher scoring overlap. +# +# Arguments: +# $sorted_tbl_file: file with sorted tabular search results +# $clan_HR: ref to hash of clan info, key is model, value is clan, undef unless --clanin +# $mdllen_HR: ref to hash of mdllen info, key is model, value is mdllen, undef unless --mdllenin +# $do_cmscan: '1' if we're parsing cmscan tblout output +# $do_nhmmer: '1' if we're parsing nhmmer tblout output +# $do_hmmsearch: '1' if we're parsing hmmsearch tblout output +# $do_besthmm: '1' if we sorted hmmsearch tblout by best hit +# not by full sequence +# $rank_by_score: '1' if rank is determined by score, '0' if +# determined by E-value +# $do_maxkeep: '1' if --maxkeep option used +# only remove hits with higher scoring overlaps +# *THAT ARE NOT THEMSELVES REMOVED* +# $do_debug; '1' if we should print debugging output +# $be_verbose; '1' if we should be verbose +# $out_FH: file handle to output to +# $overlap_FH: file handle to output overlap info to (if --overlapout) +# +# Returns: Two values: +# $nkept: number of hits saved and output +# $nremoved: number of hits removed and not output +# +# Dies: If we see a line of input that is an an unexpected +# format +# +################################################################# +sub parse_sorted_tblout_file { + my $nargs_expected = 13; + my $sub_name = "parse_sorted_tblout_file"; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($sorted_tbl_file, $clan_HR, $mdllen_HR, + $do_cmscan, $do_nhmmer, $do_hmmsearch, $do_besthmm, $rank_by_score, $do_maxkeep, $do_debug, $be_verbose, + $out_FH, $overlap_FH) = @_; + + my $prv_target = undef; # target name of previous line + my $prv_score = undef; # bit score of previous line + my $prv_evalue = undef; # E-value of previous line + my $clan = undef; # clan of current model + my $nkept = 0; # number of hits kept and output + my $nremoved = 0; # number of hits removed and not output + my $do_clans = (defined $clan_HR) ? 1 : 0; + + open(IN, $sorted_tbl_file) || die "ERROR unable to open sorted tabular file $sorted_tbl_file for reading"; + + my ($target, $tacc, $model, $macc, $domain, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = + (undef, undef, undef, undef, undef, undef, undef, undef, undef, undef, undef, undef, undef); + + my @line_A = (); # array of output lines for kept hits for current sequence + my @seqfrom_A = (); # array of seqfroms for kept hits for current sequence + my @seqto_A = (); # array of seqtos for kept hits for current sequence + my @strand_A = (); # array of strands for kept hits for current sequence + my @clan_A = (); # array of clans for kept hits for current sequence + my @keepme_A = (); # array of '1' and '0', '1' if we should keep this hit, '0' if it had a higher scoring overlap + my @noverlaps_A = (); # array of number of hits (lower scoring) that overlap with this sequence, **only valid for kept hits, -1 for removed hits** + my $nhits = 0; # number of hits for current sequence (size of all arrays) + # arrays only filled if $overlap_FH is defined (if --overlapout was used) + my @mdlfrom_A = (); # array of mdlfroms for kept hits for current sequence + my @mdlto_A = (); # array of mdltos for kept hits for current sequence + my @model_A = (); # array of model names for kept hits for current sequence + my @desc_A = (); # array of descriptions for kept hits for current sequence + my @score_A = (); # array of scores for kept hits for current sequence + my @evalue_A = (); # array of e-values for kept hits for current sequence + my $do_desc = (defined $overlap_FH) ? 1 : 0; + + my %already_seen_H = (); # hash, key is sequence name, value is '1' if we have output info for this sequence + + $prv_evalue = 0.; + while(my $line = ) { + ###################################################### + # Parse the data on this line, this differs depending + # on our annotation method + chomp $line; + $line =~ s/^\s+//; # remove leading whitespace + + if($line =~ m/^\#/) { + die "ERROR, found line that begins with #, input should have these lines removed and be sorted by the first column:$line."; + } + + if($do_hmmsearch) { + ($target, $model, $score, $evalue, $desc) = parse_hmmsearch_tblout_line($line, $do_besthmm, $do_desc); + # hmmsearch --tblout output lacks sequence ranges and strand information + # we want to allow only a single hit to the each target, so we set span as 1..1 + # so that all hits to the same target will 'overlap'. Strand is set as "+" + # so all hits are considered on the same 'strand' for de-overlapping purposes. + $seqfrom = 1; + $seqto = 1; + $strand = "+"; # no strand for hmmsearch output, so we assert + for de-overlapping purposes + $mdlfrom = "-"; + $mdlto = "-"; + } + elsif($do_nhmmer) { + ($target, $tacc, $model, $macc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = parse_nhmmer_tblout_line($line, $do_desc); + } + elsif($do_cmscan) { + # call parse_cmsearch_tblout_line, just reverse $model and $target + ($model, $macc, $target, $tacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = parse_cmsearch_tblout_line($line, $do_desc); + } + else { # default: cmsearch + ($target, $tacc, $model, $macc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = parse_cmsearch_tblout_line($line, $do_desc); + if((! $do_fcmsearch) && ($tacc =~ /^RF\d+/)) { + die "ERROR, target accession $tacc looks like an Rfam accession suggesting this is cmscan tblout output,\ndid you mean to use --cmscan? Use --fcmsearch to assert this is cmsearch output and avoid this error.\n"; + } + } + + $clan = undef; + if(defined $clan_HR) { + if(exists $clan_HR->{$model}) { + $clan = $clan_HR->{$model}; + } + } + + # make sure we didn't output information for this sequence already + if(exists $already_seen_H{$target}) { + die "ERROR found line with target $target previously output, did you sort by sequence name?"; + } + + ############################################################## + # Are we now finished with the previous sequence? + # Yes, if target sequence we just read is different from it + # If yes, output info for it, and re-initialize data structures + # for new sequence just read + if((defined $prv_target) && ($prv_target ne $target)) { + output_one_target($out_FH, $be_verbose, \@line_A, \@keepme_A, \@noverlaps_A); + $already_seen_H{$prv_target} = 1; + @line_A = (); + @seqfrom_A = (); + @seqto_A = (); + @strand_A = (); + @clan_A = (); + @keepme_A = (); + @noverlaps_A = (); + @mdlfrom_A = (); + @mdlto_A = (); + @model_A = (); + @desc_A = (); + @score_A = (); + @evalue_A = (); + $nhits = 0; + } + else { # this is not a new sequence + if(defined $prv_target) { + # make sure that our current score or E-value is less than previous + if($rank_by_score && ($score > $prv_score)) { + die "ERROR found lines with same target [$target] incorrectly sorted by score, did you sort by sequence name and score?"; + } + elsif((! $rank_by_score) && ($evalue < $prv_evalue)) { + die "ERROR found lines with same target [$target] incorrectly sorted by E-value, did you sort by sequence name and E-value?"; + } + } + } + ############################################################## + + # look through all other hits $i on the same strand and see if any of them overlap with this one + # if (! $do_maxkeep) we look at all hits + # if ( $do_maxkeep) we only look at hits that haven't been removed yet + my $keep_me = 1; # set to '0' below if we find a better scoring hit + my $overlap_idx = -1; + my $cur_noverlap = 0; + my $clan_criteria_passed = 1; # set to '1' if --clanin not used OR + # --clanin used and --invclan NOT used and two hits are to families in the same clan + # --clanin used and --invclan IS used and two hits are NOT to families in the same clan + # else set to '0' + for(my $i = 0; $i < $nhits; $i++) { + if($strand_A[$i] eq $strand) { # same strand + if($do_clans) { + if($do_invclan) { + $clan_criteria_passed = (! determine_if_clans_match($clan, $clan_A[$i])); + } + else { + $clan_criteria_passed = determine_if_clans_match($clan, $clan_A[$i]); + } + } + if(($clan_criteria_passed) && # clans match (or don't if --invclan), or --clanin not used + ((! $do_maxkeep) || ($keepme_A[$i] == 1))) { # either --maxkeep not enabled, or this hit is a keepter + if($strand eq "+") { + $cur_noverlap = get_overlap($seqfrom, $seqto, $seqfrom_A[$i], $seqto_A[$i]); + } + elsif($strand eq "-") { + $cur_noverlap = get_overlap($seqto, $seqfrom, $seqto_A[$i], $seqfrom_A[$i]); + } + else { + die "ERROR strand not + or - but $strand for hit $i line:\n$line\n"; + } + if($cur_noverlap >= $noverlap) { + $keep_me = 0; + $overlap_idx = $i; + $i = $nhits; # breaks for loop + } + } + } + } + # add hit to list of hits we have for this sequence + $line_A[$nhits] = $line . "\n"; + $seqfrom_A[$nhits] = $seqfrom; + $seqto_A[$nhits] = $seqto; + $strand_A[$nhits] = $strand; + $clan_A[$nhits] = $clan; + if(defined $overlap_FH) { # only need these if we're outputting to an overlap file + $mdlfrom_A[$nhits] = $mdlfrom; + $mdlto_A[$nhits] = $mdlto; + $model_A[$nhits] = $model; + $desc_A[$nhits] = $desc; + $score_A[$nhits] = $score; + $evalue_A[$nhits] = $evalue; + } + if($keep_me) { + $nkept++; + $keepme_A[$nhits] = 1; + $noverlaps_A[$nhits] = 0; + } + else { + $nremoved++; + $keepme_A[$nhits] = 0; + $noverlaps_A[$nhits] = -1; + $noverlaps_A[$overlap_idx]++; + if($do_debug) { + printf("target: $target model: $model: removing $seqfrom..$seqto, it overlapped with $seqfrom_A[$overlap_idx]..$seqto_A[$overlap_idx]\n"); + } + if($be_verbose) { + printf("REMOVED %-*s $line\n", length($cur_noverlap), ""); + printf("BECAUSE-IT-OVERLAPPED-BY-" . $cur_noverlap . "-WITH $line_A[$overlap_idx]\n"); + } + if(defined $overlap_FH) { + my $hitlen1 = abs($seqfrom_A[$overlap_idx]-$seqto_A[$overlap_idx])+1; + my $hitlen2 = abs($seqfrom-$seqto)+1; + my $mhitlen1 = (($mdlfrom_A[$overlap_idx] ne "-") && ($mdlto_A[$overlap_idx] ne "-")) ? abs($mdlfrom_A[$overlap_idx]-$mdlto_A[$overlap_idx])+1 : "-"; + my $mhitlen2 = (($mdlfrom ne "-") && ($mdlto ne "-")) ? abs($mdlfrom-$mdlto)+1 : "-"; + my $mdllen1 = ((defined $mdllen_HR) && (defined $mdllen_HR->{$model_A[$overlap_idx]})) ? $mdllen_HR->{$model_A[$overlap_idx]} : "-"; + my $mdllen2 = ((defined $mdllen_HR) && (defined $mdllen_HR->{$model})) ? $mdllen_HR->{$model} : "-"; + + printf $overlap_FH ("%-s\t%s\t%s\t%s\t%d\t%d\t%d\t%s\t%s\t%s\t%s\t%d\t%d\t%d\t%d\t%.3f\t%.3f\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\n", + $target, $strand, $model_A[$overlap_idx], $model, + $hitlen1, $hitlen2, $cur_noverlap, + $score_A[$overlap_idx], $score, + $evalue_A[$overlap_idx], $evalue, + $seqfrom_A[$overlap_idx], $seqto_A[$overlap_idx], + $seqfrom, $seqto, + $cur_noverlap/$hitlen1, $cur_noverlap/$hitlen2, + $mdllen1, $mdllen2, + ($mdllen1 ne "-") ? (sprintf("%.3f", $cur_noverlap/$mdllen1)) : "-", + ($mdllen2 ne "-") ? (sprintf("%.3f", $cur_noverlap/$mdllen2)) : "-", + $mhitlen1, $mhitlen2, + (($mhitlen1 ne "-") && ($mdllen1 ne "-")) ? (sprintf("%.3f", $mhitlen1/$mdllen1)) : "-", + (($mhitlen2 ne "-") && ($mdllen2 ne "-")) ? (sprintf("%.3f", $mhitlen2/$mdllen2)) : "-", + $desc_A[$overlap_idx], $desc); + } + } + $nhits++; + $prv_target = $target; + $prv_score = $score; + $prv_evalue = $evalue; + } + + # output data for final sequence + output_one_target($out_FH, $be_verbose, \@line_A, \@keepme_A, \@noverlaps_A); + + # close file handle + close(IN); + + return ($nkept, $nremoved); +} + +################################################################# +# Subroutine : output_one_target() +# Incept: EPN, Mon May 8 10:20:40 2017 +# +# Purpose: Output all hits for a target. Overlapping hits +# are not included, they've been skipped. +# +# Arguments: +# $out_FH: file handle to output short output to (can be undef to not output short output) +# $be_verbose: '1' to output number of overlaps for each kept hit to stdout +# $line_AR: array of lines to output +# $keepme_AR: array of '1', '0', $keepme_AR->[$i]==1 indicates we should output $line_AR->[$i] +# $noverlaps_AR: array of '1', '0', $keepme_AR->[$i]==1 indicates we should output $line_AR->[$i] +# +# Returns: Nothing. +# +# Dies: Never. +# +################################################################# +sub output_one_target { + my $nargs_expected = 5; + my $sub_name = "output_one_target"; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($out_FH, $be_verbose, $line_AR, $keepme_AR, $noverlaps_AR) = @_; + + for(my $i = 0; $i < scalar(@{$line_AR}); $i++) { + if($keepme_AR->[$i]) { + print $out_FH $line_AR->[$i]; + if($be_verbose) { printf("NUM-OVERLAPS:%d $line_AR->[$i]", $noverlaps_AR->[$i]) }; + } + } + + return; +} + +################################################################# +# Subroutine : determine_if_clans_match() +# Incept: EPN, Mon May 8 10:28:41 2017 +# +# Purpose: Given two clan values return 1 if they +# match else 0. +# +# Arguments: +# $clan1: clan 1, can be undef +# $clan2: clan 2, can be undef +# +# Returns: '1' if the clans match or if $do_clans is FALSE +# +# Dies: Never. +# +################################################################# +sub determine_if_clans_match { + my $nargs_expected = 2; + my $sub_name = "determine_if_clans_match"; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($clan1, $clan2) = @_; + + if((! defined $clan1) || (! defined $clan2)) { + # 1 or both of $clan1 and $clan2 are undefined, can't be a match + return 0; + } + elsif($clan1 eq $clan2) { + # equal clans + return 1; + } + else { + return 0; + } + +} + +################################################################# +# Subroutine: get_overlap() +# Incept: EPN, Mon Mar 14 13:47:57 2016 [dnaorg_scripts:dnaorg.pm:getOverlap()] +# +# Purpose: Calculate number of nucleotides of overlap between +# two regions. +# +# Args: +# $start1: start position of hit 1 (must be <= $end1) +# $end1: end position of hit 1 (must be >= $end1) +# $start2: start position of hit 2 (must be <= $end2) +# $end2: end position of hit 2 (must be >= $end2) +# +# Returns: $noverlap: Number of nucleotides of overlap between hit1 and hit2, +# 0 if none +# +# Dies: if $end1 < $start1 or $end2 < $start2. +sub get_overlap { + my $sub_name = "get_overlap"; + my $nargs_exp = 4; + if(scalar(@_) != 4) { die "ERROR $sub_name entered with wrong number of input args"; } + + my ($start1, $end1, $start2, $end2) = @_; + + # printf("in $sub_name $start1..$end1 $start2..$end2\n"); + + if($start1 > $end1) { die "ERROR in $sub_name start1 > end1 ($start1 > $end1)"; } + if($start2 > $end2) { die "ERROR in $sub_name start2 > end2 ($start2 > $end2)"; } + + # Given: $start1 <= $end1 and $start2 <= $end2. + + # Swap if nec so that $start1 <= $start2. + if($start1 > $start2) { + my $tmp; + $tmp = $start1; $start1 = $start2; $start2 = $tmp; + $tmp = $end1; $end1 = $end2; $end2 = $tmp; + } + + # 3 possible cases: + # Case 1. $start1 <= $end1 < $start2 <= $end2 Overlap is 0 + # Case 2. $start1 <= $start2 <= $end1 < $end2 + # Case 3. $start1 <= $start2 <= $end2 <= $end1 + if($end1 < $start2) { return (0); } # case 1 + if($end1 < $end2) { return ($end1 - $start2 + 1); } # case 2 + if($end2 <= $end1) { return ($end2 - $start2 + 1); } # case 3 + die "ERROR in $sub_name, unforeseen case in $start1..$end1 and $start2..$end2"; + + return; # NOT REACHED +} + +################################################################# +# Subroutine: run_command() +# Incept: EPN, Mon Dec 19 10:43:45 2016 +# +# Purpose: Runs a command using system() and exits in error +# if the command fails. If $be_verbose, outputs +# the command to stdout. +# +# Arguments: +# $cmd: command to run, with a "system" command; +# $be_verbose: '1' to output command to stdout before we run it, '0' not to +# +# Returns: nothing +# +# Dies: if $cmd fails +################################################################# +sub run_command { + my $sub_name = "run_command()"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($cmd, $be_verbose) = @_; + + if($be_verbose) { + print ("Running cmd: $cmd\n"); + } + + system($cmd); + + if($? != 0) { + die "ERROR in $sub_name, the following command failed:\n$cmd\n"; + } + + return; +} + +################################################################# +# Subroutine: parse_claninfo() +# Incept: EPN, Wed May 10 15:01:07 2017 +# +# Purpose: Parse a claninfo file and fill %{$clan_HR}. +# +# Arguments: +# $claninfo_file: clan info file +# $clan_HR: ref to hash of clan info, key: model name, value: clan name +# +# Returns: nothing +# +# Dies: if $cmd fails +################################################################# +sub parse_claninfo { + my $sub_name = "parse_claninfo()"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($claninfo_file, $clan_HR) = @_; + + open(IN, $claninfo_file) || die "ERROR unable to open clan info file"; + + %{$clan_HR} = (); + + while(my $line = ) { + if($line !~ m/^#/) { + chomp $line; + my @el_A = split(/\s+/, $line); + # first element is clan name, all other elements are model names in that clan + #CL00111 SSU_rRNA_bacteria SSU_rRNA_archaea SSU_rRNA_eukarya SSU_rRNA_microsporidia SSU_trypano_mito + for(my $i = 1; $i < scalar(@el_A); $i++) { + if(exists $clan_H{$el_A[$i]}) { + die "ERROR in $sub_name, parsing clan info file $claninfo_file, read model $el_A[$i] more than once"; + } + $clan_HR->{$el_A[$i]} = $el_A[0]; + } + } + } + return; +} + +################################################################# +# Subroutine: parse_cmsearch_tblout_line() +# Incept: EPN, Fri Dec 8 09:33:23 2017 +# +# Purpose: Given an infernal cmsearch --tblout line, +# return $target, $query, $seqfrom, $seqto, $strand, $score, $evalue. +# +# # Example line +# #target name accession query name accession mdl mdl from mdl to seq from seq to strand trunc pass gc bias score E-value inc description of target +# #------------------- --------- -------------------- --------- --- -------- -------- -------- -------- ------ ----- ---- ---- ----- ------ --------- --- --------------------- +# 5S_rRNA-sample10 - 5S_rRNA RF00001 cm 1 119 1 121 + no 1 0.61 0.0 108.2 1.5e-27 ! - +# +# Arguments: +# $line: line to parse +# +# Returns: $target: name of target (5S_rRNA-sample10) +# $tacc: target accession (-) +# $query: query name (5S_rRNA) +# $qacc: query accession (RF00005) +# $mdlfrom: hmmfrom coord (1) +# $mdlto: hmm to coord (119) +# $seqfrom: sequence from coord (1) +# $seqto: sequence to coord (121) +# $strand: strand of hit (+) +# $score: bit score of hit (108.2) +# $evalue: E-value of hit (1.5e-27) +# $desc: description, undef unless $do_desc is 1 +# +# Dies: if line has fewer than 18 space delimited characters +################################################################# +sub parse_cmsearch_tblout_line { + my $sub_name = "parse_cmsearch_tblout_line"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($line, $do_desc) = @_; + + my @el_A = split(/\s+/, $line); + + if(scalar(@el_A) < 18) { die "ERROR found less than 18 columns in cmsearch tabular output at line: $line"; } + my ($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue) = + ($el_A[0], $el_A[1], $el_A[2], $el_A[3], $el_A[5], $el_A[6], $el_A[7], $el_A[8], $el_A[9], $el_A[14], $el_A[15]); + + my $desc = undef; + if($do_desc) { + $desc = $el_A[17]; + my $nel = scalar(@el_A); + for(my $i = 18; $i < $nel; $i++) { $desc .= "_" . $el_A[$i]; } # replace spaces with "_"; + } + + return($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc); +} + +################################################################# +# Subroutine: parse_nhmmer_tblout_line() +# Incept: EPN, Fri Dec 8 09:42:28 2017 +# +# Purpose: Given an nhmmer --tblout line, +# return $target, $query, $seqfrom, $seqto, $strand, $score, $evalue. +# +# # Example line +# # target name accession query name accession hmmfrom hmm to alifrom ali to envfrom env to sq len strand E-value score bias description of target +# #------------------- ---------- -------------------- ---------- ------- ------- ------- ------- ------- ------- ------- ------ --------- ------ ----- --------------------- +# 5S_rRNA-sample10 - 5S_rRNA RF00001 4 115 4 117 1 121 121 + 1.6e-17 53.3 4.8 - +# +# Arguments: +# $line: line to parse +# $do_desc: '1' to parse and return description, else '0' +# +# Returns: $target: name of target (5S_rRNA-sample10) +# $tacc: target accession (-) +# $query: query name (5S_rRNA) +# $qacc: query accession (RF00005) +# $mdlfrom: hmmfrom coord (4) +# $mdlto: hmm to coord (115) +# $seqfrom: ali from coord (4) +# $seqto: ali to coord (117) +# $strand: strand of hit (+) +# $score: bit score of hit (53.3) +# $evalue: E-value of hit (1.6e-17) +# $desc: description, undef unless $do_desc is 1 +# +# Dies: if line has fewer than 16 space delimited characters +################################################################# +sub parse_nhmmer_tblout_line { + my $sub_name = "parse_nhmmer_tblout_line"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($line, $do_desc) = @_; + + my @el_A = split(/\s+/, $line); + + if(scalar(@el_A) < 16) { die "ERROR found less than 16 columns in nhmmer tabular output at line: $line"; } + my ($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $evalue, $score) = + ($el_A[0], $el_A[1], $el_A[2], $el_A[3], $el_A[4], $el_A[5], $el_A[6], $el_A[7], $el_A[11], $el_A[12], $el_A[13]); + my $desc = undef; + if($do_desc) { + $desc = $el_A[15]; + my $nel = scalar(@el_A); + for(my $i = 16; $i < $nel; $i++) { $desc .= "_" . $el_A[$i]; } # replace spaces with "_"; + } + + return($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc); +} + +################################################################# +# Subroutine: parse_hmmsearch_tblout_line() +# Incept: EPN, Fri Dec 8 09:47:19 2017 +# +# Purpose: Given an hmmsearch --tblout line, +# return $target, $query, $score, $evalue. +# +# # Example line +# # --- full sequence ---- --- best 1 domain ---- --- domain number estimation ---- +# # target name accession query name accession E-value score bias E-value score bias exp reg clu ov env dom rep inc description of target +# #------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- +# 5S_rRNA-sample10 - 5S_rRNA RF00001 1.1e-19 59.8 0.0 1.2e-19 59.7 0.0 1.0 1 0 0 1 1 1 1 - +# +# Arguments: +# $line: line to parse +# $do_best: '1' to return score and E-value of best hit, not full sequence +# '0' to return score and E-value of sequence, not best hit +# $do_desc: '1' to parse and return description, else '0' +# +# Returns: $target: name of target (5S_rRNA-sample10) +# $query: query name (5S_rRNA) +# $score: bit score of sequence (53.3) +# $evalue: E-value of hit (1.6e-17) +# $desc: description, undef unless $do_desc is 1 +# +# Dies: if line has fewer than 19 space delimited characters +################################################################# +sub parse_hmmsearch_tblout_line { + my $sub_name = "parse_hmmsearch_tblout_line"; + my $nargs_expected = 3; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($line, $do_best, $do_desc) = @_; + + my @el_A = split(/\s+/, $line); + + if(scalar(@el_A) < 19) { die "ERROR found less than 16 columns in nhmmer tabular output at line: $line"; } + my ($target, $query, $full_evalue, $full_score, $best_evalue, $best_score) = + ($el_A[0], $el_A[2], $el_A[4], $el_A[5], $el_A[7], $el_A[8]); + + my $desc = undef; + if($do_desc) { + $desc = $el_A[18]; + my $nel = scalar(@el_A); + for(my $i = 19; $i < $nel; $i++) { $desc .= "_" . $el_A[$i]; } # replace spaces with "_"; + } + + if($do_best) { + return ($target, $query, $best_score, $best_evalue, $desc); + } + # else + return ($target, $query, $full_score, $full_evalue, $desc); +} diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/cmsearch_sampleout.png Binary file cmsearch_tblout_deoverlap_tool/cmsearch_sampleout.png has changed diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/cmsearch_toolform.png Binary file cmsearch_tblout_deoverlap_tool/cmsearch_toolform.png has changed diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/cmsearchtbloutdeoverlap.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmsearch_tblout_deoverlap_tool/cmsearchtbloutdeoverlap.xml Wed Aug 16 05:49:12 2023 +0000 @@ -0,0 +1,1007 @@ + + + + Wraps https://github.com/nawrockie/cmsearch_tblout_deoverlap + + perl + + + + + + + + \n\tOR\n"; +$usage .= "cmsearch-deoverlap.pl -l [OPTIONS] \n\n"; +$usage .= "\tOPTIONS:\n"; +$usage .= "\t\t-l : single command line argument is a list of tblout files, not a single tblout file\n"; +$usage .= "\t\t-s : sort hits by bit score [default: sort by E-value]\n"; +$usage .= "\t\t-d : run in debugging mode (prints extra info)\n"; +$usage .= "\t\t-v : run in verbose mode (prints all removed and kept hits)\n"; +$usage .= "\t\t--noverlap : define an overlap as >= or more overlapping residues [1]\n"; +$usage .= "\t\t--nhmmer : tblout files are from nhmmer v3.x\n"; +$usage .= "\t\t--hmmsearch : tblout files are from hmmsearch v3.x\n"; +$usage .= "\t\t--cmscan : tblout files are from cmscan v1.1x, not cmsearch\n"; +$usage .= "\t\t--fcmsearch : assert tblout files are cmsearch not cmscan\n"; +$usage .= "\t\t--besthmm : with --hmmsearch, sort by evalue/score of *best* single hit not evalue/score of full seq\n"; +$usage .= "\t\t--clanin : only remove overlaps within clans, read clan info from file [default: remove all overlaps]\n"; +$usage .= "\t\t--invclan : w/--clanin, invert clan behavior: do not remove overlaps within clans, remove all other overlaps\n"; +$usage .= "\t\t--maxkeep : keep hits that only overlap with other hits that are not kept [default: remove all hits with higher scoring overlap]\n"; +$usage .= "\t\t--overlapout : create new tabular file with overlap information in \n"; +$usage .= "\t\t--mdllenin : w/--overlapout, read model lengths from two-token-per-line-file \n"; +$usage .= "\t\t--dirty : keep intermediate files (sorted tblout files)\n\n"; + +my $do_listfile = 0; # set to '1' if -l used +my $rank_by_score = 0; # set to '1' if -s used, rank by score, not evalues +my $do_debug = 0; # set to '1' if -d used +my $be_verbose = 0; # set to '1' if -v used +my $do_cmscan = 0; # set to '1' if --cmscan used +my $do_fcmsearch = 0; # set to '1' if --fcmsearch used +my $noverlap = 1; # set to if --noverlap used +my $in_clanin = undef; # defined if --clanin option used +my $do_invclan = 0; # set to '1' if --invclan used +my $do_nhmmer = 0; # set to '1' if --nhmmer used, input tblout file(s) are from hmmer3's nhmmer +my $do_hmmsearch = 0; # set to '1' if --hmmsearch used, input tblout file(s) are from hmmer3's hmmsearch +my $do_besthmm = 0; # set to '1' if --besthmm used, sorting by evalue/score of best hit with --hmmsearch +my $do_maxkeep = 0; # set to '1' if --maxkeep, only remove hits that have + # higher scoring overlap that is not removed +my $do_dirty = 0; # set to '1' if --dirty used, keep intermediate files +my $out_overlap = undef; # defined if --overlapout used +my $in_mdllen = undef; # defined if --mdllenin used + +&GetOptions( "l" => \$do_listfile, + "s" => \$rank_by_score, + "d" => \$do_debug, + "v" => \$be_verbose, + "cmscan" => \$do_cmscan, + "fcmsearch" => \$do_fcmsearch, + "noverlap=s" => \$noverlap, + "nhmmer" => \$do_nhmmer, + "hmmsearch" => \$do_hmmsearch, + "besthmm" => \$do_besthmm, + "clanin=s" => \$in_clanin, + "invclan" => \$do_invclan, + "maxkeep" => \$do_maxkeep, + "overlapout=s" => \$out_overlap, + "mdllenin=s" => \$in_mdllen, + "dirty" => \$do_dirty, + "in_tblout=s" => \$in_tblout); + +#if(scalar(@ARGV) != 1) { die $usage; } +# ($in_tblout) = @ARGV; + +if($do_hmmsearch && $do_nhmmer) { + die "ERROR, --hmmsearch and --nhmmer cannot be used in combination. Pick one."; +} +if($do_besthmm && (! $do_hmmsearch)) { + die "ERROR, --besthmm requires --hmmsearch."; +} +if($do_invclan && (! defined $in_clanin)) { + die "ERROR, --invclan requires --clanin"; +} +my @tblout_file_A = (); + +if($do_listfile) { + # read the list file + my $list_file = $in_tblout; + open(IN, $list_file) || die "ERROR unable to open $list_file for reading"; + while(my $line = ) { + if($line =~ m/\w/ && $line !~ m/^\#/) { + chomp $line; + if(! -e $line) { die "ERROR file $line read from $list_file does not exist"; } + if(! -s $line) { die "ERROR file $line read from $list_file is empty"; } + push(@tblout_file_A, $line); + } + } + close(IN); +} +else { + $tblout_file_A[0] = ($in_tblout); +} + +my %mdllen_H = (); +if(defined $in_mdllen) { # read this file too + open(IN, $in_mdllen) || die "ERROR unable to open $in_mdllen for reading"; + while(my $line = ) { + chomp $line; + if($line =~ /^(\S+)\s+(\d+)$/) { + $mdllen_H{$1} = $2; + } + else { + die "ERROR unable to parse line in $in_mdllen\n$line\n"; + } + } + close(IN); +} + +my %clan_H = (); # key: model name, value: clan name +if(defined $in_clanin) { + %clan_H = (); + parse_claninfo($in_clanin, \%clan_H) +} + +my $sort_cmd = undef; # command used to sort the tblout file +my $sorted_tblout_file = undef; # sorted tblout file to create, temporarily +my $output_file = undef; # name of output file we create +my $out_FH = undef; # output file handle +my $nkept = undef; # number of sequences kept from a file +my $nremoved = undef; # number of sequences removed from a file + +my $overlap_FH = undef; +if(defined $out_overlap) { + open($overlap_FH, ">", $out_overlap) || die "ERROR unable to open $out_overlap for writing"; + my @fields_A = (); + my %fields_H = (); + push(@fields_A, "target"); + $fields_H{"target"} = "sequence name"; + push(@fields_A, "strand"); + $fields_H{"strand"} = "strand (+ or -)"; + push(@fields_A, "mdl1"); + $fields_H{"mdl1"} = "name of model 1"; + push(@fields_A, "mdl2"); + $fields_H{"mdl2"} = "name of model 2"; + push(@fields_A, "hitlen1"); + $fields_H{"hitlen1"} = "length in sequence positions of hit to model 1"; + push(@fields_A, "hitlen2"); + $fields_H{"hitlen2"} = "length in sequence positions of hit to model 2"; + push(@fields_A, "nres_olap"); + $fields_H{"nres_olap"} = "number of residues that overlap between hit to model 1 and hit to model 2 in 'target' on strand 'strand'"; + push(@fields_A, "score1"); + $fields_H{"score1"} = "score of hit to model 1"; + push(@fields_A, "score2"); + $fields_H{"score2"} = "score of hit to model 2"; + push(@fields_A, "evalue1"); + $fields_H{"evalue1"} = "E-value of hit to model 1"; + push(@fields_A, "evalue2"); + $fields_H{"evalue2"} = "E-value of hit to model 2"; + push(@fields_A, "seqfrom1"); + $fields_H{"seqfrom1"} = "start position in 'target' of hit to model 1"; + push(@fields_A, "seqto1"); + $fields_H{"seqto1"} = "end position in 'target' of hit to model 1"; + push(@fields_A, "seqfrom2"); + $fields_H{"seqfrom2"} = "start position in 'target' of hit to model 2"; + push(@fields_A, "seqto2"); + $fields_H{"seqto2"} = "end position in 'target' of hit to model 2"; + push(@fields_A, "olap-frac-of-hit1"); + $fields_H{"olap-frac-of-hit1"} = "'nres_olap'/'hitlen1'"; + push(@fields_A, "olap-frac-of-hit2"); + $fields_H{"olap-frac-of-hit2"} = "'nres_olap'/'hitlen2'"; + push(@fields_A, "mdllen1"); + $fields_H{"mdllen1"} = "length of model 1 (\"-\" if not available)"; + push(@fields_A, "mdllen2"); + $fields_H{"mdllen2"} = "length of model 2 (\"-\" if not available)"; + push(@fields_A, "olap-frac-of-mdl1"); + $fields_H{"olap-frac-of-mdl1"} = "'nres_olap'/'mdllen1'"; + push(@fields_A, "olap-frac-of-mdl2"); + $fields_H{"olap-frac-of-mdl2"} = "'nres_olap'/'mdllen2'"; + push(@fields_A, "mhitlen1"); + $fields_H{"mhitlen1"} = "length in model positions of hit to model 1"; + push(@fields_A, "mhitlen2"); + $fields_H{"mhitlen2"} = "length in model positions of hit to model 2"; + push(@fields_A, "mhit-frac-of-mdl1"); + $fields_H{"mhit-frac-of-mdl1"} = "'mhitlen1'/'mdllen1'"; + push(@fields_A, "mhit-frac-of-mdl2"); + $fields_H{"mhit-frac-of-mdl2"} = "'mhitlen2'/'mdllen2'"; + push(@fields_A, "desc1"); + $fields_H{"desc1"} = "description for hit to model 1"; + push(@fields_A, "desc2"); + $fields_H{"desc2"} = "description for hit to model 2"; + my $fidx = 1; + my $all_header_line = "#"; + print $overlap_FH ("# cmsearch-deoverlap.pl --overlapout output file\n# Explanation of fields:\n"); + foreach my $field (@fields_A) { + printf $overlap_FH ("# %d. %-20s: %s\n", $fidx, "'" . $field . "'", $fields_H{$field}); + $all_header_line .= sprintf("%s%d:%s", ($fidx == 1) ? "" : " ", $fidx, $field); + $fidx++; + } + print $overlap_FH $all_header_line . "\n"; +} + +foreach my $tblout_file (@tblout_file_A) { + if(! -e $tblout_file) { die "ERROR tblout file $tblout_file does not exist"; } + if(! -s $tblout_file) { die "ERROR tblout file $tblout_file is empty"; } + + # if($rank_by_score): + # sort tblout file by target sequence name, then score, then E-value + # else: + # sort tblout file by target sequence name, then E-value, then score + # + # keys to sort by depend on input tblout file type, which + # is controlled by + # $do_hmmsearch + # $do_nhmmer + # or default if both of those are false + # + $sorted_tblout_file = $tblout_file . ".sort"; + # the 'sed' calls replace multiple spaces with a single one, because sort is weird about multiple spaces sometimes + if($do_hmmsearch) { + if($do_besthmm) { + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 9,9rn -k 8,8g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 8,8g -k 9,9rn > $sorted_tblout_file"; + } + else { # sort by full sequence evalue/score + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 6,6rn -k 5,5g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 5,5g -k 6,6rn > $sorted_tblout_file"; + } + } + elsif($do_nhmmer) { + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 14,14rn -k 13,13g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 13,13g -k 14,14rn > $sorted_tblout_file"; + } + elsif($do_cmscan) { + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 3,3 -k 15,15rn -k 16,16g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 3,3 -k 16,16g -k 15,15rn > $sorted_tblout_file"; + } + else { + # cmsearch, default + $sort_cmd = ((defined $rank_by_score) && ($rank_by_score == 1)) ? + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 15,15rn -k 16,16g > $sorted_tblout_file" : + "grep -v ^\# $tblout_file | sed 's/ */ /g' | sort -k 1,1 -k 16,16g -k 15,15rn > $sorted_tblout_file"; + } + run_command($sort_cmd, $do_debug); + $output_file = $tblout_file . ".deoverlapped"; + $out_FH = undef; + open($out_FH, ">", $output_file) || die "ERROR unable to open $output_file for writing"; + + ($nkept, $nremoved) = parse_sorted_tblout_file($sorted_tblout_file, + (defined $in_clanin) ? \%clan_H : undef, + (defined $in_mdllen) ? \%mdllen_H : undef, + $do_cmscan, $do_nhmmer, $do_hmmsearch, $do_besthmm, $rank_by_score, $do_maxkeep, $do_debug, $be_verbose, + $out_FH, + (defined $out_overlap) ? $overlap_FH : undef); + close $out_FH; + if(defined $out_overlap) { close $overlap_FH; } + if(! $do_dirty) { + unlink $sorted_tblout_file; + } + printf("Saved %5d hits (%5d removed) to $output_file\n", $nkept, $nremoved); + if(defined $out_overlap) { + printf("Saved tabular information on overlaps to $out_overlap\n"); + } +} + +################################################################# +# Subroutine : parse_sorted_tblout_file() +# Incept: EPN, Mon May 8 08:57:54 2017 +# +# Purpose: Parse a sorted tabular output file, and output +# all hits that do not have a higher scoring overlap. +# +# Arguments: +# $sorted_tbl_file: file with sorted tabular search results +# $clan_HR: ref to hash of clan info, key is model, value is clan, undef unless --clanin +# $mdllen_HR: ref to hash of mdllen info, key is model, value is mdllen, undef unless --mdllenin +# $do_cmscan: '1' if we're parsing cmscan tblout output +# $do_nhmmer: '1' if we're parsing nhmmer tblout output +# $do_hmmsearch: '1' if we're parsing hmmsearch tblout output +# $do_besthmm: '1' if we sorted hmmsearch tblout by best hit +# not by full sequence +# $rank_by_score: '1' if rank is determined by score, '0' if +# determined by E-value +# $do_maxkeep: '1' if --maxkeep option used +# only remove hits with higher scoring overlaps +# *THAT ARE NOT THEMSELVES REMOVED* +# $do_debug; '1' if we should print debugging output +# $be_verbose; '1' if we should be verbose +# $out_FH: file handle to output to +# $overlap_FH: file handle to output overlap info to (if --overlapout) +# +# Returns: Two values: +# $nkept: number of hits saved and output +# $nremoved: number of hits removed and not output +# +# Dies: If we see a line of input that is an an unexpected +# format +# +################################################################# +sub parse_sorted_tblout_file { + my $nargs_expected = 13; + my $sub_name = "parse_sorted_tblout_file"; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($sorted_tbl_file, $clan_HR, $mdllen_HR, + $do_cmscan, $do_nhmmer, $do_hmmsearch, $do_besthmm, $rank_by_score, $do_maxkeep, $do_debug, $be_verbose, + $out_FH, $overlap_FH) = @_; + + my $prv_target = undef; # target name of previous line + my $prv_score = undef; # bit score of previous line + my $prv_evalue = undef; # E-value of previous line + my $clan = undef; # clan of current model + my $nkept = 0; # number of hits kept and output + my $nremoved = 0; # number of hits removed and not output + my $do_clans = (defined $clan_HR) ? 1 : 0; + + open(IN, $sorted_tbl_file) || die "ERROR unable to open sorted tabular file $sorted_tbl_file for reading"; + + my ($target, $tacc, $model, $macc, $domain, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = + (undef, undef, undef, undef, undef, undef, undef, undef, undef, undef, undef, undef, undef); + + my @line_A = (); # array of output lines for kept hits for current sequence + my @seqfrom_A = (); # array of seqfroms for kept hits for current sequence + my @seqto_A = (); # array of seqtos for kept hits for current sequence + my @strand_A = (); # array of strands for kept hits for current sequence + my @clan_A = (); # array of clans for kept hits for current sequence + my @keepme_A = (); # array of '1' and '0', '1' if we should keep this hit, '0' if it had a higher scoring overlap + my @noverlaps_A = (); # array of number of hits (lower scoring) that overlap with this sequence, **only valid for kept hits, -1 for removed hits** + my $nhits = 0; # number of hits for current sequence (size of all arrays) + # arrays only filled if $overlap_FH is defined (if --overlapout was used) + my @mdlfrom_A = (); # array of mdlfroms for kept hits for current sequence + my @mdlto_A = (); # array of mdltos for kept hits for current sequence + my @model_A = (); # array of model names for kept hits for current sequence + my @desc_A = (); # array of descriptions for kept hits for current sequence + my @score_A = (); # array of scores for kept hits for current sequence + my @evalue_A = (); # array of e-values for kept hits for current sequence + my $do_desc = (defined $overlap_FH) ? 1 : 0; + + my %already_seen_H = (); # hash, key is sequence name, value is '1' if we have output info for this sequence + + $prv_evalue = 0.; + while(my $line = ) { + ###################################################### + # Parse the data on this line, this differs depending + # on our annotation method + chomp $line; + $line =~ s/^\s+//; # remove leading whitespace + + if($line =~ m/^\#/) { + die "ERROR, found line that begins with #, input should have these lines removed and be sorted by the first column:$line."; + } + + if($do_hmmsearch) { + ($target, $model, $score, $evalue, $desc) = parse_hmmsearch_tblout_line($line, $do_besthmm, $do_desc); + # hmmsearch --tblout output lacks sequence ranges and strand information + # we want to allow only a single hit to the each target, so we set span as 1..1 + # so that all hits to the same target will 'overlap'. Strand is set as "+" + # so all hits are considered on the same 'strand' for de-overlapping purposes. + $seqfrom = 1; + $seqto = 1; + $strand = "+"; # no strand for hmmsearch output, so we assert + for de-overlapping purposes + $mdlfrom = "-"; + $mdlto = "-"; + } + elsif($do_nhmmer) { + ($target, $tacc, $model, $macc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = parse_nhmmer_tblout_line($line, $do_desc); + } + elsif($do_cmscan) { + # call parse_cmsearch_tblout_line, just reverse $model and $target + ($model, $macc, $target, $tacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = parse_cmsearch_tblout_line($line, $do_desc); + } + else { # default: cmsearch + ($target, $tacc, $model, $macc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc) = parse_cmsearch_tblout_line($line, $do_desc); + if((! $do_fcmsearch) && ($tacc =~ /^RF\d+/)) { + die "ERROR, target accession $tacc looks like an Rfam accession suggesting this is cmscan tblout output,\ndid you mean to use --cmscan? Use --fcmsearch to assert this is cmsearch output and avoid this error.\n"; + } + } + + $clan = undef; + if(defined $clan_HR) { + if(exists $clan_HR->{$model}) { + $clan = $clan_HR->{$model}; + } + } + + # make sure we didn't output information for this sequence already + if(exists $already_seen_H{$target}) { + die "ERROR found line with target $target previously output, did you sort by sequence name?"; + } + + ############################################################## + # Are we now finished with the previous sequence? + # Yes, if target sequence we just read is different from it + # If yes, output info for it, and re-initialize data structures + # for new sequence just read + if((defined $prv_target) && ($prv_target ne $target)) { + output_one_target($out_FH, $be_verbose, \@line_A, \@keepme_A, \@noverlaps_A); + $already_seen_H{$prv_target} = 1; + @line_A = (); + @seqfrom_A = (); + @seqto_A = (); + @strand_A = (); + @clan_A = (); + @keepme_A = (); + @noverlaps_A = (); + @mdlfrom_A = (); + @mdlto_A = (); + @model_A = (); + @desc_A = (); + @score_A = (); + @evalue_A = (); + $nhits = 0; + } + else { # this is not a new sequence + if(defined $prv_target) { + # make sure that our current score or E-value is less than previous + if($rank_by_score && ($score > $prv_score)) { + die "ERROR found lines with same target [$target] incorrectly sorted by score, did you sort by sequence name and score?"; + } + elsif((! $rank_by_score) && ($evalue < $prv_evalue)) { + die "ERROR found lines with same target [$target] incorrectly sorted by E-value, did you sort by sequence name and E-value?"; + } + } + } + ############################################################## + + # look through all other hits $i on the same strand and see if any of them overlap with this one + # if (! $do_maxkeep) we look at all hits + # if ( $do_maxkeep) we only look at hits that haven't been removed yet + my $keep_me = 1; # set to '0' below if we find a better scoring hit + my $overlap_idx = -1; + my $cur_noverlap = 0; + my $clan_criteria_passed = 1; # set to '1' if --clanin not used OR + # --clanin used and --invclan NOT used and two hits are to families in the same clan + # --clanin used and --invclan IS used and two hits are NOT to families in the same clan + # else set to '0' + for(my $i = 0; $i < $nhits; $i++) { + if($strand_A[$i] eq $strand) { # same strand + if($do_clans) { + if($do_invclan) { + $clan_criteria_passed = (! determine_if_clans_match($clan, $clan_A[$i])); + } + else { + $clan_criteria_passed = determine_if_clans_match($clan, $clan_A[$i]); + } + } + if(($clan_criteria_passed) && # clans match (or don't if --invclan), or --clanin not used + ((! $do_maxkeep) || ($keepme_A[$i] == 1))) { # either --maxkeep not enabled, or this hit is a keepter + if($strand eq "+") { + $cur_noverlap = get_overlap($seqfrom, $seqto, $seqfrom_A[$i], $seqto_A[$i]); + } + elsif($strand eq "-") { + $cur_noverlap = get_overlap($seqto, $seqfrom, $seqto_A[$i], $seqfrom_A[$i]); + } + else { + die "ERROR strand not + or - but $strand for hit $i line:\n$line\n"; + } + if($cur_noverlap >= $noverlap) { + $keep_me = 0; + $overlap_idx = $i; + $i = $nhits; # breaks for loop + } + } + } + } + # add hit to list of hits we have for this sequence + $line_A[$nhits] = $line . "\n"; + $seqfrom_A[$nhits] = $seqfrom; + $seqto_A[$nhits] = $seqto; + $strand_A[$nhits] = $strand; + $clan_A[$nhits] = $clan; + if(defined $overlap_FH) { # only need these if we're outputting to an overlap file + $mdlfrom_A[$nhits] = $mdlfrom; + $mdlto_A[$nhits] = $mdlto; + $model_A[$nhits] = $model; + $desc_A[$nhits] = $desc; + $score_A[$nhits] = $score; + $evalue_A[$nhits] = $evalue; + } + if($keep_me) { + $nkept++; + $keepme_A[$nhits] = 1; + $noverlaps_A[$nhits] = 0; + } + else { + $nremoved++; + $keepme_A[$nhits] = 0; + $noverlaps_A[$nhits] = -1; + $noverlaps_A[$overlap_idx]++; + if($do_debug) { + printf("target: $target model: $model: removing $seqfrom..$seqto, it overlapped with $seqfrom_A[$overlap_idx]..$seqto_A[$overlap_idx]\n"); + } + if($be_verbose) { + printf("REMOVED %-*s $line\n", length($cur_noverlap), ""); + printf("BECAUSE-IT-OVERLAPPED-BY-" . $cur_noverlap . "-WITH $line_A[$overlap_idx]\n"); + } + if(defined $overlap_FH) { + my $hitlen1 = abs($seqfrom_A[$overlap_idx]-$seqto_A[$overlap_idx])+1; + my $hitlen2 = abs($seqfrom-$seqto)+1; + my $mhitlen1 = (($mdlfrom_A[$overlap_idx] ne "-") && ($mdlto_A[$overlap_idx] ne "-")) ? abs($mdlfrom_A[$overlap_idx]-$mdlto_A[$overlap_idx])+1 : "-"; + my $mhitlen2 = (($mdlfrom ne "-") && ($mdlto ne "-")) ? abs($mdlfrom-$mdlto)+1 : "-"; + my $mdllen1 = ((defined $mdllen_HR) && (defined $mdllen_HR->{$model_A[$overlap_idx]})) ? $mdllen_HR->{$model_A[$overlap_idx]} : "-"; + my $mdllen2 = ((defined $mdllen_HR) && (defined $mdllen_HR->{$model})) ? $mdllen_HR->{$model} : "-"; + + printf $overlap_FH ("%-s\t%s\t%s\t%s\t%d\t%d\t%d\t%s\t%s\t%s\t%s\t%d\t%d\t%d\t%d\t%.3f\t%.3f\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\n", + $target, $strand, $model_A[$overlap_idx], $model, + $hitlen1, $hitlen2, $cur_noverlap, + $score_A[$overlap_idx], $score, + $evalue_A[$overlap_idx], $evalue, + $seqfrom_A[$overlap_idx], $seqto_A[$overlap_idx], + $seqfrom, $seqto, + $cur_noverlap/$hitlen1, $cur_noverlap/$hitlen2, + $mdllen1, $mdllen2, + ($mdllen1 ne "-") ? (sprintf("%.3f", $cur_noverlap/$mdllen1)) : "-", + ($mdllen2 ne "-") ? (sprintf("%.3f", $cur_noverlap/$mdllen2)) : "-", + $mhitlen1, $mhitlen2, + (($mhitlen1 ne "-") && ($mdllen1 ne "-")) ? (sprintf("%.3f", $mhitlen1/$mdllen1)) : "-", + (($mhitlen2 ne "-") && ($mdllen2 ne "-")) ? (sprintf("%.3f", $mhitlen2/$mdllen2)) : "-", + $desc_A[$overlap_idx], $desc); + } + } + $nhits++; + $prv_target = $target; + $prv_score = $score; + $prv_evalue = $evalue; + } + + # output data for final sequence + output_one_target($out_FH, $be_verbose, \@line_A, \@keepme_A, \@noverlaps_A); + + # close file handle + close(IN); + + return ($nkept, $nremoved); +} + +################################################################# +# Subroutine : output_one_target() +# Incept: EPN, Mon May 8 10:20:40 2017 +# +# Purpose: Output all hits for a target. Overlapping hits +# are not included, they've been skipped. +# +# Arguments: +# $out_FH: file handle to output short output to (can be undef to not output short output) +# $be_verbose: '1' to output number of overlaps for each kept hit to stdout +# $line_AR: array of lines to output +# $keepme_AR: array of '1', '0', $keepme_AR->[$i]==1 indicates we should output $line_AR->[$i] +# $noverlaps_AR: array of '1', '0', $keepme_AR->[$i]==1 indicates we should output $line_AR->[$i] +# +# Returns: Nothing. +# +# Dies: Never. +# +################################################################# +sub output_one_target { + my $nargs_expected = 5; + my $sub_name = "output_one_target"; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($out_FH, $be_verbose, $line_AR, $keepme_AR, $noverlaps_AR) = @_; + + for(my $i = 0; $i < scalar(@{$line_AR}); $i++) { + if($keepme_AR->[$i]) { + print $out_FH $line_AR->[$i]; + if($be_verbose) { printf("NUM-OVERLAPS:%d $line_AR->[$i]", $noverlaps_AR->[$i]) }; + } + } + + return; +} + +################################################################# +# Subroutine : determine_if_clans_match() +# Incept: EPN, Mon May 8 10:28:41 2017 +# +# Purpose: Given two clan values return 1 if they +# match else 0. +# +# Arguments: +# $clan1: clan 1, can be undef +# $clan2: clan 2, can be undef +# +# Returns: '1' if the clans match or if $do_clans is FALSE +# +# Dies: Never. +# +################################################################# +sub determine_if_clans_match { + my $nargs_expected = 2; + my $sub_name = "determine_if_clans_match"; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($clan1, $clan2) = @_; + + if((! defined $clan1) || (! defined $clan2)) { + # 1 or both of $clan1 and $clan2 are undefined, can't be a match + return 0; + } + elsif($clan1 eq $clan2) { + # equal clans + return 1; + } + else { + return 0; + } + +} + +################################################################# +# Subroutine: get_overlap() +# Incept: EPN, Mon Mar 14 13:47:57 2016 [dnaorg_scripts:dnaorg.pm:getOverlap()] +# +# Purpose: Calculate number of nucleotides of overlap between +# two regions. +# +# Args: +# $start1: start position of hit 1 (must be <= $end1) +# $end1: end position of hit 1 (must be >= $end1) +# $start2: start position of hit 2 (must be <= $end2) +# $end2: end position of hit 2 (must be >= $end2) +# +# Returns: $noverlap: Number of nucleotides of overlap between hit1 and hit2, +# 0 if none +# +# Dies: if $end1 < $start1 or $end2 < $start2. +sub get_overlap { + my $sub_name = "get_overlap"; + my $nargs_exp = 4; + if(scalar(@_) != 4) { die "ERROR $sub_name entered with wrong number of input args"; } + + my ($start1, $end1, $start2, $end2) = @_; + + # printf("in $sub_name $start1..$end1 $start2..$end2\n"); + + if($start1 > $end1) { die "ERROR in $sub_name start1 > end1 ($start1 > $end1)"; } + if($start2 > $end2) { die "ERROR in $sub_name start2 > end2 ($start2 > $end2)"; } + + # Given: $start1 <= $end1 and $start2 <= $end2. + + # Swap if nec so that $start1 <= $start2. + if($start1 > $start2) { + my $tmp; + $tmp = $start1; $start1 = $start2; $start2 = $tmp; + $tmp = $end1; $end1 = $end2; $end2 = $tmp; + } + + # 3 possible cases: + # Case 1. $start1 <= $end1 < $start2 <= $end2 Overlap is 0 + # Case 2. $start1 <= $start2 <= $end1 < $end2 + # Case 3. $start1 <= $start2 <= $end2 <= $end1 + if($end1 < $start2) { return (0); } # case 1 + if($end1 < $end2) { return ($end1 - $start2 + 1); } # case 2 + if($end2 <= $end1) { return ($end2 - $start2 + 1); } # case 3 + die "ERROR in $sub_name, unforeseen case in $start1..$end1 and $start2..$end2"; + + return; # NOT REACHED +} + +################################################################# +# Subroutine: run_command() +# Incept: EPN, Mon Dec 19 10:43:45 2016 +# +# Purpose: Runs a command using system() and exits in error +# if the command fails. If $be_verbose, outputs +# the command to stdout. +# +# Arguments: +# $cmd: command to run, with a "system" command; +# $be_verbose: '1' to output command to stdout before we run it, '0' not to +# +# Returns: nothing +# +# Dies: if $cmd fails +################################################################# +sub run_command { + my $sub_name = "run_command()"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($cmd, $be_verbose) = @_; + + if($be_verbose) { + print ("Running cmd: $cmd\n"); + } + + system($cmd); + + if($? != 0) { + die "ERROR in $sub_name, the following command failed:\n$cmd\n"; + } + + return; +} + +################################################################# +# Subroutine: parse_claninfo() +# Incept: EPN, Wed May 10 15:01:07 2017 +# +# Purpose: Parse a claninfo file and fill %{$clan_HR}. +# +# Arguments: +# $claninfo_file: clan info file +# $clan_HR: ref to hash of clan info, key: model name, value: clan name +# +# Returns: nothing +# +# Dies: if $cmd fails +################################################################# +sub parse_claninfo { + my $sub_name = "parse_claninfo()"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($claninfo_file, $clan_HR) = @_; + + open(IN, $claninfo_file) || die "ERROR unable to open clan info file"; + + %{$clan_HR} = (); + + while(my $line = ) { + if($line !~ m/^#/) { + chomp $line; + my @el_A = split(/\s+/, $line); + # first element is clan name, all other elements are model names in that clan + #CL00111 SSU_rRNA_bacteria SSU_rRNA_archaea SSU_rRNA_eukarya SSU_rRNA_microsporidia SSU_trypano_mito + for(my $i = 1; $i < scalar(@el_A); $i++) { + if(exists $clan_H{$el_A[$i]}) { + die "ERROR in $sub_name, parsing clan info file $claninfo_file, read model $el_A[$i] more than once"; + } + $clan_HR->{$el_A[$i]} = $el_A[0]; + } + } + } + return; +} + +################################################################# +# Subroutine: parse_cmsearch_tblout_line() +# Incept: EPN, Fri Dec 8 09:33:23 2017 +# +# Purpose: Given an infernal cmsearch --tblout line, +# return $target, $query, $seqfrom, $seqto, $strand, $score, $evalue. +# +# # Example line +# #target name accession query name accession mdl mdl from mdl to seq from seq to strand trunc pass gc bias score E-value inc description of target +# #------------------- --------- -------------------- --------- --- -------- -------- -------- -------- ------ ----- ---- ---- ----- ------ --------- --- --------------------- +# 5S_rRNA-sample10 - 5S_rRNA RF00001 cm 1 119 1 121 + no 1 0.61 0.0 108.2 1.5e-27 ! - +# +# Arguments: +# $line: line to parse +# +# Returns: $target: name of target (5S_rRNA-sample10) +# $tacc: target accession (-) +# $query: query name (5S_rRNA) +# $qacc: query accession (RF00005) +# $mdlfrom: hmmfrom coord (1) +# $mdlto: hmm to coord (119) +# $seqfrom: sequence from coord (1) +# $seqto: sequence to coord (121) +# $strand: strand of hit (+) +# $score: bit score of hit (108.2) +# $evalue: E-value of hit (1.5e-27) +# $desc: description, undef unless $do_desc is 1 +# +# Dies: if line has fewer than 18 space delimited characters +################################################################# +sub parse_cmsearch_tblout_line { + my $sub_name = "parse_cmsearch_tblout_line"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($line, $do_desc) = @_; + + my @el_A = split(/\s+/, $line); + + if(scalar(@el_A) < 18) { die "ERROR found less than 18 columns in cmsearch tabular output at line: $line"; } + my ($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue) = + ($el_A[0], $el_A[1], $el_A[2], $el_A[3], $el_A[5], $el_A[6], $el_A[7], $el_A[8], $el_A[9], $el_A[14], $el_A[15]); + + my $desc = undef; + if($do_desc) { + $desc = $el_A[17]; + my $nel = scalar(@el_A); + for(my $i = 18; $i < $nel; $i++) { $desc .= "_" . $el_A[$i]; } # replace spaces with "_"; + } + + return($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc); +} + +################################################################# +# Subroutine: parse_nhmmer_tblout_line() +# Incept: EPN, Fri Dec 8 09:42:28 2017 +# +# Purpose: Given an nhmmer --tblout line, +# return $target, $query, $seqfrom, $seqto, $strand, $score, $evalue. +# +# # Example line +# # target name accession query name accession hmmfrom hmm to alifrom ali to envfrom env to sq len strand E-value score bias description of target +# #------------------- ---------- -------------------- ---------- ------- ------- ------- ------- ------- ------- ------- ------ --------- ------ ----- --------------------- +# 5S_rRNA-sample10 - 5S_rRNA RF00001 4 115 4 117 1 121 121 + 1.6e-17 53.3 4.8 - +# +# Arguments: +# $line: line to parse +# $do_desc: '1' to parse and return description, else '0' +# +# Returns: $target: name of target (5S_rRNA-sample10) +# $tacc: target accession (-) +# $query: query name (5S_rRNA) +# $qacc: query accession (RF00005) +# $mdlfrom: hmmfrom coord (4) +# $mdlto: hmm to coord (115) +# $seqfrom: ali from coord (4) +# $seqto: ali to coord (117) +# $strand: strand of hit (+) +# $score: bit score of hit (53.3) +# $evalue: E-value of hit (1.6e-17) +# $desc: description, undef unless $do_desc is 1 +# +# Dies: if line has fewer than 16 space delimited characters +################################################################# +sub parse_nhmmer_tblout_line { + my $sub_name = "parse_nhmmer_tblout_line"; + my $nargs_expected = 2; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($line, $do_desc) = @_; + + my @el_A = split(/\s+/, $line); + + if(scalar(@el_A) < 16) { die "ERROR found less than 16 columns in nhmmer tabular output at line: $line"; } + my ($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $evalue, $score) = + ($el_A[0], $el_A[1], $el_A[2], $el_A[3], $el_A[4], $el_A[5], $el_A[6], $el_A[7], $el_A[11], $el_A[12], $el_A[13]); + my $desc = undef; + if($do_desc) { + $desc = $el_A[15]; + my $nel = scalar(@el_A); + for(my $i = 16; $i < $nel; $i++) { $desc .= "_" . $el_A[$i]; } # replace spaces with "_"; + } + + return($target, $tacc, $query, $qacc, $mdlfrom, $mdlto, $seqfrom, $seqto, $strand, $score, $evalue, $desc); +} + +################################################################# +# Subroutine: parse_hmmsearch_tblout_line() +# Incept: EPN, Fri Dec 8 09:47:19 2017 +# +# Purpose: Given an hmmsearch --tblout line, +# return $target, $query, $score, $evalue. +# +# # Example line +# # --- full sequence ---- --- best 1 domain ---- --- domain number estimation ---- +# # target name accession query name accession E-value score bias E-value score bias exp reg clu ov env dom rep inc description of target +# #------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- +# 5S_rRNA-sample10 - 5S_rRNA RF00001 1.1e-19 59.8 0.0 1.2e-19 59.7 0.0 1.0 1 0 0 1 1 1 1 - +# +# Arguments: +# $line: line to parse +# $do_best: '1' to return score and E-value of best hit, not full sequence +# '0' to return score and E-value of sequence, not best hit +# $do_desc: '1' to parse and return description, else '0' +# +# Returns: $target: name of target (5S_rRNA-sample10) +# $query: query name (5S_rRNA) +# $score: bit score of sequence (53.3) +# $evalue: E-value of hit (1.6e-17) +# $desc: description, undef unless $do_desc is 1 +# +# Dies: if line has fewer than 19 space delimited characters +################################################################# +sub parse_hmmsearch_tblout_line { + my $sub_name = "parse_hmmsearch_tblout_line"; + my $nargs_expected = 3; + if(scalar(@_) != $nargs_expected) { printf STDERR ("ERROR, $sub_name entered with %d != %d input arguments.\n", scalar(@_), $nargs_expected); exit(1); } + + my ($line, $do_best, $do_desc) = @_; + + my @el_A = split(/\s+/, $line); + + if(scalar(@el_A) < 19) { die "ERROR found less than 16 columns in nhmmer tabular output at line: $line"; } + my ($target, $query, $full_evalue, $full_score, $best_evalue, $best_score) = + ($el_A[0], $el_A[2], $el_A[4], $el_A[5], $el_A[7], $el_A[8]); + + my $desc = undef; + if($do_desc) { + $desc = $el_A[18]; + my $nel = scalar(@el_A); + for(my $i = 19; $i < $nel; $i++) { $desc .= "_" . $el_A[$i]; } # replace spaces with "_"; + } + + if($do_best) { + return ($target, $query, $best_score, $best_evalue, $desc); + } + # else + return ($target, $query, $full_score, $full_evalue, $desc); +} + + +#end raw]]> + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + 10.1093/bioinformatics/bts573 + + + diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/test-data/clanin_sample --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmsearch_tblout_deoverlap_tool/test-data/clanin_sample Wed Aug 16 05:49:12 2023 +0000 @@ -0,0 +1,3 @@ +CL00111 SSU_rRNA_bacteria SSU_rRNA_archaea SSU_rRNA_eukarya SSU_rRNA_microsporidia SSU_trypano_mito +CL00112 LSU_rRNA_archaea LSU_rRNA_bacteria LSU_rRNA_eukarya LSU_trypano_mito 5_8S_rRNA +CL99999 5S_rRNA mtPerm-5S diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/test-data/in_tblout_sample --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmsearch_tblout_deoverlap_tool/test-data/in_tblout_sample Wed Aug 16 05:49:12 2023 +0000 @@ -0,0 +1,983 @@ +#target name accession query name accession mdl mdl from mdl to seq from seq to strand trunc pass gc bias score E-value inc description of target +#------------------- --------- -------------------- --------- --- -------- -------- -------- -------- ------ ----- ---- ---- ----- ------ --------- --- --------------------- +contig--95399 - 5S_rRNA RF00001 hmm 3 116 465 575 + - 6 0.55 0.0 53.3 5e-12 ! - +contig--3320537 - 5S_rRNA RF00001 hmm 4 115 219 329 + - 6 0.55 0.0 50.4 4.2e-11 ! - +contig--2298625 - 5S_rRNA RF00001 hmm 6 113 132 24 - - 6 0.57 0.0 47.0 4.6e-10 ! - +contig--397992 - 5S_rRNA RF00001 hmm 4 116 3051 3160 + - 6 0.63 0.0 43.6 5.4e-09 ! - +contig--3348019 - 5_8S_rRNA RF00002 hmm 1 153 559 711 + - 6 0.48 0.0 116.0 2e-31 ! - +contig--3980131 - 5_8S_rRNA RF00002 hmm 1 153 257 408 + - 6 0.49 0.0 101.2 8.4e-27 ! - +contig--2250940 - 5_8S_rRNA RF00002 hmm 1 153 239 390 + - 6 0.50 0.0 98.9 4.2e-26 ! - +contig--364625 - SSU_rRNA_bacteria RF00177 hmm 18 957 954 2 - - 6 0.52 5.2 654.3 1.7e-194 ! - +contig--2249925 - SSU_rRNA_bacteria RF00177 hmm 19 914 2 898 + - 6 0.50 5.7 638.4 1.1e-189 ! - +contig--2255364 - SSU_rRNA_bacteria RF00177 hmm 325 1084 765 1 - - 6 0.52 3.9 624.0 2.5e-185 ! - +contig--2369838 - SSU_rRNA_bacteria RF00177 hmm 90 938 20 855 + - 6 0.52 7.0 609.3 6.6e-181 ! - +contig--2271497 - SSU_rRNA_bacteria RF00177 hmm 4 812 835 2 - - 6 0.51 5.0 597.5 2.5e-177 ! - +contig--3568828 - SSU_rRNA_bacteria RF00177 hmm 311 991 670 5 - - 6 0.55 4.2 575.6 1e-170 ! - +contig--1568447 - SSU_rRNA_bacteria RF00177 hmm 291 968 2 684 + - 6 0.52 5.6 574.2 2.6e-170 ! - +contig--2506583 - SSU_rRNA_bacteria RF00177 hmm 483 1531 4 1047 + - 6 0.54 3.6 551.4 2.1e-163 ! - +contig--2914153 - SSU_rRNA_bacteria RF00177 hmm 139 936 799 1 - - 6 0.50 4.5 551.2 2.4e-163 ! - +contig--3474644 - SSU_rRNA_bacteria RF00177 hmm 5 760 51 832 + - 6 0.51 4.6 526.5 6.8e-156 ! - +contig--2972876 - SSU_rRNA_bacteria RF00177 hmm 320 925 614 1 - - 6 0.52 4.1 481.4 2.9e-142 ! - +contig--365127 - SSU_rRNA_bacteria RF00177 hmm 343 925 567 1 - - 6 0.56 4.3 478.1 3e-141 ! - +contig--363722 - SSU_rRNA_bacteria RF00177 hmm 347 918 579 1 - - 6 0.51 2.5 462.7 1.4e-136 ! - +contig--498568 - SSU_rRNA_bacteria RF00177 hmm 895 1410 516 2 - - 6 0.53 0.0 453.1 1e-133 ! - +contig--401056 - SSU_rRNA_bacteria RF00177 hmm 1024 1532 17 525 + - 6 0.53 0.1 435.4 2.3e-128 ! - +contig--2491978 - SSU_rRNA_bacteria RF00177 hmm 11 1084 1024 1 - - 6 0.54 4.9 434.2 5.3e-128 ! - +contig--1720439 - SSU_rRNA_bacteria RF00177 hmm 298 906 2 611 + - 6 0.48 1.4 433.7 7.5e-128 ! - +contig--3076204 - SSU_rRNA_bacteria RF00177 hmm 91 697 13 601 + - 6 0.52 2.2 427.5 5.7e-126 ! - +contig--3787593 - SSU_rRNA_bacteria RF00177 hmm 357 932 2 584 + - 6 0.51 2.2 420.1 9.5e-124 ! - +contig--298893 - SSU_rRNA_bacteria RF00177 hmm 4 580 27 606 + - 6 0.51 1.5 412.7 1.6e-121 ! - +contig--2969992 - SSU_rRNA_bacteria RF00177 hmm 470 954 4 488 + - 6 0.51 1.4 406.9 9.2e-120 ! - +contig--828224 - SSU_rRNA_bacteria RF00177 hmm 202 735 7 519 + - 6 0.58 6.6 405.3 3e-119 ! - +contig--2252644 - SSU_rRNA_bacteria RF00177 hmm 7 805 42 784 + - 6 0.48 1.6 404.9 3.7e-119 ! - +contig--152048 - SSU_rRNA_bacteria RF00177 hmm 4 580 584 3 - - 6 0.52 1.7 403.0 1.4e-118 ! - +contig--1776240 - SSU_rRNA_bacteria RF00177 hmm 908 1370 463 1 - - 6 0.53 0.1 396.4 1.4e-116 ! - +contig--3286658 - SSU_rRNA_bacteria RF00177 hmm 4 579 583 3 - - 6 0.50 0.1 391.7 3.8e-115 ! - +contig--696001 - SSU_rRNA_bacteria RF00177 hmm 5 571 69 625 + - 6 0.49 0.1 384.7 5e-113 ! - +contig--2251500 - SSU_rRNA_bacteria RF00177 hmm 925 1398 1 473 + - 6 0.52 0.0 382.1 2.9e-112 ! - +contig--912998 - SSU_rRNA_bacteria RF00177 hmm 752 1411 3 666 + - 6 0.55 0.5 377.0 1e-110 ! - +contig--1029476 - SSU_rRNA_bacteria RF00177 hmm 832 1348 174 700 + - 6 0.44 0.0 368.0 5.4e-108 ! - +contig--2253054 - SSU_rRNA_bacteria RF00177 hmm 335 797 1 446 + - 6 0.56 3.5 363.0 1.7e-106 ! - +contig--862423 - SSU_rRNA_bacteria RF00177 hmm 929 1352 1 423 + - 6 0.52 0.0 341.6 4.9e-100 ! - +contig--258486 - SSU_rRNA_bacteria RF00177 hmm 1132 1514 4 386 + - 6 0.57 0.1 315.0 5.5e-92 ! - +contig--363016 - SSU_rRNA_bacteria RF00177 hmm 1132 1532 1141 741 - - 6 0.53 0.1 314.7 6.6e-92 ! - +contig--1346273 - SSU_rRNA_bacteria RF00177 hmm 741 1108 374 3 - - 6 0.54 0.0 313.1 2e-91 ! - +contig--3889059 - SSU_rRNA_bacteria RF00177 hmm 394 800 1 413 + - 6 0.55 1.9 302.1 4.3e-88 ! - +contig--1210200 - SSU_rRNA_bacteria RF00177 hmm 504 908 406 1 - - 6 0.44 0.1 289.8 2.3e-84 ! - +contig--2766474 - SSU_rRNA_bacteria RF00177 hmm 1164 1532 410 40 - - 6 0.52 0.0 286.2 2.7e-83 ! - +contig--1192886 - SSU_rRNA_bacteria RF00177 hmm 1035 1369 332 1 - - 6 0.49 0.0 280.4 1.6e-81 ! - +contig--2889438 - SSU_rRNA_bacteria RF00177 hmm 1045 1378 334 1 - - 6 0.50 0.0 278.6 5.4e-81 ! - +contig--1634977 - SSU_rRNA_bacteria RF00177 hmm 1041 1356 2 315 + - 6 0.55 0.0 276.6 2.2e-80 ! - +contig--2248804 - SSU_rRNA_bacteria RF00177 hmm 1042 1427 165 539 + - 6 0.47 0.0 274.5 9.7e-80 ! - +contig--151199 - SSU_rRNA_bacteria RF00177 hmm 9 569 538 3 - - 6 0.41 0.0 270.9 1.1e-78 ! - +contig--1085416 - SSU_rRNA_bacteria RF00177 hmm 124 547 392 1 - - 6 0.49 0.1 263.5 2.1e-76 ! - +contig--1001177 - SSU_rRNA_bacteria RF00177 hmm 640 954 4 319 + - 6 0.52 0.8 257.9 1e-74 ! - +contig--813107 - SSU_rRNA_bacteria RF00177 hmm 499 967 13 486 + - 6 0.55 2.4 249.9 2.6e-72 ! - +contig--3837490 - SSU_rRNA_bacteria RF00177 hmm 44 438 392 4 - - 6 0.49 0.1 249.1 4.4e-72 ! - +contig--3153031 - SSU_rRNA_bacteria RF00177 hmm 5 374 44 384 + - 6 0.54 0.2 244.4 1.2e-70 ! - +contig--1531838 - SSU_rRNA_bacteria RF00177 hmm 908 1226 313 1 - - 6 0.50 0.0 235.1 7.5e-68 ! - +contig--1238415 - SSU_rRNA_bacteria RF00177 hmm 5 363 216 571 + - 6 0.55 0.8 229.4 4e-66 ! - +contig--214407 - SSU_rRNA_bacteria RF00177 hmm 91 429 15 336 + - 6 0.50 0.2 227.3 1.8e-65 ! - +contig--3503719 - SSU_rRNA_bacteria RF00177 hmm 1066 1412 350 3 - - 6 0.51 0.0 226.7 2.6e-65 ! - +contig--24391 - SSU_rRNA_bacteria RF00177 hmm 510 819 311 2 - - 6 0.49 1.1 224.6 1.1e-64 ! - +contig--2618713 - SSU_rRNA_bacteria RF00177 hmm 4 347 1048 1400 + - 6 0.53 0.2 223.9 1.8e-64 ! - +contig--1209771 - SSU_rRNA_bacteria RF00177 hmm 1058 1336 278 1 - - 6 0.50 0.0 220.9 1.5e-63 ! - +contig--1149779 - SSU_rRNA_bacteria RF00177 hmm 1224 1526 303 2 - - 6 0.51 0.0 219.3 4.4e-63 ! - +contig--664472 - SSU_rRNA_bacteria RF00177 hmm 30 388 2 331 + - 6 0.56 0.4 213.3 2.9e-61 ! - +contig--1368084 - SSU_rRNA_bacteria RF00177 hmm 19 363 361 2 - - 6 0.51 0.1 212.0 7.1e-61 ! - +contig--3276943 - SSU_rRNA_bacteria RF00177 hmm 645 1527 2352 1448 - - 6 0.45 0.0 211.9 7.6e-61 ! - +contig--2693087 - SSU_rRNA_bacteria RF00177 hmm 4 341 132 439 + - 6 0.53 0.0 209.9 3.1e-60 ! - +contig--2706433 - SSU_rRNA_bacteria RF00177 hmm 4 345 22 364 + - 6 0.55 0.4 209.8 3.4e-60 ! - +contig--2251690 - SSU_rRNA_bacteria RF00177 hmm 18 350 334 1 - - 6 0.58 0.6 206.9 2.6e-59 ! - +contig--145250 - SSU_rRNA_bacteria RF00177 hmm 3 517 6 546 + - 6 0.38 0.0 200.5 2.1e-57 ! - +contig--3492742 - SSU_rRNA_bacteria RF00177 hmm 5 332 300 2 - - 6 0.54 0.1 197.8 1.5e-56 ! - +contig--1584065 - SSU_rRNA_bacteria RF00177 hmm 18 351 332 1 - - 6 0.54 0.1 196.9 2.6e-56 ! - +contig--1003442 - SSU_rRNA_bacteria RF00177 hmm 27 355 328 1 - - 6 0.55 0.7 194.1 1.8e-55 ! - +contig--362436 - SSU_rRNA_bacteria RF00177 hmm 18 333 311 2 - - 6 0.56 0.5 185.7 6.6e-53 ! - +contig--1214669 - SSU_rRNA_bacteria RF00177 hmm 5 321 299 1 - - 6 0.53 0.1 184.4 1.6e-52 ! - +contig--540576 - SSU_rRNA_bacteria RF00177 hmm 48 383 341 2 - - 6 0.46 0.0 179.2 6.1e-51 ! - +contig--866163 - SSU_rRNA_bacteria RF00177 hmm 21 324 310 1 - - 6 0.45 0.0 170.6 2.4e-48 ! - +contig--3171405 - SSU_rRNA_bacteria RF00177 hmm 4 318 33 332 + - 6 0.43 0.0 163.0 4.8e-46 ! - +contig--2755789 - SSU_rRNA_bacteria RF00177 hmm 18 324 1 309 + - 6 0.51 0.0 152.4 7.5e-43 ! - +contig--984009 - SSU_rRNA_bacteria RF00177 hmm 3 285 284 1 - - 6 0.45 0.0 152.1 9.3e-43 ! - +contig--3093712 - SSU_rRNA_bacteria RF00177 hmm 703 909 2 210 + - 6 0.56 0.0 151.1 1.8e-42 ! - +contig--159495 - SSU_rRNA_bacteria RF00177 hmm 5 274 11920 12194 + - 6 0.52 0.1 148.0 1.6e-41 ! - +contig--193617 - SSU_rRNA_bacteria RF00177 hmm 956 1291 306 1 - - 6 0.55 0.0 136.8 3.9e-38 ! - +contig--3575278 - SSU_rRNA_bacteria RF00177 hmm 1334 1532 3 191 + - 6 0.54 0.0 132.9 5.6e-37 ! - +contig--3128112 - SSU_rRNA_bacteria RF00177 hmm 539 943 410 5 - - 6 0.46 0.0 130.8 2.5e-36 ! - +contig--1211922 - SSU_rRNA_bacteria RF00177 hmm 1212 1431 300 81 - - 6 0.40 0.0 125.2 1.2e-34 ! - +contig--2254313 - SSU_rRNA_bacteria RF00177 hmm 642 974 346 3 - - 6 0.52 0.1 123.2 4.9e-34 ! - +contig--1604373 - SSU_rRNA_bacteria RF00177 hmm 1022 1396 26 423 + - 6 0.47 0.0 117.1 3.4e-32 ! - +contig--594041 - SSU_rRNA_bacteria RF00177 hmm 43 372 7 318 + - 6 0.54 0.1 103.0 6e-28 ! - +contig--186013 - SSU_rRNA_bacteria RF00177 hmm 644 917 290 5 - - 6 0.43 0.0 96.7 5.1e-26 ! - +contig--978828 - SSU_rRNA_bacteria RF00177 hmm 897 1229 341 2 - - 6 0.45 0.0 96.6 5.4e-26 ! - +contig--1209771 - SSU_rRNA_bacteria RF00177 hmm 934 1107 598 420 - - 6 0.45 0.0 95.2 1.4e-25 ! - +contig--293050 - SSU_rRNA_bacteria RF00177 hmm 4 177 171 341 + - 6 0.55 0.0 94.0 3.2e-25 ! - +contig--2248828 - SSU_rRNA_bacteria RF00177 hmm 645 919 292 10 - - 6 0.44 0.1 92.5 9.1e-25 ! - +contig--3348019 - SSU_rRNA_bacteria RF00177 hmm 1186 1529 3 378 + - 6 0.47 0.0 91.6 1.7e-24 ! - +contig--2252003 - SSU_rRNA_bacteria RF00177 hmm 642 919 304 593 + - 6 0.42 0.0 90.4 3.9e-24 ! - +contig--232952 - SSU_rRNA_bacteria RF00177 hmm 598 916 223 568 + - 6 0.49 0.1 89.6 6.8e-24 ! - +contig--2249727 - SSU_rRNA_bacteria RF00177 hmm 1167 1499 5 352 + - 6 0.48 0.0 85.1 1.6e-22 ! - +contig--314729 - SSU_rRNA_bacteria RF00177 hmm 924 1235 324 2 - - 6 0.56 0.0 83.1 6.2e-22 ! - +contig--3767142 - SSU_rRNA_bacteria RF00177 hmm 534 885 7 351 + - 6 0.33 0.0 75.5 1.3e-19 ! - +contig--2552028 - SSU_rRNA_bacteria RF00177 hmm 636 910 304 590 + - 6 0.44 0.1 74.6 2.4e-19 ! - +contig--2255117 - SSU_rRNA_bacteria RF00177 hmm 270 524 249 1 - - 6 0.36 0.0 67.2 3.9e-17 ! - +contig--2250377 - SSU_rRNA_bacteria RF00177 hmm 268 529 60 315 + - 6 0.39 0.0 67.1 4.5e-17 ! - +contig--2565011 - SSU_rRNA_bacteria RF00177 hmm 46 528 571 34 - - 6 0.47 0.0 66.3 7.4e-17 ! - +contig--3013908 - SSU_rRNA_bacteria RF00177 hmm 1045 1353 326 2 - - 6 0.44 0.0 63.4 5.6e-16 ! - +contig--486161 - SSU_rRNA_bacteria RF00177 hmm 930 1120 10 197 + - 6 0.32 0.0 62.8 8.9e-16 ! - +contig--151527 - SSU_rRNA_bacteria RF00177 hmm 46 577 928 346 - - 6 0.42 0.0 60.6 4e-15 ! - +contig--185316 - SSU_rRNA_bacteria RF00177 hmm 1073 1367 2 311 + - 6 0.50 0.0 60.5 4.4e-15 ! - +contig--363170 - SSU_rRNA_bacteria RF00177 hmm 229 583 687 354 - - 6 0.49 0.0 58.4 1.9e-14 ! - +contig--2514811 - SSU_rRNA_bacteria RF00177 hmm 644 892 490 746 + - 6 0.46 0.0 56.9 5.1e-14 ! - +contig--2726048 - SSU_rRNA_bacteria RF00177 hmm 228 667 235 652 + - 6 0.50 0.0 54.9 2.1e-13 ! - +contig--2506583 - SSU_rRNA_archaea RF01959 hmm 432 1476 4 1046 + - 6 0.54 4.9 791.7 3.4e-236 ! - +contig--2491978 - SSU_rRNA_archaea RF01959 hmm 2 1033 1028 1 - - 6 0.54 5.5 777.7 6.1e-232 ! - +contig--912998 - SSU_rRNA_archaea RF01959 hmm 701 1366 1 666 + - 6 0.55 1.3 526.9 3.5e-156 ! - +contig--813107 - SSU_rRNA_archaea RF01959 hmm 437 924 1 487 + - 6 0.55 3.2 375.6 1.9e-110 ! - +contig--364625 - SSU_rRNA_archaea RF01959 hmm 35 912 931 3 - - 6 0.52 3.9 347.9 4.4e-102 ! - +contig--2369838 - SSU_rRNA_archaea RF01959 hmm 70 894 17 855 + - 6 0.52 5.4 346.7 9.9e-102 ! - +contig--3568828 - SSU_rRNA_archaea RF01959 hmm 299 936 666 16 - - 6 0.55 4.7 338.4 3.2e-99 ! - +contig--2249925 - SSU_rRNA_archaea RF01959 hmm 36 868 23 897 + - 6 0.50 3.9 334.0 7.1e-98 ! - +contig--2255364 - SSU_rRNA_archaea RF01959 hmm 315 1033 759 1 - - 6 0.52 3.2 324.5 5e-95 ! - +contig--2914153 - SSU_rRNA_archaea RF01959 hmm 122 891 799 2 - - 6 0.50 2.3 314.2 6.5e-92 ! - +contig--1568447 - SSU_rRNA_archaea RF01959 hmm 276 921 3 681 + - 6 0.52 4.7 297.1 9.6e-87 ! - +contig--2271497 - SSU_rRNA_archaea RF01959 hmm 7 762 827 3 - - 6 0.51 3.2 296.8 1.2e-86 ! - +contig--401056 - SSU_rRNA_archaea RF01959 hmm 966 1476 7 523 + - 6 0.54 0.1 289.2 2.3e-84 ! - +contig--498568 - SSU_rRNA_archaea RF01959 hmm 851 1365 515 2 - - 6 0.54 0.0 278.9 3.2e-81 ! - +contig--3474644 - SSU_rRNA_archaea RF01959 hmm 8 711 59 832 + - 6 0.51 1.9 267.5 8.7e-78 ! - +contig--365127 - SSU_rRNA_archaea RF01959 hmm 328 875 566 6 - - 6 0.55 4.8 260.0 1.6e-75 ! - +contig--2969992 - SSU_rRNA_archaea RF01959 hmm 427 910 12 488 + - 6 0.51 0.9 250.8 9.4e-73 ! - +contig--3276943 - SSU_rRNA_archaea RF01959 hmm 590 1472 2354 1449 - - 6 0.45 0.0 250.1 1.6e-72 ! - +contig--1029476 - SSU_rRNA_archaea RF01959 hmm 790 1300 177 697 + - 6 0.44 0.0 249.5 2.3e-72 ! - +contig--2972876 - SSU_rRNA_archaea RF01959 hmm 304 873 614 8 - - 6 0.52 3.2 247.8 8e-72 ! - +contig--363722 - SSU_rRNA_archaea RF01959 hmm 332 873 578 1 - - 6 0.51 1.3 245.2 4.7e-71 ! - +contig--2251500 - SSU_rRNA_archaea RF01959 hmm 882 1353 2 473 + - 6 0.52 0.0 240.0 1.7e-69 ! - +contig--3787593 - SSU_rRNA_archaea RF01959 hmm 342 887 3 583 + - 6 0.51 1.4 239.0 3.5e-69 ! - +contig--1776240 - SSU_rRNA_archaea RF01959 hmm 863 1325 463 1 - - 6 0.53 0.2 235.5 4e-68 ! - +contig--1720439 - SSU_rRNA_archaea RF01959 hmm 281 861 1 611 + - 6 0.48 0.2 233.2 2e-67 ! - +contig--3076204 - SSU_rRNA_archaea RF01959 hmm 75 645 14 598 + - 6 0.52 1.1 220.2 1.7e-63 ! - +contig--1634977 - SSU_rRNA_archaea RF01959 hmm 989 1310 1 314 + - 6 0.55 0.0 209.4 3.1e-60 ! - +contig--594041 - SSU_rRNA_archaea RF01959 hmm 34 358 2 320 + - 6 0.54 0.1 209.1 3.9e-60 ! - +contig--1210200 - SSU_rRNA_archaea RF01959 hmm 455 863 405 1 - - 6 0.44 0.0 208.3 6.6e-60 ! - +contig--363016 - SSU_rRNA_archaea RF01959 hmm 1087 1476 1141 743 - - 6 0.54 0.1 204.6 8.6e-59 ! - +contig--862423 - SSU_rRNA_archaea RF01959 hmm 887 1306 3 422 + - 6 0.52 0.0 203.9 1.4e-58 ! - +contig--1346273 - SSU_rRNA_archaea RF01959 hmm 693 1058 373 2 - - 6 0.54 0.0 198.1 7.9e-57 ! - +contig--828224 - SSU_rRNA_archaea RF01959 hmm 187 685 6 518 + - 6 0.58 7.3 197.8 9.8e-57 ! - +contig--2889438 - SSU_rRNA_archaea RF01959 hmm 994 1330 334 4 - - 6 0.50 0.0 195.6 4.7e-56 ! - +contig--258486 - SSU_rRNA_archaea RF01959 hmm 1087 1459 4 385 + - 6 0.57 0.4 193.8 1.6e-55 ! - +contig--2252644 - SSU_rRNA_archaea RF01959 hmm 6 756 46 784 + - 6 0.48 0.1 192.0 5.7e-55 ! - +contig--2253054 - SSU_rRNA_archaea RF01959 hmm 322 747 4 445 + - 6 0.56 3.3 191.6 7.5e-55 ! - +contig--2766474 - SSU_rRNA_archaea RF01959 hmm 1119 1476 410 42 - - 6 0.52 0.0 186.7 2.3e-53 ! - +contig--3286658 - SSU_rRNA_archaea RF01959 hmm 7 528 575 4 - - 6 0.50 0.0 186.0 3.7e-53 ! - +contig--2248804 - SSU_rRNA_archaea RF01959 hmm 991 1368 165 525 + - 6 0.47 0.0 182.5 4e-52 ! - +contig--1192886 - SSU_rRNA_archaea RF01959 hmm 985 1324 331 1 - - 6 0.49 0.0 178.1 8.6e-51 ! - +contig--1001177 - SSU_rRNA_archaea RF01959 hmm 591 909 4 318 + - 6 0.52 0.8 177.2 1.7e-50 ! - +contig--298893 - SSU_rRNA_archaea RF01959 hmm 8 530 36 606 + - 6 0.51 0.8 170.7 1.6e-48 ! - +contig--152048 - SSU_rRNA_archaea RF01959 hmm 8 530 575 3 - - 6 0.52 0.8 163.1 3e-46 ! - +contig--3889059 - SSU_rRNA_archaea RF01959 hmm 427 748 91 410 + - 6 0.55 1.2 155.3 7.1e-44 ! - +contig--3503719 - SSU_rRNA_archaea RF01959 hmm 1015 1365 350 5 - - 6 0.51 0.0 154.8 9.7e-44 ! - +contig--24391 - SSU_rRNA_archaea RF01959 hmm 460 769 311 3 - - 6 0.49 0.2 154.2 1.5e-43 ! - +contig--696001 - SSU_rRNA_archaea RF01959 hmm 37 521 105 625 + - 6 0.50 0.1 153.8 1.9e-43 ! - +contig--2254313 - SSU_rRNA_archaea RF01959 hmm 593 930 346 3 - - 6 0.52 0.1 150.9 1.5e-42 ! - +contig--1604373 - SSU_rRNA_archaea RF01959 hmm 953 1351 7 423 + - 6 0.47 0.0 150.7 1.7e-42 ! - +contig--1209771 - SSU_rRNA_archaea RF01959 hmm 1003 1290 282 2 - - 6 0.51 0.0 137.8 1.3e-38 ! - +contig--1149779 - SSU_rRNA_archaea RF01959 hmm 1179 1473 303 1 - - 6 0.51 0.0 133.6 2.4e-37 ! - +contig--1531838 - SSU_rRNA_archaea RF01959 hmm 863 1180 313 2 - - 6 0.50 0.0 130.8 1.7e-36 ! - +contig--978828 - SSU_rRNA_archaea RF01959 hmm 852 1184 341 2 - - 6 0.45 0.0 128.7 7.6e-36 ! - +contig--3837490 - SSU_rRNA_archaea RF01959 hmm 43 392 389 34 - - 6 0.49 0.0 124.5 1.4e-34 ! - +contig--3093712 - SSU_rRNA_archaea RF01959 hmm 655 864 3 210 + - 6 0.57 0.1 123.3 3.1e-34 ! - +contig--314729 - SSU_rRNA_archaea RF01959 hmm 869 1190 335 2 - - 6 0.56 0.1 120.0 3.2e-33 ! - +contig--2618713 - SSU_rRNA_archaea RF01959 hmm 7 329 1056 1398 + - 6 0.53 0.1 117.5 1.9e-32 ! - +contig--3348019 - SSU_rRNA_archaea RF01959 hmm 1141 1473 3 376 + - 6 0.47 0.0 115.9 5.4e-32 ! - +contig--214407 - SSU_rRNA_archaea RF01959 hmm 77 391 18 314 + - 6 0.50 0.1 112.7 5e-31 ! - +contig--3153031 - SSU_rRNA_archaea RF01959 hmm 7 357 51 383 + - 6 0.54 0.2 110.7 2.1e-30 ! - +contig--2249727 - SSU_rRNA_archaea RF01959 hmm 1122 1445 5 352 + - 6 0.48 0.0 110.6 2.3e-30 ! - +contig--2693087 - SSU_rRNA_archaea RF01959 hmm 7 318 140 432 + - 6 0.53 0.0 105.0 1.1e-28 ! - +contig--664472 - SSU_rRNA_archaea RF01959 hmm 38 372 14 331 + - 6 0.56 0.7 104.6 1.4e-28 ! - +contig--151199 - SSU_rRNA_archaea RF01959 hmm 7 519 535 3 - - 6 0.41 0.0 104.0 2.1e-28 ! - +contig--540576 - SSU_rRNA_archaea RF01959 hmm 46 365 339 4 - - 6 0.47 0.0 102.7 5.4e-28 ! - +contig--3128112 - SSU_rRNA_archaea RF01959 hmm 495 898 404 6 - - 6 0.47 0.0 102.3 6.9e-28 ! - +contig--1085416 - SSU_rRNA_archaea RF01959 hmm 106 492 393 6 - - 6 0.49 0.0 101.8 1e-27 ! - +contig--1368084 - SSU_rRNA_archaea RF01959 hmm 35 345 341 4 - - 6 0.51 0.1 99.5 4.8e-27 ! - +contig--2248828 - SSU_rRNA_archaea RF01959 hmm 594 882 294 2 - - 6 0.45 0.0 98.5 9.9e-27 ! - +contig--2251690 - SSU_rRNA_archaea RF01959 hmm 31 333 315 2 - - 6 0.58 0.9 98.0 1.5e-26 ! - +contig--984009 - SSU_rRNA_archaea RF01959 hmm 7 269 275 1 - - 6 0.46 0.0 97.6 1.9e-26 ! - +contig--1238415 - SSU_rRNA_archaea RF01959 hmm 7 345 223 569 + - 6 0.56 0.7 95.2 9.8e-26 ! - +contig--3492742 - SSU_rRNA_archaea RF01959 hmm 7 315 293 3 - - 6 0.54 0.1 94.3 1.8e-25 ! - +contig--2252003 - SSU_rRNA_archaea RF01959 hmm 607 889 317 608 + - 6 0.43 0.0 93.9 2.5e-25 ! - +contig--2755789 - SSU_rRNA_archaea RF01959 hmm 26 308 15 309 + - 6 0.50 0.0 93.2 3.9e-25 ! - +contig--232952 - SSU_rRNA_archaea RF01959 hmm 596 871 284 568 + - 6 0.50 0.1 93.0 4.5e-25 ! - +contig--1584065 - SSU_rRNA_archaea RF01959 hmm 31 334 313 2 - - 6 0.53 0.1 91.9 9.6e-25 ! - +contig--362436 - SSU_rRNA_archaea RF01959 hmm 35 315 290 4 - - 6 0.56 0.6 90.5 2.6e-24 ! - +contig--186013 - SSU_rRNA_archaea RF01959 hmm 605 875 280 2 - - 6 0.44 0.0 90.2 3.2e-24 ! - +contig--159495 - SSU_rRNA_archaea RF01959 hmm 7 256 11927 12192 + - 6 0.52 0.0 89.9 3.9e-24 ! - +contig--151527 - SSU_rRNA_archaea RF01959 hmm 42 531 928 342 - - 6 0.42 0.0 89.2 6.4e-24 ! - +contig--3575278 - SSU_rRNA_archaea RF01959 hmm 1290 1476 4 189 + - 6 0.55 0.0 88.8 8.6e-24 ! - +contig--363170 - SSU_rRNA_archaea RF01959 hmm 217 532 683 355 - - 6 0.49 0.0 87.9 1.6e-23 ! - +contig--193617 - SSU_rRNA_archaea RF01959 hmm 913 1245 305 2 - - 6 0.55 0.0 87.9 1.6e-23 ! - +contig--2706433 - SSU_rRNA_archaea RF01959 hmm 8 329 31 364 + - 6 0.55 0.4 87.7 1.8e-23 ! - +contig--1003442 - SSU_rRNA_archaea RF01959 hmm 37 338 314 2 - - 6 0.56 0.6 83.8 2.9e-22 ! - +contig--2726048 - SSU_rRNA_archaea RF01959 hmm 217 594 240 628 + - 6 0.51 0.0 80.9 2.1e-21 ! - +contig--1214669 - SSU_rRNA_archaea RF01959 hmm 7 301 292 5 - - 6 0.54 0.1 80.4 2.9e-21 ! - +contig--2565011 - SSU_rRNA_archaea RF01959 hmm 42 490 571 22 - - 6 0.47 0.0 79.4 5.8e-21 ! - +contig--3013908 - SSU_rRNA_archaea RF01959 hmm 994 1308 326 2 - - 6 0.44 0.0 79.3 6.5e-21 ! - +contig--866163 - SSU_rRNA_archaea RF01959 hmm 30 308 295 1 - - 6 0.44 0.0 79.1 7.5e-21 ! - +contig--1211922 - SSU_rRNA_archaea RF01959 hmm 1167 1372 300 95 - - 6 0.42 0.0 78.2 1.3e-20 ! - +contig--185316 - SSU_rRNA_archaea RF01959 hmm 1023 1322 3 311 + - 6 0.50 0.0 76.1 5.9e-20 ! - +contig--2552028 - SSU_rRNA_archaea RF01959 hmm 587 865 304 590 + - 6 0.44 0.0 70.4 3e-18 ! - +contig--2514811 - SSU_rRNA_archaea RF01959 hmm 284 533 12 270 + - 6 0.49 0.0 65.3 1e-16 ! - +contig--2514811 - SSU_rRNA_archaea RF01959 hmm 593 847 488 746 + - 6 0.45 0.0 57.8 2e-14 ! - +contig--3171405 - SSU_rRNA_archaea RF01959 hmm 7 289 41 319 + - 6 0.42 0.0 55.8 8e-14 ! - +contig--3420575 - SSU_rRNA_archaea RF01959 hmm 73 460 472 1 - - 6 0.45 0.0 52.6 7.2e-13 ! - +contig--186013 - SSU_rRNA_archaea RF01959 hmm 323 532 741 518 - - 6 0.44 0.0 51.6 1.5e-12 ! - +contig--151527 - SSU_rRNA_eukarya RF01960 hmm 20 1010 950 2 - - 6 0.41 10.8 596.2 4.3e-177 ! - +contig--3276943 - SSU_rRNA_eukarya RF01960 hmm 812 1850 2407 1448 - - 6 0.45 2.4 551.7 1.1e-163 ! - +contig--363170 - SSU_rRNA_eukarya RF01960 hmm 102 1017 866 1 - - 6 0.45 4.4 517.9 1.8e-153 ! - +contig--2514811 - SSU_rRNA_eukarya RF01960 hmm 369 1146 2 746 + - 6 0.46 2.2 506.7 4.3e-150 ! - +contig--2726048 - SSU_rRNA_eukarya RF01960 hmm 50 951 1 869 + - 6 0.47 0.3 501.9 1.3e-148 ! - +contig--186013 - SSU_rRNA_eukarya RF01960 hmm 414 1175 745 1 - - 6 0.44 4.8 487.0 3.8e-144 ! - +contig--2565011 - SSU_rRNA_eukarya RF01960 hmm 24 622 589 1 - - 6 0.46 0.1 421.6 2.2e-124 ! - +contig--2252003 - SSU_rRNA_eukarya RF01960 hmm 567 1189 1 609 + - 6 0.43 3.4 404.2 3.8e-119 ! - +contig--2248828 - SSU_rRNA_eukarya RF01960 hmm 581 1182 581 1 - - 6 0.44 3.5 385.6 1.6e-113 ! - +contig--2506583 - SSU_rRNA_eukarya RF01960 hmm 886 1848 167 1041 + - 6 0.55 0.0 382.5 1.4e-112 ! - +contig--3420575 - SSU_rRNA_eukarya RF01960 hmm 50 571 503 1 - - 6 0.44 0.5 336.8 8.5e-99 ! - +contig--232952 - SSU_rRNA_eukarya RF01960 hmm 589 1172 1 570 + - 6 0.51 0.0 325.9 1.7e-95 ! - +contig--978828 - SSU_rRNA_eukarya RF01960 hmm 1151 1521 341 2 - - 6 0.45 0.0 301.7 3.4e-88 ! - +contig--1604373 - SSU_rRNA_eukarya RF01960 hmm 1247 1695 1 423 + - 6 0.47 0.1 296.1 1.7e-86 ! - +contig--2552028 - SSU_rRNA_eukarya RF01960 hmm 552 1164 1 590 + - 6 0.45 1.6 292.0 2.9e-85 ! - +contig--912998 - SSU_rRNA_eukarya RF01960 hmm 992 1701 2 657 + - 6 0.55 0.0 288.0 4.6e-84 ! - +contig--3348019 - SSU_rRNA_eukarya RF01960 hmm 1474 1850 1 376 + - 6 0.47 0.0 279.3 2e-81 ! - +contig--2249727 - SSU_rRNA_eukarya RF01960 hmm 1456 1823 4 353 + - 6 0.48 0.0 250.6 9.5e-73 ! - +contig--2253688 - SSU_rRNA_eukarya RF01960 hmm 3 444 443 1 - - 6 0.40 0.9 249.9 1.5e-72 ! - +contig--30742 - SSU_rRNA_eukarya RF01960 hmm 37 429 2 393 + - 6 0.41 0.4 233.1 1.8e-67 ! - +contig--256048 - SSU_rRNA_eukarya RF01960 hmm 420 829 1 469 + - 6 0.49 0.0 231.1 7.1e-67 ! - +contig--1379481 - SSU_rRNA_eukarya RF01960 hmm 30 443 1 406 + - 6 0.35 2.5 214.3 8.4e-62 ! - +contig--1171145 - SSU_rRNA_eukarya RF01960 hmm 23 410 2 365 + - 6 0.41 0.8 211.7 5.2e-61 ! - +contig--3013908 - SSU_rRNA_eukarya RF01960 hmm 1295 1653 326 1 - - 6 0.44 0.0 202.8 2.5e-58 ! - +contig--498568 - SSU_rRNA_eukarya RF01960 hmm 1151 1703 514 8 - - 6 0.53 0.0 201.4 6.5e-58 ! - +contig--2491978 - SSU_rRNA_eukarya RF01960 hmm 892 1333 432 2 - - 6 0.56 0.1 199.1 3.3e-57 ! - +contig--2254313 - SSU_rRNA_eukarya RF01960 hmm 879 1229 350 3 - - 6 0.51 0.0 195.6 3.7e-56 ! - +contig--2251634 - SSU_rRNA_eukarya RF01960 hmm 22 400 377 1 - - 6 0.43 0.3 194.8 6.4e-56 ! - +contig--3096224 - SSU_rRNA_eukarya RF01960 hmm 748 1033 21 305 + - 6 0.45 0.5 190.7 1.1e-54 ! - +contig--185316 - SSU_rRNA_eukarya RF01960 hmm 1323 1667 2 312 + - 6 0.50 0.0 185.2 5.1e-53 ! - +contig--2251500 - SSU_rRNA_eukarya RF01960 hmm 1180 1697 1 473 + - 6 0.52 0.0 183.7 1.5e-52 ! - +contig--1029476 - SSU_rRNA_eukarya RF01960 hmm 1129 1645 217 698 + - 6 0.44 0.4 178.8 4.4e-51 ! - +contig--314729 - SSU_rRNA_eukarya RF01960 hmm 1166 1526 337 3 - - 6 0.56 0.0 178.5 5.4e-51 ! - +contig--364755 - SSU_rRNA_eukarya RF01960 hmm 589 998 1 396 + - 6 0.47 0.0 178.0 7.6e-51 ! - +contig--401056 - SSU_rRNA_eukarya RF01960 hmm 1280 1848 23 518 + - 6 0.54 0.0 174.0 1.3e-49 ! - +contig--2252860 - SSU_rRNA_eukarya RF01960 hmm 3 355 1 348 + - 6 0.43 0.1 167.8 9e-48 ! - +contig--2255364 - SSU_rRNA_eukarya RF01960 hmm 885 1333 440 2 - - 6 0.52 0.1 166.7 2e-47 ! - +contig--285317 - SSU_rRNA_eukarya RF01960 hmm 580 938 1 339 + - 6 0.40 3.5 160.8 1.2e-45 ! - +contig--3568828 - SSU_rRNA_eukarya RF01960 hmm 888 1242 350 9 - - 6 0.55 0.1 160.4 1.6e-45 ! - +contig--3461222 - SSU_rRNA_eukarya RF01960 hmm 38 582 19 522 + - 6 0.43 0.9 157.3 1.3e-44 ! - +contig--1776240 - SSU_rRNA_eukarya RF01960 hmm 1162 1669 463 1 - - 6 0.53 0.0 150.5 1.6e-42 ! - +contig--1346273 - SSU_rRNA_eukarya RF01960 hmm 990 1358 366 3 - - 6 0.54 0.0 148.3 7.3e-42 ! - +contig--664339 - SSU_rRNA_eukarya RF01960 hmm 597 990 380 1 - - 6 0.45 0.4 148.1 8.4e-42 ! - +contig--813107 - SSU_rRNA_eukarya RF01960 hmm 886 1224 159 488 + - 6 0.56 0.2 142.6 3.8e-40 ! - +contig--2253412 - SSU_rRNA_eukarya RF01960 hmm 23 337 2 311 + - 6 0.42 0.1 134.0 1.5e-37 ! - +contig--363016 - SSU_rRNA_eukarya RF01960 hmm 1431 1848 1132 748 - - 6 0.53 0.0 132.2 5.3e-37 ! - +contig--862423 - SSU_rRNA_eukarya RF01960 hmm 1186 1650 3 422 + - 6 0.52 0.0 131.4 9.1e-37 ! - +contig--1568447 - SSU_rRNA_eukarya RF01960 hmm 890 1222 367 683 + - 6 0.53 0.3 128.7 6.1e-36 ! - +contig--2571986 - SSU_rRNA_eukarya RF01960 hmm 591 933 332 2 - - 6 0.45 0.5 127.1 1.8e-35 ! - +contig--364625 - SSU_rRNA_eukarya RF01960 hmm 887 1210 314 4 - - 6 0.50 0.1 125.2 6.5e-35 ! - +contig--2248804 - SSU_rRNA_eukarya RF01960 hmm 1292 1702 165 515 + - 6 0.47 0.0 121.6 8.5e-34 ! - +contig--258486 - SSU_rRNA_eukarya RF01960 hmm 1429 1827 11 376 + - 6 0.56 0.0 121.1 1.1e-33 ! - +contig--2835211 - SSU_rRNA_eukarya RF01960 hmm 588 901 1 301 + - 6 0.43 0.9 120.6 1.6e-33 ! - +contig--1656709 - SSU_rRNA_eukarya RF01960 hmm 586 940 1 331 + - 6 0.39 5.2 119.5 3.6e-33 ! - +contig--2491978 - SSU_rRNA_eukarya RF01960 hmm 5 661 1025 483 - - 6 0.53 0.0 118.3 8.2e-33 ! - +contig--2969992 - SSU_rRNA_eukarya RF01960 hmm 891 1209 184 488 + - 6 0.51 0.3 118.2 8.8e-33 ! - +contig--2766474 - SSU_rRNA_eukarya RF01960 hmm 1456 1845 408 50 - - 6 0.52 0.0 117.4 1.5e-32 ! - +contig--1098909 - SSU_rRNA_eukarya RF01960 hmm 596 928 314 1 - - 6 0.45 0.2 115.9 4.3e-32 ! - +contig--2914153 - SSU_rRNA_eukarya RF01960 hmm 890 1191 288 1 - - 6 0.47 0.8 115.5 5.8e-32 ! - +contig--1001177 - SSU_rRNA_eukarya RF01960 hmm 892 1209 15 319 + - 6 0.52 0.4 113.2 2.9e-31 ! - +contig--3787593 - SSU_rRNA_eukarya RF01960 hmm 890 1187 300 584 + - 6 0.52 0.2 111.0 1.3e-30 ! - +contig--2889438 - SSU_rRNA_eukarya RF01960 hmm 1295 1673 334 5 - - 6 0.50 0.0 109.1 4.8e-30 ! - +contig--2972876 - SSU_rRNA_eukarya RF01960 hmm 888 1171 280 9 - - 6 0.52 0.3 108.6 7e-30 ! - +contig--2369838 - SSU_rRNA_eukarya RF01960 hmm 885 1193 560 855 + - 6 0.54 0.3 106.4 3.2e-29 ! - +contig--365127 - SSU_rRNA_eukarya RF01960 hmm 890 1172 277 8 - - 6 0.54 0.0 105.6 5.6e-29 ! - +contig--1149779 - SSU_rRNA_eukarya RF01960 hmm 1517 1848 302 3 - - 6 0.51 0.0 104.4 1.3e-28 ! - +contig--1634977 - SSU_rRNA_eukarya RF01960 hmm 1290 1654 1 314 + - 6 0.55 0.0 103.9 1.8e-28 ! - +contig--1192886 - SSU_rRNA_eukarya RF01960 hmm 1287 1668 330 1 - - 6 0.49 0.0 97.5 1.5e-26 ! - +contig--363722 - SSU_rRNA_eukarya RF01960 hmm 879 1170 280 3 - - 6 0.51 0.1 97.0 2.1e-26 ! - +contig--3503719 - SSU_rRNA_eukarya RF01960 hmm 1317 1703 349 11 - - 6 0.51 0.0 95.6 5.9e-26 ! - +contig--1720439 - SSU_rRNA_eukarya RF01960 hmm 890 1160 355 611 + - 6 0.46 0.7 95.3 7.3e-26 ! - +contig--1210200 - SSU_rRNA_eukarya RF01960 hmm 872 1162 281 1 - - 6 0.43 1.5 89.9 3e-24 ! - +contig--2249925 - SSU_rRNA_eukarya RF01960 hmm 890 1168 633 898 + - 6 0.50 0.2 89.6 3.9e-24 ! - +contig--1531838 - SSU_rRNA_eukarya RF01960 hmm 1162 1518 313 1 - - 6 0.50 0.0 84.3 1.5e-22 ! - +contig--1211922 - SSU_rRNA_eukarya RF01960 hmm 1504 1750 300 61 - - 6 0.39 0.0 79.6 4e-21 ! - +contig--3474644 - SSU_rRNA_eukarya RF01960 hmm 9 654 60 665 + - 6 0.50 0.2 76.6 3.1e-20 ! - +contig--3093712 - SSU_rRNA_eukarya RF01960 hmm 945 1164 3 212 + - 6 0.56 0.0 71.4 1.1e-18 ! - +contig--2914153 - SSU_rRNA_eukarya RF01960 hmm 287 665 726 332 - - 6 0.54 0.2 68.3 1e-17 ! - +contig--3575278 - SSU_rRNA_eukarya RF01960 hmm 1633 1848 3 184 + - 6 0.54 0.0 64.4 1.5e-16 ! - +contig--1209771 - SSU_rRNA_eukarya RF01960 hmm 1310 1634 276 2 - - 6 0.51 0.0 61.7 1e-15 ! - +contig--2271497 - SSU_rRNA_eukarya RF01960 hmm 85 653 740 222 - - 6 0.51 0.3 61.1 1.5e-15 ! - +contig--3076204 - SSU_rRNA_eukarya RF01960 hmm 138 651 59 493 + - 6 0.53 0.0 60.9 1.8e-15 ! - +contig--2271497 - SSU_rRNA_eukarya RF01960 hmm 890 1052 165 3 - - 6 0.50 0.1 58.6 8.9e-15 ! - +contig--3128112 - SSU_rRNA_eukarya RF01960 hmm 865 1174 315 28 - - 6 0.47 0.4 58.1 1.2e-14 ! - +contig--3093712 - SSU_rRNA_eukarya RF01960 hmm 910 1058 214 361 + - 6 0.57 0.0 58.0 1.4e-14 ! - +contig--24391 - SSU_rRNA_eukarya RF01960 hmm 887 1059 175 3 - - 6 0.48 0.3 57.8 1.5e-14 ! - +contig--364625 - SSU_rRNA_eukarya RF01960 hmm 39 660 928 361 - - 6 0.52 0.1 57.6 1.7e-14 ! - +contig--193617 - SSU_rRNA_eukarya RF01960 hmm 1212 1581 305 10 - - 6 0.54 0.0 57.2 2.2e-14 ! - +contig--2250940 - SSU_rRNA_eukarya RF01960 hmm 1771 1850 3 82 + - 6 0.43 0.0 56.5 3.7e-14 ! - +contig--2252644 - SSU_rRNA_eukarya RF01960 hmm 880 1044 624 782 + - 6 0.50 0.1 55.1 1e-13 ! - +contig--828224 - SSU_rRNA_eukarya RF01960 hmm 301 642 27 365 + - 6 0.57 0.0 53.7 2.6e-13 ! - +contig--3980131 - SSU_rRNA_eukarya RF01960 hmm 1783 1850 2 69 + - 6 0.44 0.0 51.2 1.4e-12 ! - +contig--156996 - LSU_rRNA_archaea RF02540 hmm 9 2944 3613 744 - - 6 0.52 16.4 1930.8 0 ! - +contig--397992 - LSU_rRNA_archaea RF02540 hmm 12 2980 61 2969 + - 6 0.57 34.6 1332.6 0 ! - +contig--371157 - LSU_rRNA_archaea RF02540 hmm 14 2090 3350 5333 + - 6 0.52 21.5 1265.3 0 ! - +contig--2256050 - LSU_rRNA_archaea RF02540 hmm 891 2529 4 1660 + - 6 0.53 11.4 673.0 1.5e-200 ! - +contig--401056 - LSU_rRNA_archaea RF02540 hmm 13 1491 891 2326 + - 6 0.50 10.7 576.4 2e-171 ! - +contig--151601 - LSU_rRNA_archaea RF02540 hmm 480 1955 1 1375 + - 6 0.46 8.4 536.2 2.6e-159 ! - +contig--166397 - LSU_rRNA_archaea RF02540 hmm 1848 2980 22 1182 + - 6 0.54 3.8 535.2 5.4e-159 ! - +contig--395713 - LSU_rRNA_archaea RF02540 hmm 163 1558 5 1242 + - 6 0.52 15.7 517.0 1.6e-153 ! - +contig--423976 - LSU_rRNA_archaea RF02540 hmm 97 1787 412 1996 + - 6 0.46 16.0 511.2 9.2e-152 ! - +contig--151080 - LSU_rRNA_archaea RF02540 hmm 1708 2907 1279 77 - - 6 0.37 0.0 446.8 2.5e-132 ! - +contig--151876 - LSU_rRNA_archaea RF02540 hmm 24 1239 2 1084 + - 6 0.47 9.5 439.7 3.3e-130 ! - +contig--1202655 - LSU_rRNA_archaea RF02540 hmm 1708 2699 75 1031 + - 6 0.45 0.0 422.8 4.2e-125 ! - +contig--2330557 - LSU_rRNA_archaea RF02540 hmm 1570 2514 993 18 - - 6 0.56 7.3 407.4 1.9e-120 ! - +contig--185309 - LSU_rRNA_archaea RF02540 hmm 1994 2883 127 1035 + - 6 0.48 0.0 405.2 8.2e-120 ! - +contig--395713 - LSU_rRNA_archaea RF02540 hmm 1728 2554 1302 2144 + - 6 0.53 3.3 387.8 1.5e-114 ! - +contig--2634789 - LSU_rRNA_archaea RF02540 hmm 1339 2391 1087 2 - - 6 0.50 3.2 387.0 2.5e-114 ! - +contig--23096 - LSU_rRNA_archaea RF02540 hmm 2009 2706 2 708 + - 6 0.51 0.1 386.9 2.8e-114 ! - +contig--137819 - LSU_rRNA_archaea RF02540 hmm 1992 2710 6 734 + - 6 0.50 0.0 378.6 9.1e-112 ! - +contig--362861 - LSU_rRNA_archaea RF02540 hmm 22 1132 6 1097 + - 6 0.47 5.5 350.3 3.1e-103 ! - +contig--3743149 - LSU_rRNA_archaea RF02540 hmm 1679 2418 784 2 - - 6 0.55 1.5 341.1 1.8e-100 ! - +contig--2252929 - LSU_rRNA_archaea RF02540 hmm 1218 2072 859 1 - - 6 0.52 2.6 335.7 7.6e-99 ! - +contig--2254117 - LSU_rRNA_archaea RF02540 hmm 431 1332 3 802 + - 6 0.50 6.2 305.9 7.5e-90 ! - +contig--2250515 - LSU_rRNA_archaea RF02540 hmm 30 912 2 775 + - 6 0.52 10.1 302.9 6.2e-89 ! - +contig--4068604 - LSU_rRNA_archaea RF02540 hmm 1162 1771 2 562 + - 6 0.53 2.7 300.4 3.5e-88 ! - +contig--2298625 - LSU_rRNA_archaea RF02540 hmm 2314 2874 996 437 - - 6 0.46 0.0 287.2 3.3e-84 ! - +contig--3054101 - LSU_rRNA_archaea RF02540 hmm 2319 2867 31 576 + - 6 0.47 0.0 269.5 7.3e-79 ! - +contig--1210133 - LSU_rRNA_archaea RF02540 hmm 17 836 733 4 - - 6 0.50 3.5 264.6 2.2e-77 ! - +contig--3398090 - LSU_rRNA_archaea RF02540 hmm 2004 2572 2 568 + - 6 0.50 0.1 256.5 6.1e-75 ! - +contig--3715154 - LSU_rRNA_archaea RF02540 hmm 2035 2558 539 6 - - 6 0.54 0.1 251.0 2.7e-73 ! - +contig--364277 - LSU_rRNA_archaea RF02540 hmm 15 547 583 2 - - 6 0.43 6.0 247.1 4e-72 ! - +contig--151080 - LSU_rRNA_archaea RF02540 hmm 160 1515 2513 1352 - - 6 0.31 0.9 243.5 4.9e-71 ! - +contig--1040384 - LSU_rRNA_archaea RF02540 hmm 909 1596 774 115 - - 6 0.45 0.3 240.5 4e-70 ! - +contig--364074 - LSU_rRNA_archaea RF02540 hmm 868 1467 581 4 - - 6 0.53 2.4 234.9 1.9e-68 ! - +contig--10143 - LSU_rRNA_archaea RF02540 hmm 937 1546 798 202 - - 6 0.49 0.9 234.0 3.5e-68 ! - +contig--3784467 - LSU_rRNA_archaea RF02540 hmm 2572 2981 417 16 - - 6 0.53 0.1 233.6 4.8e-68 ! - +contig--35359 - LSU_rRNA_archaea RF02540 hmm 1697 2182 60 543 + - 6 0.48 0.0 232.7 8.8e-68 ! - +contig--3860305 - LSU_rRNA_archaea RF02540 hmm 19 727 7 621 + - 6 0.45 3.1 232.5 1e-67 ! - +contig--365125 - LSU_rRNA_archaea RF02540 hmm 2362 2872 622 114 - - 6 0.45 0.0 229.7 7.2e-67 ! - +contig--2699652 - LSU_rRNA_archaea RF02540 hmm 2541 2970 2 424 + - 6 0.53 0.1 229.5 8.2e-67 ! - +contig--3638238 - LSU_rRNA_archaea RF02540 hmm 1229 1933 719 5 - - 6 0.48 0.8 221.6 2e-64 ! - +contig--2531154 - LSU_rRNA_archaea RF02540 hmm 11 573 80 642 + - 6 0.47 3.4 217.5 3.5e-63 ! - +contig--2715420 - LSU_rRNA_archaea RF02540 hmm 2458 2862 11 422 + - 6 0.55 0.3 211.8 1.8e-61 ! - +contig--2575573 - LSU_rRNA_archaea RF02540 hmm 1069 1856 5 830 + - 6 0.47 0.1 200.7 4.1e-58 ! - +contig--3317407 - LSU_rRNA_archaea RF02540 hmm 12 527 284 752 + - 6 0.45 2.9 199.5 9.3e-58 ! - +contig--1082627 - LSU_rRNA_archaea RF02540 hmm 2570 2898 2 332 + - 6 0.54 0.1 198.5 1.9e-57 ! - +contig--363016 - LSU_rRNA_archaea RF02540 hmm 20 521 463 3 - - 6 0.47 4.3 198.0 2.6e-57 ! - +contig--2254060 - LSU_rRNA_archaea RF02540 hmm 2038 2580 627 3 - - 6 0.47 0.0 197.1 5e-57 ! - +contig--1213982 - LSU_rRNA_archaea RF02540 hmm 1942 2427 561 3 - - 6 0.51 0.0 190.3 5.5e-55 ! - +contig--1407263 - LSU_rRNA_archaea RF02540 hmm 978 1481 490 3 - - 6 0.45 0.0 188.9 1.5e-54 ! - +contig--2252346 - LSU_rRNA_archaea RF02540 hmm 2041 2599 2 634 + - 6 0.54 0.1 188.4 2.1e-54 ! - +contig--2250883 - LSU_rRNA_archaea RF02540 hmm 2595 2978 396 4 - - 6 0.54 0.1 186.2 9.8e-54 ! - +contig--1768180 - LSU_rRNA_archaea RF02540 hmm 2635 2979 2 340 + - 6 0.53 0.1 183.3 7.2e-53 ! - +contig--3176110 - LSU_rRNA_archaea RF02540 hmm 2302 2666 47 404 + - 6 0.44 0.0 181.6 2.4e-52 ! - +contig--1662509 - LSU_rRNA_archaea RF02540 hmm 1174 1781 1 645 + - 6 0.53 0.1 178.2 2.5e-51 ! - +contig--2220335 - LSU_rRNA_archaea RF02540 hmm 1700 2072 407 1 - - 6 0.50 0.1 178.0 2.8e-51 ! - +contig--185562 - LSU_rRNA_archaea RF02540 hmm 927 1575 789 68 - - 6 0.52 0.8 174.9 2.4e-50 ! - +contig--36603 - LSU_rRNA_archaea RF02540 hmm 160 534 2 411 + - 6 0.54 1.0 174.1 4.3e-50 ! - +contig--362412 - LSU_rRNA_archaea RF02540 hmm 154 539 419 4 - - 6 0.44 4.5 174.0 4.5e-50 ! - +contig--2254400 - LSU_rRNA_archaea RF02540 hmm 2640 2980 341 7 - - 6 0.54 0.2 172.9 1e-49 ! - +contig--2519402 - LSU_rRNA_archaea RF02540 hmm 33 442 420 16 - - 6 0.45 1.2 172.4 1.3e-49 ! - +contig--1596054 - LSU_rRNA_archaea RF02540 hmm 890 1444 603 5 - - 6 0.49 0.1 172.4 1.4e-49 ! - +contig--2304422 - LSU_rRNA_archaea RF02540 hmm 18 501 449 1 - - 6 0.53 1.1 172.0 1.8e-49 ! - +contig--363861 - LSU_rRNA_archaea RF02540 hmm 647 1232 651 2 - - 6 0.48 0.0 170.7 4.4e-49 ! - +contig--364116 - LSU_rRNA_archaea RF02540 hmm 2078 2503 2 426 + - 6 0.54 0.2 164.8 2.8e-47 ! - +contig--32925 - LSU_rRNA_archaea RF02540 hmm 1509 2020 4 551 + - 6 0.52 0.9 164.4 3.6e-47 ! - +contig--2701305 - LSU_rRNA_archaea RF02540 hmm 1467 1976 2 487 + - 6 0.53 1.2 163.4 7.4e-47 ! - +contig--942031 - LSU_rRNA_archaea RF02540 hmm 2637 2934 307 8 - - 6 0.55 0.1 160.7 4.7e-46 ! - +contig--2152327 - LSU_rRNA_archaea RF02540 hmm 1408 1959 7 581 + - 6 0.50 0.2 159.3 1.2e-45 ! - +contig--2940126 - LSU_rRNA_archaea RF02540 hmm 477 953 402 10 - - 6 0.52 3.0 155.9 1.3e-44 ! - +contig--2646754 - LSU_rRNA_archaea RF02540 hmm 1210 1828 1 592 + - 6 0.51 2.0 155.9 1.3e-44 ! - +contig--332136 - LSU_rRNA_archaea RF02540 hmm 2578 2877 322 19 - - 6 0.57 0.2 155.2 2.1e-44 ! - +contig--2680413 - LSU_rRNA_archaea RF02540 hmm 21 490 438 1 - - 6 0.44 1.3 154.8 2.8e-44 ! - +contig--2254163 - LSU_rRNA_archaea RF02540 hmm 21 470 446 10 - - 6 0.40 2.5 152.6 1.3e-43 ! - +contig--2713352 - LSU_rRNA_archaea RF02540 hmm 1352 1850 508 13 - - 6 0.51 1.3 152.1 1.8e-43 ! - +contig--759897 - LSU_rRNA_archaea RF02540 hmm 2652 2975 1 317 + - 6 0.53 0.1 150.8 4.6e-43 ! - +contig--2652964 - LSU_rRNA_archaea RF02540 hmm 1507 1977 494 15 - - 6 0.49 0.2 150.2 6.8e-43 ! - +contig--2918607 - LSU_rRNA_archaea RF02540 hmm 435 951 428 9 - - 6 0.47 2.2 149.8 9e-43 ! - +contig--3694746 - LSU_rRNA_archaea RF02540 hmm 480 944 382 8 - - 6 0.50 2.1 149.2 1.3e-42 ! - +contig--2805328 - LSU_rRNA_archaea RF02540 hmm 2635 2983 3 359 + - 6 0.57 0.2 148.8 1.7e-42 ! - +contig--147097 - LSU_rRNA_archaea RF02540 hmm 2659 2976 2 332 + - 6 0.50 0.0 148.8 1.8e-42 ! - +contig--3354354 - LSU_rRNA_archaea RF02540 hmm 750 1227 514 2 - - 6 0.53 2.1 147.8 3.7e-42 ! - +contig--151751 - LSU_rRNA_archaea RF02540 hmm 156 550 592 200 - - 6 0.47 1.6 145.6 1.6e-41 ! - +contig--365284 - LSU_rRNA_archaea RF02540 hmm 186 553 547 182 - - 6 0.48 0.9 145.2 2.2e-41 ! - +contig--747483 - LSU_rRNA_archaea RF02540 hmm 2630 2932 332 28 - - 6 0.53 0.0 144.6 3.3e-41 ! - +contig--1176662 - LSU_rRNA_archaea RF02540 hmm 2527 2796 22 290 + - 6 0.49 0.0 142.9 1.1e-40 ! - +contig--95399 - LSU_rRNA_archaea RF02540 hmm 2663 2982 2 329 + - 6 0.53 0.3 141.3 3.3e-40 ! - +contig--2251064 - LSU_rRNA_archaea RF02540 hmm 191 551 3 357 + - 6 0.46 0.8 140.7 5e-40 ! - +contig--1458589 - LSU_rRNA_archaea RF02540 hmm 888 1212 2 315 + - 6 0.56 0.8 140.5 5.9e-40 ! - +contig--2564558 - LSU_rRNA_archaea RF02540 hmm 460 947 1 398 + - 6 0.44 0.5 140.3 6.6e-40 ! - +contig--2722470 - LSU_rRNA_archaea RF02540 hmm 163 525 7 371 + - 6 0.51 0.4 139.3 1.3e-39 ! - +contig--236053 - LSU_rRNA_archaea RF02540 hmm 23 450 397 5 - - 6 0.47 1.7 138.6 2.2e-39 ! - +contig--473422 - LSU_rRNA_archaea RF02540 hmm 41 371 316 1 - - 6 0.55 2.4 137.2 5.8e-39 ! - +contig--3433834 - LSU_rRNA_archaea RF02540 hmm 1441 1915 1 488 + - 6 0.47 0.0 137.1 6e-39 ! - +contig--2835645 - LSU_rRNA_archaea RF02540 hmm 2659 2934 306 10 - - 6 0.52 0.1 136.2 1.1e-38 ! - +contig--1796896 - LSU_rRNA_archaea RF02540 hmm 2668 2971 3 299 + - 6 0.49 0.1 136.0 1.3e-38 ! - +contig--2254317 - LSU_rRNA_archaea RF02540 hmm 171 535 362 1 - - 6 0.45 0.6 135.8 1.5e-38 ! - +contig--2874819 - LSU_rRNA_archaea RF02540 hmm 2037 2385 359 1 - - 6 0.57 0.0 134.5 3.6e-38 ! - +contig--724357 - LSU_rRNA_archaea RF02540 hmm 1081 1426 14 347 + - 6 0.47 0.3 134.4 3.9e-38 ! - +contig--185811 - LSU_rRNA_archaea RF02540 hmm 1246 1784 524 2 - - 6 0.49 0.5 134.0 5.4e-38 ! - +contig--3890060 - LSU_rRNA_archaea RF02540 hmm 39 462 360 1 - - 6 0.47 1.2 133.8 6.1e-38 ! - +contig--2252661 - LSU_rRNA_archaea RF02540 hmm 188 549 776 405 - - 6 0.49 2.0 133.1 9.8e-38 ! - +contig--3659280 - LSU_rRNA_archaea RF02540 hmm 2119 2524 2 414 + - 6 0.48 0.0 132.9 1.2e-37 ! - +contig--3655473 - LSU_rRNA_archaea RF02540 hmm 927 1392 509 2 - - 6 0.51 0.1 132.6 1.3e-37 ! - +contig--185298 - LSU_rRNA_archaea RF02540 hmm 189 652 2 451 + - 6 0.42 4.9 130.1 8.1e-37 ! - +contig--2250797 - LSU_rRNA_archaea RF02540 hmm 155 516 363 3 - - 6 0.49 0.5 129.5 1.2e-36 ! - +contig--1042219 - LSU_rRNA_archaea RF02540 hmm 2180 2498 339 13 - - 6 0.55 0.2 126.7 8.2e-36 ! - +contig--97491 - LSU_rRNA_archaea RF02540 hmm 2194 2580 5 422 + - 6 0.46 0.0 126.2 1.1e-35 ! - +contig--2250093 - LSU_rRNA_archaea RF02540 hmm 2079 2505 486 15 - - 6 0.47 0.0 123.9 5.8e-35 ! - +contig--365471 - LSU_rRNA_archaea RF02540 hmm 2009 2342 2 348 + - 6 0.46 0.0 123.5 7.7e-35 ! - +contig--2249544 - LSU_rRNA_archaea RF02540 hmm 2154 2551 429 2 - - 6 0.44 0.0 123.4 8e-35 ! - +contig--2673585 - LSU_rRNA_archaea RF02540 hmm 170 510 373 1 - - 6 0.42 1.6 122.7 1.4e-34 ! - +contig--261342 - LSU_rRNA_archaea RF02540 hmm 2527 2789 25 285 + - 6 0.39 0.0 122.6 1.4e-34 ! - +contig--2412452 - LSU_rRNA_archaea RF02540 hmm 1879 2129 73 322 + - 6 0.46 0.0 122.2 1.9e-34 ! - +contig--2543224 - LSU_rRNA_archaea RF02540 hmm 15 255 311 55 - - 6 0.51 0.4 122.0 2.2e-34 ! - +contig--1214513 - LSU_rRNA_archaea RF02540 hmm 188 535 2 347 + - 6 0.53 1.3 121.3 3.6e-34 ! - +contig--2254733 - LSU_rRNA_archaea RF02540 hmm 918 1286 396 30 - - 6 0.34 0.0 121.1 4.2e-34 ! - +contig--1111206 - LSU_rRNA_archaea RF02540 hmm 85 465 359 2 - - 6 0.42 1.9 119.6 1.1e-33 ! - +contig--3748912 - LSU_rRNA_archaea RF02540 hmm 645 1043 374 10 - - 6 0.47 0.0 118.0 3.5e-33 ! - +contig--3652281 - LSU_rRNA_archaea RF02540 hmm 2082 2388 309 4 - - 6 0.56 0.0 117.9 3.7e-33 ! - +contig--1688622 - LSU_rRNA_archaea RF02540 hmm 2147 2496 365 9 - - 6 0.52 0.0 117.7 4.4e-33 ! - +contig--2251392 - LSU_rRNA_archaea RF02540 hmm 1395 1975 3 731 + - 6 0.52 0.4 117.0 6.8e-33 ! - +contig--1214168 - LSU_rRNA_archaea RF02540 hmm 170 505 2 331 + - 6 0.46 0.4 117.0 7e-33 ! - +contig--362625 - LSU_rRNA_archaea RF02540 hmm 2556 2876 2 321 + - 6 0.43 0.0 116.2 1.2e-32 ! - +contig--1215349 - LSU_rRNA_archaea RF02540 hmm 918 1251 331 2 - - 6 0.52 0.1 115.4 2.2e-32 ! - +contig--257393 - LSU_rRNA_archaea RF02540 hmm 1227 1764 590 6 - - 6 0.60 1.6 114.3 4.6e-32 ! - +contig--2906201 - LSU_rRNA_archaea RF02540 hmm 928 1235 304 2 - - 6 0.43 0.0 112.9 1.2e-31 ! - +contig--547077 - LSU_rRNA_archaea RF02540 hmm 913 1226 306 1 - - 6 0.50 0.1 112.6 1.4e-31 ! - +contig--1214754 - LSU_rRNA_archaea RF02540 hmm 198 553 512 168 - - 6 0.38 3.2 111.1 4.3e-31 ! - +contig--2255353 - LSU_rRNA_archaea RF02540 hmm 1410 1855 10 501 + - 6 0.54 0.2 108.3 3e-30 ! - +contig--130023 - LSU_rRNA_archaea RF02540 hmm 213 560 682 334 - - 6 0.51 0.0 106.9 7.9e-30 ! - +contig--3019708 - LSU_rRNA_archaea RF02540 hmm 1217 1781 608 4 - - 6 0.44 0.0 106.0 1.4e-29 ! - +contig--2983248 - LSU_rRNA_archaea RF02540 hmm 196 528 316 2 - - 6 0.42 1.1 104.8 3.2e-29 ! - +contig--2255132 - LSU_rRNA_archaea RF02540 hmm 52 416 1 362 + - 6 0.37 0.6 103.7 7.1e-29 ! - +contig--2251329 - LSU_rRNA_archaea RF02540 hmm 2669 2958 3 299 + - 6 0.47 0.0 103.1 1.1e-28 ! - +contig--2250342 - LSU_rRNA_archaea RF02540 hmm 640 1208 65 588 + - 6 0.40 0.0 102.7 1.4e-28 ! - +contig--3652175 - LSU_rRNA_archaea RF02540 hmm 636 946 286 8 - - 6 0.49 0.0 102.0 2.4e-28 ! - +contig--110110 - LSU_rRNA_archaea RF02540 hmm 164 484 12 322 + - 6 0.42 1.3 101.6 3e-28 ! - +contig--101864 - LSU_rRNA_archaea RF02540 hmm 177 500 307 2 - - 6 0.48 0.1 100.9 4.9e-28 ! - +contig--1214394 - LSU_rRNA_archaea RF02540 hmm 2615 2870 422 167 - - 6 0.50 0.0 100.1 8.5e-28 ! - +contig--1326571 - LSU_rRNA_archaea RF02540 hmm 709 1009 7 270 + - 6 0.50 0.0 99.1 1.8e-27 ! - +contig--2767514 - LSU_rRNA_archaea RF02540 hmm 2070 2369 310 1 - - 6 0.45 0.0 99.0 2e-27 ! - +contig--332136 - LSU_rRNA_archaea RF02540 hmm 2546 2702 487 331 - - 6 0.58 0.1 97.4 5.8e-27 ! - +contig--2937145 - LSU_rRNA_archaea RF02540 hmm 2615 2870 3 259 + - 6 0.50 0.0 96.2 1.4e-26 ! - +contig--2501086 - LSU_rRNA_archaea RF02540 hmm 432 907 4 390 + - 6 0.40 0.3 95.7 1.8e-26 ! - +contig--1210202 - LSU_rRNA_archaea RF02540 hmm 420 903 387 1 - - 6 0.42 1.4 95.6 2.1e-26 ! - +contig--2528721 - LSU_rRNA_archaea RF02540 hmm 2642 2885 1 305 + - 6 0.56 0.0 95.2 2.6e-26 ! - +contig--3925448 - LSU_rRNA_archaea RF02540 hmm 319 727 21 362 + - 6 0.38 2.9 94.4 4.5e-26 ! - +contig--1212351 - LSU_rRNA_archaea RF02540 hmm 164 486 317 1 - - 6 0.53 0.1 92.8 1.4e-25 ! - +contig--185227 - LSU_rRNA_archaea RF02540 hmm 1207 1490 302 15 - - 6 0.53 0.3 92.2 2.2e-25 ! - +contig--1437319 - LSU_rRNA_archaea RF02540 hmm 655 966 328 6 - - 6 0.50 0.0 91.5 3.4e-25 ! - +contig--669436 - LSU_rRNA_archaea RF02540 hmm 1478 1850 367 1 - - 6 0.47 0.1 89.4 1.5e-24 ! - +contig--1031478 - LSU_rRNA_archaea RF02540 hmm 1435 1814 372 2 - - 6 0.54 0.3 88.8 2.3e-24 ! - +contig--3276943 - LSU_rRNA_archaea RF02540 hmm 165 1064 968 47 - - 6 0.44 0.0 87.9 4.1e-24 ! - +contig--3290892 - LSU_rRNA_archaea RF02540 hmm 1411 1848 5 487 + - 6 0.47 0.0 87.4 5.9e-24 ! - +contig--3889622 - LSU_rRNA_archaea RF02540 hmm 864 1182 13 329 + - 6 0.44 0.0 87.0 7.6e-24 ! - +contig--2741341 - LSU_rRNA_archaea RF02540 hmm 1466 1851 1 418 + - 6 0.51 0.0 85.0 3.2e-23 ! - +contig--3414648 - LSU_rRNA_archaea RF02540 hmm 2031 2289 164 423 + - 6 0.47 0.0 84.8 3.7e-23 ! - +contig--1692849 - LSU_rRNA_archaea RF02540 hmm 2145 2444 12 333 + - 6 0.44 0.0 84.3 5.2e-23 ! - +contig--924893 - LSU_rRNA_archaea RF02540 hmm 647 917 296 10 - - 6 0.52 0.1 83.8 7.5e-23 ! - +contig--1644897 - LSU_rRNA_archaea RF02540 hmm 1065 1491 91 523 + - 6 0.49 0.0 81.3 4.2e-22 ! - +contig--185430 - LSU_rRNA_archaea RF02540 hmm 1502 1843 38 392 + - 6 0.47 0.0 79.9 1.1e-21 ! - +contig--1159799 - LSU_rRNA_archaea RF02540 hmm 2660 2873 374 162 - - 6 0.47 0.0 79.9 1.1e-21 ! - +contig--2252145 - LSU_rRNA_archaea RF02540 hmm 2655 2933 1 269 + - 6 0.46 0.0 79.5 1.4e-21 ! - +contig--1133023 - LSU_rRNA_archaea RF02540 hmm 1501 1855 9 379 + - 6 0.52 0.0 77.3 6.8e-21 ! - +contig--496748 - LSU_rRNA_archaea RF02540 hmm 177 466 1 294 + - 6 0.55 0.0 76.8 9.1e-21 ! - +contig--1834142 - LSU_rRNA_archaea RF02540 hmm 179 466 2 298 + - 6 0.57 0.0 76.4 1.2e-20 ! - +contig--3494982 - LSU_rRNA_archaea RF02540 hmm 914 1267 27 377 + - 6 0.40 0.0 75.9 1.8e-20 ! - +contig--2251231 - LSU_rRNA_archaea RF02540 hmm 2662 2884 464 243 - - 6 0.46 0.0 75.7 1.9e-20 ! - +contig--68307 - LSU_rRNA_archaea RF02540 hmm 214 520 2 307 + - 6 0.42 0.1 75.3 2.7e-20 ! - +contig--518767 - LSU_rRNA_archaea RF02540 hmm 396 619 31 243 + - 6 0.44 0.0 72.7 1.6e-19 ! - +contig--515926 - LSU_rRNA_archaea RF02540 hmm 1254 1658 494 49 - - 6 0.47 0.2 72.2 2.3e-19 ! - +contig--2251849 - LSU_rRNA_archaea RF02540 hmm 2662 2879 5 221 + - 6 0.48 0.0 72.2 2.4e-19 ! - +contig--1212661 - LSU_rRNA_archaea RF02540 hmm 2670 2880 1 212 + - 6 0.51 0.0 70.5 7.2e-19 ! - +contig--1583871 - LSU_rRNA_archaea RF02540 hmm 1433 1856 9 458 + - 6 0.44 0.0 69.5 1.5e-18 ! - +contig--3897242 - LSU_rRNA_archaea RF02540 hmm 1312 1576 18 289 + - 6 0.48 0.0 68.4 3.2e-18 ! - +contig--2255543 - LSU_rRNA_archaea RF02540 hmm 2667 2876 2 210 + - 6 0.46 0.0 68.1 4e-18 ! - +contig--1007451 - LSU_rRNA_archaea RF02540 hmm 2152 2407 15 307 + - 6 0.51 0.0 67.8 5e-18 ! - +contig--3875044 - LSU_rRNA_archaea RF02540 hmm 141 373 128 354 + - 6 0.43 0.0 67.7 5e-18 ! - +contig--3299936 - LSU_rRNA_archaea RF02540 hmm 1090 1446 8 379 + - 6 0.38 0.0 65.1 3.1e-17 ! - +contig--2253227 - LSU_rRNA_archaea RF02540 hmm 2680 2872 2 210 + - 6 0.54 0.0 63.9 7.4e-17 ! - +contig--2893879 - LSU_rRNA_archaea RF02540 hmm 1427 1789 2 363 + - 6 0.49 0.0 61.9 2.9e-16 ! - +contig--364298 - LSU_rRNA_archaea RF02540 hmm 907 1403 1 505 + - 6 0.29 0.0 61.6 3.5e-16 ! - +contig--2251533 - LSU_rRNA_archaea RF02540 hmm 2664 2866 425 223 - - 6 0.48 0.0 61.1 4.9e-16 ! - +contig--3050118 - LSU_rRNA_archaea RF02540 hmm 2668 2884 2 216 + - 6 0.45 0.0 60.8 6.5e-16 ! - +contig--2945976 - LSU_rRNA_archaea RF02540 hmm 1458 1789 1 329 + - 6 0.50 0.1 58.0 4.4e-15 ! - +contig--3756271 - LSU_rRNA_archaea RF02540 hmm 1274 1605 5 365 + - 6 0.52 0.1 56.3 1.4e-14 ! - +contig--362779 - LSU_rRNA_archaea RF02540 hmm 2682 2933 372 45 - - 6 0.60 0.0 54.7 4.3e-14 ! - +contig--1123361 - LSU_rRNA_archaea RF02540 hmm 819 941 1 121 + - 6 0.52 0.0 54.3 5.8e-14 ! - +contig--1572437 - LSU_rRNA_archaea RF02540 hmm 2675 2871 1 196 + - 6 0.47 0.0 53.0 1.5e-13 ! - +contig--64232 - LSU_rRNA_archaea RF02540 hmm 2661 2877 6 221 + - 6 0.41 0.0 52.6 1.9e-13 ! - +contig--1797769 - LSU_rRNA_archaea RF02540 hmm 1635 1855 438 213 - - 6 0.53 0.0 50.8 6.5e-13 ! - +contig--397992 - LSU_rRNA_bacteria RF02541 hmm 9 2922 59 2977 + - 6 0.57 30.5 2226.7 0 ! - +contig--395713 - LSU_rRNA_bacteria RF02541 hmm 179 2486 2 2147 + - 6 0.52 22.4 1672.9 0 ! - +contig--2256050 - LSU_rRNA_bacteria RF02541 hmm 811 2466 1 1670 + - 6 0.52 12.2 1243.1 0 ! - +contig--156996 - LSU_rRNA_bacteria RF02541 hmm 15 2891 3606 739 - - 6 0.52 17.1 1219.6 0 ! - +contig--151080 - LSU_rRNA_bacteria RF02541 hmm 49 2907 2627 17 - - 6 0.33 6.6 1212.6 0 ! - +contig--166397 - LSU_rRNA_bacteria RF02541 hmm 1762 2922 31 1190 + - 6 0.53 3.7 998.5 1.2e-298 ! - +contig--401056 - LSU_rRNA_bacteria RF02541 hmm 3 1408 882 2330 + - 6 0.49 12.7 974.7 1.9e-291 ! - +contig--151601 - LSU_rRNA_bacteria RF02541 hmm 488 1860 1 1375 + - 6 0.46 11.5 921.8 1.6e-275 ! - +contig--423976 - LSU_rRNA_bacteria RF02541 hmm 85 1697 400 2002 + - 6 0.46 18.0 884.8 2.3e-264 ! - +contig--371157 - LSU_rRNA_bacteria RF02541 hmm 18 2008 3355 5331 + - 6 0.52 21.1 802.2 1.9e-239 ! - +contig--151876 - LSU_rRNA_bacteria RF02541 hmm 23 1155 2 1085 + - 6 0.47 10.0 788.1 3.5e-235 ! - +contig--2330557 - LSU_rRNA_bacteria RF02541 hmm 1465 2458 998 1 - - 6 0.56 7.7 752.9 1.4e-224 ! - +contig--1202655 - LSU_rRNA_bacteria RF02541 hmm 1585 2628 48 1031 + - 6 0.44 0.0 735.1 3.3e-219 ! - +contig--2634789 - LSU_rRNA_bacteria RF02541 hmm 1247 2321 1092 2 - - 6 0.50 5.1 719.6 1.5e-214 ! - +contig--185309 - LSU_rRNA_bacteria RF02541 hmm 1915 2818 128 1039 + - 6 0.47 0.0 711.7 3.9e-212 ! - +contig--137819 - LSU_rRNA_bacteria RF02541 hmm 1910 2640 4 735 + - 6 0.49 0.0 690.7 8.2e-206 ! - +contig--23096 - LSU_rRNA_bacteria RF02541 hmm 1928 2636 1 709 + - 6 0.51 0.2 669.2 2.5e-199 ! - +contig--362861 - LSU_rRNA_bacteria RF02541 hmm 18 1052 3 1097 + - 6 0.47 6.5 610.5 1.3e-181 ! - +contig--3743149 - LSU_rRNA_bacteria RF02541 hmm 1568 2348 797 2 - - 6 0.55 0.8 592.4 3.5e-176 ! - +contig--2252929 - LSU_rRNA_bacteria RF02541 hmm 1132 1992 860 1 - - 6 0.52 3.3 547.7 1.1e-162 ! - +contig--2254117 - LSU_rRNA_bacteria RF02541 hmm 438 1247 2 805 + - 6 0.50 6.0 530.1 2.2e-157 ! - +contig--2250515 - LSU_rRNA_bacteria RF02541 hmm 28 836 1 776 + - 6 0.52 9.4 502.0 6.4e-149 ! - +contig--3398090 - LSU_rRNA_bacteria RF02541 hmm 1923 2502 1 569 + - 6 0.50 0.1 488.0 1.1e-144 ! - +contig--3715154 - LSU_rRNA_bacteria RF02541 hmm 1955 2491 539 2 - - 6 0.54 0.1 470.4 2.3e-139 ! - +contig--10143 - LSU_rRNA_bacteria RF02541 hmm 858 1739 800 1 - - 6 0.49 3.4 446.1 4.8e-132 ! - +contig--3860305 - LSU_rRNA_bacteria RF02541 hmm 13 696 2 634 + - 6 0.45 2.9 433.3 3.5e-128 ! - +contig--1040384 - LSU_rRNA_bacteria RF02541 hmm 832 1566 774 40 - - 6 0.44 3.4 425.7 6.7e-126 ! - +contig--1210133 - LSU_rRNA_bacteria RF02541 hmm 13 761 736 4 - - 6 0.50 3.4 419.3 5.8e-124 ! - +contig--2715420 - LSU_rRNA_bacteria RF02541 hmm 2376 2794 2 423 + - 6 0.55 0.4 392.8 5.6e-116 ! - +contig--2699652 - LSU_rRNA_bacteria RF02541 hmm 2469 2905 1 425 + - 6 0.53 0.1 391.2 1.8e-115 ! - +contig--364074 - LSU_rRNA_bacteria RF02541 hmm 789 1379 583 4 - - 6 0.53 2.4 371.4 1.7e-109 ! - +contig--3638238 - LSU_rRNA_bacteria RF02541 hmm 1144 1841 719 2 - - 6 0.48 2.0 366.6 4.6e-108 ! - +contig--3784467 - LSU_rRNA_bacteria RF02541 hmm 2501 2922 417 9 - - 6 0.53 0.1 365.8 7.7e-108 ! - +contig--2531154 - LSU_rRNA_bacteria RF02541 hmm 11 583 80 642 + - 6 0.47 4.0 358.6 1.2e-105 ! - +contig--35359 - LSU_rRNA_bacteria RF02541 hmm 1594 2103 53 544 + - 6 0.48 0.0 355.4 1.1e-104 ! - +contig--364277 - LSU_rRNA_bacteria RF02541 hmm 10 557 587 2 - - 6 0.43 6.6 334.2 2.7e-98 ! - +contig--3659280 - LSU_rRNA_bacteria RF02541 hmm 2038 2462 1 425 + - 6 0.48 0.1 326.2 6.9e-96 ! - +contig--2940126 - LSU_rRNA_bacteria RF02541 hmm 485 884 402 2 - - 6 0.53 1.7 320.5 3.6e-94 ! - +contig--364116 - LSU_rRNA_bacteria RF02541 hmm 1997 2443 1 439 + - 6 0.54 0.3 319.5 7.3e-94 ! - +contig--2250883 - LSU_rRNA_bacteria RF02541 hmm 2524 2912 396 4 - - 6 0.54 0.1 317.4 3.2e-93 ! - +contig--2220335 - LSU_rRNA_bacteria RF02541 hmm 1588 1992 423 1 - - 6 0.49 0.1 316.5 5.7e-93 ! - +contig--1082627 - LSU_rRNA_bacteria RF02541 hmm 2498 2842 1 334 + - 6 0.54 0.1 314.4 2.6e-92 ! - +contig--363016 - LSU_rRNA_bacteria RF02541 hmm 2 529 480 3 - - 6 0.46 5.5 313.8 3.8e-92 ! - +contig--2564558 - LSU_rRNA_bacteria RF02541 hmm 467 889 1 417 + - 6 0.44 0.9 308.9 1.2e-90 ! - +contig--3317407 - LSU_rRNA_bacteria RF02541 hmm 10 537 283 754 + - 6 0.46 4.0 307.9 2.4e-90 ! - +contig--2918607 - LSU_rRNA_bacteria RF02541 hmm 440 876 431 7 - - 6 0.47 2.0 304.5 2.4e-89 ! - +contig--1407263 - LSU_rRNA_bacteria RF02541 hmm 900 1395 490 2 - - 6 0.45 0.3 298.9 1.2e-87 ! - +contig--2152327 - LSU_rRNA_bacteria RF02541 hmm 1316 1865 3 582 + - 6 0.50 0.6 294.4 2.7e-86 ! - +contig--2874819 - LSU_rRNA_bacteria RF02541 hmm 1957 2315 359 1 - - 6 0.57 0.0 294.0 3.6e-86 ! - +contig--3694746 - LSU_rRNA_bacteria RF02541 hmm 488 874 382 1 - - 6 0.49 1.2 293.6 4.9e-86 ! - +contig--2254400 - LSU_rRNA_bacteria RF02541 hmm 2569 2912 341 9 - - 6 0.54 0.2 288.8 1.4e-84 ! - +contig--2304422 - LSU_rRNA_bacteria RF02541 hmm 2 509 464 1 - - 6 0.53 1.7 285.0 1.8e-83 ! - +contig--32925 - LSU_rRNA_bacteria RF02541 hmm 1417 1940 2 551 + - 6 0.52 1.4 280.8 3.5e-82 ! - +contig--2646754 - LSU_rRNA_bacteria RF02541 hmm 1125 1730 1 592 + - 6 0.51 2.9 275.6 1.2e-80 ! - +contig--2652964 - LSU_rRNA_bacteria RF02541 hmm 1399 1893 513 4 - - 6 0.49 0.3 269.2 1.1e-78 ! - +contig--1768180 - LSU_rRNA_bacteria RF02541 hmm 2563 2922 1 349 + - 6 0.52 0.1 268.8 1.4e-78 ! - +contig--1688622 - LSU_rRNA_bacteria RF02541 hmm 2054 2429 378 3 - - 6 0.51 0.0 268.7 1.5e-78 ! - +contig--185811 - LSU_rRNA_bacteria RF02541 hmm 1159 1688 526 2 - - 6 0.49 1.3 268.3 2e-78 ! - +contig--2805328 - LSU_rRNA_bacteria RF02541 hmm 2562 2920 1 361 + - 6 0.57 0.1 268.2 2.2e-78 ! - +contig--2701305 - LSU_rRNA_bacteria RF02541 hmm 1378 1893 1 499 + - 6 0.53 1.9 266.7 6.3e-78 ! - +contig--332136 - LSU_rRNA_bacteria RF02541 hmm 2507 2818 322 9 - - 6 0.56 0.2 263.7 4.9e-77 ! - +contig--759897 - LSU_rRNA_bacteria RF02541 hmm 2581 2910 1 318 + - 6 0.53 0.1 263.6 5.3e-77 ! - +contig--2713352 - LSU_rRNA_bacteria RF02541 hmm 1266 1758 507 7 - - 6 0.51 2.3 262.0 1.6e-76 ! - +contig--747483 - LSU_rRNA_bacteria RF02541 hmm 2559 2899 332 2 - - 6 0.51 0.0 258.7 1.6e-75 ! - +contig--147097 - LSU_rRNA_bacteria RF02541 hmm 2588 2911 2 333 + - 6 0.51 0.0 256.0 1e-74 ! - +contig--95399 - LSU_rRNA_bacteria RF02541 hmm 2591 2923 1 336 + - 6 0.53 0.3 253.9 4.4e-74 ! - +contig--2680413 - LSU_rRNA_bacteria RF02541 hmm 15 498 443 1 - - 6 0.44 0.8 252.2 1.4e-73 ! - +contig--3748912 - LSU_rRNA_bacteria RF02541 hmm 601 969 376 5 - - 6 0.47 0.2 250.2 5.8e-73 ! - +contig--362412 - LSU_rRNA_bacteria RF02541 hmm 149 551 444 2 - - 6 0.43 4.3 246.6 7.2e-72 ! - +contig--2254163 - LSU_rRNA_bacteria RF02541 hmm 4 486 462 1 - - 6 0.40 2.6 243.0 8.9e-71 ! - +contig--2835645 - LSU_rRNA_bacteria RF02541 hmm 2588 2883 306 3 - - 6 0.52 0.1 242.7 1.1e-70 ! - +contig--1796896 - LSU_rRNA_bacteria RF02541 hmm 2595 2906 1 300 + - 6 0.49 0.1 242.6 1.1e-70 ! - +contig--942031 - LSU_rRNA_bacteria RF02541 hmm 2566 2881 307 3 - - 6 0.54 0.1 240.5 4.8e-70 ! - +contig--36603 - LSU_rRNA_bacteria RF02541 hmm 179 543 2 411 + - 6 0.54 1.8 238.2 2.3e-69 ! - +contig--724357 - LSU_rRNA_bacteria RF02541 hmm 989 1339 3 348 + - 6 0.49 0.8 236.5 8e-69 ! - +contig--2298625 - LSU_rRNA_bacteria RF02541 hmm 2215 2811 1029 431 - - 6 0.46 0.0 226.8 6.5e-66 ! - +contig--2519402 - LSU_rRNA_bacteria RF02541 hmm 28 464 424 2 - - 6 0.45 1.2 226.6 7.5e-66 ! - +contig--2254733 - LSU_rRNA_bacteria RF02541 hmm 841 1231 396 2 - - 6 0.34 0.0 226.4 8.5e-66 ! - +contig--1458589 - LSU_rRNA_bacteria RF02541 hmm 811 1128 2 316 + - 6 0.56 0.3 226.4 9e-66 ! - +contig--2250342 - LSU_rRNA_bacteria RF02541 hmm 532 1122 1 587 + - 6 0.40 1.3 224.8 2.6e-65 ! - +contig--236053 - LSU_rRNA_bacteria RF02541 hmm 18 460 401 2 - - 6 0.47 1.3 224.4 3.5e-65 ! - +contig--1176662 - LSU_rRNA_bacteria RF02541 hmm 2436 2727 2 293 + - 6 0.49 0.0 222.3 1.5e-64 ! - +contig--3433834 - LSU_rRNA_bacteria RF02541 hmm 1353 1822 1 490 + - 6 0.47 0.1 221.6 2.5e-64 ! - +contig--547077 - LSU_rRNA_bacteria RF02541 hmm 835 1141 307 1 - - 6 0.50 0.1 218.3 2.4e-63 ! - +contig--3652281 - LSU_rRNA_bacteria RF02541 hmm 2000 2320 311 2 - - 6 0.56 0.0 217.0 5.9e-63 ! - +contig--1042219 - LSU_rRNA_bacteria RF02541 hmm 2100 2435 339 2 - - 6 0.55 0.5 215.9 1.3e-62 ! - +contig--365471 - LSU_rRNA_bacteria RF02541 hmm 1928 2274 1 349 + - 6 0.47 0.0 214.1 4.5e-62 ! - +contig--3054101 - LSU_rRNA_bacteria RF02541 hmm 2236 2798 17 576 + - 6 0.47 0.0 211.4 2.9e-61 ! - +contig--2251329 - LSU_rRNA_bacteria RF02541 hmm 2596 2906 1 313 + - 6 0.46 0.0 210.9 4e-61 ! - +contig--3890060 - LSU_rRNA_bacteria RF02541 hmm 35 469 364 1 - - 6 0.48 0.9 208.6 2.1e-60 ! - +contig--1326571 - LSU_rRNA_bacteria RF02541 hmm 661 957 3 300 + - 6 0.51 0.0 208.3 2.6e-60 ! - +contig--3652175 - LSU_rRNA_bacteria RF02541 hmm 576 875 302 2 - - 6 0.48 0.1 206.5 8.9e-60 ! - +contig--261342 - LSU_rRNA_bacteria RF02541 hmm 2434 2718 3 286 + - 6 0.39 0.0 205.2 2.1e-59 ! - +contig--2906201 - LSU_rRNA_bacteria RF02541 hmm 851 1151 304 1 - - 6 0.43 0.0 201.2 3.4e-58 ! - +contig--2501086 - LSU_rRNA_bacteria RF02541 hmm 439 830 3 390 + - 6 0.39 0.5 199.8 8.9e-58 ! - +contig--1215349 - LSU_rRNA_bacteria RF02541 hmm 840 1167 332 1 - - 6 0.52 0.1 196.5 8.9e-57 ! - +contig--1210202 - LSU_rRNA_bacteria RF02541 hmm 425 826 390 1 - - 6 0.42 0.7 195.9 1.4e-56 ! - +contig--2767514 - LSU_rRNA_bacteria RF02541 hmm 1990 2299 310 1 - - 6 0.45 0.0 194.1 5e-56 ! - +contig--2543224 - LSU_rRNA_bacteria RF02541 hmm 3 370 322 1 - - 6 0.49 0.8 191.1 3.9e-55 ! - +contig--1111206 - LSU_rRNA_bacteria RF02541 hmm 84 472 360 2 - - 6 0.42 1.9 190.5 5.9e-55 ! - +contig--4068604 - LSU_rRNA_bacteria RF02541 hmm 1081 1675 6 562 + - 6 0.53 2.7 188.7 2.1e-54 ! - +contig--365125 - LSU_rRNA_bacteria RF02541 hmm 2292 2801 622 116 - - 6 0.45 0.0 180.6 5.6e-52 ! - +contig--2673585 - LSU_rRNA_bacteria RF02541 hmm 188 518 374 1 - - 6 0.42 0.9 178.7 2.2e-51 ! - +contig--1031478 - LSU_rRNA_bacteria RF02541 hmm 1347 1717 372 1 - - 6 0.54 0.5 177.9 3.7e-51 ! - +contig--3925448 - LSU_rRNA_bacteria RF02541 hmm 331 688 27 367 + - 6 0.38 2.2 176.2 1.2e-50 ! - +contig--473422 - LSU_rRNA_bacteria RF02541 hmm 31 377 326 1 - - 6 0.56 2.1 173.0 1.1e-49 ! - +contig--3889622 - LSU_rRNA_bacteria RF02541 hmm 775 1097 1 329 + - 6 0.45 0.3 171.2 4e-49 ! - +contig--2983248 - LSU_rRNA_bacteria RF02541 hmm 215 538 316 1 - - 6 0.42 0.5 161.3 3.7e-46 ! - +contig--2893879 - LSU_rRNA_bacteria RF02541 hmm 1338 1700 1 370 + - 6 0.49 0.1 160.6 6e-46 ! - +contig--332136 - LSU_rRNA_bacteria RF02541 hmm 2475 2631 487 331 - - 6 0.58 0.0 159.7 1.1e-45 ! - +contig--669436 - LSU_rRNA_bacteria RF02541 hmm 1390 1751 368 2 - - 6 0.47 0.2 158.7 2.3e-45 ! - +contig--364298 - LSU_rRNA_bacteria RF02541 hmm 830 1415 1 615 + - 6 0.29 0.0 154.7 3.7e-44 ! - +contig--3494982 - LSU_rRNA_bacteria RF02541 hmm 817 1183 9 377 + - 6 0.39 0.2 149.3 1.6e-42 ! - +contig--2255132 - LSU_rRNA_bacteria RF02541 hmm 52 455 1 396 + - 6 0.39 0.5 147.4 5.9e-42 ! - +contig--363340 - LSU_rRNA_bacteria RF02541 hmm 459 898 7 412 + - 6 0.32 0.1 145.5 2.1e-41 ! - +contig--3414648 - LSU_rRNA_bacteria RF02541 hmm 1952 2209 165 423 + - 6 0.47 0.0 145.4 2.3e-41 ! - +contig--2575573 - LSU_rRNA_bacteria RF02541 hmm 1006 1759 23 831 + - 6 0.47 0.1 142.5 1.7e-40 ! - +contig--3176110 - LSU_rRNA_bacteria RF02541 hmm 2231 2591 39 400 + - 6 0.45 0.0 133.1 1.2e-37 ! - +contig--2968284 - LSU_rRNA_bacteria RF02541 hmm 1346 1681 333 2 - - 6 0.51 0.1 133.0 1.3e-37 ! - +contig--579351 - LSU_rRNA_bacteria RF02541 hmm 1147 1689 1 450 + - 6 0.38 0.1 131.8 2.9e-37 ! - +contig--1213982 - LSU_rRNA_bacteria RF02541 hmm 1847 2358 561 2 - - 6 0.51 0.0 131.0 5.2e-37 ! - +contig--2252346 - LSU_rRNA_bacteria RF02541 hmm 1962 2522 3 628 + - 6 0.54 0.1 129.3 1.7e-36 ! - +contig--2945976 - LSU_rRNA_bacteria RF02541 hmm 1371 1702 2 337 + - 6 0.49 0.1 129.3 1.7e-36 ! - +contig--2252661 - LSU_rRNA_bacteria RF02541 hmm 208 559 775 405 - - 6 0.49 0.0 126.8 9.8e-36 ! - +contig--151751 - LSU_rRNA_bacteria RF02541 hmm 173 561 594 199 - - 6 0.47 0.4 126.3 1.4e-35 ! - +contig--2722470 - LSU_rRNA_bacteria RF02541 hmm 178 535 3 372 + - 6 0.51 0.5 124.1 6.4e-35 ! - +contig--2254060 - LSU_rRNA_bacteria RF02541 hmm 1958 2510 627 2 - - 6 0.47 0.0 123.7 8.3e-35 ! - +contig--3158861 - LSU_rRNA_bacteria RF02541 hmm 1361 1684 329 1 - - 6 0.48 0.2 119.7 1.3e-33 ! - +contig--3299936 - LSU_rRNA_bacteria RF02541 hmm 1009 1373 8 394 + - 6 0.38 0.0 119.2 1.8e-33 ! - +contig--1276363 - LSU_rRNA_bacteria RF02541 hmm 1114 1445 3 334 + - 6 0.27 0.0 117.5 6e-33 ! - +contig--585322 - LSU_rRNA_bacteria RF02541 hmm 1365 1677 1 310 + - 6 0.52 0.1 116.2 1.5e-32 ! - +contig--185298 - LSU_rRNA_bacteria RF02541 hmm 208 572 2 371 + - 6 0.42 1.0 113.8 8.2e-32 ! - +contig--1662509 - LSU_rRNA_bacteria RF02541 hmm 1090 1683 2 643 + - 6 0.52 0.1 113.6 9.2e-32 ! - +contig--365284 - LSU_rRNA_bacteria RF02541 hmm 205 591 547 154 - - 6 0.47 1.1 111.0 5.6e-31 ! - +contig--2251064 - LSU_rRNA_bacteria RF02541 hmm 211 581 4 377 + - 6 0.46 0.6 109.6 1.5e-30 ! - +contig--2254317 - LSU_rRNA_bacteria RF02541 hmm 190 543 362 2 - - 6 0.45 0.4 109.5 1.6e-30 ! - +contig--1596054 - LSU_rRNA_bacteria RF02541 hmm 814 1342 602 20 - - 6 0.49 0.3 105.8 2e-29 ! - +contig--185562 - LSU_rRNA_bacteria RF02541 hmm 850 1478 789 83 - - 6 0.52 0.8 105.1 3.3e-29 ! - +contig--2250797 - LSU_rRNA_bacteria RF02541 hmm 177 524 360 3 - - 6 0.48 0.4 104.6 4.6e-29 ! - +contig--363861 - LSU_rRNA_bacteria RF02541 hmm 704 1146 488 3 - - 6 0.47 0.3 103.2 1.3e-28 ! - +contig--1214754 - LSU_rRNA_bacteria RF02541 hmm 217 561 512 170 - - 6 0.38 0.4 102.2 2.5e-28 ! - +contig--362625 - LSU_rRNA_bacteria RF02541 hmm 2489 2806 6 321 + - 6 0.42 0.0 101.4 4.3e-28 ! - +contig--1214513 - LSU_rRNA_bacteria RF02541 hmm 208 543 3 346 + - 6 0.54 2.0 97.2 8.3e-27 ! - +contig--3354354 - LSU_rRNA_bacteria RF02541 hmm 703 1142 491 2 - - 6 0.53 0.2 96.4 1.4e-26 ! - +contig--130023 - LSU_rRNA_bacteria RF02541 hmm 232 591 682 313 - - 6 0.51 0.0 92.4 2.3e-25 ! - +contig--2249544 - LSU_rRNA_bacteria RF02541 hmm 2079 2480 424 2 - - 6 0.44 0.0 92.3 2.4e-25 ! - +contig--97491 - LSU_rRNA_bacteria RF02541 hmm 2116 2510 7 423 + - 6 0.46 0.0 92.2 2.6e-25 ! - +contig--1214168 - LSU_rRNA_bacteria RF02541 hmm 190 515 3 333 + - 6 0.47 0.3 91.6 3.9e-25 ! - +contig--2412452 - LSU_rRNA_bacteria RF02541 hmm 1782 2046 71 319 + - 6 0.45 0.0 87.3 8e-24 ! - +contig--94612 - LSU_rRNA_bacteria RF02541 hmm 24 518 79 500 + - 6 0.28 0.3 87.3 8.1e-24 ! - +contig--110110 - LSU_rRNA_bacteria RF02541 hmm 178 492 7 322 + - 6 0.42 0.8 83.2 1.3e-22 ! - +contig--3535542 - LSU_rRNA_bacteria RF02541 hmm 2763 2922 1 148 + - 6 0.48 0.0 83.2 1.3e-22 ! - +contig--101864 - LSU_rRNA_bacteria RF02541 hmm 196 509 307 1 - - 6 0.48 0.1 82.5 2.2e-22 ! - +contig--2251392 - LSU_rRNA_bacteria RF02541 hmm 1306 1885 1 736 + - 6 0.52 0.6 81.7 3.8e-22 ! - +contig--1692849 - LSU_rRNA_bacteria RF02541 hmm 2078 2374 25 333 + - 6 0.44 0.0 79.9 1.4e-21 ! - +contig--3655473 - LSU_rRNA_bacteria RF02541 hmm 850 1302 509 5 - - 6 0.51 0.1 78.4 3.7e-21 ! - +contig--3320537 - LSU_rRNA_bacteria RF02541 hmm 2766 2921 1 157 + - 6 0.40 0.0 78.2 4.4e-21 ! - +contig--2250093 - LSU_rRNA_bacteria RF02541 hmm 2002 2426 483 20 - - 6 0.47 0.0 76.7 1.2e-20 ! - +contig--1214182 - LSU_rRNA_bacteria RF02541 hmm 1461 1719 258 1 - - 6 0.55 0.1 76.3 1.6e-20 ! - +contig--1212351 - LSU_rRNA_bacteria RF02541 hmm 177 494 323 1 - - 6 0.54 0.2 75.1 3.8e-20 ! - +contig--1214394 - LSU_rRNA_bacteria RF02541 hmm 2556 2805 410 163 - - 6 0.49 0.0 74.2 7e-20 ! - +contig--518767 - LSU_rRNA_bacteria RF02541 hmm 427 583 55 210 + - 6 0.42 0.0 72.9 1.8e-19 ! - +contig--2255353 - LSU_rRNA_bacteria RF02541 hmm 1321 1762 9 506 + - 6 0.54 0.1 72.3 2.7e-19 ! - +contig--2528721 - LSU_rRNA_bacteria RF02541 hmm 2572 2823 2 281 + - 6 0.56 0.0 72.1 3e-19 ! - +contig--2937145 - LSU_rRNA_bacteria RF02541 hmm 2556 2822 15 283 + - 6 0.49 0.0 70.7 7.9e-19 ! - +contig--1793538 - LSU_rRNA_bacteria RF02541 hmm 438 750 284 2 - - 6 0.29 0.1 67.3 8.6e-18 ! - +contig--2251231 - LSU_rRNA_bacteria RF02541 hmm 2594 2808 461 249 - - 6 0.47 0.0 63.5 1.2e-16 ! - +contig--2251849 - LSU_rRNA_bacteria RF02541 hmm 2593 2814 7 225 + - 6 0.48 0.0 62.8 2e-16 ! - +contig--257393 - LSU_rRNA_bacteria RF02541 hmm 1142 1671 590 4 - - 6 0.60 0.5 62.6 2.2e-16 ! - +contig--1159799 - LSU_rRNA_bacteria RF02541 hmm 2590 2819 373 147 - - 6 0.48 0.0 61.3 5.4e-16 ! - +contig--3019708 - LSU_rRNA_bacteria RF02541 hmm 1132 1682 608 7 - - 6 0.44 0.0 61.3 5.5e-16 ! - +contig--2252145 - LSU_rRNA_bacteria RF02541 hmm 2585 2823 2 296 + - 6 0.48 0.0 59.9 1.4e-15 ! - +contig--1212661 - LSU_rRNA_bacteria RF02541 hmm 2599 2803 1 204 + - 6 0.51 0.0 59.0 2.7e-15 ! - +contig--68307 - LSU_rRNA_bacteria RF02541 hmm 233 529 2 308 + - 6 0.42 0.0 58.6 3.6e-15 ! - +contig--1133023 - LSU_rRNA_bacteria RF02541 hmm 1416 1756 14 389 + - 6 0.53 0.0 56.3 1.7e-14 ! - +contig--3875044 - LSU_rRNA_bacteria RF02541 hmm 80 379 59 354 + - 6 0.44 0.0 56.2 1.8e-14 ! - +contig--2255543 - LSU_rRNA_bacteria RF02541 hmm 2596 2820 2 223 + - 6 0.48 0.0 56.2 1.8e-14 ! - +contig--1007451 - LSU_rRNA_bacteria RF02541 hmm 2078 2337 21 307 + - 6 0.50 0.0 55.5 3.1e-14 ! - +contig--1437319 - LSU_rRNA_bacteria RF02541 hmm 699 882 197 13 - - 6 0.51 0.1 55.2 3.8e-14 ! - +contig--185227 - LSU_rRNA_bacteria RF02541 hmm 1124 1407 300 11 - - 6 0.52 0.4 54.8 4.9e-14 ! - +contig--2741341 - LSU_rRNA_bacteria RF02541 hmm 1378 1755 1 420 + - 6 0.51 0.0 53.9 9.2e-14 ! - +contig--3290892 - LSU_rRNA_bacteria RF02541 hmm 1346 1749 29 486 + - 6 0.47 0.1 53.5 1.2e-13 ! - +contig--496748 - LSU_rRNA_bacteria RF02541 hmm 197 475 2 296 + - 6 0.55 0.1 51.7 4.3e-13 ! - +contig--2250940 - LSU_rRNA_bacteria RF02541 hmm 25 272 251 748 + - 6 0.53 0.0 50.7 8.8e-13 ! - +contig--2506583 - SSU_rRNA_microsporidia RF02542 hmm 373 1309 10 1041 + - 6 0.54 0.9 392.9 1.7e-115 ! - +contig--3276943 - SSU_rRNA_microsporidia RF02542 hmm 520 1311 2360 1448 - - 6 0.45 0.5 355.4 3.9e-104 ! - +contig--2491978 - SSU_rRNA_microsporidia RF02542 hmm 6 942 1024 3 - - 6 0.54 1.3 354.2 8.4e-104 ! - +contig--151527 - SSU_rRNA_microsporidia RF02542 hmm 26 652 943 2 - - 6 0.41 3.9 296.3 2.7e-86 ! - +contig--2514811 - SSU_rRNA_microsporidia RF02542 hmm 226 769 2 746 + - 6 0.46 2.3 275.6 5.1e-80 ! - +contig--363170 - SSU_rRNA_microsporidia RF02542 hmm 107 658 844 2 - - 6 0.46 2.7 257.6 1.3e-74 ! - +contig--186013 - SSU_rRNA_microsporidia RF02542 hmm 272 797 744 2 - - 6 0.44 4.0 252.4 5.3e-73 ! - +contig--912998 - SSU_rRNA_microsporidia RF02542 hmm 634 1210 2 664 + - 6 0.55 0.0 240.1 2.7e-69 ! - +contig--2726048 - SSU_rRNA_microsporidia RF02542 hmm 50 593 2 869 + - 6 0.47 0.4 239.5 4.2e-69 ! - +contig--2565011 - SSU_rRNA_microsporidia RF02542 hmm 26 446 586 1 - - 6 0.46 0.0 232.8 4.5e-67 ! - +contig--364625 - SSU_rRNA_microsporidia RF02542 hmm 27 833 939 4 - - 6 0.51 4.6 215.3 8.5e-62 ! - +contig--3568828 - SSU_rRNA_microsporidia RF02542 hmm 253 861 664 13 - - 6 0.55 1.3 206.7 3.4e-59 ! - +contig--2252003 - SSU_rRNA_microsporidia RF02542 hmm 391 812 1 609 + - 6 0.43 1.9 202.8 5.1e-58 ! - +contig--813107 - SSU_rRNA_microsporidia RF02542 hmm 379 846 8 487 + - 6 0.55 0.6 198.7 8.9e-57 ! - +contig--2914153 - SSU_rRNA_microsporidia RF02542 hmm 123 814 796 1 - - 6 0.49 4.9 198.1 1.3e-56 ! - +contig--2255364 - SSU_rRNA_microsporidia RF02542 hmm 271 943 755 2 - - 6 0.52 3.0 192.1 8.6e-55 ! - +contig--2369838 - SSU_rRNA_microsporidia RF02542 hmm 65 815 14 854 + - 6 0.51 6.0 188.6 9.6e-54 ! - +contig--2552028 - SSU_rRNA_microsporidia RF02542 hmm 376 786 1 589 + - 6 0.45 2.0 175.6 8.5e-50 ! - +contig--2248828 - SSU_rRNA_microsporidia RF02542 hmm 405 804 581 2 - - 6 0.43 3.9 173.8 3e-49 ! - +contig--1568447 - SSU_rRNA_microsporidia RF02542 hmm 252 843 27 681 + - 6 0.52 4.1 172.0 1e-48 ! - +contig--2249925 - SSU_rRNA_microsporidia RF02542 hmm 28 791 17 898 + - 6 0.51 5.8 169.7 5.2e-48 ! - +contig--2254313 - SSU_rRNA_microsporidia RF02542 hmm 524 852 347 3 - - 6 0.52 0.1 166.5 4.8e-47 ! - +contig--1604373 - SSU_rRNA_microsporidia RF02542 hmm 869 1199 14 423 + - 6 0.47 0.0 164.0 2.8e-46 ! - +contig--2271497 - SSU_rRNA_microsporidia RF02542 hmm 8 694 826 3 - - 6 0.51 3.6 159.2 7.8e-45 ! - +contig--978828 - SSU_rRNA_microsporidia RF02542 hmm 774 1059 341 2 - - 6 0.45 0.0 157.5 2.5e-44 ! - +contig--3420575 - SSU_rRNA_microsporidia RF02542 hmm 49 395 503 1 - - 6 0.44 0.0 157.1 3.2e-44 ! - +contig--498568 - SSU_rRNA_microsporidia RF02542 hmm 773 1203 515 12 - - 6 0.53 0.0 153.4 4.2e-43 ! - +contig--232952 - SSU_rRNA_microsporidia RF02542 hmm 414 795 2 570 + - 6 0.51 0.3 150.8 2.7e-42 ! - +contig--2969992 - SSU_rRNA_microsporidia RF02542 hmm 381 832 30 488 + - 6 0.51 0.9 148.4 1.5e-41 ! - +contig--2251500 - SSU_rRNA_microsporidia RF02542 hmm 803 1201 1 473 + - 6 0.52 0.0 143.2 5.2e-40 ! - +contig--3474644 - SSU_rRNA_microsporidia RF02542 hmm 6 643 57 832 + - 6 0.51 3.4 140.3 3.9e-39 ! - +contig--1720439 - SSU_rRNA_microsporidia RF02542 hmm 240 783 8 611 + - 6 0.48 2.4 139.9 5.3e-39 ! - +contig--365127 - SSU_rRNA_microsporidia RF02542 hmm 280 796 566 7 - - 6 0.55 0.8 139.6 6.6e-39 ! - +contig--2253688 - SSU_rRNA_microsporidia RF02542 hmm 4 301 442 1 - - 6 0.40 0.0 139.4 7.5e-39 ! - +contig--3787593 - SSU_rRNA_microsporidia RF02542 hmm 364 810 125 584 + - 6 0.52 1.4 137.7 2.4e-38 ! - +contig--3348019 - SSU_rRNA_microsporidia RF02542 hmm 1012 1311 1 376 + - 6 0.47 0.0 135.0 1.6e-37 ! - +contig--2249727 - SSU_rRNA_microsporidia RF02542 hmm 995 1283 5 352 + - 6 0.48 0.0 134.9 1.6e-37 ! - +contig--401056 - SSU_rRNA_microsporidia RF02542 hmm 884 1309 16 518 + - 6 0.53 0.0 133.0 6.5e-37 ! - +contig--2972876 - SSU_rRNA_microsporidia RF02542 hmm 257 795 613 8 - - 6 0.52 2.1 132.9 6.7e-37 ! - +contig--1379481 - SSU_rRNA_microsporidia RF02542 hmm 29 299 1 405 + - 6 0.36 0.0 132.4 9.9e-37 ! - +contig--1029476 - SSU_rRNA_microsporidia RF02542 hmm 752 1149 217 698 + - 6 0.44 0.1 130.8 3e-36 ! - +contig--363722 - SSU_rRNA_microsporidia RF02542 hmm 323 794 487 2 - - 6 0.50 1.3 129.9 5.7e-36 ! - +contig--314729 - SSU_rRNA_microsporidia RF02542 hmm 789 1064 337 3 - - 6 0.56 0.0 129.7 6.2e-36 ! - +contig--1346273 - SSU_rRNA_microsporidia RF02542 hmm 627 965 371 6 - - 6 0.54 0.0 129.1 9.4e-36 ! - +contig--2252644 - SSU_rRNA_microsporidia RF02542 hmm 5 689 45 785 + - 6 0.48 3.4 122.0 1.4e-33 ! - +contig--1001177 - SSU_rRNA_microsporidia RF02542 hmm 531 832 12 319 + - 6 0.52 0.8 121.6 1.8e-33 ! - +contig--1776240 - SSU_rRNA_microsporidia RF02542 hmm 785 1172 463 2 - - 6 0.53 0.0 119.1 1e-32 ! - +contig--30742 - SSU_rRNA_microsporidia RF02542 hmm 36 286 2 393 + - 6 0.41 0.0 115.7 1.1e-31 ! - +contig--3461222 - SSU_rRNA_microsporidia RF02542 hmm 38 406 20 522 + - 6 0.43 0.0 115.3 1.4e-31 ! - +contig--256048 - SSU_rRNA_microsporidia RF02542 hmm 277 469 1 224 + - 6 0.44 0.0 114.7 2.1e-31 ! - +contig--1210200 - SSU_rRNA_microsporidia RF02542 hmm 390 783 405 3 - - 6 0.44 1.5 113.2 6.2e-31 ! - +contig--363016 - SSU_rRNA_microsporidia RF02542 hmm 973 1309 1129 748 - - 6 0.53 0.0 109.4 8.9e-30 ! - +contig--1171145 - SSU_rRNA_microsporidia RF02542 hmm 26 267 6 365 + - 6 0.41 0.0 106.8 5.3e-29 ! - +contig--3076204 - SSU_rRNA_microsporidia RF02542 hmm 71 577 12 598 + - 6 0.52 1.1 104.8 2.1e-28 ! - +contig--828224 - SSU_rRNA_microsporidia RF02542 hmm 153 618 20 519 + - 6 0.59 2.1 101.9 1.6e-27 ! - +contig--2248804 - SSU_rRNA_microsporidia RF02542 hmm 903 1209 165 517 + - 6 0.47 0.0 99.4 9.2e-27 ! - +contig--2253054 - SSU_rRNA_microsporidia RF02542 hmm 275 679 5 445 + - 6 0.56 0.6 97.4 3.7e-26 ! - +contig--2251634 - SSU_rRNA_microsporidia RF02542 hmm 26 257 372 1 - - 6 0.43 0.0 94.7 2.4e-25 ! - +contig--2766474 - SSU_rRNA_microsporidia RF02542 hmm 994 1308 408 48 - - 6 0.52 0.0 94.4 3.1e-25 ! - +contig--3013908 - SSU_rRNA_microsporidia RF02542 hmm 906 1156 326 2 - - 6 0.44 0.0 92.4 1.2e-24 ! - +contig--185316 - SSU_rRNA_microsporidia RF02542 hmm 935 1169 4 310 + - 6 0.50 0.0 92.1 1.5e-24 ! - +contig--862423 - SSU_rRNA_microsporidia RF02542 hmm 809 1154 3 422 + - 6 0.52 0.0 91.9 1.7e-24 ! - +contig--258486 - SSU_rRNA_microsporidia RF02542 hmm 973 1288 16 376 + - 6 0.56 0.0 88.8 1.4e-23 ! - +contig--3889059 - SSU_rRNA_microsporidia RF02542 hmm 372 681 92 411 + - 6 0.55 0.3 88.3 2.1e-23 ! - +contig--24391 - SSU_rRNA_microsporidia RF02542 hmm 395 695 311 9 - - 6 0.50 0.7 86.2 8.9e-23 ! - +contig--3286658 - SSU_rRNA_microsporidia RF02542 hmm 6 463 576 4 - - 6 0.50 0.1 85.9 1.1e-22 ! - +contig--298893 - SSU_rRNA_microsporidia RF02542 hmm 7 463 35 604 + - 6 0.51 1.0 84.4 3.2e-22 ! - +contig--594041 - SSU_rRNA_microsporidia RF02542 hmm 41 305 10 315 + - 6 0.54 0.0 83.8 4.7e-22 ! - +contig--1149779 - SSU_rRNA_microsporidia RF02542 hmm 1084 1309 257 3 - - 6 0.51 0.0 82.9 8.8e-22 ! - +contig--3096224 - SSU_rRNA_microsporidia RF02542 hmm 473 675 104 305 + - 6 0.47 0.2 81.5 2.4e-21 ! - +contig--152048 - SSU_rRNA_microsporidia RF02542 hmm 27 464 555 4 - - 6 0.53 0.8 75.1 2e-19 ! - +contig--1192886 - SSU_rRNA_microsporidia RF02542 hmm 898 1171 330 2 - - 6 0.49 0.0 75.1 2e-19 ! - +contig--1531838 - SSU_rRNA_microsporidia RF02542 hmm 785 1054 313 3 - - 6 0.50 0.0 74.6 2.9e-19 ! - +contig--696001 - SSU_rRNA_microsporidia RF02542 hmm 5 457 74 626 + - 6 0.49 0.2 74.4 3.2e-19 ! - +contig--3093712 - SSU_rRNA_microsporidia RF02542 hmm 587 788 3 213 + - 6 0.56 0.0 74.3 3.7e-19 ! - +contig--2889438 - SSU_rRNA_microsporidia RF02542 hmm 906 1178 334 4 - - 6 0.50 0.0 73.0 8.5e-19 ! - +contig--3503719 - SSU_rRNA_microsporidia RF02542 hmm 967 1203 308 15 - - 6 0.51 0.0 69.6 9.2e-18 ! - +contig--1634977 - SSU_rRNA_microsporidia RF02542 hmm 901 1157 1 313 + - 6 0.55 0.0 69.4 1.1e-17 ! - +contig--3837490 - SSU_rRNA_microsporidia RF02542 hmm 43 362 388 10 - - 6 0.48 0.2 66.8 6.6e-17 ! - +contig--3575278 - SSU_rRNA_microsporidia RF02542 hmm 1136 1309 2 184 + - 6 0.54 0.0 62.1 1.7e-15 ! - +contig--2693087 - SSU_rRNA_microsporidia RF02542 hmm 6 266 139 428 + - 6 0.53 0.0 61.8 2.1e-15 ! - +contig--193617 - SSU_rRNA_microsporidia RF02542 hmm 835 1070 305 53 - - 6 0.54 0.0 61.4 2.8e-15 ! - +contig--3128112 - SSU_rRNA_microsporidia RF02542 hmm 519 820 312 6 - - 6 0.48 0.3 61.2 3.3e-15 ! - +contig--3093712 - SSU_rRNA_microsporidia RF02542 hmm 556 694 218 355 + - 6 0.57 0.0 61.0 3.6e-15 ! - +contig--3153031 - SSU_rRNA_microsporidia RF02542 hmm 5 306 49 380 + - 6 0.54 0.1 60.4 5.7e-15 ! - +contig--2618713 - SSU_rRNA_microsporidia RF02542 hmm 6 266 1055 1383 + - 6 0.53 0.0 59.2 1.3e-14 ! - +contig--364755 - SSU_rRNA_microsporidia RF02542 hmm 414 639 2 395 + - 6 0.48 0.4 58.7 1.8e-14 ! - +contig--2252860 - SSU_rRNA_microsporidia RF02542 hmm 4 212 2 348 + - 6 0.43 0.0 57.7 3.8e-14 ! - +contig--984009 - SSU_rRNA_microsporidia RF02542 hmm 5 219 277 2 - - 6 0.46 0.0 53.2 8.5e-13 ! - +contig--1211922 - SSU_rRNA_microsporidia RF02542 hmm 1042 1229 300 86 - - 6 0.40 0.0 52.4 1.5e-12 ! - +contig--2298625 - LSU_rRNA_eukarya RF02543 hmm 2510 3391 1079 248 - - 6 0.44 3.1 636.8 8.8e-190 ! - +contig--2575573 - LSU_rRNA_eukarya RF02543 hmm 1125 1991 1 862 + - 6 0.47 2.3 604.4 5.3e-180 ! - +contig--1596054 - LSU_rRNA_eukarya RF02543 hmm 914 1513 603 2 - - 6 0.49 0.4 537.8 6.4e-160 ! - +contig--185562 - LSU_rRNA_eukarya RF02543 hmm 951 1732 789 3 - - 6 0.52 0.0 528.0 5.7e-157 ! - +contig--397992 - LSU_rRNA_eukarya RF02543 hmm 809 3160 754 2865 + - 6 0.56 0.0 520.8 8.5e-155 ! - +contig--2255353 - LSU_rRNA_eukarya RF02543 hmm 1466 2259 1 810 + - 6 0.55 0.0 510.6 1e-151 ! - +contig--365125 - LSU_rRNA_eukarya RF02543 hmm 2643 3208 623 59 - - 6 0.45 0.3 510.5 1.1e-151 ! - +contig--363861 - LSU_rRNA_eukarya RF02543 hmm 635 1294 665 2 - - 6 0.48 0.3 503.9 1.1e-149 ! - +contig--3054101 - LSU_rRNA_eukarya RF02543 hmm 2581 3154 11 583 + - 6 0.47 0.1 489.9 1.7e-145 ! - +contig--2251392 - LSU_rRNA_eukarya RF02543 hmm 1459 2243 1 753 + - 6 0.52 0.0 472.3 3.5e-140 ! - +contig--1662509 - LSU_rRNA_eukarya RF02543 hmm 1236 1889 1 648 + - 6 0.53 0.0 468.7 4.2e-139 ! - +contig--2254060 - LSU_rRNA_eukarya RF02543 hmm 2282 2863 627 1 - - 6 0.47 0.1 450.7 1.1e-133 ! - +contig--2252346 - LSU_rRNA_eukarya RF02543 hmm 2284 2880 1 634 + - 6 0.54 0.0 444.0 1.3e-131 ! - +contig--1213982 - LSU_rRNA_eukarya RF02543 hmm 2187 2711 561 1 - - 6 0.51 0.0 435.9 3.4e-129 ! - +contig--3354354 - LSU_rRNA_eukarya RF02543 hmm 682 1290 620 1 - - 6 0.57 0.0 427.9 8.7e-127 ! - +contig--156996 - LSU_rRNA_eukarya RF02543 hmm 2113 3190 1819 776 - - 6 0.53 0.0 426.2 2.8e-126 ! - +contig--3655473 - LSU_rRNA_eukarya RF02543 hmm 951 1458 509 2 - - 6 0.51 0.0 395.7 4.4e-117 ! - +contig--1583871 - LSU_rRNA_eukarya RF02543 hmm 1491 2234 1 727 + - 6 0.44 2.5 385.1 7.2e-114 ! - +contig--3176110 - LSU_rRNA_eukarya RF02543 hmm 2554 2950 12 407 + - 6 0.45 0.1 378.9 5e-112 ! - +contig--2250093 - LSU_rRNA_eukarya RF02543 hmm 2322 2796 487 3 - - 6 0.46 0.0 378.5 7.1e-112 ! - +contig--257393 - LSU_rRNA_eukarya RF02543 hmm 1289 1874 590 2 - - 6 0.60 0.0 373.7 1.9e-110 ! - +contig--2249544 - LSU_rRNA_eukarya RF02543 hmm 2391 2833 435 1 - - 6 0.44 0.9 362.4 4.9e-107 ! - +contig--3019708 - LSU_rRNA_eukarya RF02543 hmm 1278 1889 609 1 - - 6 0.44 1.7 348.9 5.6e-103 ! - +contig--2412452 - LSU_rRNA_eukarya RF02543 hmm 2080 2389 30 338 + - 6 0.48 0.0 339.6 3.7e-100 ! - +contig--166397 - LSU_rRNA_eukarya RF02543 hmm 2131 3161 61 1074 + - 6 0.53 0.0 320.4 2.3e-94 ! - +contig--97491 - LSU_rRNA_eukarya RF02543 hmm 2434 2863 2 424 + - 6 0.46 0.2 317.7 1.5e-93 ! - +contig--3290892 - LSU_rRNA_eukarya RF02543 hmm 1473 1954 2 490 + - 6 0.47 0.2 310.5 2.2e-91 ! - +contig--156996 - LSU_rRNA_eukarya RF02543 hmm 653 1961 3005 1821 - - 6 0.51 2.8 305.9 5.1e-90 ! - +contig--2252661 - LSU_rRNA_eukarya RF02543 hmm 47 728 776 4 - - 6 0.47 0.1 300.6 2.2e-88 ! - +contig--371157 - LSU_rRNA_eukarya RF02543 hmm 648 1951 3943 5094 + - 6 0.53 3.1 287.6 1.8e-84 ! - +contig--362625 - LSU_rRNA_eukarya RF02543 hmm 2836 3383 1 505 + - 6 0.39 3.3 286.0 5.4e-84 ! - +contig--185309 - LSU_rRNA_eukarya RF02543 hmm 2241 3159 130 1031 + - 6 0.48 1.1 280.8 1.9e-82 ! - +contig--515926 - LSU_rRNA_eukarya RF02543 hmm 1316 1799 494 3 - - 6 0.47 1.0 277.9 1.5e-81 ! - +contig--2741341 - LSU_rRNA_eukarya RF02543 hmm 1532 1968 1 432 + - 6 0.52 0.0 275.9 5.8e-81 ! - +contig--1644897 - LSU_rRNA_eukarya RF02543 hmm 1047 1618 15 583 + - 6 0.47 0.5 272.6 5.7e-80 ! - +contig--137819 - LSU_rRNA_eukarya RF02543 hmm 2236 2983 6 726 + - 6 0.49 0.1 272.3 7.2e-80 ! - +contig--23096 - LSU_rRNA_eukarya RF02543 hmm 2252 2986 1 707 + - 6 0.51 0.0 265.0 1.2e-77 ! - +contig--1133023 - LSU_rRNA_eukarya RF02543 hmm 1590 2115 9 557 + - 6 0.56 0.0 261.0 1.9e-76 ! - +contig--1692849 - LSU_rRNA_eukarya RF02543 hmm 2377 2729 1 336 + - 6 0.45 0.5 260.0 3.7e-76 ! - +contig--1797769 - LSU_rRNA_eukarya RF02543 hmm 1669 2174 501 2 - - 6 0.54 0.0 258.1 1.3e-75 ! - +contig--2722470 - LSU_rRNA_eukarya RF02543 hmm 17 387 2 375 + - 6 0.51 0.0 254.7 1.4e-74 ! - +contig--151751 - LSU_rRNA_eukarya RF02543 hmm 4 454 603 155 - - 6 0.47 0.4 249.9 4.2e-73 ! - +contig--151080 - LSU_rRNA_eukarya RF02543 hmm 2105 3236 1140 34 - - 6 0.37 21.0 249.4 5.8e-73 ! - +contig--1437319 - LSU_rRNA_eukarya RF02543 hmm 658 989 327 7 - - 6 0.50 0.0 241.2 1.7e-70 ! - +contig--185227 - LSU_rRNA_eukarya RF02543 hmm 1268 1567 303 4 - - 6 0.52 0.2 234.4 1.9e-68 ! - +contig--185430 - LSU_rRNA_eukarya RF02543 hmm 1557 1946 8 392 + - 6 0.47 0.0 230.5 2.8e-67 ! - +contig--185298 - LSU_rRNA_eukarya RF02543 hmm 47 689 1 646 + - 6 0.43 6.5 228.1 1.5e-66 ! - +contig--1003814 - LSU_rRNA_eukarya RF02543 hmm 1502 1896 1 399 + - 6 0.51 0.0 227.9 1.7e-66 ! - +contig--2536708 - LSU_rRNA_eukarya RF02543 hmm 1512 1908 397 1 - - 6 0.52 0.0 227.6 2.1e-66 ! - +contig--1187407 - LSU_rRNA_eukarya RF02543 hmm 930 1237 305 1 - - 6 0.47 0.0 225.3 1.1e-65 ! - +contig--2251231 - LSU_rRNA_eukarya RF02543 hmm 2940 3398 467 11 - - 6 0.44 0.3 223.7 3.2e-65 ! - +contig--2250797 - LSU_rRNA_eukarya RF02543 hmm 11 375 366 2 - - 6 0.48 0.2 222.6 6.7e-65 ! - +contig--2252145 - LSU_rRNA_eukarya RF02543 hmm 2936 3376 1 422 + - 6 0.47 0.0 220.6 2.9e-64 ! - +contig--2251064 - LSU_rRNA_eukarya RF02543 hmm 48 477 1 424 + - 6 0.46 1.7 218.0 1.6e-63 ! - +contig--2254317 - LSU_rRNA_eukarya RF02543 hmm 30 392 362 2 - - 6 0.45 0.9 216.6 4.3e-63 ! - +contig--108732 - LSU_rRNA_eukarya RF02543 hmm 1486 1885 1 403 + - 6 0.57 0.0 216.5 4.7e-63 ! - +contig--365284 - LSU_rRNA_eukarya RF02543 hmm 46 459 546 135 - - 6 0.48 0.4 215.9 7.2e-63 ! - +contig--1007451 - LSU_rRNA_eukarya RF02543 hmm 2381 2690 1 308 + - 6 0.50 0.0 214.7 1.7e-62 ! - +contig--2937145 - LSU_rRNA_eukarya RF02543 hmm 2895 3339 2 425 + - 6 0.47 0.0 209.8 4.9e-61 ! - +contig--1214394 - LSU_rRNA_eukarya RF02543 hmm 2895 3341 423 2 - - 6 0.48 0.0 205.5 1e-59 ! - +contig--395713 - LSU_rRNA_eukarya RF02543 hmm 2108 2835 1438 2144 + - 6 0.54 0.0 205.0 1.5e-59 ! - +contig--3276943 - LSU_rRNA_eukarya RF02543 hmm 25 1147 967 1 - - 6 0.44 1.8 203.4 4.4e-59 ! - +contig--808802 - LSU_rRNA_eukarya RF02543 hmm 1647 2125 2 466 + - 6 0.49 0.0 201.0 2.3e-58 ! - +contig--2528721 - LSU_rRNA_eukarya RF02543 hmm 2923 3385 1 405 + - 6 0.57 0.0 200.4 3.4e-58 ! - +contig--2256050 - LSU_rRNA_eukarya RF02543 hmm 2135 2785 1000 1636 + - 6 0.53 0.0 199.3 7.6e-58 ! - +contig--3166946 - LSU_rRNA_eukarya RF02543 hmm 1844 2170 1 320 + - 6 0.54 0.0 198.6 1.2e-57 ! - +contig--924893 - LSU_rRNA_eukarya RF02543 hmm 642 950 303 1 - - 6 0.51 0.1 197.5 2.6e-57 ! - +contig--1214754 - LSU_rRNA_eukarya RF02543 hmm 57 490 512 93 - - 6 0.36 8.5 194.9 1.5e-56 ! - +contig--2251849 - LSU_rRNA_eukarya RF02543 hmm 2940 3386 2 425 + - 6 0.50 0.0 194.1 2.7e-56 ! - +contig--1159799 - LSU_rRNA_eukarya RF02543 hmm 2940 3340 375 2 - - 6 0.47 0.0 192.7 7.1e-56 ! - +contig--1214513 - LSU_rRNA_eukarya RF02543 hmm 47 392 2 346 + - 6 0.54 0.0 190.5 3.3e-55 ! - +contig--2251533 - LSU_rRNA_eukarya RF02543 hmm 2943 3386 427 5 - - 6 0.51 0.0 186.2 6.4e-54 ! - +contig--2255543 - LSU_rRNA_eukarya RF02543 hmm 2947 3341 1 367 + - 6 0.44 0.0 185.5 1.1e-53 ! - +contig--101864 - LSU_rRNA_eukarya RF02543 hmm 33 358 310 2 - - 6 0.48 0.1 184.9 1.6e-53 ! - +contig--2422438 - LSU_rRNA_eukarya RF02543 hmm 1526 1884 365 1 - - 6 0.53 0.0 184.8 1.7e-53 ! - +contig--362373 - LSU_rRNA_eukarya RF02543 hmm 1534 1895 1 357 + - 6 0.48 0.0 183.9 3.2e-53 ! - +contig--1214168 - LSU_rRNA_eukarya RF02543 hmm 28 364 1 332 + - 6 0.47 0.4 182.3 9.6e-53 ! - +contig--110110 - LSU_rRNA_eukarya RF02543 hmm 13 341 2 321 + - 6 0.42 2.9 181.4 1.9e-52 ! - +contig--151601 - LSU_rRNA_eukarya RF02543 hmm 799 1979 207 1278 + - 6 0.46 9.7 180.0 4.9e-52 ! - +contig--3756271 - LSU_rRNA_eukarya RF02543 hmm 1332 1713 1 380 + - 6 0.51 0.1 179.7 5.9e-52 ! - +contig--3809266 - LSU_rRNA_eukarya RF02543 hmm 1283 1564 1 290 + - 6 0.37 0.6 175.9 8.2e-51 ! - +contig--130023 - LSU_rRNA_eukarya RF02543 hmm 71 460 683 294 - - 6 0.50 0.0 175.0 1.5e-50 ! - +contig--2330557 - LSU_rRNA_eukarya RF02543 hmm 2136 2784 662 28 - - 6 0.56 0.0 173.5 4.3e-50 ! - +contig--64232 - LSU_rRNA_eukarya RF02543 hmm 2937 3375 1 398 + - 6 0.42 1.0 172.8 7e-50 ! - +contig--3050118 - LSU_rRNA_eukarya RF02543 hmm 2948 3351 1 367 + - 6 0.45 0.0 170.5 3.4e-49 ! - +contig--1212351 - LSU_rRNA_eukarya RF02543 hmm 10 344 330 1 - - 6 0.53 0.0 162.9 6.8e-47 ! - +contig--2967094 - LSU_rRNA_eukarya RF02543 hmm 1508 1882 370 1 - - 6 0.56 0.0 162.6 8.4e-47 ! - +contig--496748 - LSU_rRNA_eukarya RF02543 hmm 36 332 1 303 + - 6 0.55 0.0 162.3 1e-46 ! - +contig--371157 - LSU_rRNA_eukarya RF02543 hmm 12 429 3497 3910 + - 6 0.50 1.0 161.7 1.7e-46 ! - +contig--3897242 - LSU_rRNA_eukarya RF02543 hmm 1372 1709 13 347 + - 6 0.46 0.5 159.7 6.5e-46 ! - +contig--3743149 - LSU_rRNA_eukarya RF02543 hmm 2119 2700 573 2 - - 6 0.53 0.0 158.0 2.1e-45 ! - +contig--364277 - LSU_rRNA_eukarya RF02543 hmm 12 406 426 2 - - 6 0.41 10.5 156.6 5.3e-45 ! - +contig--397992 - LSU_rRNA_eukarya RF02543 hmm 18 420 229 623 + - 6 0.56 0.0 155.4 1.2e-44 ! - +contig--1572437 - LSU_rRNA_eukarya RF02543 hmm 2956 3211 1 257 + - 6 0.47 0.0 153.9 3.6e-44 ! - +contig--518767 - LSU_rRNA_eukarya RF02543 hmm 246 552 24 320 + - 6 0.45 3.3 153.5 4.9e-44 ! - +contig--3398090 - LSU_rRNA_eukarya RF02543 hmm 2247 2853 1 568 + - 6 0.50 0.1 152.7 8.3e-44 ! - +contig--1089773 - LSU_rRNA_eukarya RF02543 hmm 2963 3385 403 6 - - 6 0.49 0.0 152.2 1.2e-43 ! - +contig--1212661 - LSU_rRNA_eukarya RF02543 hmm 2951 3321 1 351 + - 6 0.47 0.0 149.9 5.8e-43 ! - +contig--3715154 - LSU_rRNA_eukarya RF02543 hmm 2279 2835 539 10 - - 6 0.54 0.0 148.3 1.8e-42 ! - +contig--362412 - LSU_rRNA_eukarya RF02543 hmm 13 401 419 1 - - 6 0.44 6.6 148.2 1.9e-42 ! - +contig--2256050 - LSU_rRNA_eukarya RF02543 hmm 915 1971 4 960 + - 6 0.52 1.6 147.3 3.5e-42 ! - +contig--362779 - LSU_rRNA_eukarya RF02543 hmm 2963 3385 372 3 - - 6 0.60 0.0 147.0 4.2e-42 ! - +contig--1202655 - LSU_rRNA_eukarya RF02543 hmm 2598 2980 655 1031 + - 6 0.49 0.1 145.3 1.4e-41 ! - +contig--1834142 - LSU_rRNA_eukarya RF02543 hmm 37 324 1 299 + - 6 0.57 0.0 144.4 2.6e-41 ! - +contig--401056 - LSU_rRNA_eukarya RF02543 hmm 18 437 1058 1511 + - 6 0.46 1.2 138.6 1.4e-39 ! - +contig--68307 - LSU_rRNA_eukarya RF02543 hmm 73 381 2 310 + - 6 0.41 1.2 138.5 1.6e-39 ! - +contig--2250515 - LSU_rRNA_eukarya RF02543 hmm 17 413 131 514 + - 6 0.51 0.2 136.3 7.4e-39 ! - +contig--2634789 - LSU_rRNA_eukarya RF02543 hmm 2135 2674 527 1 - - 6 0.51 0.0 135.6 1.2e-38 ! - +contig--423976 - LSU_rRNA_eukarya RF02543 hmm 15 439 476 883 + - 6 0.41 10.3 134.9 1.9e-38 ! - +contig--2699652 - LSU_rRNA_eukarya RF02543 hmm 2822 3163 2 345 + - 6 0.55 0.0 134.6 2.4e-38 ! - +contig--395713 - LSU_rRNA_eukarya RF02543 hmm 793 1634 463 1229 + - 6 0.53 1.9 134.5 2.6e-38 ! - +contig--151876 - LSU_rRNA_eukarya RF02543 hmm 7 442 141 528 + - 6 0.46 4.0 134.4 2.7e-38 ! - +contig--2715420 - LSU_rRNA_eukarya RF02543 hmm 2748 3141 21 421 + - 6 0.55 0.0 133.5 5.1e-38 ! - +contig--423976 - LSU_rRNA_eukarya RF02543 hmm 811 1884 1006 1988 + - 6 0.49 6.7 133.0 7.1e-38 ! - +contig--401056 - LSU_rRNA_eukarya RF02543 hmm 807 1555 1632 2324 + - 6 0.51 0.9 131.6 1.9e-37 ! - +contig--3860305 - LSU_rRNA_eukarya RF02543 hmm 8 462 153 550 + - 6 0.44 4.2 131.0 2.8e-37 ! - +contig--1210133 - LSU_rRNA_eukarya RF02543 hmm 16 445 603 186 - - 6 0.49 0.0 130.9 3.1e-37 ! - +contig--395713 - LSU_rRNA_eukarya RF02543 hmm 21 437 4 361 + - 6 0.49 0.5 125.7 1.1e-35 ! - +contig--3775208 - LSU_rRNA_eukarya RF02543 hmm 2963 3321 3 341 + - 6 0.47 0.0 124.6 2.5e-35 ! - +contig--2531154 - LSU_rRNA_eukarya RF02543 hmm 15 422 284 632 + - 6 0.48 1.7 123.1 7e-35 ! - +contig--156996 - LSU_rRNA_eukarya RF02543 hmm 13 424 3469 3064 - - 6 0.45 4.1 122.9 8.1e-35 ! - +contig--577902 - LSU_rRNA_eukarya RF02543 hmm 2963 3198 1 235 + - 6 0.44 0.1 121.1 2.8e-34 ! - +contig--3784467 - LSU_rRNA_eukarya RF02543 hmm 2854 3174 416 93 - - 6 0.56 0.0 116.5 6.9e-33 ! - +contig--2253227 - LSU_rRNA_eukarya RF02543 hmm 2961 3162 2 220 + - 6 0.54 0.0 116.0 9.3e-33 ! - +contig--36603 - LSU_rRNA_eukarya RF02543 hmm 23 392 6 411 + - 6 0.54 0.0 113.7 4.7e-32 ! - +contig--35359 - LSU_rRNA_eukarya RF02543 hmm 2113 2423 225 541 + - 6 0.51 0.0 113.5 5.4e-32 ! - +contig--4068604 - LSU_rRNA_eukarya RF02543 hmm 1229 1876 7 562 + - 6 0.53 0.3 113.2 6.6e-32 ! - +contig--371157 - LSU_rRNA_eukarya RF02543 hmm 2119 2335 5118 5334 + - 6 0.47 0.0 113.0 7.6e-32 ! - +contig--1082627 - LSU_rRNA_eukarya RF02543 hmm 2851 3157 2 311 + - 6 0.54 0.0 110.7 3.7e-31 ! - +contig--1123361 - LSU_rRNA_eukarya RF02543 hmm 844 966 1 122 + - 6 0.52 0.0 110.0 6.1e-31 ! - +contig--2253718 - LSU_rRNA_eukarya RF02543 hmm 329 678 2 400 + - 6 0.44 0.1 108.2 2.1e-30 ! - +contig--1213113 - LSU_rRNA_eukarya RF02543 hmm 3014 3353 323 4 - - 6 0.42 0.2 108.0 2.6e-30 ! - +contig--3875044 - LSU_rRNA_eukarya RF02543 hmm 6 228 134 355 + - 6 0.43 0.2 105.9 1.1e-29 ! - +contig--1123361 - LSU_rRNA_eukarya RF02543 hmm 914 1051 183 321 + - 6 0.47 0.0 105.8 1.1e-29 ! - +contig--363016 - LSU_rRNA_eukarya RF02543 hmm 12 380 312 2 - - 6 0.45 4.4 102.1 1.5e-28 ! - +contig--2254117 - LSU_rRNA_eukarya RF02543 hmm 809 1350 271 768 + - 6 0.49 1.7 102.1 1.5e-28 ! - +contig--362861 - LSU_rRNA_eukarya RF02543 hmm 29 447 179 626 + - 6 0.42 5.2 100.7 3.8e-28 ! - +contig--1251316 - LSU_rRNA_eukarya RF02543 hmm 621 857 104 323 + - 6 0.50 0.0 99.2 1.2e-27 ! - +contig--2853165 - LSU_rRNA_eukarya RF02543 hmm 3010 3321 298 3 - - 6 0.40 0.6 98.8 1.5e-27 ! - +contig--261342 - LSU_rRNA_eukarya RF02543 hmm 2809 3066 26 283 + - 6 0.39 1.0 96.4 7.6e-27 ! - +contig--151080 - LSU_rRNA_eukarya RF02543 hmm 797 1584 2084 1347 - - 6 0.32 21.8 95.9 1.1e-26 ! - +contig--3317407 - LSU_rRNA_eukarya RF02543 hmm 8 384 435 751 + - 6 0.45 2.3 95.0 2.1e-26 ! - +contig--1123361 - LSU_rRNA_eukarya RF02543 hmm 922 1052 342 469 + - 6 0.50 0.0 92.7 1e-25 ! - +contig--10143 - LSU_rRNA_eukarya RF02543 hmm 1139 1634 655 203 - - 6 0.49 1.2 92.5 1.2e-25 ! - +contig--2250883 - LSU_rRNA_eukarya RF02543 hmm 2878 3151 394 118 - - 6 0.53 0.0 91.8 1.9e-25 ! - +contig--2304422 - LSU_rRNA_eukarya RF02543 hmm 14 359 299 1 - - 6 0.52 0.0 91.5 2.3e-25 ! - +contig--151876 - LSU_rRNA_eukarya RF02543 hmm 798 1301 628 1084 + - 6 0.49 0.2 89.1 1.2e-24 ! - +contig--362861 - LSU_rRNA_eukarya RF02543 hmm 800 1075 741 1012 + - 6 0.53 0.0 89.0 1.4e-24 ! - +contig--2673585 - LSU_rRNA_eukarya RF02543 hmm 30 368 372 1 - - 6 0.42 3.2 87.8 3e-24 ! - +contig--3150945 - LSU_rRNA_eukarya RF02543 hmm 3041 3375 1 312 + - 6 0.41 0.2 87.7 3.3e-24 ! - +contig--364116 - LSU_rRNA_eukarya RF02543 hmm 2322 2776 2 419 + - 6 0.54 0.0 86.6 6.8e-24 ! - +contig--2250940 - LSU_rRNA_eukarya RF02543 hmm 2 113 638 749 + - 6 0.48 0.0 85.6 1.4e-23 ! - +contig--1042219 - LSU_rRNA_eukarya RF02543 hmm 2423 2781 339 10 - - 6 0.55 0.1 84.9 2.3e-23 ! - +contig--364074 - LSU_rRNA_eukarya RF02543 hmm 894 1495 578 41 - - 6 0.52 0.1 83.2 7.3e-23 ! - +contig--1440933 - LSU_rRNA_eukarya RF02543 hmm 3046 3361 299 3 - - 6 0.46 0.0 83.2 7.3e-23 ! - +contig--332136 - LSU_rRNA_eukarya RF02543 hmm 2864 3155 317 21 - - 6 0.57 0.0 82.8 1e-22 ! - +contig--1768180 - LSU_rRNA_eukarya RF02543 hmm 2917 3157 3 246 + - 6 0.52 0.0 82.0 1.7e-22 ! - +contig--3659280 - LSU_rRNA_eukarya RF02543 hmm 2391 2785 31 395 + - 6 0.48 0.2 81.7 2.1e-22 ! - +contig--2252929 - LSU_rRNA_eukarya RF02543 hmm 1280 1968 859 232 - - 6 0.52 0.2 80.6 4.7e-22 ! - +contig--2983248 - LSU_rRNA_eukarya RF02543 hmm 55 387 316 1 - - 6 0.42 3.0 80.5 4.7e-22 ! - +contig--2680413 - LSU_rRNA_eukarya RF02543 hmm 6 347 296 2 - - 6 0.41 2.7 80.0 6.8e-22 ! - +contig--3638238 - LSU_rRNA_eukarya RF02543 hmm 1292 1981 718 78 - - 6 0.49 1.7 79.0 1.4e-21 ! - +contig--1040384 - LSU_rRNA_eukarya RF02543 hmm 935 1648 772 140 - - 6 0.44 6.7 78.7 1.7e-21 ! - +contig--1407263 - LSU_rRNA_eukarya RF02543 hmm 1006 1547 489 3 - - 6 0.45 1.7 78.5 2e-21 ! - +contig--2519402 - LSU_rRNA_eukarya RF02543 hmm 7 269 300 49 - - 6 0.40 1.1 75.3 1.8e-20 ! - +contig--2805328 - LSU_rRNA_eukarya RF02543 hmm 2917 3159 4 249 + - 6 0.57 0.0 74.3 3.6e-20 ! - +contig--2254400 - LSU_rRNA_eukarya RF02543 hmm 2922 3161 340 98 - - 6 0.55 0.0 72.2 1.5e-19 ! - +contig--1688622 - LSU_rRNA_eukarya RF02543 hmm 2407 2780 348 5 - - 6 0.51 0.0 71.0 3.6e-19 ! - +contig--759897 - LSU_rRNA_eukarya RF02543 hmm 2934 3159 2 230 + - 6 0.54 0.0 70.5 4.9e-19 ! - +contig--1176662 - LSU_rRNA_eukarya RF02543 hmm 2810 3067 24 282 + - 6 0.50 0.0 69.1 1.3e-18 ! - +contig--3146147 - LSU_rRNA_eukarya RF02543 hmm 345 663 421 1 - - 6 0.49 0.0 67.7 3.5e-18 ! - +contig--1502032 - LSU_rRNA_eukarya RF02543 hmm 3093 3399 308 30 - - 6 0.45 0.0 67.4 4.3e-18 ! - +contig--1111206 - LSU_rRNA_eukarya RF02543 hmm 11 323 289 1 - - 6 0.42 3.2 66.7 7e-18 ! - +contig--365471 - LSU_rRNA_eukarya RF02543 hmm 2252 2503 1 279 + - 6 0.47 0.1 66.6 7.5e-18 ! - +contig--2879574 - LSU_rRNA_eukarya RF02543 hmm 340 458 1 117 + - 6 0.43 0.0 66.0 1.1e-17 ! - +contig--332136 - LSU_rRNA_eukarya RF02543 hmm 2827 2983 487 331 - - 6 0.58 0.0 66.0 1.2e-17 ! - +contig--3748912 - LSU_rRNA_eukarya RF02543 hmm 799 1072 275 10 - - 6 0.47 0.3 65.8 1.3e-17 ! - +contig--147097 - LSU_rRNA_eukarya RF02543 hmm 2942 3187 4 244 + - 6 0.52 0.0 65.2 1.9e-17 ! - +contig--2874819 - LSU_rRNA_eukarya RF02543 hmm 2281 2665 359 3 - - 6 0.57 0.0 65.1 2.2e-17 ! - +contig--95399 - LSU_rRNA_eukarya RF02543 hmm 2947 3198 5 259 + - 6 0.55 0.1 64.1 4.3e-17 ! - +contig--2918607 - LSU_rRNA_eukarya RF02543 hmm 306 439 415 283 - - 6 0.44 0.6 63.3 7.2e-17 ! - +contig--1796896 - LSU_rRNA_eukarya RF02543 hmm 2948 3185 2 241 + - 6 0.51 0.0 63.2 8e-17 ! - +contig--942031 - LSU_rRNA_eukarya RF02543 hmm 2919 3151 306 69 - - 6 0.55 0.0 62.6 1.2e-16 ! - +contig--2254163 - LSU_rRNA_eukarya RF02543 hmm 16 335 304 2 - - 6 0.38 5.7 62.5 1.3e-16 ! - +contig--2835645 - LSU_rRNA_eukarya RF02543 hmm 2943 3167 303 77 - - 6 0.55 0.0 62.3 1.5e-16 ! - +contig--2252929 - LSU_rRNA_eukarya RF02543 hmm 2129 2312 194 5 - - 6 0.49 0.0 60.4 5.7e-16 ! - +contig--747483 - LSU_rRNA_eukarya RF02543 hmm 2911 3160 332 79 - - 6 0.54 0.0 58.6 2e-15 ! - +contig--2255132 - LSU_rRNA_eukarya RF02543 hmm 16 236 118 325 + - 6 0.37 2.9 58.4 2.2e-15 ! - +contig--2254117 - LSU_rRNA_eukarya RF02543 hmm 305 437 19 152 + - 6 0.48 0.1 58.3 2.4e-15 ! - +contig--2634789 - LSU_rRNA_eukarya RF02543 hmm 1405 1960 1086 580 - - 6 0.49 1.3 58.2 2.6e-15 ! - +contig--3925448 - LSU_rRNA_eukarya RF02543 hmm 175 460 23 294 + - 6 0.38 7.7 56.8 6.8e-15 ! - +contig--236053 - LSU_rRNA_eukarya RF02543 hmm 17 269 248 45 - - 6 0.44 1.0 56.0 1.2e-14 ! - +contig--2918607 - LSU_rRNA_eukarya RF02543 hmm 806 969 177 15 - - 6 0.47 0.1 55.5 1.7e-14 ! - +contig--2251329 - LSU_rRNA_eukarya RF02543 hmm 2950 3195 3 252 + - 6 0.49 0.1 53.8 5.5e-14 ! - +contig--2713352 - LSU_rRNA_eukarya RF02543 hmm 1419 1947 507 19 - - 6 0.51 0.3 53.4 7.2e-14 ! - +contig--2220335 - LSU_rRNA_eukarya RF02543 hmm 2133 2312 200 5 - - 6 0.48 0.0 53.3 7.9e-14 ! - +contig--3433834 - LSU_rRNA_eukarya RF02543 hmm 1508 1962 2 414 + - 6 0.47 0.1 53.1 9e-14 ! - +contig--1326571 - LSU_rRNA_eukarya RF02543 hmm 792 1036 35 270 + - 6 0.50 0.0 52.9 1e-13 ! - +contig--2646754 - LSU_rRNA_eukarya RF02543 hmm 1272 1930 1 591 + - 6 0.51 0.8 52.6 1.3e-13 ! - +contig--473422 - LSU_rRNA_eukarya RF02543 hmm 18 224 198 2 - - 6 0.54 0.0 52.0 1.9e-13 ! - +contig--2564558 - LSU_rRNA_eukarya RF02543 hmm 317 455 1 140 + - 6 0.44 0.1 52.0 1.9e-13 ! - +contig--3694746 - LSU_rRNA_eukarya RF02543 hmm 791 966 184 10 - - 6 0.50 0.1 51.0 3.9e-13 ! - +contig--3652175 - LSU_rRNA_eukarya RF02543 hmm 792 967 185 11 - - 6 0.49 0.1 50.8 4.5e-13 ! - +# +# Program: cmsearch +# Version: 1.1.2 (July 2016) +# Pipeline mode: SEARCH +# Query file: ribo.cm +# Target file: 50000.1.fa +# Option settings: cmsearch -Z 1000 --tblout 1.cmsearch.tblout --noali --cut_ga --hmmonly --cpu 4 ribo.cm 50000.1.fa +# Current dir: /nfs/production/xfam/users/nawrocki/notebook/17_0508_inf_ebi_cmsearch_deoverlap +# Date: Wed May 10 21:28:09 2017 +# [ok] diff -r 000000000000 -r ef644fd49e98 cmsearch_tblout_deoverlap_tool/test-data/overlapout_sample --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmsearch_tblout_deoverlap_tool/test-data/overlapout_sample Wed Aug 16 05:49:12 2023 +0000 @@ -0,0 +1,644 @@ +# cmsearch-deoverlap.pl --overlapout output file +# Explanation of fields: +# 1. 'target' : sequence name +# 2. 'strand' : strand (+ or -) +# 3. 'mdl1' : name of model 1 +# 4. 'mdl2' : name of model 2 +# 5. 'hitlen1' : length in sequence positions of hit to model 1 +# 6. 'hitlen2' : length in sequence positions of hit to model 2 +# 7. 'nres_olap' : number of residues that overlap between hit to model 1 and hit to model 2 in 'target' on strand 'strand' +# 8. 'score1' : score of hit to model 1 +# 9. 'score2' : score of hit to model 2 +# 10. 'evalue1' : E-value of hit to model 1 +# 11. 'evalue2' : E-value of hit to model 2 +# 12. 'seqfrom1' : start position in 'target' of hit to model 1 +# 13. 'seqto1' : end position in 'target' of hit to model 1 +# 14. 'seqfrom2' : start position in 'target' of hit to model 2 +# 15. 'seqto2' : end position in 'target' of hit to model 2 +# 16. 'olap-frac-of-hit1' : 'nres_olap'/'hitlen1' +# 17. 'olap-frac-of-hit2' : 'nres_olap'/'hitlen2' +# 18. 'mdllen1' : length of model 1 ("-" if not available) +# 19. 'mdllen2' : length of model 2 ("-" if not available) +# 20. 'olap-frac-of-mdl1' : 'nres_olap'/'mdllen1' +# 21. 'olap-frac-of-mdl2' : 'nres_olap'/'mdllen2' +# 22. 'mhitlen1' : length in model positions of hit to model 1 +# 23. 'mhitlen2' : length in model positions of hit to model 2 +# 24. 'mhit-frac-of-mdl1' : 'mhitlen1'/'mdllen1' +# 25. 'mhit-frac-of-mdl2' : 'mhitlen2'/'mdllen2' +# 26. 'desc1' : description for hit to model 1 +# 27. 'desc2' : description for hit to model 2 +#1:target 2:strand 3:mdl1 4:mdl2 5:hitlen1 6:hitlen2 7:nres_olap 8:score1 9:score2 10:evalue1 11:evalue2 12:seqfrom1 13:seqto1 14:seqfrom2 15:seqto2 16:olap-frac-of-hit1 17:olap-frac-of-hit2 18:mdllen1 19:mdllen2 20:olap-frac-of-mdl1 21:olap-frac-of-mdl2 22:mhitlen1 23:mhitlen2 24:mhit-frac-of-mdl1 25:mhit-frac-of-mdl2 26:desc1 27:desc2 +contig--1001177 + SSU_rRNA_bacteria SSU_rRNA_archaea 316 315 315 257.9 177.2 1e-74 1.7e-50 4 319 4 318 0.997 1.000 - - - - 315 319 - - - - +contig--1001177 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 316 308 308 257.9 121.6 1e-74 1.8e-33 4 319 12 319 0.975 1.000 - - - - 315 302 - - - - +contig--1001177 + SSU_rRNA_bacteria SSU_rRNA_eukarya 316 305 305 257.9 113.2 1e-74 2.9e-31 4 319 15 319 0.965 1.000 - - - - 315 318 - - - - +contig--1003442 - SSU_rRNA_bacteria SSU_rRNA_archaea 328 313 313 194.1 83.8 1.8e-55 2.9e-22 328 1 314 2 0.954 1.000 - - - - 329 302 - - - - +contig--1007451 + LSU_rRNA_eukarya LSU_rRNA_archaea 308 293 293 214.7 67.8 1.7e-62 5e-18 1 308 15 307 0.951 1.000 - - - - 310 256 - - - - +contig--1007451 + LSU_rRNA_eukarya LSU_rRNA_bacteria 308 287 287 214.7 55.5 1.7e-62 3.1e-14 1 308 21 307 0.932 1.000 - - - - 310 260 - - - - +contig--10143 - LSU_rRNA_bacteria LSU_rRNA_archaea 800 597 597 446.1 234.0 4.8e-132 3.5e-68 800 1 798 202 0.746 1.000 - - - - 882 610 - - - - +contig--10143 - LSU_rRNA_bacteria LSU_rRNA_eukarya 800 453 453 446.1 92.5 4.8e-132 1.2e-25 800 1 655 203 0.566 1.000 - - - - 882 496 - - - - +contig--101864 - LSU_rRNA_eukarya LSU_rRNA_archaea 309 306 306 184.9 100.9 1.6e-53 4.9e-28 310 2 307 2 0.990 1.000 - - - - 326 324 - - - - +contig--101864 - LSU_rRNA_eukarya LSU_rRNA_bacteria 309 307 306 184.9 82.5 1.6e-53 2.2e-22 310 2 307 1 0.990 0.997 - - - - 326 314 - - - - +contig--1029476 + SSU_rRNA_bacteria SSU_rRNA_archaea 527 521 521 368.0 249.5 5.4e-108 2.3e-72 174 700 177 697 0.989 1.000 - - - - 517 511 - - - - +contig--1029476 + SSU_rRNA_bacteria SSU_rRNA_eukarya 527 482 482 368.0 178.8 5.4e-108 4.4e-51 174 700 217 698 0.915 1.000 - - - - 517 517 - - - - +contig--1029476 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 527 482 482 368.0 130.8 5.4e-108 3e-36 174 700 217 698 0.915 1.000 - - - - 517 398 - - - - +contig--1031478 - LSU_rRNA_bacteria LSU_rRNA_archaea 372 371 371 177.9 88.8 3.7e-51 2.3e-24 372 1 372 2 0.997 1.000 - - - - 371 380 - - - - +contig--1040384 - LSU_rRNA_bacteria LSU_rRNA_archaea 735 660 660 425.7 240.5 6.7e-126 4e-70 774 40 774 115 0.898 1.000 - - - - 735 688 - - - - +contig--1040384 - LSU_rRNA_bacteria LSU_rRNA_eukarya 735 633 633 425.7 78.7 6.7e-126 1.7e-21 774 40 772 140 0.861 1.000 - - - - 735 714 - - - - +contig--1042219 - LSU_rRNA_bacteria LSU_rRNA_archaea 338 327 327 215.9 126.7 1.3e-62 8.2e-36 339 2 339 13 0.967 1.000 - - - - 336 319 - - - - +contig--1042219 - LSU_rRNA_bacteria LSU_rRNA_eukarya 338 330 330 215.9 84.9 1.3e-62 2.3e-23 339 2 339 10 0.976 1.000 - - - - 336 359 - - - - +contig--1082627 + LSU_rRNA_bacteria LSU_rRNA_archaea 334 331 331 314.4 198.5 2.6e-92 1.9e-57 1 334 2 332 0.991 1.000 - - - - 345 329 - - - - +contig--1082627 + LSU_rRNA_bacteria LSU_rRNA_eukarya 334 310 310 314.4 110.7 2.6e-92 3.7e-31 1 334 2 311 0.928 1.000 - - - - 345 307 - - - - +contig--1085416 - SSU_rRNA_bacteria SSU_rRNA_archaea 392 388 387 263.5 101.8 2.1e-76 1e-27 392 1 393 6 0.987 0.997 - - - - 424 387 - - - - +contig--110110 + LSU_rRNA_eukarya LSU_rRNA_archaea 320 311 310 181.4 101.6 1.9e-52 3e-28 2 321 12 322 0.969 0.997 - - - - 329 321 - - - - +contig--110110 + LSU_rRNA_eukarya LSU_rRNA_bacteria 320 316 315 181.4 83.2 1.9e-52 1.3e-22 2 321 7 322 0.984 0.997 - - - - 329 315 - - - - +contig--1111206 - LSU_rRNA_bacteria LSU_rRNA_archaea 359 358 358 190.5 119.6 5.9e-55 1.1e-33 360 2 359 2 0.997 1.000 - - - - 389 381 - - - - +contig--1111206 - LSU_rRNA_bacteria LSU_rRNA_eukarya 359 289 288 190.5 66.7 5.9e-55 7e-18 360 2 289 1 0.802 0.997 - - - - 389 313 - - - - +contig--1123361 + LSU_rRNA_eukarya LSU_rRNA_archaea 122 121 121 110.0 54.3 6.1e-31 5.8e-14 1 122 1 121 0.992 1.000 - - - - 123 123 - - - - +contig--1133023 + LSU_rRNA_eukarya LSU_rRNA_archaea 549 371 371 261.0 77.3 1.9e-76 6.8e-21 9 557 9 379 0.676 1.000 - - - - 526 355 - - - - +contig--1133023 + LSU_rRNA_eukarya LSU_rRNA_bacteria 549 376 376 261.0 56.3 1.9e-76 1.7e-14 9 557 14 389 0.685 1.000 - - - - 526 341 - - - - +contig--1149779 - SSU_rRNA_bacteria SSU_rRNA_archaea 302 303 302 219.3 133.6 4.4e-63 2.4e-37 303 2 303 1 1.000 0.997 - - - - 303 295 - - - - +contig--1149779 - SSU_rRNA_bacteria SSU_rRNA_eukarya 302 300 300 219.3 104.4 4.4e-63 1.3e-28 303 2 302 3 0.993 1.000 - - - - 303 332 - - - - +contig--1149779 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 302 255 255 219.3 82.9 4.4e-63 8.8e-22 303 2 257 3 0.844 1.000 - - - - 303 226 - - - - +contig--1159799 - LSU_rRNA_eukarya LSU_rRNA_archaea 374 213 213 192.7 79.9 7.1e-56 1.1e-21 375 2 374 162 0.570 1.000 - - - - 401 214 - - - - +contig--1159799 - LSU_rRNA_eukarya LSU_rRNA_bacteria 374 227 227 192.7 61.3 7.1e-56 5.4e-16 375 2 373 147 0.607 1.000 - - - - 401 230 - - - - +contig--1171145 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 364 360 360 211.7 106.8 5.2e-61 5.3e-29 2 365 6 365 0.989 1.000 - - - - 388 242 - - - - +contig--1176662 + LSU_rRNA_bacteria LSU_rRNA_archaea 292 269 269 222.3 142.9 1.5e-64 1.1e-40 2 293 22 290 0.921 1.000 - - - - 292 270 - - - - +contig--1176662 + LSU_rRNA_bacteria LSU_rRNA_eukarya 292 259 259 222.3 69.1 1.5e-64 1.3e-18 2 293 24 282 0.887 1.000 - - - - 292 258 - - - - +contig--1192886 - SSU_rRNA_bacteria SSU_rRNA_archaea 332 331 331 280.4 178.1 1.6e-81 8.6e-51 332 1 331 1 0.997 1.000 - - - - 335 340 - - - - +contig--1192886 - SSU_rRNA_bacteria SSU_rRNA_eukarya 332 330 330 280.4 97.5 1.6e-81 1.5e-26 332 1 330 1 0.994 1.000 - - - - 335 382 - - - - +contig--1192886 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 332 329 329 280.4 75.1 1.6e-81 2e-19 332 1 330 2 0.991 1.000 - - - - 335 274 - - - - +contig--1202655 + LSU_rRNA_bacteria LSU_rRNA_archaea 984 957 957 735.1 422.8 3.3e-219 4.2e-125 48 1031 75 1031 0.973 1.000 - - - - 1044 992 - - - - +contig--1202655 + LSU_rRNA_bacteria LSU_rRNA_eukarya 984 377 377 735.1 145.3 3.3e-219 1.4e-41 48 1031 655 1031 0.383 1.000 - - - - 1044 383 - - - - +contig--1209771 - SSU_rRNA_bacteria SSU_rRNA_archaea 278 281 277 220.9 137.8 1.5e-63 1.3e-38 278 1 282 2 0.996 0.986 - - - - 279 288 - - - - +contig--1209771 - SSU_rRNA_bacteria SSU_rRNA_eukarya 278 275 275 220.9 61.7 1.5e-63 1e-15 278 1 276 2 0.989 1.000 - - - - 279 325 - - - - +contig--1210133 - LSU_rRNA_bacteria LSU_rRNA_archaea 733 730 730 419.3 264.6 5.8e-124 2.2e-77 736 4 733 4 0.996 1.000 - - - - 749 820 - - - - +contig--1210133 - LSU_rRNA_bacteria LSU_rRNA_eukarya 733 418 418 419.3 130.9 5.8e-124 3.1e-37 736 4 603 186 0.570 1.000 - - - - 749 430 - - - - +contig--1210200 - SSU_rRNA_bacteria SSU_rRNA_archaea 406 405 405 289.8 208.3 2.3e-84 6.6e-60 406 1 405 1 0.998 1.000 - - - - 405 409 - - - - +contig--1210200 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 406 403 403 289.8 113.2 2.3e-84 6.2e-31 406 1 405 3 0.993 1.000 - - - - 405 394 - - - - +contig--1210200 - SSU_rRNA_bacteria SSU_rRNA_eukarya 406 281 281 289.8 89.9 2.3e-84 3e-24 406 1 281 1 0.692 1.000 - - - - 405 291 - - - - +contig--1210202 - LSU_rRNA_bacteria LSU_rRNA_archaea 390 387 387 195.9 95.6 1.4e-56 2.1e-26 390 1 387 1 0.992 1.000 - - - - 402 484 - - - - +contig--1211922 - SSU_rRNA_bacteria SSU_rRNA_eukarya 220 240 220 125.2 79.6 1.2e-34 4e-21 300 81 300 61 1.000 0.917 - - - - 220 247 - - - - +contig--1211922 - SSU_rRNA_bacteria SSU_rRNA_archaea 220 206 206 125.2 78.2 1.2e-34 1.3e-20 300 81 300 95 0.936 1.000 - - - - 220 206 - - - - +contig--1211922 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 220 215 215 125.2 52.4 1.2e-34 1.5e-12 300 81 300 86 0.977 1.000 - - - - 220 188 - - - - +contig--1212351 - LSU_rRNA_eukarya LSU_rRNA_archaea 330 317 317 162.9 92.8 6.8e-47 1.4e-25 330 1 317 1 0.961 1.000 - - - - 335 323 - - - - +contig--1212351 - LSU_rRNA_eukarya LSU_rRNA_bacteria 330 323 323 162.9 75.1 6.8e-47 3.8e-20 330 1 323 1 0.979 1.000 - - - - 335 318 - - - - +contig--1212661 + LSU_rRNA_eukarya LSU_rRNA_archaea 351 212 212 149.9 70.5 5.8e-43 7.2e-19 1 351 1 212 0.604 1.000 - - - - 371 211 - - - - +contig--1212661 + LSU_rRNA_eukarya LSU_rRNA_bacteria 351 204 204 149.9 59.0 5.8e-43 2.7e-15 1 351 1 204 0.581 1.000 - - - - 371 205 - - - - +contig--1213982 - LSU_rRNA_eukarya LSU_rRNA_archaea 561 559 559 435.9 190.3 3.4e-129 5.5e-55 561 1 561 3 0.996 1.000 - - - - 525 486 - - - - +contig--1213982 - LSU_rRNA_eukarya LSU_rRNA_bacteria 561 560 560 435.9 131.0 3.4e-129 5.2e-37 561 1 561 2 0.998 1.000 - - - - 525 512 - - - - +contig--1214168 + LSU_rRNA_eukarya LSU_rRNA_archaea 332 330 330 182.3 117.0 9.6e-53 7e-33 1 332 2 331 0.994 1.000 - - - - 337 336 - - - - +contig--1214168 + LSU_rRNA_eukarya LSU_rRNA_bacteria 332 331 330 182.3 91.6 9.6e-53 3.9e-25 1 332 3 333 0.994 0.997 - - - - 337 326 - - - - +contig--1214394 - LSU_rRNA_eukarya LSU_rRNA_archaea 422 256 256 205.5 100.1 1e-59 8.5e-28 423 2 422 167 0.607 1.000 - - - - 447 256 - - - - +contig--1214394 - LSU_rRNA_eukarya LSU_rRNA_bacteria 422 248 248 205.5 74.2 1e-59 7e-20 423 2 410 163 0.588 1.000 - - - - 447 250 - - - - +contig--1214513 + LSU_rRNA_eukarya LSU_rRNA_archaea 345 346 345 190.5 121.3 3.3e-55 3.6e-34 2 346 2 347 1.000 0.997 - - - - 346 348 - - - - +contig--1214513 + LSU_rRNA_eukarya LSU_rRNA_bacteria 345 344 344 190.5 97.2 3.3e-55 8.3e-27 2 346 3 346 0.997 1.000 - - - - 346 336 - - - - +contig--1214669 - SSU_rRNA_bacteria SSU_rRNA_archaea 299 288 288 184.4 80.4 1.6e-52 2.9e-21 299 1 292 5 0.963 1.000 - - - - 317 295 - - - - +contig--1214754 - LSU_rRNA_eukarya LSU_rRNA_archaea 420 345 345 194.9 111.1 1.5e-56 4.3e-31 512 93 512 168 0.821 1.000 - - - - 434 356 - - - - +contig--1214754 - LSU_rRNA_eukarya LSU_rRNA_bacteria 420 343 343 194.9 102.2 1.5e-56 2.5e-28 512 93 512 170 0.817 1.000 - - - - 434 345 - - - - +contig--1215349 - LSU_rRNA_bacteria LSU_rRNA_archaea 332 330 330 196.5 115.4 8.9e-57 2.2e-32 332 1 331 2 0.994 1.000 - - - - 328 334 - - - - +contig--1238415 + SSU_rRNA_bacteria SSU_rRNA_archaea 356 347 347 229.4 95.2 4e-66 9.8e-26 216 571 223 569 0.975 1.000 - - - - 359 339 - - - - +contig--130023 - LSU_rRNA_eukarya LSU_rRNA_archaea 390 349 349 175.0 106.9 1.5e-50 7.9e-30 683 294 682 334 0.895 1.000 - - - - 390 348 - - - - +contig--130023 - LSU_rRNA_eukarya LSU_rRNA_bacteria 390 370 370 175.0 92.4 1.5e-50 2.3e-25 683 294 682 313 0.949 1.000 - - - - 390 360 - - - - +contig--1326571 + LSU_rRNA_bacteria LSU_rRNA_archaea 298 264 264 208.3 99.1 2.6e-60 1.8e-27 3 300 7 270 0.886 1.000 - - - - 297 301 - - - - +contig--1326571 + LSU_rRNA_bacteria LSU_rRNA_eukarya 298 236 236 208.3 52.9 2.6e-60 1e-13 3 300 35 270 0.792 1.000 - - - - 297 245 - - - - +contig--1346273 - SSU_rRNA_bacteria SSU_rRNA_archaea 372 372 371 313.1 198.1 2e-91 7.9e-57 374 3 373 2 0.997 0.997 - - - - 368 366 - - - - +contig--1346273 - SSU_rRNA_bacteria SSU_rRNA_eukarya 372 364 364 313.1 148.3 2e-91 7.3e-42 374 3 366 3 0.978 1.000 - - - - 368 369 - - - - +contig--1346273 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 372 366 366 313.1 129.1 2e-91 9.4e-36 374 3 371 6 0.984 1.000 - - - - 368 339 - - - - +contig--1368084 - SSU_rRNA_bacteria SSU_rRNA_archaea 360 338 338 212.0 99.5 7.1e-61 4.8e-27 361 2 341 4 0.939 1.000 - - - - 345 311 - - - - +contig--137819 + LSU_rRNA_bacteria LSU_rRNA_archaea 732 729 729 690.7 378.6 8.2e-206 9.1e-112 4 735 6 734 0.996 1.000 - - - - 731 719 - - - - +contig--137819 + LSU_rRNA_bacteria LSU_rRNA_eukarya 732 721 721 690.7 272.3 8.2e-206 7.2e-80 4 735 6 726 0.985 1.000 - - - - 731 748 - - - - +contig--1379481 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 406 405 405 214.3 132.4 8.4e-62 9.9e-37 1 406 1 405 0.998 1.000 - - - - 414 271 - - - - +contig--1407263 - LSU_rRNA_bacteria LSU_rRNA_archaea 489 488 488 298.9 188.9 1.2e-87 1.5e-54 490 2 490 3 0.998 1.000 - - - - 496 504 - - - - +contig--1407263 - LSU_rRNA_bacteria LSU_rRNA_eukarya 489 487 487 298.9 78.5 1.2e-87 2e-21 490 2 489 3 0.996 1.000 - - - - 496 542 - - - - +contig--1437319 - LSU_rRNA_eukarya LSU_rRNA_archaea 321 323 321 241.2 91.5 1.7e-70 3.4e-25 327 7 328 6 1.000 0.994 - - - - 332 312 - - - - +contig--1437319 - LSU_rRNA_eukarya LSU_rRNA_bacteria 321 185 185 241.2 55.2 1.7e-70 3.8e-14 327 7 197 13 0.576 1.000 - - - - 332 184 - - - - +contig--1458589 + LSU_rRNA_bacteria LSU_rRNA_archaea 315 314 314 226.4 140.5 9e-66 5.9e-40 2 316 2 315 0.997 1.000 - - - - 318 325 - - - - +contig--147097 + LSU_rRNA_bacteria LSU_rRNA_archaea 332 331 331 256.0 148.8 1e-74 1.8e-42 2 333 2 332 0.997 1.000 - - - - 324 318 - - - - +contig--147097 + LSU_rRNA_bacteria LSU_rRNA_eukarya 332 241 241 256.0 65.2 1e-74 1.9e-17 2 333 4 244 0.726 1.000 - - - - 324 246 - - - - +contig--151080 - LSU_rRNA_bacteria LSU_rRNA_archaea 2611 1203 1203 1212.6 446.8 0 2.5e-132 2627 17 1279 77 0.461 1.000 - - - - 2859 1200 - - - - +contig--151080 - LSU_rRNA_bacteria LSU_rRNA_eukarya 2611 1107 1107 1212.6 249.4 0 5.8e-73 2627 17 1140 34 0.424 1.000 - - - - 2859 1132 - - - - +contig--151080 - LSU_rRNA_bacteria LSU_rRNA_archaea 2611 1162 1162 1212.6 243.5 0 4.9e-71 2627 17 2513 1352 0.445 1.000 - - - - 2859 1356 - - - - +contig--151080 - LSU_rRNA_bacteria LSU_rRNA_eukarya 2611 738 738 1212.6 95.9 0 1.1e-26 2627 17 2084 1347 0.283 1.000 - - - - 2859 788 - - - - +contig--151199 - SSU_rRNA_bacteria SSU_rRNA_archaea 536 533 533 270.9 104.0 1.1e-78 2.1e-28 538 3 535 3 0.994 1.000 - - - - 561 513 - - - - +contig--151527 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 949 942 942 596.2 296.3 4.3e-177 2.7e-86 950 2 943 2 0.993 1.000 - - - - 991 627 - - - - +contig--151527 - SSU_rRNA_eukarya SSU_rRNA_archaea 949 587 587 596.2 89.2 4.3e-177 6.4e-24 950 2 928 342 0.619 1.000 - - - - 991 490 - - - - +contig--151527 - SSU_rRNA_eukarya SSU_rRNA_bacteria 949 583 583 596.2 60.6 4.3e-177 4e-15 950 2 928 346 0.614 1.000 - - - - 991 532 - - - - +contig--151601 + LSU_rRNA_bacteria LSU_rRNA_archaea 1375 1375 1375 921.8 536.2 1.6e-275 2.6e-159 1 1375 1 1375 1.000 1.000 - - - - 1373 1476 - - - - +contig--151601 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1375 1072 1072 921.8 180.0 1.6e-275 4.9e-52 1 1375 207 1278 0.780 1.000 - - - - 1373 1181 - - - - +contig--151751 - LSU_rRNA_eukarya LSU_rRNA_archaea 449 393 393 249.9 145.6 4.2e-73 1.6e-41 603 155 592 200 0.875 1.000 - - - - 451 395 - - - - +contig--151751 - LSU_rRNA_eukarya LSU_rRNA_bacteria 449 396 396 249.9 126.3 4.2e-73 1.4e-35 603 155 594 199 0.882 1.000 - - - - 451 389 - - - - +contig--151876 + LSU_rRNA_bacteria LSU_rRNA_archaea 1084 1083 1083 788.1 439.7 3.5e-235 3.3e-130 2 1085 2 1084 0.999 1.000 - - - - 1133 1216 - - - - +contig--151876 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1084 388 388 788.1 134.4 3.5e-235 2.7e-38 2 1085 141 528 0.358 1.000 - - - - 1133 436 - - - - +contig--151876 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1084 457 457 788.1 89.1 3.5e-235 1.2e-24 2 1085 628 1084 0.422 1.000 - - - - 1133 504 - - - - +contig--152048 - SSU_rRNA_bacteria SSU_rRNA_archaea 582 573 573 403.0 163.1 1.4e-118 3e-46 584 3 575 3 0.985 1.000 - - - - 577 523 - - - - +contig--152048 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 582 552 552 403.0 75.1 1.4e-118 2e-19 584 3 555 4 0.948 1.000 - - - - 577 438 - - - - +contig--1531838 - SSU_rRNA_bacteria SSU_rRNA_archaea 313 312 312 235.1 130.8 7.5e-68 1.7e-36 313 1 313 2 0.997 1.000 - - - - 319 318 - - - - +contig--1531838 - SSU_rRNA_bacteria SSU_rRNA_eukarya 313 313 313 235.1 84.3 7.5e-68 1.5e-22 313 1 313 1 1.000 1.000 - - - - 319 357 - - - - +contig--1531838 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 313 311 311 235.1 74.6 7.5e-68 2.9e-19 313 1 313 3 0.994 1.000 - - - - 319 270 - - - - +contig--1568447 + SSU_rRNA_bacteria SSU_rRNA_archaea 683 679 679 574.2 297.1 2.6e-170 9.6e-87 2 684 3 681 0.994 1.000 - - - - 678 646 - - - - +contig--1568447 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 683 655 655 574.2 172.0 2.6e-170 1e-48 2 684 27 681 0.959 1.000 - - - - 678 592 - - - - +contig--1568447 + SSU_rRNA_bacteria SSU_rRNA_eukarya 683 317 317 574.2 128.7 2.6e-170 6.1e-36 2 684 367 683 0.464 1.000 - - - - 678 333 - - - - +contig--156996 - LSU_rRNA_archaea LSU_rRNA_bacteria 2870 2868 2863 1930.8 1219.6 0 0 3613 744 3606 739 0.998 0.998 - - - - 2936 2877 - - - - +contig--156996 - LSU_rRNA_archaea LSU_rRNA_eukarya 2870 1044 1044 1930.8 426.2 0 2.8e-126 3613 744 1819 776 0.364 1.000 - - - - 2936 1078 - - - - +contig--156996 - LSU_rRNA_archaea LSU_rRNA_eukarya 2870 1185 1185 1930.8 305.9 0 5.1e-90 3613 744 3005 1821 0.413 1.000 - - - - 2936 1309 - - - - +contig--156996 - LSU_rRNA_archaea LSU_rRNA_eukarya 2870 406 406 1930.8 122.9 0 8.1e-35 3613 744 3469 3064 0.141 1.000 - - - - 2936 412 - - - - +contig--1572437 + LSU_rRNA_eukarya LSU_rRNA_archaea 257 196 196 153.9 53.0 3.6e-44 1.5e-13 1 257 1 196 0.763 1.000 - - - - 256 197 - - - - +contig--1583871 + LSU_rRNA_eukarya LSU_rRNA_archaea 727 450 450 385.1 69.5 7.2e-114 1.5e-18 1 727 9 458 0.619 1.000 - - - - 744 424 - - - - +contig--1584065 - SSU_rRNA_bacteria SSU_rRNA_archaea 332 312 312 196.9 91.9 2.6e-56 9.6e-25 332 1 313 2 0.940 1.000 - - - - 334 304 - - - - +contig--159495 + SSU_rRNA_bacteria SSU_rRNA_archaea 275 266 266 148.0 89.9 1.6e-41 3.9e-24 11920 12194 11927 12192 0.967 1.000 - - - - 270 250 - - - - +contig--1596054 - LSU_rRNA_eukarya LSU_rRNA_archaea 602 599 599 537.8 172.4 6.4e-160 1.4e-49 603 2 603 5 0.995 1.000 - - - - 600 555 - - - - +contig--1596054 - LSU_rRNA_eukarya LSU_rRNA_bacteria 602 583 583 537.8 105.8 6.4e-160 2e-29 603 2 602 20 0.968 1.000 - - - - 600 529 - - - - +contig--1604373 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 423 410 410 296.1 164.0 1.7e-86 2.8e-46 1 423 14 423 0.969 1.000 - - - - 449 331 - - - - +contig--1604373 + SSU_rRNA_eukarya SSU_rRNA_archaea 423 417 417 296.1 150.7 1.7e-86 1.7e-42 1 423 7 423 0.986 1.000 - - - - 449 399 - - - - +contig--1604373 + SSU_rRNA_eukarya SSU_rRNA_bacteria 423 398 398 296.1 117.1 1.7e-86 3.4e-32 1 423 26 423 0.941 1.000 - - - - 449 375 - - - - +contig--1634977 + SSU_rRNA_bacteria SSU_rRNA_archaea 314 314 313 276.6 209.4 2.2e-80 3.1e-60 2 315 1 314 0.997 0.997 - - - - 316 322 - - - - +contig--1634977 + SSU_rRNA_bacteria SSU_rRNA_eukarya 314 314 313 276.6 103.9 2.2e-80 1.8e-28 2 315 1 314 0.997 0.997 - - - - 316 365 - - - - +contig--1634977 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 314 313 312 276.6 69.4 2.2e-80 1.1e-17 2 315 1 313 0.994 0.997 - - - - 316 257 - - - - +contig--1644897 + LSU_rRNA_eukarya LSU_rRNA_archaea 569 433 433 272.6 81.3 5.7e-80 4.2e-22 15 583 91 523 0.761 1.000 - - - - 572 427 - - - - +contig--1662509 + LSU_rRNA_eukarya LSU_rRNA_archaea 648 645 645 468.7 178.2 4.2e-139 2.5e-51 1 648 1 645 0.995 1.000 - - - - 654 608 - - - - +contig--1662509 + LSU_rRNA_eukarya LSU_rRNA_bacteria 648 642 642 468.7 113.6 4.2e-139 9.2e-32 1 648 2 643 0.991 1.000 - - - - 654 594 - - - - +contig--166397 + LSU_rRNA_bacteria LSU_rRNA_archaea 1160 1161 1152 998.5 535.2 1.2e-298 5.4e-159 31 1190 22 1182 0.993 0.992 - - - - 1161 1133 - - - - +contig--166397 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1160 1014 1014 998.5 320.4 1.2e-298 2.3e-94 31 1190 61 1074 0.874 1.000 - - - - 1161 1031 - - - - +contig--1688622 - LSU_rRNA_bacteria LSU_rRNA_archaea 376 357 357 268.7 117.7 1.5e-78 4.4e-33 378 3 365 9 0.949 1.000 - - - - 376 350 - - - - +contig--1688622 - LSU_rRNA_bacteria LSU_rRNA_eukarya 376 344 344 268.7 71.0 1.5e-78 3.6e-19 378 3 348 5 0.915 1.000 - - - - 376 374 - - - - +contig--1692849 + LSU_rRNA_eukarya LSU_rRNA_archaea 336 322 322 260.0 84.3 3.7e-76 5.2e-23 1 336 12 333 0.958 1.000 - - - - 353 300 - - - - +contig--1692849 + LSU_rRNA_eukarya LSU_rRNA_bacteria 336 309 309 260.0 79.9 3.7e-76 1.4e-21 1 336 25 333 0.920 1.000 - - - - 353 297 - - - - +contig--1720439 + SSU_rRNA_bacteria SSU_rRNA_archaea 610 611 610 433.7 233.2 7.5e-128 2e-67 2 611 1 611 1.000 0.998 - - - - 609 581 - - - - +contig--1720439 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 610 604 604 433.7 139.9 7.5e-128 5.3e-39 2 611 8 611 0.990 1.000 - - - - 609 544 - - - - +contig--1720439 + SSU_rRNA_bacteria SSU_rRNA_eukarya 610 257 257 433.7 95.3 7.5e-128 7.3e-26 2 611 355 611 0.421 1.000 - - - - 609 271 - - - - +contig--1768180 + LSU_rRNA_bacteria LSU_rRNA_archaea 349 339 339 268.8 183.3 1.4e-78 7.2e-53 1 349 2 340 0.971 1.000 - - - - 360 345 - - - - +contig--1768180 + LSU_rRNA_bacteria LSU_rRNA_eukarya 349 244 244 268.8 82.0 1.4e-78 1.7e-22 1 349 3 246 0.699 1.000 - - - - 360 241 - - - - +contig--1776240 - SSU_rRNA_bacteria SSU_rRNA_archaea 463 463 463 396.4 235.5 1.4e-116 4e-68 463 1 463 1 1.000 1.000 - - - - 463 463 - - - - +contig--1776240 - SSU_rRNA_bacteria SSU_rRNA_eukarya 463 463 463 396.4 150.5 1.4e-116 1.6e-42 463 1 463 1 1.000 1.000 - - - - 463 508 - - - - +contig--1776240 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 463 462 462 396.4 119.1 1.4e-116 1e-32 463 1 463 2 0.998 1.000 - - - - 463 388 - - - - +contig--1796896 + LSU_rRNA_bacteria LSU_rRNA_archaea 300 297 297 242.6 136.0 1.1e-70 1.3e-38 1 300 3 299 0.990 1.000 - - - - 312 304 - - - - +contig--1796896 + LSU_rRNA_bacteria LSU_rRNA_eukarya 300 240 240 242.6 63.2 1.1e-70 8e-17 1 300 2 241 0.800 1.000 - - - - 312 238 - - - - +contig--1797769 - LSU_rRNA_eukarya LSU_rRNA_archaea 500 226 226 258.1 50.8 1.3e-75 6.5e-13 501 2 438 213 0.452 1.000 - - - - 506 221 - - - - +contig--1834142 + LSU_rRNA_eukarya LSU_rRNA_archaea 299 297 297 144.4 76.4 2.6e-41 1.2e-20 1 299 2 298 0.993 1.000 - - - - 288 288 - - - - +contig--185227 - LSU_rRNA_eukarya LSU_rRNA_archaea 300 288 288 234.4 92.2 1.9e-68 2.2e-25 303 4 302 15 0.960 1.000 - - - - 300 284 - - - - +contig--185227 - LSU_rRNA_eukarya LSU_rRNA_bacteria 300 290 290 234.4 54.8 1.9e-68 4.9e-14 303 4 300 11 0.967 1.000 - - - - 300 284 - - - - +contig--185298 + LSU_rRNA_eukarya LSU_rRNA_archaea 646 450 450 228.1 130.1 1.5e-66 8.1e-37 1 646 2 451 0.697 1.000 - - - - 643 464 - - - - +contig--185298 + LSU_rRNA_eukarya LSU_rRNA_bacteria 646 370 370 228.1 113.8 1.5e-66 8.2e-32 1 646 2 371 0.573 1.000 - - - - 643 365 - - - - +contig--185309 + LSU_rRNA_bacteria LSU_rRNA_archaea 912 909 908 711.7 405.2 3.9e-212 8.2e-120 128 1039 127 1035 0.996 0.999 - - - - 904 890 - - - - +contig--185309 + LSU_rRNA_bacteria LSU_rRNA_eukarya 912 902 902 711.7 280.8 3.9e-212 1.9e-82 128 1039 130 1031 0.989 1.000 - - - - 904 919 - - - - +contig--185316 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 311 307 307 185.2 92.1 5.1e-53 1.5e-24 2 312 4 310 0.987 1.000 - - - - 345 235 - - - - +contig--185316 + SSU_rRNA_eukarya SSU_rRNA_archaea 311 309 309 185.2 76.1 5.1e-53 5.9e-20 2 312 3 311 0.994 1.000 - - - - 345 300 - - - - +contig--185316 + SSU_rRNA_eukarya SSU_rRNA_bacteria 311 310 310 185.2 60.5 5.1e-53 4.4e-15 2 312 2 311 0.997 1.000 - - - - 345 295 - - - - +contig--185430 + LSU_rRNA_eukarya LSU_rRNA_archaea 385 355 355 230.5 79.9 2.8e-67 1.1e-21 8 392 38 392 0.922 1.000 - - - - 390 342 - - - - +contig--185562 - LSU_rRNA_eukarya LSU_rRNA_archaea 787 722 722 528.0 174.9 5.7e-157 2.4e-50 789 3 789 68 0.917 1.000 - - - - 782 649 - - - - +contig--185562 - LSU_rRNA_eukarya LSU_rRNA_bacteria 787 707 707 528.0 105.1 5.7e-157 3.3e-29 789 3 789 83 0.898 1.000 - - - - 782 629 - - - - +contig--185811 - LSU_rRNA_bacteria LSU_rRNA_archaea 525 523 523 268.3 134.0 2e-78 5.4e-38 526 2 524 2 0.996 1.000 - - - - 530 539 - - - - +contig--186013 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 745 743 743 487.0 252.4 3.8e-144 5.3e-73 745 1 744 2 0.997 1.000 - - - - 762 526 - - - - +contig--186013 - SSU_rRNA_eukarya SSU_rRNA_bacteria 745 286 286 487.0 96.7 3.8e-144 5.1e-26 745 1 290 5 0.384 1.000 - - - - 762 274 - - - - +contig--186013 - SSU_rRNA_eukarya SSU_rRNA_archaea 745 279 279 487.0 90.2 3.8e-144 3.2e-24 745 1 280 2 0.374 1.000 - - - - 762 271 - - - - +contig--186013 - SSU_rRNA_eukarya SSU_rRNA_archaea 745 224 224 487.0 51.6 3.8e-144 1.5e-12 745 1 741 518 0.301 1.000 - - - - 762 210 - - - - +contig--193617 - SSU_rRNA_bacteria SSU_rRNA_archaea 306 304 304 136.8 87.9 3.9e-38 1.6e-23 306 1 305 2 0.993 1.000 - - - - 336 333 - - - - +contig--193617 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 306 253 253 136.8 61.4 3.9e-38 2.8e-15 306 1 305 53 0.827 1.000 - - - - 336 236 - - - - +contig--193617 - SSU_rRNA_bacteria SSU_rRNA_eukarya 306 296 296 136.8 57.2 3.9e-38 2.2e-14 306 1 305 10 0.967 1.000 - - - - 336 370 - - - - +contig--214407 + SSU_rRNA_bacteria SSU_rRNA_archaea 322 297 297 227.3 112.7 1.8e-65 5e-31 15 336 18 314 0.922 1.000 - - - - 339 315 - - - - +contig--2152327 + LSU_rRNA_bacteria LSU_rRNA_archaea 580 575 575 294.4 159.3 2.7e-86 1.2e-45 3 582 7 581 0.991 1.000 - - - - 550 552 - - - - +contig--2220335 - LSU_rRNA_bacteria LSU_rRNA_archaea 423 407 407 316.5 178.0 5.7e-93 2.8e-51 423 1 407 1 0.962 1.000 - - - - 405 373 - - - - +contig--2220335 - LSU_rRNA_bacteria LSU_rRNA_eukarya 423 196 196 316.5 53.3 5.7e-93 7.9e-14 423 1 200 5 0.463 1.000 - - - - 405 180 - - - - +contig--2248804 + SSU_rRNA_bacteria SSU_rRNA_archaea 375 361 361 274.5 182.5 9.7e-80 4e-52 165 539 165 525 0.963 1.000 - - - - 386 378 - - - - +contig--2248804 + SSU_rRNA_bacteria SSU_rRNA_eukarya 375 351 351 274.5 121.6 9.7e-80 8.5e-34 165 539 165 515 0.936 1.000 - - - - 386 411 - - - - +contig--2248804 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 375 353 353 274.5 99.4 9.7e-80 9.2e-27 165 539 165 517 0.941 1.000 - - - - 386 307 - - - - +contig--2248828 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 581 580 580 385.6 173.8 1.6e-113 3e-49 581 1 581 2 0.998 1.000 - - - - 602 400 - - - - +contig--2248828 - SSU_rRNA_eukarya SSU_rRNA_archaea 581 293 293 385.6 98.5 1.6e-113 9.9e-27 581 1 294 2 0.504 1.000 - - - - 602 289 - - - - +contig--2248828 - SSU_rRNA_eukarya SSU_rRNA_bacteria 581 283 283 385.6 92.5 1.6e-113 9.1e-25 581 1 292 10 0.487 1.000 - - - - 602 275 - - - - +contig--2249544 - LSU_rRNA_eukarya LSU_rRNA_archaea 435 428 428 362.4 123.4 4.9e-107 8e-35 435 1 429 2 0.984 1.000 - - - - 443 398 - - - - +contig--2249544 - LSU_rRNA_eukarya LSU_rRNA_bacteria 435 423 423 362.4 92.3 4.9e-107 2.4e-25 435 1 424 2 0.972 1.000 - - - - 443 402 - - - - +contig--2249727 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 350 348 348 250.6 134.9 9.5e-73 1.6e-37 4 353 5 352 0.994 1.000 - - - - 368 289 - - - - +contig--2249727 + SSU_rRNA_eukarya SSU_rRNA_archaea 350 348 348 250.6 110.6 9.5e-73 2.3e-30 4 353 5 352 0.994 1.000 - - - - 368 324 - - - - +contig--2249727 + SSU_rRNA_eukarya SSU_rRNA_bacteria 350 348 348 250.6 85.1 9.5e-73 1.6e-22 4 353 5 352 0.994 1.000 - - - - 368 333 - - - - +contig--2249925 + SSU_rRNA_bacteria SSU_rRNA_archaea 897 875 875 638.4 334.0 1.1e-189 7.1e-98 2 898 23 897 0.975 1.000 - - - - 896 833 - - - - +contig--2249925 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 897 882 882 638.4 169.7 1.1e-189 5.2e-48 2 898 17 898 0.983 1.000 - - - - 896 764 - - - - +contig--2249925 + SSU_rRNA_bacteria SSU_rRNA_eukarya 897 266 266 638.4 89.6 1.1e-189 3.9e-24 2 898 633 898 0.297 1.000 - - - - 896 279 - - - - +contig--2250093 - LSU_rRNA_eukarya LSU_rRNA_archaea 485 472 472 378.5 123.9 7.1e-112 5.8e-35 487 3 486 15 0.973 1.000 - - - - 475 427 - - - - +contig--2250093 - LSU_rRNA_eukarya LSU_rRNA_bacteria 485 464 464 378.5 76.7 7.1e-112 1.2e-20 487 3 483 20 0.957 1.000 - - - - 475 425 - - - - +contig--2250342 + LSU_rRNA_bacteria LSU_rRNA_archaea 587 524 523 224.8 102.7 2.6e-65 1.4e-28 1 587 65 588 0.891 0.998 - - - - 591 569 - - - - +contig--2250515 + LSU_rRNA_bacteria LSU_rRNA_archaea 776 774 774 502.0 302.9 6.4e-149 6.2e-89 1 776 2 775 0.997 1.000 - - - - 809 883 - - - - +contig--2250515 + LSU_rRNA_bacteria LSU_rRNA_eukarya 776 384 384 502.0 136.3 6.4e-149 7.4e-39 1 776 131 514 0.495 1.000 - - - - 809 397 - - - - +contig--2250797 - LSU_rRNA_eukarya LSU_rRNA_archaea 365 361 361 222.6 129.5 6.7e-65 1.2e-36 366 2 363 3 0.989 1.000 - - - - 365 362 - - - - +contig--2250797 - LSU_rRNA_eukarya LSU_rRNA_bacteria 365 358 358 222.6 104.6 6.7e-65 4.6e-29 366 2 360 3 0.981 1.000 - - - - 365 348 - - - - +contig--2250883 - LSU_rRNA_bacteria LSU_rRNA_archaea 393 393 393 317.4 186.2 3.2e-93 9.8e-54 396 4 396 4 1.000 1.000 - - - - 389 384 - - - - +contig--2250883 - LSU_rRNA_bacteria LSU_rRNA_eukarya 393 277 277 317.4 91.8 3.2e-93 1.9e-25 396 4 394 118 0.705 1.000 - - - - 389 274 - - - - +contig--2250940 + 5_8S_rRNA LSU_rRNA_bacteria 152 498 140 98.9 50.7 4.2e-26 8.8e-13 239 390 251 748 0.921 0.281 - - - - 153 248 - - - - +contig--2251064 + LSU_rRNA_eukarya LSU_rRNA_archaea 424 355 355 218.0 140.7 1.6e-63 5e-40 1 424 3 357 0.837 1.000 - - - - 430 361 - - - - +contig--2251064 + LSU_rRNA_eukarya LSU_rRNA_bacteria 424 374 374 218.0 109.6 1.6e-63 1.5e-30 1 424 4 377 0.882 1.000 - - - - 430 371 - - - - +contig--2251231 - LSU_rRNA_eukarya LSU_rRNA_archaea 457 222 222 223.7 75.7 3.2e-65 1.9e-20 467 11 464 243 0.486 1.000 - - - - 459 223 - - - - +contig--2251231 - LSU_rRNA_eukarya LSU_rRNA_bacteria 457 213 213 223.7 63.5 3.2e-65 1.2e-16 467 11 461 249 0.466 1.000 - - - - 459 215 - - - - +contig--2251329 + LSU_rRNA_bacteria LSU_rRNA_archaea 313 297 297 210.9 103.1 4e-61 1.1e-28 1 313 3 299 0.949 1.000 - - - - 311 290 - - - - +contig--2251329 + LSU_rRNA_bacteria LSU_rRNA_eukarya 313 250 250 210.9 53.8 4e-61 5.5e-14 1 313 3 252 0.799 1.000 - - - - 311 246 - - - - +contig--2251392 + LSU_rRNA_eukarya LSU_rRNA_archaea 753 729 729 472.3 117.0 3.5e-140 6.8e-33 1 753 3 731 0.968 1.000 - - - - 785 581 - - - - +contig--2251392 + LSU_rRNA_eukarya LSU_rRNA_bacteria 753 736 736 472.3 81.7 3.5e-140 3.8e-22 1 753 1 736 0.977 1.000 - - - - 785 580 - - - - +contig--2251500 + SSU_rRNA_bacteria SSU_rRNA_archaea 473 472 472 382.1 240.0 2.9e-112 1.7e-69 1 473 2 473 0.998 1.000 - - - - 474 472 - - - - +contig--2251500 + SSU_rRNA_bacteria SSU_rRNA_eukarya 473 473 473 382.1 183.7 2.9e-112 1.5e-52 1 473 1 473 1.000 1.000 - - - - 474 518 - - - - +contig--2251500 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 473 473 473 382.1 143.2 2.9e-112 5.2e-40 1 473 1 473 1.000 1.000 - - - - 474 399 - - - - +contig--2251533 - LSU_rRNA_eukarya LSU_rRNA_archaea 423 203 203 186.2 61.1 6.4e-54 4.9e-16 427 5 425 223 0.480 1.000 - - - - 444 203 - - - - +contig--2251634 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 377 372 372 194.8 94.7 6.4e-56 2.4e-25 377 1 372 1 0.987 1.000 - - - - 379 232 - - - - +contig--2251690 - SSU_rRNA_bacteria SSU_rRNA_archaea 334 314 314 206.9 98.0 2.6e-59 1.5e-26 334 1 315 2 0.940 1.000 - - - - 333 303 - - - - +contig--2251849 + LSU_rRNA_eukarya LSU_rRNA_archaea 424 217 217 194.1 72.2 2.7e-56 2.4e-19 2 425 5 221 0.512 1.000 - - - - 447 218 - - - - +contig--2251849 + LSU_rRNA_eukarya LSU_rRNA_bacteria 424 219 219 194.1 62.8 2.7e-56 2e-16 2 425 7 225 0.517 1.000 - - - - 447 222 - - - - +contig--2252003 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 609 609 609 404.2 202.8 3.8e-119 5.1e-58 1 609 1 609 1.000 1.000 - - - - 623 422 - - - - +contig--2252003 + SSU_rRNA_eukarya SSU_rRNA_archaea 609 292 292 404.2 93.9 3.8e-119 2.5e-25 1 609 317 608 0.479 1.000 - - - - 623 283 - - - - +contig--2252003 + SSU_rRNA_eukarya SSU_rRNA_bacteria 609 290 290 404.2 90.4 3.8e-119 3.9e-24 1 609 304 593 0.476 1.000 - - - - 623 278 - - - - +contig--2252145 + LSU_rRNA_eukarya LSU_rRNA_archaea 422 269 269 220.6 79.5 2.9e-64 1.4e-21 1 422 1 269 0.637 1.000 - - - - 441 279 - - - - +contig--2252145 + LSU_rRNA_eukarya LSU_rRNA_bacteria 422 295 295 220.6 59.9 2.9e-64 1.4e-15 1 422 2 296 0.699 1.000 - - - - 441 239 - - - - +contig--2252346 + LSU_rRNA_eukarya LSU_rRNA_archaea 634 633 633 444.0 188.4 1.3e-131 2.1e-54 1 634 2 634 0.998 1.000 - - - - 597 559 - - - - +contig--2252346 + LSU_rRNA_eukarya LSU_rRNA_bacteria 634 626 626 444.0 129.3 1.3e-131 1.7e-36 1 634 3 628 0.987 1.000 - - - - 597 561 - - - - +contig--2252644 + SSU_rRNA_bacteria SSU_rRNA_archaea 743 739 739 404.9 192.0 3.7e-119 5.7e-55 42 784 46 784 0.995 1.000 - - - - 799 751 - - - - +contig--2252644 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 743 741 740 404.9 122.0 3.7e-119 1.4e-33 42 784 45 785 0.996 0.999 - - - - 799 685 - - - - +contig--2252644 + SSU_rRNA_bacteria SSU_rRNA_eukarya 743 159 159 404.9 55.1 3.7e-119 1e-13 42 784 624 782 0.214 1.000 - - - - 799 165 - - - - +contig--2252661 - LSU_rRNA_eukarya LSU_rRNA_archaea 773 372 372 300.6 133.1 2.2e-88 9.8e-38 776 4 776 405 0.481 1.000 - - - - 682 362 - - - - +contig--2252661 - LSU_rRNA_eukarya LSU_rRNA_bacteria 773 371 371 300.6 126.8 2.2e-88 9.8e-36 776 4 775 405 0.480 1.000 - - - - 682 352 - - - - +contig--2252860 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 348 347 347 167.8 57.7 9e-48 3.8e-14 1 348 2 348 0.997 1.000 - - - - 353 209 - - - - +contig--2252929 - LSU_rRNA_bacteria LSU_rRNA_archaea 860 859 859 547.7 335.7 1.1e-162 7.6e-99 860 1 859 1 0.999 1.000 - - - - 861 855 - - - - +contig--2252929 - LSU_rRNA_bacteria LSU_rRNA_eukarya 860 628 628 547.7 80.6 1.1e-162 4.7e-22 860 1 859 232 0.730 1.000 - - - - 861 689 - - - - +contig--2252929 - LSU_rRNA_bacteria LSU_rRNA_eukarya 860 190 190 547.7 60.4 1.1e-162 5.7e-16 860 1 194 5 0.221 1.000 - - - - 861 184 - - - - +contig--2253054 + SSU_rRNA_bacteria SSU_rRNA_archaea 446 442 442 363.0 191.6 1.7e-106 7.5e-55 1 446 4 445 0.991 1.000 - - - - 463 426 - - - - +contig--2253054 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 446 441 441 363.0 97.4 1.7e-106 3.7e-26 1 446 5 445 0.989 1.000 - - - - 463 405 - - - - +contig--2253227 + LSU_rRNA_eukarya LSU_rRNA_archaea 219 209 209 116.0 63.9 9.3e-33 7.4e-17 2 220 2 210 0.954 1.000 - - - - 202 193 - - - - +contig--2253688 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 443 442 442 249.9 139.4 1.5e-72 7.5e-39 443 1 442 1 0.998 1.000 - - - - 442 298 - - - - +contig--2254060 - LSU_rRNA_eukarya LSU_rRNA_archaea 627 625 625 450.7 197.1 1.1e-133 5e-57 627 1 627 3 0.997 1.000 - - - - 582 543 - - - - +contig--2254060 - LSU_rRNA_eukarya LSU_rRNA_bacteria 627 626 626 450.7 123.7 1.1e-133 8.3e-35 627 1 627 2 0.998 1.000 - - - - 582 553 - - - - +contig--2254117 + LSU_rRNA_bacteria LSU_rRNA_archaea 804 800 800 530.1 305.9 2.2e-157 7.5e-90 2 805 3 802 0.995 1.000 - - - - 810 902 - - - - +contig--2254117 + LSU_rRNA_bacteria LSU_rRNA_eukarya 804 498 498 530.1 102.1 2.2e-157 1.5e-28 2 805 271 768 0.619 1.000 - - - - 810 542 - - - - +contig--2254117 + LSU_rRNA_bacteria LSU_rRNA_eukarya 804 134 134 530.1 58.3 2.2e-157 2.4e-15 2 805 19 152 0.167 1.000 - - - - 810 133 - - - - +contig--2254163 - LSU_rRNA_bacteria LSU_rRNA_archaea 462 437 437 243.0 152.6 8.9e-71 1.3e-43 462 1 446 10 0.946 1.000 - - - - 483 450 - - - - +contig--2254163 - LSU_rRNA_bacteria LSU_rRNA_eukarya 462 303 303 243.0 62.5 8.9e-71 1.3e-16 462 1 304 2 0.656 1.000 - - - - 483 320 - - - - +contig--2254313 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 348 345 345 195.6 166.5 3.7e-56 4.8e-47 350 3 347 3 0.991 1.000 - - - - 351 329 - - - - +contig--2254313 - SSU_rRNA_eukarya SSU_rRNA_archaea 348 344 344 195.6 150.9 3.7e-56 1.5e-42 350 3 346 3 0.989 1.000 - - - - 351 338 - - - - +contig--2254313 - SSU_rRNA_eukarya SSU_rRNA_bacteria 348 344 344 195.6 123.2 3.7e-56 4.9e-34 350 3 346 3 0.989 1.000 - - - - 351 333 - - - - +contig--2254317 - LSU_rRNA_eukarya LSU_rRNA_archaea 361 362 361 216.6 135.8 4.3e-63 1.5e-38 362 2 362 1 1.000 0.997 - - - - 363 365 - - - - +contig--2254317 - LSU_rRNA_eukarya LSU_rRNA_bacteria 361 361 361 216.6 109.5 4.3e-63 1.6e-30 362 2 362 2 1.000 1.000 - - - - 363 354 - - - - +contig--2254400 - LSU_rRNA_bacteria LSU_rRNA_archaea 333 335 333 288.8 172.9 1.4e-84 1e-49 341 9 341 7 1.000 0.994 - - - - 344 341 - - - - +contig--2254400 - LSU_rRNA_bacteria LSU_rRNA_eukarya 333 243 243 288.8 72.2 1.4e-84 1.5e-19 341 9 340 98 0.730 1.000 - - - - 344 240 - - - - +contig--2254733 - LSU_rRNA_bacteria LSU_rRNA_archaea 395 367 367 226.4 121.1 8.5e-66 4.2e-34 396 2 396 30 0.929 1.000 - - - - 391 369 - - - - +contig--2255132 + LSU_rRNA_bacteria LSU_rRNA_archaea 396 362 362 147.4 103.7 5.9e-42 7.1e-29 1 396 1 362 0.914 1.000 - - - - 404 365 - - - - +contig--2255132 + LSU_rRNA_bacteria LSU_rRNA_eukarya 396 208 208 147.4 58.4 5.9e-42 2.2e-15 1 396 118 325 0.525 1.000 - - - - 404 221 - - - - +contig--2255353 + LSU_rRNA_eukarya LSU_rRNA_archaea 810 492 492 510.6 108.3 1e-151 3e-30 1 810 10 501 0.607 1.000 - - - - 794 446 - - - - +contig--2255353 + LSU_rRNA_eukarya LSU_rRNA_bacteria 810 498 498 510.6 72.3 1e-151 2.7e-19 1 810 9 506 0.615 1.000 - - - - 794 442 - - - - +contig--2255364 - SSU_rRNA_bacteria SSU_rRNA_archaea 765 759 759 624.0 324.5 2.5e-185 5e-95 765 1 759 1 0.992 1.000 - - - - 760 719 - - - - +contig--2255364 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 765 754 754 624.0 192.1 2.5e-185 8.6e-55 765 1 755 2 0.986 1.000 - - - - 760 673 - - - - +contig--2255364 - SSU_rRNA_bacteria SSU_rRNA_eukarya 765 439 439 624.0 166.7 2.5e-185 2e-47 765 1 440 2 0.574 1.000 - - - - 760 449 - - - - +contig--2255543 + LSU_rRNA_eukarya LSU_rRNA_archaea 367 209 209 185.5 68.1 1.1e-53 4e-18 1 367 2 210 0.569 1.000 - - - - 395 210 - - - - +contig--2255543 + LSU_rRNA_eukarya LSU_rRNA_bacteria 367 222 222 185.5 56.2 1.1e-53 1.8e-14 1 367 2 223 0.605 1.000 - - - - 395 225 - - - - +contig--2256050 + LSU_rRNA_bacteria LSU_rRNA_archaea 1670 1657 1657 1243.1 673.0 0 1.5e-200 1 1670 4 1660 0.992 1.000 - - - - 1656 1639 - - - - +contig--2256050 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1670 637 637 1243.1 199.3 0 7.6e-58 1 1670 1000 1636 0.381 1.000 - - - - 1656 651 - - - - +contig--2256050 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1670 957 957 1243.1 147.3 0 3.5e-42 1 1670 4 960 0.573 1.000 - - - - 1656 1057 - - - - +contig--2271497 - SSU_rRNA_bacteria SSU_rRNA_archaea 834 825 825 597.5 296.8 2.5e-177 1.2e-86 835 2 827 3 0.989 1.000 - - - - 809 756 - - - - +contig--2271497 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 834 824 824 597.5 159.2 2.5e-177 7.8e-45 835 2 826 3 0.988 1.000 - - - - 809 687 - - - - +contig--2271497 - SSU_rRNA_bacteria SSU_rRNA_eukarya 834 519 519 597.5 61.1 2.5e-177 1.5e-15 835 2 740 222 0.622 1.000 - - - - 809 569 - - - - +contig--2271497 - SSU_rRNA_bacteria SSU_rRNA_eukarya 834 163 163 597.5 58.6 2.5e-177 8.9e-15 835 2 165 3 0.195 1.000 - - - - 809 163 - - - - +contig--2298625 - LSU_rRNA_eukarya LSU_rRNA_archaea 832 560 560 636.8 287.2 8.8e-190 3.3e-84 1079 248 996 437 0.673 1.000 - - - - 882 561 - - - - +contig--2298625 - LSU_rRNA_eukarya LSU_rRNA_bacteria 832 599 599 636.8 226.8 8.8e-190 6.5e-66 1079 248 1029 431 0.720 1.000 - - - - 882 597 - - - - +contig--2304422 - LSU_rRNA_bacteria LSU_rRNA_archaea 464 449 449 285.0 172.0 1.8e-83 1.8e-49 464 1 449 1 0.968 1.000 - - - - 508 484 - - - - +contig--2304422 - LSU_rRNA_bacteria LSU_rRNA_eukarya 464 299 299 285.0 91.5 1.8e-83 2.3e-25 464 1 299 1 0.644 1.000 - - - - 508 346 - - - - +contig--23096 + LSU_rRNA_bacteria LSU_rRNA_archaea 709 707 707 669.2 386.9 2.5e-199 2.8e-114 1 709 2 708 0.997 1.000 - - - - 709 698 - - - - +contig--23096 + LSU_rRNA_bacteria LSU_rRNA_eukarya 709 707 707 669.2 265.0 2.5e-199 1.2e-77 1 709 1 707 0.997 1.000 - - - - 709 735 - - - - +contig--232952 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 570 569 569 325.9 150.8 1.7e-95 2.7e-42 1 570 2 570 0.998 1.000 - - - - 584 382 - - - - +contig--232952 + SSU_rRNA_eukarya SSU_rRNA_archaea 570 285 285 325.9 93.0 1.7e-95 4.5e-25 1 570 284 568 0.500 1.000 - - - - 584 276 - - - - +contig--232952 + SSU_rRNA_eukarya SSU_rRNA_bacteria 570 346 346 325.9 89.6 1.7e-95 6.8e-24 1 570 223 568 0.607 1.000 - - - - 584 319 - - - - +contig--2330557 - LSU_rRNA_bacteria LSU_rRNA_archaea 998 976 976 752.9 407.4 1.4e-224 1.9e-120 998 1 993 18 0.978 1.000 - - - - 994 945 - - - - +contig--2330557 - LSU_rRNA_bacteria LSU_rRNA_eukarya 998 635 635 752.9 173.5 1.4e-224 4.3e-50 998 1 662 28 0.636 1.000 - - - - 994 649 - - - - +contig--236053 - LSU_rRNA_bacteria LSU_rRNA_archaea 400 393 393 224.4 138.6 3.5e-65 2.2e-39 401 2 397 5 0.983 1.000 - - - - 443 428 - - - - +contig--236053 - LSU_rRNA_bacteria LSU_rRNA_eukarya 400 204 204 224.4 56.0 3.5e-65 1.2e-14 401 2 248 45 0.510 1.000 - - - - 443 253 - - - - +contig--2369838 + SSU_rRNA_bacteria SSU_rRNA_archaea 836 839 836 609.3 346.7 6.6e-181 9.9e-102 20 855 17 855 1.000 0.996 - - - - 849 825 - - - - +contig--2369838 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 836 841 835 609.3 188.6 6.6e-181 9.6e-54 20 855 14 854 0.999 0.993 - - - - 849 751 - - - - +contig--2369838 + SSU_rRNA_bacteria SSU_rRNA_eukarya 836 296 296 609.3 106.4 6.6e-181 3.2e-29 20 855 560 855 0.354 1.000 - - - - 849 309 - - - - +contig--2412452 + LSU_rRNA_eukarya LSU_rRNA_archaea 309 250 250 339.6 122.2 3.7e-100 1.9e-34 30 338 73 322 0.809 1.000 - - - - 310 251 - - - - +contig--2412452 + LSU_rRNA_eukarya LSU_rRNA_bacteria 309 249 249 339.6 87.3 3.7e-100 8e-24 30 338 71 319 0.806 1.000 - - - - 310 265 - - - - +contig--24391 - SSU_rRNA_bacteria SSU_rRNA_archaea 310 309 309 224.6 154.2 1.1e-64 1.5e-43 311 2 311 3 0.997 1.000 - - - - 310 310 - - - - +contig--24391 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 310 303 303 224.6 86.2 1.1e-64 8.9e-23 311 2 311 9 0.977 1.000 - - - - 310 301 - - - - +contig--24391 - SSU_rRNA_bacteria SSU_rRNA_eukarya 310 173 173 224.6 57.8 1.1e-64 1.5e-14 311 2 175 3 0.558 1.000 - - - - 310 173 - - - - +contig--2491978 - SSU_rRNA_archaea SSU_rRNA_bacteria 1028 1024 1024 777.7 434.2 6.1e-232 5.3e-128 1028 1 1024 1 0.996 1.000 - - - - 1032 1074 - - - - +contig--2491978 - SSU_rRNA_archaea SSU_rRNA_microsporidia 1028 1022 1022 777.7 354.2 6.1e-232 8.4e-104 1028 1 1024 3 0.994 1.000 - - - - 1032 937 - - - - +contig--2491978 - SSU_rRNA_archaea SSU_rRNA_eukarya 1028 431 431 777.7 199.1 6.1e-232 3.3e-57 1028 1 432 2 0.419 1.000 - - - - 1032 442 - - - - +contig--2491978 - SSU_rRNA_archaea SSU_rRNA_eukarya 1028 543 543 777.7 118.3 6.1e-232 8.2e-33 1028 1 1025 483 0.528 1.000 - - - - 1032 657 - - - - +contig--2501086 + LSU_rRNA_bacteria LSU_rRNA_archaea 388 387 387 199.8 95.7 8.9e-58 1.8e-26 3 390 4 390 0.997 1.000 - - - - 392 476 - - - - +contig--2506583 + SSU_rRNA_archaea SSU_rRNA_bacteria 1043 1044 1043 791.7 551.4 3.4e-236 2.1e-163 4 1046 4 1047 1.000 0.999 - - - - 1045 1049 - - - - +contig--2506583 + SSU_rRNA_archaea SSU_rRNA_microsporidia 1043 1032 1032 791.7 392.9 3.4e-236 1.7e-115 4 1046 10 1041 0.989 1.000 - - - - 1045 937 - - - - +contig--2506583 + SSU_rRNA_archaea SSU_rRNA_eukarya 1043 875 875 791.7 382.5 3.4e-236 1.4e-112 4 1046 167 1041 0.839 1.000 - - - - 1045 963 - - - - +contig--2514811 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 745 745 745 506.7 275.6 4.3e-150 5.1e-80 2 746 2 746 1.000 1.000 - - - - 778 544 - - - - +contig--2514811 + SSU_rRNA_eukarya SSU_rRNA_archaea 745 259 259 506.7 65.3 4.3e-150 1e-16 2 746 12 270 0.348 1.000 - - - - 778 250 - - - - +contig--2514811 + SSU_rRNA_eukarya SSU_rRNA_archaea 745 259 259 506.7 57.8 4.3e-150 2e-14 2 746 488 746 0.348 1.000 - - - - 778 255 - - - - +contig--2514811 + SSU_rRNA_eukarya SSU_rRNA_bacteria 745 257 257 506.7 56.9 4.3e-150 5.1e-14 2 746 490 746 0.345 1.000 - - - - 778 249 - - - - +contig--2519402 - LSU_rRNA_bacteria LSU_rRNA_archaea 423 405 405 226.6 172.4 7.5e-66 1.3e-49 424 2 420 16 0.957 1.000 - - - - 437 410 - - - - +contig--2519402 - LSU_rRNA_bacteria LSU_rRNA_eukarya 423 252 252 226.6 75.3 7.5e-66 1.8e-20 424 2 300 49 0.596 1.000 - - - - 437 263 - - - - +contig--2528721 + LSU_rRNA_eukarya LSU_rRNA_archaea 405 305 305 200.4 95.2 3.4e-58 2.6e-26 1 405 1 305 0.753 1.000 - - - - 463 244 - - - - +contig--2528721 + LSU_rRNA_eukarya LSU_rRNA_bacteria 405 280 280 200.4 72.1 3.4e-58 3e-19 1 405 2 281 0.691 1.000 - - - - 463 252 - - - - +contig--2531154 + LSU_rRNA_bacteria LSU_rRNA_archaea 563 563 563 358.6 217.5 1.2e-105 3.5e-63 80 642 80 642 1.000 1.000 - - - - 573 563 - - - - +contig--2531154 + LSU_rRNA_bacteria LSU_rRNA_eukarya 563 349 349 358.6 123.1 1.2e-105 7e-35 80 642 284 632 0.620 1.000 - - - - 573 408 - - - - +contig--2543224 - LSU_rRNA_bacteria LSU_rRNA_archaea 322 257 257 191.1 122.0 3.9e-55 2.2e-34 322 1 311 55 0.798 1.000 - - - - 368 241 - - - - +contig--2552028 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 590 589 589 292.0 175.6 2.9e-85 8.5e-50 1 590 1 589 0.998 1.000 - - - - 613 411 - - - - +contig--2552028 + SSU_rRNA_eukarya SSU_rRNA_bacteria 590 287 287 292.0 74.6 2.9e-85 2.4e-19 1 590 304 590 0.486 1.000 - - - - 613 275 - - - - +contig--2552028 + SSU_rRNA_eukarya SSU_rRNA_archaea 590 287 287 292.0 70.4 2.9e-85 3e-18 1 590 304 590 0.486 1.000 - - - - 613 279 - - - - +contig--256048 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 469 224 224 231.1 114.7 7.1e-67 2.1e-31 1 469 1 224 0.478 1.000 - - - - 410 193 - - - - +contig--2564558 + LSU_rRNA_bacteria LSU_rRNA_archaea 417 398 398 308.9 140.3 1.2e-90 6.6e-40 1 417 1 398 0.954 1.000 - - - - 423 488 - - - - +contig--2564558 + LSU_rRNA_bacteria LSU_rRNA_eukarya 417 140 140 308.9 52.0 1.2e-90 1.9e-13 1 417 1 140 0.336 1.000 - - - - 423 139 - - - - +contig--2565011 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 589 586 586 421.6 232.8 2.2e-124 4.5e-67 589 1 586 1 0.995 1.000 - - - - 599 421 - - - - +contig--2565011 - SSU_rRNA_eukarya SSU_rRNA_archaea 589 550 550 421.6 79.4 2.2e-124 5.8e-21 589 1 571 22 0.934 1.000 - - - - 599 449 - - - - +contig--2565011 - SSU_rRNA_eukarya SSU_rRNA_bacteria 589 538 538 421.6 66.3 2.2e-124 7.4e-17 589 1 571 34 0.913 1.000 - - - - 599 483 - - - - +contig--257393 - LSU_rRNA_eukarya LSU_rRNA_archaea 589 585 585 373.7 114.3 1.9e-110 4.6e-32 590 2 590 6 0.993 1.000 - - - - 586 538 - - - - +contig--257393 - LSU_rRNA_eukarya LSU_rRNA_bacteria 589 587 587 373.7 62.6 1.9e-110 2.2e-16 590 2 590 4 0.997 1.000 - - - - 586 530 - - - - +contig--2575573 + LSU_rRNA_eukarya LSU_rRNA_archaea 862 826 826 604.4 200.7 5.3e-180 4.1e-58 1 862 5 830 0.958 1.000 - - - - 867 788 - - - - +contig--2575573 + LSU_rRNA_eukarya LSU_rRNA_bacteria 862 809 809 604.4 142.5 5.3e-180 1.7e-40 1 862 23 831 0.939 1.000 - - - - 867 754 - - - - +contig--258486 + SSU_rRNA_bacteria SSU_rRNA_archaea 383 382 382 315.0 193.8 5.5e-92 1.6e-55 4 386 4 385 0.997 1.000 - - - - 383 373 - - - - +contig--258486 + SSU_rRNA_bacteria SSU_rRNA_eukarya 383 366 366 315.0 121.1 5.5e-92 1.1e-33 4 386 11 376 0.956 1.000 - - - - 383 399 - - - - +contig--258486 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 383 361 361 315.0 88.8 5.5e-92 1.4e-23 4 386 16 376 0.943 1.000 - - - - 383 316 - - - - +contig--261342 + LSU_rRNA_bacteria LSU_rRNA_archaea 284 261 261 205.2 122.6 2.1e-59 1.4e-34 3 286 25 285 0.919 1.000 - - - - 285 263 - - - - +contig--261342 + LSU_rRNA_bacteria LSU_rRNA_eukarya 284 258 258 205.2 96.4 2.1e-59 7.6e-27 3 286 26 283 0.908 1.000 - - - - 285 258 - - - - +contig--2618713 + SSU_rRNA_bacteria SSU_rRNA_archaea 353 343 343 223.9 117.5 1.8e-64 1.9e-32 1048 1400 1056 1398 0.972 1.000 - - - - 344 323 - - - - +contig--2618713 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 353 329 329 223.9 59.2 1.8e-64 1.3e-14 1048 1400 1055 1383 0.932 1.000 - - - - 344 261 - - - - +contig--2634789 - LSU_rRNA_bacteria LSU_rRNA_archaea 1091 1086 1086 719.6 387.0 1.5e-214 2.5e-114 1092 2 1087 2 0.995 1.000 - - - - 1075 1053 - - - - +contig--2634789 - LSU_rRNA_bacteria LSU_rRNA_eukarya 1091 527 526 719.6 135.6 1.5e-214 1.2e-38 1092 2 527 1 0.482 0.998 - - - - 1075 540 - - - - +contig--2634789 - LSU_rRNA_bacteria LSU_rRNA_eukarya 1091 507 507 719.6 58.2 1.5e-214 2.6e-15 1092 2 1086 580 0.465 1.000 - - - - 1075 556 - - - - +contig--2646754 + LSU_rRNA_bacteria LSU_rRNA_archaea 592 592 592 275.6 155.9 1.2e-80 1.3e-44 1 592 1 592 1.000 1.000 - - - - 606 619 - - - - +contig--2646754 + LSU_rRNA_bacteria LSU_rRNA_eukarya 592 591 591 275.6 52.6 1.2e-80 1.3e-13 1 592 1 591 0.998 1.000 - - - - 606 659 - - - - +contig--2652964 - LSU_rRNA_bacteria LSU_rRNA_archaea 510 480 480 269.2 150.2 1.1e-78 6.8e-43 513 4 494 15 0.941 1.000 - - - - 495 471 - - - - +contig--2673585 - LSU_rRNA_bacteria LSU_rRNA_archaea 374 373 373 178.7 122.7 2.2e-51 1.4e-34 374 1 373 1 0.997 1.000 - - - - 331 341 - - - - +contig--2673585 - LSU_rRNA_bacteria LSU_rRNA_eukarya 374 372 372 178.7 87.8 2.2e-51 3e-24 374 1 372 1 0.995 1.000 - - - - 331 339 - - - - +contig--2680413 - LSU_rRNA_bacteria LSU_rRNA_archaea 443 438 438 252.2 154.8 1.4e-73 2.8e-44 443 1 438 1 0.989 1.000 - - - - 484 470 - - - - +contig--2680413 - LSU_rRNA_bacteria LSU_rRNA_eukarya 443 295 295 252.2 80.0 1.4e-73 6.8e-22 443 1 296 2 0.666 1.000 - - - - 484 342 - - - - +contig--2693087 + SSU_rRNA_bacteria SSU_rRNA_archaea 308 293 293 209.9 105.0 3.1e-60 1.1e-28 132 439 140 432 0.951 1.000 - - - - 338 312 - - - - +contig--2693087 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 308 290 290 209.9 61.8 3.1e-60 2.1e-15 132 439 139 428 0.942 1.000 - - - - 338 261 - - - - +contig--2699652 + LSU_rRNA_bacteria LSU_rRNA_archaea 425 423 423 391.2 229.5 1.8e-115 8.2e-67 1 425 2 424 0.995 1.000 - - - - 437 430 - - - - +contig--2699652 + LSU_rRNA_bacteria LSU_rRNA_eukarya 425 344 344 391.2 134.6 1.8e-115 2.4e-38 1 425 2 345 0.809 1.000 - - - - 437 342 - - - - +contig--2701305 + LSU_rRNA_bacteria LSU_rRNA_archaea 499 486 486 266.7 163.4 6.3e-78 7.4e-47 1 499 2 487 0.974 1.000 - - - - 516 510 - - - - +contig--2706433 + SSU_rRNA_bacteria SSU_rRNA_archaea 343 334 334 209.8 87.7 3.4e-60 1.8e-23 22 364 31 364 0.974 1.000 - - - - 342 322 - - - - +contig--2713352 - LSU_rRNA_bacteria LSU_rRNA_archaea 501 496 495 262.0 152.1 1.6e-76 1.8e-43 507 7 508 13 0.988 0.998 - - - - 493 499 - - - - +contig--2713352 - LSU_rRNA_bacteria LSU_rRNA_eukarya 501 489 489 262.0 53.4 1.6e-76 7.2e-14 507 7 507 19 0.976 1.000 - - - - 493 529 - - - - +contig--2715420 + LSU_rRNA_bacteria LSU_rRNA_archaea 422 412 412 392.8 211.8 5.6e-116 1.8e-61 2 423 11 422 0.976 1.000 - - - - 419 405 - - - - +contig--2715420 + LSU_rRNA_bacteria LSU_rRNA_eukarya 422 401 401 392.8 133.5 5.6e-116 5.1e-38 2 423 21 421 0.950 1.000 - - - - 419 394 - - - - +contig--2722470 + LSU_rRNA_eukarya LSU_rRNA_archaea 374 365 365 254.7 139.3 1.4e-74 1.3e-39 2 375 7 371 0.976 1.000 - - - - 371 363 - - - - +contig--2722470 + LSU_rRNA_eukarya LSU_rRNA_bacteria 374 370 370 254.7 124.1 1.4e-74 6.4e-35 2 375 3 372 0.989 1.000 - - - - 371 358 - - - - +contig--2726048 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 869 868 868 501.9 239.5 1.3e-148 4.2e-69 1 869 2 869 0.999 1.000 - - - - 902 544 - - - - +contig--2726048 + SSU_rRNA_eukarya SSU_rRNA_archaea 869 389 389 501.9 80.9 1.3e-148 2.1e-21 1 869 240 628 0.448 1.000 - - - - 902 378 - - - - +contig--2726048 + SSU_rRNA_eukarya SSU_rRNA_bacteria 869 418 418 501.9 54.9 1.3e-148 2.1e-13 1 869 235 652 0.481 1.000 - - - - 902 440 - - - - +contig--2741341 + LSU_rRNA_eukarya LSU_rRNA_archaea 432 418 418 275.9 85.0 5.8e-81 3.2e-23 1 432 1 418 0.968 1.000 - - - - 437 386 - - - - +contig--2741341 + LSU_rRNA_eukarya LSU_rRNA_bacteria 432 420 420 275.9 53.9 5.8e-81 9.2e-14 1 432 1 420 0.972 1.000 - - - - 437 378 - - - - +contig--2755789 + SSU_rRNA_bacteria SSU_rRNA_archaea 309 295 295 152.4 93.2 7.5e-43 3.9e-25 1 309 15 309 0.955 1.000 - - - - 307 283 - - - - +contig--2766474 - SSU_rRNA_bacteria SSU_rRNA_archaea 371 369 369 286.2 186.7 2.7e-83 2.3e-53 410 40 410 42 0.995 1.000 - - - - 369 358 - - - - +contig--2766474 - SSU_rRNA_bacteria SSU_rRNA_eukarya 371 359 359 286.2 117.4 2.7e-83 1.5e-32 410 40 408 50 0.968 1.000 - - - - 369 390 - - - - +contig--2766474 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 371 361 361 286.2 94.4 2.7e-83 3.1e-25 410 40 408 48 0.973 1.000 - - - - 369 315 - - - - +contig--2767514 - LSU_rRNA_bacteria LSU_rRNA_archaea 310 310 310 194.1 99.0 5e-56 2e-27 310 1 310 1 1.000 1.000 - - - - 310 300 - - - - +contig--2805328 + LSU_rRNA_bacteria LSU_rRNA_archaea 361 357 357 268.2 148.8 2.2e-78 1.7e-42 1 361 3 359 0.989 1.000 - - - - 359 349 - - - - +contig--2805328 + LSU_rRNA_bacteria LSU_rRNA_eukarya 361 246 246 268.2 74.3 2.2e-78 3.6e-20 1 361 4 249 0.681 1.000 - - - - 359 243 - - - - +contig--2835645 - LSU_rRNA_bacteria LSU_rRNA_archaea 304 297 297 242.7 136.2 1.1e-70 1.1e-38 306 3 306 10 0.977 1.000 - - - - 296 276 - - - - +contig--2835645 - LSU_rRNA_bacteria LSU_rRNA_eukarya 304 227 227 242.7 62.3 1.1e-70 1.5e-16 306 3 303 77 0.747 1.000 - - - - 296 225 - - - - +contig--2874819 - LSU_rRNA_bacteria LSU_rRNA_archaea 359 359 359 294.0 134.5 3.6e-86 3.6e-38 359 1 359 1 1.000 1.000 - - - - 359 349 - - - - +contig--2874819 - LSU_rRNA_bacteria LSU_rRNA_eukarya 359 357 357 294.0 65.1 3.6e-86 2.2e-17 359 1 359 3 0.994 1.000 - - - - 359 385 - - - - +contig--2889438 - SSU_rRNA_bacteria SSU_rRNA_archaea 334 331 331 278.6 195.6 5.4e-81 4.7e-56 334 1 334 4 0.991 1.000 - - - - 334 337 - - - - +contig--2889438 - SSU_rRNA_bacteria SSU_rRNA_eukarya 334 330 330 278.6 109.1 5.4e-81 4.8e-30 334 1 334 5 0.988 1.000 - - - - 334 379 - - - - +contig--2889438 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 334 331 331 278.6 73.0 5.4e-81 8.5e-19 334 1 334 4 0.991 1.000 - - - - 334 273 - - - - +contig--2893879 + LSU_rRNA_bacteria LSU_rRNA_archaea 370 362 362 160.6 61.9 6e-46 2.9e-16 1 370 2 363 0.978 1.000 - - - - 363 363 - - - - +contig--2906201 - LSU_rRNA_bacteria LSU_rRNA_archaea 304 303 303 201.2 112.9 3.4e-58 1.2e-31 304 1 304 2 0.997 1.000 - - - - 301 308 - - - - +contig--2914153 - SSU_rRNA_bacteria SSU_rRNA_archaea 799 798 798 551.2 314.2 2.4e-163 6.5e-92 799 1 799 2 0.999 1.000 - - - - 798 770 - - - - +contig--2914153 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 799 796 796 551.2 198.1 2.4e-163 1.3e-56 799 1 796 1 0.996 1.000 - - - - 798 692 - - - - +contig--2914153 - SSU_rRNA_bacteria SSU_rRNA_eukarya 799 288 288 551.2 115.5 2.4e-163 5.8e-32 799 1 288 1 0.360 1.000 - - - - 798 302 - - - - +contig--2914153 - SSU_rRNA_bacteria SSU_rRNA_eukarya 799 395 395 551.2 68.3 2.4e-163 1e-17 799 1 726 332 0.494 1.000 - - - - 798 379 - - - - +contig--2918607 - LSU_rRNA_bacteria LSU_rRNA_archaea 425 420 420 304.5 149.8 2.4e-89 9e-43 431 7 428 9 0.988 1.000 - - - - 437 517 - - - - +contig--2918607 - LSU_rRNA_bacteria LSU_rRNA_eukarya 425 133 133 304.5 63.3 2.4e-89 7.2e-17 431 7 415 283 0.313 1.000 - - - - 437 134 - - - - +contig--2918607 - LSU_rRNA_bacteria LSU_rRNA_eukarya 425 163 163 304.5 55.5 2.4e-89 1.7e-14 431 7 177 15 0.384 1.000 - - - - 437 164 - - - - +contig--2937145 + LSU_rRNA_eukarya LSU_rRNA_archaea 424 257 257 209.8 96.2 4.9e-61 1.4e-26 2 425 3 259 0.606 1.000 - - - - 445 256 - - - - +contig--2937145 + LSU_rRNA_eukarya LSU_rRNA_bacteria 424 269 269 209.8 70.7 4.9e-61 7.9e-19 2 425 15 283 0.634 1.000 - - - - 445 267 - - - - +contig--2940126 - LSU_rRNA_bacteria LSU_rRNA_archaea 401 393 393 320.5 155.9 3.6e-94 1.3e-44 402 2 402 10 0.980 1.000 - - - - 400 477 - - - - +contig--2945976 + LSU_rRNA_bacteria LSU_rRNA_archaea 336 329 328 129.3 58.0 1.7e-36 4.4e-15 2 337 1 329 0.976 0.997 - - - - 332 332 - - - - +contig--2969992 + SSU_rRNA_bacteria SSU_rRNA_archaea 485 477 477 406.9 250.8 9.2e-120 9.4e-73 4 488 12 488 0.984 1.000 - - - - 485 484 - - - - +contig--2969992 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 485 459 459 406.9 148.4 9.2e-120 1.5e-41 4 488 30 488 0.946 1.000 - - - - 485 452 - - - - +contig--2969992 + SSU_rRNA_bacteria SSU_rRNA_eukarya 485 305 305 406.9 118.2 9.2e-120 8.8e-33 4 488 184 488 0.629 1.000 - - - - 485 319 - - - - +contig--2972876 - SSU_rRNA_bacteria SSU_rRNA_archaea 614 607 607 481.4 247.8 2.9e-142 8e-72 614 1 614 8 0.989 1.000 - - - - 606 570 - - - - +contig--2972876 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 614 606 606 481.4 132.9 2.9e-142 6.7e-37 614 1 613 8 0.987 1.000 - - - - 606 539 - - - - +contig--2972876 - SSU_rRNA_bacteria SSU_rRNA_eukarya 614 272 272 481.4 108.6 2.9e-142 7e-30 614 1 280 9 0.443 1.000 - - - - 606 284 - - - - +contig--2983248 - LSU_rRNA_bacteria LSU_rRNA_archaea 316 315 315 161.3 104.8 3.7e-46 3.2e-29 316 1 316 2 0.997 1.000 - - - - 324 333 - - - - +contig--2983248 - LSU_rRNA_bacteria LSU_rRNA_eukarya 316 316 316 161.3 80.5 3.7e-46 4.7e-22 316 1 316 1 1.000 1.000 - - - - 324 333 - - - - +contig--298893 + SSU_rRNA_bacteria SSU_rRNA_archaea 580 571 571 412.7 170.7 1.6e-121 1.6e-48 27 606 36 606 0.984 1.000 - - - - 577 523 - - - - +contig--298893 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 580 570 570 412.7 84.4 1.6e-121 3.2e-22 27 606 35 604 0.983 1.000 - - - - 577 457 - - - - +contig--3013908 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 326 325 325 202.8 92.4 2.5e-58 1.2e-24 326 1 326 2 0.997 1.000 - - - - 359 251 - - - - +contig--3013908 - SSU_rRNA_eukarya SSU_rRNA_archaea 326 325 325 202.8 79.3 2.5e-58 6.5e-21 326 1 326 2 0.997 1.000 - - - - 359 315 - - - - +contig--3013908 - SSU_rRNA_eukarya SSU_rRNA_bacteria 326 325 325 202.8 63.4 2.5e-58 5.6e-16 326 1 326 2 0.997 1.000 - - - - 359 309 - - - - +contig--3019708 - LSU_rRNA_eukarya LSU_rRNA_archaea 609 605 605 348.9 106.0 5.6e-103 1.4e-29 609 1 608 4 0.993 1.000 - - - - 612 565 - - - - +contig--3019708 - LSU_rRNA_eukarya LSU_rRNA_bacteria 609 602 602 348.9 61.3 5.6e-103 5.5e-16 609 1 608 7 0.989 1.000 - - - - 612 551 - - - - +contig--3050118 + LSU_rRNA_eukarya LSU_rRNA_archaea 367 215 215 170.5 60.8 3.4e-49 6.5e-16 1 367 2 216 0.586 1.000 - - - - 404 217 - - - - +contig--3054101 + LSU_rRNA_eukarya LSU_rRNA_archaea 573 546 546 489.9 269.5 1.7e-145 7.3e-79 11 583 31 576 0.953 1.000 - - - - 574 549 - - - - +contig--3054101 + LSU_rRNA_eukarya LSU_rRNA_bacteria 573 560 560 489.9 211.4 1.7e-145 2.9e-61 11 583 17 576 0.977 1.000 - - - - 574 563 - - - - +contig--30742 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 392 392 392 233.1 115.7 1.8e-67 1.1e-31 2 393 2 393 1.000 1.000 - - - - 393 251 - - - - +contig--3076204 + SSU_rRNA_bacteria SSU_rRNA_archaea 589 585 585 427.5 220.2 5.7e-126 1.7e-63 13 601 14 598 0.993 1.000 - - - - 607 571 - - - - +contig--3076204 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 589 587 586 427.5 104.8 5.7e-126 2.1e-28 13 601 12 598 0.995 0.998 - - - - 607 507 - - - - +contig--3076204 + SSU_rRNA_bacteria SSU_rRNA_eukarya 589 435 435 427.5 60.9 5.7e-126 1.8e-15 13 601 59 493 0.739 1.000 - - - - 607 514 - - - - +contig--3093712 + SSU_rRNA_bacteria SSU_rRNA_archaea 209 208 208 151.1 123.3 1.8e-42 3.1e-34 2 210 3 210 0.995 1.000 - - - - 207 210 - - - - +contig--3093712 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 209 211 208 151.1 74.3 1.8e-42 3.7e-19 2 210 3 213 0.995 0.986 - - - - 207 202 - - - - +contig--3093712 + SSU_rRNA_bacteria SSU_rRNA_eukarya 209 210 208 151.1 71.4 1.8e-42 1.1e-18 2 210 3 212 0.995 0.990 - - - - 207 220 - - - - +contig--3093712 + SSU_rRNA_microsporidia SSU_rRNA_eukarya 138 148 138 61.0 58.0 3.6e-15 1.4e-14 218 355 214 361 1.000 0.932 - - - - 139 149 - - - - +contig--3096224 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 285 202 202 190.7 81.5 1.1e-54 2.4e-21 21 305 104 305 0.709 1.000 - - - - 286 203 - - - - +contig--3128112 - SSU_rRNA_bacteria SSU_rRNA_archaea 406 399 399 130.8 102.3 2.5e-36 6.9e-28 410 5 404 6 0.983 1.000 - - - - 405 404 - - - - +contig--3128112 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 406 307 307 130.8 61.2 2.5e-36 3.3e-15 410 5 312 6 0.756 1.000 - - - - 405 302 - - - - +contig--3128112 - SSU_rRNA_bacteria SSU_rRNA_eukarya 406 288 288 130.8 58.1 2.5e-36 1.2e-14 410 5 315 28 0.709 1.000 - - - - 405 310 - - - - +contig--314729 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 335 335 335 178.5 129.7 5.4e-51 6.2e-36 337 3 337 3 1.000 1.000 - - - - 361 276 - - - - +contig--314729 - SSU_rRNA_eukarya SSU_rRNA_archaea 335 334 333 178.5 120.0 5.4e-51 3.2e-33 337 3 335 2 0.994 0.997 - - - - 361 322 - - - - +contig--314729 - SSU_rRNA_eukarya SSU_rRNA_bacteria 335 323 322 178.5 83.1 5.4e-51 6.2e-22 337 3 324 2 0.961 0.997 - - - - 361 312 - - - - +contig--3153031 + SSU_rRNA_bacteria SSU_rRNA_archaea 341 333 333 244.4 110.7 1.2e-70 2.1e-30 44 384 51 383 0.977 1.000 - - - - 370 351 - - - - +contig--3153031 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 341 332 332 244.4 60.4 1.2e-70 5.7e-15 44 384 49 380 0.974 1.000 - - - - 370 302 - - - - +contig--3171405 + SSU_rRNA_bacteria SSU_rRNA_archaea 300 279 279 163.0 55.8 4.8e-46 8e-14 33 332 41 319 0.930 1.000 - - - - 315 283 - - - - +contig--3176110 + LSU_rRNA_eukarya LSU_rRNA_archaea 396 358 358 378.9 181.6 5e-112 2.4e-52 12 407 47 404 0.904 1.000 - - - - 397 365 - - - - +contig--3176110 + LSU_rRNA_eukarya LSU_rRNA_bacteria 396 362 362 378.9 133.1 5e-112 1.2e-37 12 407 39 400 0.914 1.000 - - - - 397 361 - - - - +contig--3276943 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 960 913 913 551.7 355.4 1.1e-163 3.9e-104 2407 1448 2360 1448 0.951 1.000 - - - - 1039 792 - - - - +contig--3276943 - SSU_rRNA_eukarya SSU_rRNA_archaea 960 906 906 551.7 250.1 1.1e-163 1.6e-72 2407 1448 2354 1449 0.944 1.000 - - - - 1039 883 - - - - +contig--3276943 - SSU_rRNA_eukarya SSU_rRNA_bacteria 960 905 905 551.7 211.9 1.1e-163 7.6e-61 2407 1448 2352 1448 0.943 1.000 - - - - 1039 883 - - - - +contig--3276943 - LSU_rRNA_eukarya LSU_rRNA_archaea 967 922 921 203.4 87.9 4.4e-59 4.1e-24 967 1 968 47 0.952 0.999 - - - - 1123 900 - - - - +contig--3286658 - SSU_rRNA_bacteria SSU_rRNA_archaea 581 572 572 391.7 186.0 3.8e-115 3.7e-53 583 3 575 4 0.985 1.000 - - - - 576 522 - - - - +contig--3286658 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 581 573 573 391.7 85.9 3.8e-115 1.1e-22 583 3 576 4 0.986 1.000 - - - - 576 458 - - - - +contig--3290892 + LSU_rRNA_eukarya LSU_rRNA_archaea 489 483 483 310.5 87.4 2.2e-91 5.9e-24 2 490 5 487 0.988 1.000 - - - - 482 438 - - - - +contig--3290892 + LSU_rRNA_eukarya LSU_rRNA_bacteria 489 458 458 310.5 53.5 2.2e-91 1.2e-13 2 490 29 486 0.937 1.000 - - - - 482 404 - - - - +contig--32925 + LSU_rRNA_bacteria LSU_rRNA_archaea 550 548 548 280.8 164.4 3.5e-82 3.6e-47 2 551 4 551 0.996 1.000 - - - - 524 512 - - - - +contig--3299936 + LSU_rRNA_bacteria LSU_rRNA_archaea 387 372 372 119.2 65.1 1.8e-33 3.1e-17 8 394 8 379 0.961 1.000 - - - - 365 357 - - - - +contig--3317407 + LSU_rRNA_bacteria LSU_rRNA_archaea 472 469 469 307.9 199.5 2.4e-90 9.3e-58 283 754 284 752 0.994 1.000 - - - - 528 516 - - - - +contig--3317407 + LSU_rRNA_bacteria LSU_rRNA_eukarya 472 317 317 307.9 95.0 2.4e-90 2.1e-26 283 754 435 751 0.672 1.000 - - - - 528 377 - - - - +contig--332136 - LSU_rRNA_bacteria LSU_rRNA_archaea 314 304 304 263.7 155.2 4.9e-77 2.1e-44 322 9 322 19 0.968 1.000 - - - - 312 300 - - - - +contig--332136 - LSU_rRNA_bacteria LSU_rRNA_archaea 157 157 157 159.7 97.4 1.1e-45 5.8e-27 487 331 487 331 1.000 1.000 - - - - 157 157 - - - - +contig--332136 - LSU_rRNA_bacteria LSU_rRNA_eukarya 314 297 297 263.7 82.8 4.9e-77 1e-22 322 9 317 21 0.946 1.000 - - - - 312 292 - - - - +contig--332136 - LSU_rRNA_bacteria LSU_rRNA_eukarya 157 157 157 159.7 66.0 1.1e-45 1.2e-17 487 331 487 331 1.000 1.000 - - - - 157 157 - - - - +contig--3348019 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 376 376 376 279.3 135.0 2e-81 1.6e-37 1 376 1 376 1.000 1.000 - - - - 377 300 - - - - +contig--3348019 + SSU_rRNA_eukarya SSU_rRNA_archaea 376 374 374 279.3 115.9 2e-81 5.4e-32 1 376 3 376 0.995 1.000 - - - - 377 333 - - - - +contig--3348019 + SSU_rRNA_eukarya SSU_rRNA_bacteria 376 376 374 279.3 91.6 2e-81 1.7e-24 1 376 3 378 0.995 0.995 - - - - 377 344 - - - - +contig--3354354 - LSU_rRNA_eukarya LSU_rRNA_archaea 620 513 513 427.9 147.8 8.7e-127 3.7e-42 620 1 514 2 0.827 1.000 - - - - 609 478 - - - - +contig--3354354 - LSU_rRNA_eukarya LSU_rRNA_bacteria 620 490 490 427.9 96.4 8.7e-127 1.4e-26 620 1 491 2 0.790 1.000 - - - - 609 440 - - - - +contig--3398090 + LSU_rRNA_bacteria LSU_rRNA_archaea 569 567 567 488.0 256.5 1.1e-144 6.1e-75 1 569 2 568 0.996 1.000 - - - - 580 569 - - - - +contig--3398090 + LSU_rRNA_bacteria LSU_rRNA_eukarya 569 568 568 488.0 152.7 1.1e-144 8.3e-44 1 569 1 568 0.998 1.000 - - - - 580 607 - - - - +contig--3414648 + LSU_rRNA_bacteria LSU_rRNA_archaea 259 260 259 145.4 84.8 2.3e-41 3.7e-23 165 423 164 423 1.000 0.996 - - - - 258 259 - - - - +contig--3420575 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 503 503 503 336.8 157.1 8.5e-99 3.2e-44 503 1 503 1 1.000 1.000 - - - - 522 347 - - - - +contig--3420575 - SSU_rRNA_eukarya SSU_rRNA_archaea 503 472 472 336.8 52.6 8.5e-99 7.2e-13 503 1 472 1 0.938 1.000 - - - - 522 388 - - - - +contig--3433834 + LSU_rRNA_bacteria LSU_rRNA_archaea 490 488 488 221.6 137.1 2.5e-64 6e-39 1 490 1 488 0.996 1.000 - - - - 470 475 - - - - +contig--3433834 + LSU_rRNA_bacteria LSU_rRNA_eukarya 490 413 413 221.6 53.1 2.5e-64 9e-14 1 490 2 414 0.843 1.000 - - - - 470 455 - - - - +contig--3461222 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 504 503 503 157.3 115.3 1.3e-44 1.4e-31 19 522 20 522 0.998 1.000 - - - - 545 369 - - - - +contig--3474644 + SSU_rRNA_bacteria SSU_rRNA_archaea 782 774 774 526.5 267.5 6.8e-156 8.7e-78 51 832 59 832 0.990 1.000 - - - - 756 704 - - - - +contig--3474644 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 782 776 776 526.5 140.3 6.8e-156 3.9e-39 51 832 57 832 0.992 1.000 - - - - 756 638 - - - - +contig--3474644 + SSU_rRNA_bacteria SSU_rRNA_eukarya 782 606 606 526.5 76.6 6.8e-156 3.1e-20 51 832 60 665 0.775 1.000 - - - - 756 646 - - - - +contig--3492742 - SSU_rRNA_bacteria SSU_rRNA_archaea 299 291 291 197.8 94.3 1.5e-56 1.8e-25 300 2 293 3 0.973 1.000 - - - - 328 309 - - - - +contig--3494982 + LSU_rRNA_bacteria LSU_rRNA_archaea 369 351 351 149.3 75.9 1.6e-42 1.8e-20 9 377 27 377 0.951 1.000 - - - - 367 354 - - - - +contig--3503719 - SSU_rRNA_bacteria SSU_rRNA_archaea 348 346 346 226.7 154.8 2.6e-65 9.7e-44 350 3 350 5 0.994 1.000 - - - - 347 351 - - - - +contig--3503719 - SSU_rRNA_bacteria SSU_rRNA_eukarya 348 339 339 226.7 95.6 2.6e-65 5.9e-26 350 3 349 11 0.974 1.000 - - - - 347 387 - - - - +contig--3503719 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 348 294 294 226.7 69.6 2.6e-65 9.2e-18 350 3 308 15 0.845 1.000 - - - - 347 237 - - - - +contig--35359 + LSU_rRNA_bacteria LSU_rRNA_archaea 492 484 484 355.4 232.7 1.1e-104 8.8e-68 53 544 60 543 0.984 1.000 - - - - 510 486 - - - - +contig--35359 + LSU_rRNA_bacteria LSU_rRNA_eukarya 492 317 317 355.4 113.5 1.1e-104 5.4e-32 53 544 225 541 0.644 1.000 - - - - 510 311 - - - - +contig--3568828 - SSU_rRNA_bacteria SSU_rRNA_archaea 666 651 651 575.6 338.4 1e-170 3.2e-99 670 5 666 16 0.977 1.000 - - - - 681 638 - - - - +contig--3568828 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 666 652 652 575.6 206.7 1e-170 3.4e-59 670 5 664 13 0.979 1.000 - - - - 681 609 - - - - +contig--3568828 - SSU_rRNA_bacteria SSU_rRNA_eukarya 666 342 342 575.6 160.4 1e-170 1.6e-45 670 5 350 9 0.514 1.000 - - - - 681 355 - - - - +contig--3575278 + SSU_rRNA_bacteria SSU_rRNA_archaea 189 186 186 132.9 88.8 5.6e-37 8.6e-24 3 191 4 189 0.984 1.000 - - - - 199 187 - - - - +contig--3575278 + SSU_rRNA_bacteria SSU_rRNA_eukarya 189 182 182 132.9 64.4 5.6e-37 1.5e-16 3 191 3 184 0.963 1.000 - - - - 199 216 - - - - +contig--3575278 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 189 183 182 132.9 62.1 5.6e-37 1.7e-15 3 191 2 184 0.963 0.995 - - - - 199 174 - - - - +contig--362412 - LSU_rRNA_bacteria LSU_rRNA_archaea 443 416 416 246.6 174.0 7.2e-72 4.5e-50 444 2 419 4 0.939 1.000 - - - - 403 386 - - - - +contig--362412 - LSU_rRNA_bacteria LSU_rRNA_eukarya 443 419 418 246.6 148.2 7.2e-72 1.9e-42 444 2 419 1 0.944 0.998 - - - - 403 389 - - - - +contig--362436 - SSU_rRNA_bacteria SSU_rRNA_archaea 310 287 287 185.7 90.5 6.6e-53 2.6e-24 311 2 290 4 0.926 1.000 - - - - 316 281 - - - - +contig--362625 + LSU_rRNA_eukarya LSU_rRNA_archaea 505 320 320 286.0 116.2 5.4e-84 1.2e-32 1 505 2 321 0.634 1.000 - - - - 548 321 - - - - +contig--362625 + LSU_rRNA_eukarya LSU_rRNA_bacteria 505 316 316 286.0 101.4 5.4e-84 4.3e-28 1 505 6 321 0.626 1.000 - - - - 548 318 - - - - +contig--362779 - LSU_rRNA_eukarya LSU_rRNA_archaea 370 328 328 147.0 54.7 4.2e-42 4.3e-14 372 3 372 45 0.886 1.000 - - - - 423 252 - - - - +contig--362861 + LSU_rRNA_bacteria LSU_rRNA_archaea 1095 1092 1092 610.5 350.3 1.3e-181 3.1e-103 3 1097 6 1097 0.997 1.000 - - - - 1035 1111 - - - - +contig--362861 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1095 448 448 610.5 100.7 1.3e-181 3.8e-28 3 1097 179 626 0.409 1.000 - - - - 1035 419 - - - - +contig--362861 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1095 272 272 610.5 89.0 1.3e-181 1.4e-24 3 1097 741 1012 0.248 1.000 - - - - 1035 276 - - - - +contig--363016 - SSU_rRNA_bacteria SSU_rRNA_archaea 401 399 399 314.7 204.6 6.6e-92 8.6e-59 1141 741 1141 743 0.995 1.000 - - - - 401 390 - - - - +contig--363016 - LSU_rRNA_bacteria LSU_rRNA_archaea 478 461 461 313.8 198.0 3.8e-92 2.6e-57 480 3 463 3 0.964 1.000 - - - - 528 502 - - - - +contig--363016 - SSU_rRNA_bacteria SSU_rRNA_eukarya 401 385 385 314.7 132.2 6.6e-92 5.3e-37 1141 741 1132 748 0.960 1.000 - - - - 401 418 - - - - +contig--363016 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 401 382 382 314.7 109.4 6.6e-92 8.9e-30 1141 741 1129 748 0.953 1.000 - - - - 401 337 - - - - +contig--363016 - LSU_rRNA_bacteria LSU_rRNA_eukarya 478 311 310 313.8 102.1 3.8e-92 1.5e-28 480 3 312 2 0.649 0.997 - - - - 528 369 - - - - +contig--363170 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 866 843 843 517.9 257.6 1.8e-153 1.3e-74 866 1 844 2 0.973 1.000 - - - - 916 552 - - - - +contig--363170 - SSU_rRNA_eukarya SSU_rRNA_archaea 866 329 329 517.9 87.9 1.8e-153 1.6e-23 866 1 683 355 0.380 1.000 - - - - 916 316 - - - - +contig--363170 - SSU_rRNA_eukarya SSU_rRNA_bacteria 866 334 334 517.9 58.4 1.8e-153 1.9e-14 866 1 687 354 0.386 1.000 - - - - 916 355 - - - - +contig--363722 - SSU_rRNA_bacteria SSU_rRNA_archaea 579 578 578 462.7 245.2 1.4e-136 4.7e-71 579 1 578 1 0.998 1.000 - - - - 572 542 - - - - +contig--363722 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 579 486 486 462.7 129.9 1.4e-136 5.7e-36 579 1 487 2 0.839 1.000 - - - - 572 472 - - - - +contig--363722 - SSU_rRNA_bacteria SSU_rRNA_eukarya 579 278 278 462.7 97.0 1.4e-136 2.1e-26 579 1 280 3 0.480 1.000 - - - - 572 292 - - - - +contig--3638238 - LSU_rRNA_bacteria LSU_rRNA_archaea 718 715 715 366.6 221.6 4.6e-108 2e-64 719 2 719 5 0.996 1.000 - - - - 698 705 - - - - +contig--3638238 - LSU_rRNA_bacteria LSU_rRNA_eukarya 718 641 641 366.6 79.0 4.6e-108 1.4e-21 719 2 718 78 0.893 1.000 - - - - 698 690 - - - - +contig--363861 - LSU_rRNA_eukarya LSU_rRNA_archaea 664 650 650 503.9 170.7 1.1e-149 4.4e-49 665 2 651 2 0.979 1.000 - - - - 660 586 - - - - +contig--363861 - LSU_rRNA_eukarya LSU_rRNA_bacteria 664 486 486 503.9 103.2 1.1e-149 1.3e-28 665 2 488 3 0.732 1.000 - - - - 660 443 - - - - +contig--364074 - LSU_rRNA_bacteria LSU_rRNA_archaea 580 578 578 371.4 234.9 1.7e-109 1.9e-68 583 4 581 4 0.997 1.000 - - - - 591 600 - - - - +contig--364074 - LSU_rRNA_bacteria LSU_rRNA_eukarya 580 538 538 371.4 83.2 1.7e-109 7.3e-23 583 4 578 41 0.928 1.000 - - - - 591 602 - - - - +contig--364116 + LSU_rRNA_bacteria LSU_rRNA_archaea 439 425 425 319.5 164.8 7.3e-94 2.8e-47 1 439 2 426 0.968 1.000 - - - - 447 426 - - - - +contig--364116 + LSU_rRNA_bacteria LSU_rRNA_eukarya 439 418 418 319.5 86.6 7.3e-94 6.8e-24 1 439 2 419 0.952 1.000 - - - - 447 455 - - - - +contig--364277 - LSU_rRNA_bacteria LSU_rRNA_archaea 586 582 582 334.2 247.1 2.7e-98 4e-72 587 2 583 2 0.993 1.000 - - - - 548 533 - - - - +contig--364277 - LSU_rRNA_bacteria LSU_rRNA_eukarya 586 425 425 334.2 156.6 2.7e-98 5.3e-45 587 2 426 2 0.725 1.000 - - - - 548 395 - - - - +contig--364298 + LSU_rRNA_bacteria LSU_rRNA_archaea 615 505 505 154.7 61.6 3.7e-44 3.5e-16 1 615 1 505 0.821 1.000 - - - - 586 497 - - - - +contig--364625 - SSU_rRNA_bacteria SSU_rRNA_archaea 953 929 929 654.3 347.9 1.7e-194 4.4e-102 954 2 931 3 0.975 1.000 - - - - 940 878 - - - - +contig--364625 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 953 936 936 654.3 215.3 1.7e-194 8.5e-62 954 2 939 4 0.982 1.000 - - - - 940 807 - - - - +contig--364625 - SSU_rRNA_bacteria SSU_rRNA_eukarya 953 311 311 654.3 125.2 1.7e-194 6.5e-35 954 2 314 4 0.326 1.000 - - - - 940 324 - - - - +contig--364625 - SSU_rRNA_bacteria SSU_rRNA_eukarya 953 568 568 654.3 57.6 1.7e-194 1.7e-14 954 2 928 361 0.596 1.000 - - - - 940 622 - - - - +contig--364755 + SSU_rRNA_eukarya SSU_rRNA_microsporidia 396 394 394 178.0 58.7 7.6e-51 1.8e-14 1 396 2 395 0.995 1.000 - - - - 410 226 - - - - +contig--365125 - LSU_rRNA_eukarya LSU_rRNA_archaea 565 509 509 510.5 229.7 1.1e-151 7.2e-67 623 59 622 114 0.901 1.000 - - - - 566 511 - - - - +contig--365125 - LSU_rRNA_eukarya LSU_rRNA_bacteria 565 507 507 510.5 180.6 1.1e-151 5.6e-52 623 59 622 116 0.897 1.000 - - - - 566 510 - - - - +contig--365127 - SSU_rRNA_bacteria SSU_rRNA_archaea 567 561 561 478.1 260.0 3e-141 1.6e-75 567 1 566 6 0.989 1.000 - - - - 583 548 - - - - +contig--365127 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 567 560 560 478.1 139.6 3e-141 6.6e-39 567 1 566 7 0.988 1.000 - - - - 583 517 - - - - +contig--365127 - SSU_rRNA_bacteria SSU_rRNA_eukarya 567 270 270 478.1 105.6 3e-141 5.6e-29 567 1 277 8 0.476 1.000 - - - - 583 283 - - - - +contig--3652175 - LSU_rRNA_bacteria LSU_rRNA_archaea 301 279 279 206.5 102.0 8.9e-60 2.4e-28 302 2 286 8 0.927 1.000 - - - - 300 311 - - - - +contig--3652175 - LSU_rRNA_bacteria LSU_rRNA_eukarya 301 175 175 206.5 50.8 8.9e-60 4.5e-13 302 2 185 11 0.581 1.000 - - - - 300 176 - - - - +contig--3652281 - LSU_rRNA_bacteria LSU_rRNA_archaea 310 306 306 217.0 117.9 5.9e-63 3.7e-33 311 2 309 4 0.987 1.000 - - - - 321 307 - - - - +contig--365284 - LSU_rRNA_eukarya LSU_rRNA_archaea 412 366 365 215.9 145.2 7.2e-63 2.2e-41 546 135 547 182 0.886 0.997 - - - - 414 368 - - - - +contig--365284 - LSU_rRNA_eukarya LSU_rRNA_bacteria 412 394 393 215.9 111.0 7.2e-63 5.6e-31 546 135 547 154 0.954 0.997 - - - - 414 387 - - - - +contig--365471 + LSU_rRNA_bacteria LSU_rRNA_archaea 349 347 347 214.1 123.5 4.5e-62 7.7e-35 1 349 2 348 0.994 1.000 - - - - 347 334 - - - - +contig--365471 + LSU_rRNA_bacteria LSU_rRNA_eukarya 349 279 279 214.1 66.6 4.5e-62 7.5e-18 1 349 1 279 0.799 1.000 - - - - 347 252 - - - - +contig--3655473 - LSU_rRNA_eukarya LSU_rRNA_archaea 508 508 508 395.7 132.6 4.4e-117 1.3e-37 509 2 509 2 1.000 1.000 - - - - 508 466 - - - - +contig--3655473 - LSU_rRNA_eukarya LSU_rRNA_bacteria 508 505 505 395.7 78.4 4.4e-117 3.7e-21 509 2 509 5 0.994 1.000 - - - - 508 453 - - - - +contig--3659280 + LSU_rRNA_bacteria LSU_rRNA_archaea 425 413 413 326.2 132.9 6.9e-96 1.2e-37 1 425 2 414 0.972 1.000 - - - - 425 406 - - - - +contig--3659280 + LSU_rRNA_bacteria LSU_rRNA_eukarya 425 365 365 326.2 81.7 6.9e-96 2.1e-22 1 425 31 395 0.859 1.000 - - - - 425 395 - - - - +contig--36603 + LSU_rRNA_bacteria LSU_rRNA_archaea 410 410 410 238.2 174.1 2.3e-69 4.3e-50 2 411 2 411 1.000 1.000 - - - - 365 375 - - - - +contig--36603 + LSU_rRNA_bacteria LSU_rRNA_eukarya 410 406 406 238.2 113.7 2.3e-69 4.7e-32 2 411 6 411 0.990 1.000 - - - - 365 370 - - - - +contig--3694746 - LSU_rRNA_bacteria LSU_rRNA_archaea 382 375 375 293.6 149.2 4.9e-86 1.3e-42 382 1 382 8 0.982 1.000 - - - - 387 465 - - - - +contig--3694746 - LSU_rRNA_bacteria LSU_rRNA_eukarya 382 175 175 293.6 51.0 4.9e-86 3.9e-13 382 1 184 10 0.458 1.000 - - - - 387 176 - - - - +contig--371157 + LSU_rRNA_archaea LSU_rRNA_bacteria 1984 1977 1977 1265.3 802.2 0 1.9e-239 3350 5333 3355 5331 0.996 1.000 - - - - 2077 1991 - - - - +contig--371157 + LSU_rRNA_archaea LSU_rRNA_eukarya 1984 1152 1152 1265.3 287.6 0 1.8e-84 3350 5333 3943 5094 0.581 1.000 - - - - 2077 1304 - - - - +contig--371157 + LSU_rRNA_archaea LSU_rRNA_eukarya 1984 414 414 1265.3 161.7 0 1.7e-46 3350 5333 3497 3910 0.209 1.000 - - - - 2077 418 - - - - +contig--371157 + LSU_rRNA_archaea LSU_rRNA_eukarya 1984 217 216 1265.3 113.0 0 7.6e-32 3350 5333 5118 5334 0.109 0.995 - - - - 2077 217 - - - - +contig--3715154 - LSU_rRNA_bacteria LSU_rRNA_archaea 538 534 534 470.4 251.0 2.3e-139 2.7e-73 539 2 539 6 0.993 1.000 - - - - 537 524 - - - - +contig--3715154 - LSU_rRNA_bacteria LSU_rRNA_eukarya 538 530 530 470.4 148.3 2.3e-139 1.8e-42 539 2 539 10 0.985 1.000 - - - - 537 557 - - - - +contig--3743149 - LSU_rRNA_bacteria LSU_rRNA_archaea 796 783 783 592.4 341.1 3.5e-176 1.8e-100 797 2 784 2 0.984 1.000 - - - - 781 740 - - - - +contig--3743149 - LSU_rRNA_bacteria LSU_rRNA_eukarya 796 572 572 592.4 158.0 3.5e-176 2.1e-45 797 2 573 2 0.719 1.000 - - - - 781 582 - - - - +contig--3748912 - LSU_rRNA_bacteria LSU_rRNA_archaea 372 365 365 250.2 118.0 5.8e-73 3.5e-33 376 5 374 10 0.981 1.000 - - - - 369 399 - - - - +contig--3748912 - LSU_rRNA_bacteria LSU_rRNA_eukarya 372 266 266 250.2 65.8 5.8e-73 1.3e-17 376 5 275 10 0.715 1.000 - - - - 369 274 - - - - +contig--3756271 + LSU_rRNA_eukarya LSU_rRNA_archaea 380 361 361 179.7 56.3 5.9e-52 1.4e-14 1 380 5 365 0.950 1.000 - - - - 382 332 - - - - +contig--3784467 - LSU_rRNA_bacteria LSU_rRNA_archaea 409 402 402 365.8 233.6 7.7e-108 4.8e-68 417 9 417 16 0.983 1.000 - - - - 422 410 - - - - +contig--3784467 - LSU_rRNA_bacteria LSU_rRNA_eukarya 409 324 324 365.8 116.5 7.7e-108 6.9e-33 417 9 416 93 0.792 1.000 - - - - 422 321 - - - - +contig--3787593 + SSU_rRNA_bacteria SSU_rRNA_archaea 583 581 581 420.1 239.0 9.5e-124 3.5e-69 2 584 3 583 0.997 1.000 - - - - 576 546 - - - - +contig--3787593 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 583 460 460 420.1 137.7 9.5e-124 2.4e-38 2 584 125 584 0.789 1.000 - - - - 576 447 - - - - +contig--3787593 + SSU_rRNA_bacteria SSU_rRNA_eukarya 583 285 285 420.1 111.0 9.5e-124 1.3e-30 2 584 300 584 0.489 1.000 - - - - 576 298 - - - - +contig--3837490 - SSU_rRNA_bacteria SSU_rRNA_archaea 389 356 356 249.1 124.5 4.4e-72 1.4e-34 392 4 389 34 0.915 1.000 - - - - 395 350 - - - - +contig--3837490 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 389 379 379 249.1 66.8 4.4e-72 6.6e-17 392 4 388 10 0.974 1.000 - - - - 395 320 - - - - +contig--3860305 + LSU_rRNA_bacteria LSU_rRNA_archaea 633 615 615 433.3 232.5 3.5e-128 1e-67 2 634 7 621 0.972 1.000 - - - - 684 709 - - - - +contig--3860305 + LSU_rRNA_bacteria LSU_rRNA_eukarya 633 398 398 433.3 131.0 3.5e-128 2.8e-37 2 634 153 550 0.629 1.000 - - - - 684 455 - - - - +contig--3875044 + LSU_rRNA_eukarya LSU_rRNA_archaea 222 227 221 105.9 67.7 1.1e-29 5e-18 134 355 128 354 0.995 0.974 - - - - 223 233 - - - - +contig--3875044 + LSU_rRNA_eukarya LSU_rRNA_bacteria 222 296 221 105.9 56.2 1.1e-29 1.8e-14 134 355 59 354 0.995 0.747 - - - - 223 300 - - - - +contig--3889059 + SSU_rRNA_bacteria SSU_rRNA_archaea 413 320 320 302.1 155.3 4.3e-88 7.1e-44 1 413 91 410 0.775 1.000 - - - - 407 322 - - - - +contig--3889059 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 413 320 320 302.1 88.3 4.3e-88 2.1e-23 1 413 92 411 0.775 1.000 - - - - 407 310 - - - - +contig--3889622 + LSU_rRNA_bacteria LSU_rRNA_archaea 329 317 317 171.2 87.0 4e-49 7.6e-24 1 329 13 329 0.964 1.000 - - - - 323 319 - - - - +contig--3890060 - LSU_rRNA_bacteria LSU_rRNA_archaea 364 360 360 208.6 133.8 2.1e-60 6.1e-38 364 1 360 1 0.989 1.000 - - - - 435 424 - - - - +contig--3897242 + LSU_rRNA_eukarya LSU_rRNA_archaea 335 272 272 159.7 68.4 6.5e-46 3.2e-18 13 347 18 289 0.812 1.000 - - - - 338 265 - - - - +contig--3925448 + LSU_rRNA_bacteria LSU_rRNA_archaea 341 342 336 176.2 94.4 1.2e-50 4.5e-26 27 367 21 362 0.985 0.982 - - - - 358 409 - - - - +contig--3925448 + LSU_rRNA_bacteria LSU_rRNA_eukarya 341 272 268 176.2 56.8 1.2e-50 6.8e-15 27 367 23 294 0.786 0.985 - - - - 358 286 - - - - +contig--395713 + LSU_rRNA_bacteria LSU_rRNA_archaea 2146 1238 1238 1672.9 517.0 0 1.6e-153 2 2147 5 1242 0.577 1.000 - - - - 2308 1396 - - - - +contig--395713 + LSU_rRNA_bacteria LSU_rRNA_archaea 2146 843 843 1672.9 387.8 0 1.5e-114 2 2147 1302 2144 0.393 1.000 - - - - 2308 827 - - - - +contig--395713 + LSU_rRNA_bacteria LSU_rRNA_eukarya 2146 707 707 1672.9 205.0 0 1.5e-59 2 2147 1438 2144 0.329 1.000 - - - - 2308 728 - - - - +contig--395713 + LSU_rRNA_bacteria LSU_rRNA_eukarya 2146 767 767 1672.9 134.5 0 2.6e-38 2 2147 463 1229 0.357 1.000 - - - - 2308 842 - - - - +contig--395713 + LSU_rRNA_bacteria LSU_rRNA_eukarya 2146 358 358 1672.9 125.7 0 1.1e-35 2 2147 4 361 0.167 1.000 - - - - 2308 417 - - - - +contig--397992 + LSU_rRNA_bacteria LSU_rRNA_archaea 2919 2909 2909 2226.7 1332.6 0 0 59 2977 61 2969 0.997 1.000 - - - - 2914 2969 - - - - +contig--397992 + LSU_rRNA_bacteria LSU_rRNA_eukarya 2919 2112 2112 2226.7 520.8 0 8.5e-155 59 2977 754 2865 0.724 1.000 - - - - 2914 2352 - - - - +contig--397992 + LSU_rRNA_bacteria LSU_rRNA_eukarya 2919 395 395 2226.7 155.4 0 1.2e-44 59 2977 229 623 0.135 1.000 - - - - 2914 403 - - - - +contig--401056 + LSU_rRNA_bacteria LSU_rRNA_archaea 1449 1436 1436 974.7 576.4 1.9e-291 2e-171 882 2330 891 2326 0.991 1.000 - - - - 1406 1479 - - - - +contig--401056 + SSU_rRNA_bacteria SSU_rRNA_archaea 509 517 507 435.4 289.2 2.3e-128 2.3e-84 17 525 7 523 0.996 0.981 - - - - 509 511 - - - - +contig--401056 + SSU_rRNA_bacteria SSU_rRNA_eukarya 509 496 496 435.4 174.0 2.3e-128 1.3e-49 17 525 23 518 0.974 1.000 - - - - 509 569 - - - - +contig--401056 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1449 454 454 974.7 138.6 1.9e-291 1.4e-39 882 2330 1058 1511 0.313 1.000 - - - - 1406 420 - - - - +contig--401056 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1449 693 693 974.7 131.6 1.9e-291 1.9e-37 882 2330 1632 2324 0.478 1.000 - - - - 1406 749 - - - - +contig--401056 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 509 503 502 435.4 133.0 2.3e-128 6.5e-37 17 525 16 518 0.986 0.998 - - - - 509 426 - - - - +contig--4068604 + LSU_rRNA_archaea LSU_rRNA_bacteria 561 557 557 300.4 188.7 3.5e-88 2.1e-54 2 562 6 562 0.993 1.000 - - - - 610 595 - - - - +contig--4068604 + LSU_rRNA_archaea LSU_rRNA_eukarya 561 556 556 300.4 113.2 3.5e-88 6.6e-32 2 562 7 562 0.991 1.000 - - - - 610 648 - - - - +contig--423976 + LSU_rRNA_bacteria LSU_rRNA_archaea 1603 1585 1585 884.8 511.2 2.3e-264 9.2e-152 400 2002 412 1996 0.989 1.000 - - - - 1613 1691 - - - - +contig--423976 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1603 408 408 884.8 134.9 2.3e-264 1.9e-38 400 2002 476 883 0.255 1.000 - - - - 1613 425 - - - - +contig--423976 + LSU_rRNA_bacteria LSU_rRNA_eukarya 1603 983 983 884.8 133.0 2.3e-264 7.1e-38 400 2002 1006 1988 0.613 1.000 - - - - 1613 1074 - - - - +contig--473422 - LSU_rRNA_bacteria LSU_rRNA_archaea 326 316 316 173.0 137.2 1.1e-49 5.8e-39 326 1 316 1 0.969 1.000 - - - - 347 331 - - - - +contig--473422 - LSU_rRNA_bacteria LSU_rRNA_eukarya 326 197 197 173.0 52.0 1.1e-49 1.9e-13 326 1 198 2 0.604 1.000 - - - - 347 207 - - - - +contig--496748 + LSU_rRNA_eukarya LSU_rRNA_archaea 303 294 294 162.3 76.8 1e-46 9.1e-21 1 303 1 294 0.970 1.000 - - - - 297 290 - - - - +contig--496748 + LSU_rRNA_eukarya LSU_rRNA_bacteria 303 295 295 162.3 51.7 1e-46 4.3e-13 1 303 2 296 0.974 1.000 - - - - 297 279 - - - - +contig--498568 - SSU_rRNA_bacteria SSU_rRNA_archaea 515 514 514 453.1 278.9 1e-133 3.2e-81 516 2 515 2 0.998 1.000 - - - - 516 515 - - - - +contig--498568 - SSU_rRNA_bacteria SSU_rRNA_eukarya 515 507 507 453.1 201.4 1e-133 6.5e-58 516 2 514 8 0.984 1.000 - - - - 516 553 - - - - +contig--498568 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 515 504 504 453.1 153.4 1e-133 4.2e-43 516 2 515 12 0.979 1.000 - - - - 516 431 - - - - +contig--515926 - LSU_rRNA_eukarya LSU_rRNA_archaea 492 446 446 277.9 72.2 1.5e-81 2.3e-19 494 3 494 49 0.907 1.000 - - - - 484 405 - - - - +contig--518767 + LSU_rRNA_eukarya LSU_rRNA_archaea 297 213 213 153.5 72.7 4.9e-44 1.6e-19 24 320 31 243 0.717 1.000 - - - - 307 224 - - - - +contig--518767 + LSU_rRNA_eukarya LSU_rRNA_bacteria 297 156 156 153.5 72.9 4.9e-44 1.8e-19 24 320 55 210 0.525 1.000 - - - - 307 157 - - - - +contig--540576 - SSU_rRNA_bacteria SSU_rRNA_archaea 340 336 336 179.2 102.7 6.1e-51 5.4e-28 341 2 339 4 0.988 1.000 - - - - 336 320 - - - - +contig--547077 - LSU_rRNA_bacteria LSU_rRNA_archaea 307 306 306 218.3 112.6 2.4e-63 1.4e-31 307 1 306 1 0.997 1.000 - - - - 307 314 - - - - +contig--594041 + SSU_rRNA_archaea SSU_rRNA_bacteria 319 312 312 209.1 103.0 3.9e-60 6e-28 2 320 7 318 0.978 1.000 - - - - 325 330 - - - - +contig--594041 + SSU_rRNA_archaea SSU_rRNA_microsporidia 319 306 306 209.1 83.8 3.9e-60 4.7e-22 2 320 10 315 0.959 1.000 - - - - 325 265 - - - - +contig--64232 + LSU_rRNA_eukarya LSU_rRNA_archaea 398 216 216 172.8 52.6 7e-50 1.9e-13 1 398 6 221 0.543 1.000 - - - - 439 217 - - - - +contig--664472 + SSU_rRNA_bacteria SSU_rRNA_archaea 330 318 318 213.3 104.6 2.9e-61 1.4e-28 2 331 14 331 0.964 1.000 - - - - 359 335 - - - - +contig--669436 - LSU_rRNA_bacteria LSU_rRNA_archaea 367 367 366 158.7 89.4 2.3e-45 1.5e-24 368 2 367 1 0.997 0.997 - - - - 362 373 - - - - +contig--68307 + LSU_rRNA_eukarya LSU_rRNA_archaea 309 306 306 138.5 75.3 1.6e-39 2.7e-20 2 310 2 307 0.990 1.000 - - - - 309 307 - - - - +contig--68307 + LSU_rRNA_eukarya LSU_rRNA_bacteria 309 307 307 138.5 58.6 1.6e-39 3.6e-15 2 310 2 308 0.994 1.000 - - - - 309 297 - - - - +contig--696001 + SSU_rRNA_bacteria SSU_rRNA_archaea 557 521 521 384.7 153.8 5e-113 1.9e-43 69 625 105 625 0.935 1.000 - - - - 567 485 - - - - +contig--696001 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 557 553 552 384.7 74.4 5e-113 3.2e-19 69 625 74 626 0.991 0.998 - - - - 567 453 - - - - +contig--724357 + LSU_rRNA_bacteria LSU_rRNA_archaea 346 334 334 236.5 134.4 8e-69 3.9e-38 3 348 14 347 0.965 1.000 - - - - 351 346 - - - - +contig--747483 - LSU_rRNA_bacteria LSU_rRNA_archaea 331 305 305 258.7 144.6 1.6e-75 3.3e-41 332 2 332 28 0.921 1.000 - - - - 341 303 - - - - +contig--747483 - LSU_rRNA_bacteria LSU_rRNA_eukarya 331 254 254 258.7 58.6 1.6e-75 2e-15 332 2 332 79 0.767 1.000 - - - - 341 250 - - - - +contig--759897 + LSU_rRNA_bacteria LSU_rRNA_archaea 318 317 317 263.6 150.8 5.3e-77 4.6e-43 1 318 1 317 0.997 1.000 - - - - 330 324 - - - - +contig--759897 + LSU_rRNA_bacteria LSU_rRNA_eukarya 318 229 229 263.6 70.5 5.3e-77 4.9e-19 1 318 2 230 0.720 1.000 - - - - 330 226 - - - - +contig--813107 + SSU_rRNA_archaea SSU_rRNA_bacteria 487 474 474 375.6 249.9 1.9e-110 2.6e-72 1 487 13 486 0.973 1.000 - - - - 488 469 - - - - +contig--813107 + SSU_rRNA_archaea SSU_rRNA_microsporidia 487 480 480 375.6 198.7 1.9e-110 8.9e-57 1 487 8 487 0.986 1.000 - - - - 488 468 - - - - +contig--813107 + SSU_rRNA_archaea SSU_rRNA_eukarya 487 330 329 375.6 142.6 1.9e-110 3.8e-40 1 487 159 488 0.676 0.997 - - - - 488 339 - - - - +contig--828224 + SSU_rRNA_bacteria SSU_rRNA_archaea 513 513 512 405.3 197.8 3e-119 9.8e-57 7 519 6 518 0.998 0.998 - - - - 534 499 - - - - +contig--828224 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 513 500 500 405.3 101.9 3e-119 1.6e-27 7 519 20 519 0.975 1.000 - - - - 534 466 - - - - +contig--828224 + SSU_rRNA_bacteria SSU_rRNA_eukarya 513 339 339 405.3 53.7 3e-119 2.6e-13 7 519 27 365 0.661 1.000 - - - - 534 342 - - - - +contig--862423 + SSU_rRNA_bacteria SSU_rRNA_archaea 423 420 420 341.6 203.9 4.9e-100 1.4e-58 1 423 3 422 0.993 1.000 - - - - 424 420 - - - - +contig--862423 + SSU_rRNA_bacteria SSU_rRNA_eukarya 423 420 420 341.6 131.4 4.9e-100 9.1e-37 1 423 3 422 0.993 1.000 - - - - 424 465 - - - - +contig--862423 + SSU_rRNA_bacteria SSU_rRNA_microsporidia 423 420 420 341.6 91.9 4.9e-100 1.7e-24 1 423 3 422 0.993 1.000 - - - - 424 346 - - - - +contig--866163 - SSU_rRNA_bacteria SSU_rRNA_archaea 310 295 295 170.6 79.1 2.4e-48 7.5e-21 310 1 295 1 0.952 1.000 - - - - 304 279 - - - - +contig--912998 + SSU_rRNA_archaea SSU_rRNA_bacteria 666 664 664 526.9 377.0 3.5e-156 1e-110 1 666 3 666 0.997 1.000 - - - - 666 660 - - - - +contig--912998 + SSU_rRNA_archaea SSU_rRNA_eukarya 666 656 656 526.9 288.0 3.5e-156 4.6e-84 1 666 2 657 0.985 1.000 - - - - 666 710 - - - - +contig--912998 + SSU_rRNA_archaea SSU_rRNA_microsporidia 666 663 663 526.9 240.1 3.5e-156 2.7e-69 1 666 2 664 0.995 1.000 - - - - 666 577 - - - - +contig--924893 - LSU_rRNA_eukarya LSU_rRNA_archaea 303 287 287 197.5 83.8 2.6e-57 7.5e-23 303 1 296 10 0.947 1.000 - - - - 309 271 - - - - +contig--942031 - LSU_rRNA_bacteria LSU_rRNA_archaea 305 300 300 240.5 160.7 4.8e-70 4.7e-46 307 3 307 8 0.984 1.000 - - - - 316 298 - - - - +contig--942031 - LSU_rRNA_bacteria LSU_rRNA_eukarya 305 238 238 240.5 62.6 4.8e-70 1.2e-16 307 3 306 69 0.780 1.000 - - - - 316 233 - - - - +contig--95399 + LSU_rRNA_bacteria LSU_rRNA_archaea 336 328 328 253.9 141.3 4.4e-74 3.3e-40 1 336 2 329 0.976 1.000 - - - - 333 320 - - - - +contig--95399 + LSU_rRNA_bacteria LSU_rRNA_eukarya 336 255 255 253.9 64.1 4.4e-74 4.3e-17 1 336 5 259 0.759 1.000 - - - - 333 252 - - - - +contig--97491 + LSU_rRNA_eukarya LSU_rRNA_archaea 423 418 418 317.7 126.2 1.5e-93 1.1e-35 2 424 5 422 0.988 1.000 - - - - 430 387 - - - - +contig--97491 + LSU_rRNA_eukarya LSU_rRNA_bacteria 423 417 417 317.7 92.2 1.5e-93 2.6e-25 2 424 7 423 0.986 1.000 - - - - 430 395 - - - - +contig--978828 - SSU_rRNA_eukarya SSU_rRNA_microsporidia 340 340 340 301.7 157.5 3.4e-88 2.5e-44 341 2 341 2 1.000 1.000 - - - - 371 286 - - - - +contig--978828 - SSU_rRNA_eukarya SSU_rRNA_archaea 340 340 340 301.7 128.7 3.4e-88 7.6e-36 341 2 341 2 1.000 1.000 - - - - 371 333 - - - - +contig--978828 - SSU_rRNA_eukarya SSU_rRNA_bacteria 340 340 340 301.7 96.6 3.4e-88 5.4e-26 341 2 341 2 1.000 1.000 - - - - 371 333 - - - - +contig--984009 - SSU_rRNA_bacteria SSU_rRNA_archaea 284 275 275 152.1 97.6 9.3e-43 1.9e-26 284 1 275 1 0.968 1.000 - - - - 283 263 - - - - +contig--984009 - SSU_rRNA_bacteria SSU_rRNA_microsporidia 284 276 276 152.1 53.2 9.3e-43 8.5e-13 284 1 277 2 0.972 1.000 - - - - 283 215 - - - -