# HG changeset patch # User artbio # Date 1504972659 14400 # Node ID a7fd042087644b4678acc2f824d94671980e7d4e # Parent 20d28cfdeefed0b8ff87d4880f431cafc5c77576 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/small_rna_signatures commit 24d44a9b7ec9db4dce3d839b597eea2b1be34adb diff -r 20d28cfdeefe -r a7fd04208764 overlapping_reads.py --- a/overlapping_reads.py Fri Sep 08 04:44:22 2017 -0400 +++ b/overlapping_reads.py Sat Sep 09 11:57:39 2017 -0400 @@ -32,12 +32,20 @@ class Map: - def __init__(self, bam_file): + def __init__(self, bam_file, output, minquery=23, maxquery=29, + mintarget=23, maxtarget=29, overlap=10): self.bam_object = pysam.AlignmentFile(bam_file, 'rb') + self.output = output + self.query_range = range(minquery, maxquery + 1) + self.target_range = range(mintarget, maxtarget + 1) + self.overlap = overlap self.chromosomes = dict(zip(self.bam_object.references, self.bam_object.lengths)) - self.all_query_positions = self.query_positions(self.bam_object) + self.alignement_dic = self.index_alignments(self.bam_object) + self.all_query_positions = self.query_positions(self.bam_object, + overlap=self.overlap) self.readdic = self.make_readdic(self.bam_object) + self.pairing() def make_readdic(self, bam_object): readdic = defaultdict(int) @@ -45,90 +53,67 @@ readdic[read.query_sequence] += 1 return readdic - def query_positions(self, bam_object): - all_query_positions = defaultdict(list) + def index_alignments(self, bam_object): + ''' + dic[(chrom, pos, polarity)]: [readseq1, readseq2, ...] + the list value is further converted in set + ''' + dic = defaultdict(list) for chrom in self.chromosomes: for read in bam_object.fetch(chrom): - if not read.is_reverse: - all_query_positions[chrom].append( - read.reference_start) + if read.is_reverse: + coord = read.reference_end-1 + pol = 'R' else: - all_query_positions[chrom].append( - read.reference_end) + coord = read.reference_start + pol = 'F' + dic[(chrom, coord, pol)].append(read.query_sequence) + for key in dic: + dic[key] = set(dic[key]) + return dic + + def query_positions(self, bam_object, overlap): + all_query_positions = defaultdict(list) + for genomicKey in self.alignement_dic.keys(): + chrom, coord, pol = genomicKey + if pol == 'F' and len(self.alignement_dic[(chrom, + coord+overlap-1, + 'R')]) > 0: + all_query_positions[chrom].append(coord) + for chrom in all_query_positions: all_query_positions[chrom] = sorted( list(set(all_query_positions[chrom]))) return all_query_positions - def direct_pairing(self, minquery, maxquery, mintarget, maxtarget, - file, overlap=10): - F = open(file, 'w') - query_range = range(minquery, maxquery + 1) - target_range = range(mintarget, maxtarget + 1) + def pairing(self): + F = open(self.output, 'w') + query_range = self.query_range + target_range = self.target_range + overlap = self.overlap stringresult = [] + header_template = '>%s|coord=%s|strand %s|size=%s|nreads=%s\n%s\n' for chrom in sorted(self.chromosomes): - for pos in (self.all_query_positions[chrom]): - iterreads_1 = self.bam_object.fetch(chrom, - start=pos, end=pos+overlap-1) - iterreads_2 = self.bam_object.fetch(chrom, - start=pos, end=pos+overlap-1) - iterreads_3 = self.bam_object.fetch(chrom, - start=pos, end=pos+overlap-1) - iterreads_4 = self.bam_object.fetch(chrom, - start=pos, end=pos+overlap-1) - # 1 - for queryread in iterreads_1: - if queryread.reference_start == pos and \ - queryread.query_alignment_length in query_range \ - and not queryread.is_reverse: - for targetread in iterreads_2: - if (targetread. - get_reference_positions()[-1] - == queryread.get_reference_positions( - )[overlap-1] and - targetread.query_alignment_length in - target_range and targetread.is_reverse): - targetreadseq = self.revcomp( - targetread.query_sequence) - stringresult.append( - '>%s|%s|%s|%s|n=%s\n%s\n' % - (chrom, queryread.reference_start+1, - 'F', queryread.query_alignment_length, - self.readdic[queryread.query_sequence], - queryread.query_sequence)) - stringresult.append( - '>%s|%s|%s|%s|n=%s\n%s\n' % - (chrom, targetread.reference_start+1, - 'R', targetread.query_alignment_length, - self.readdic[targetread.query_sequence], - targetreadseq)) - # 2 - for queryread in iterreads_3: - if queryread.reference_end-1 == pos+overlap-1 and \ - queryread.query_alignment_length in query_range \ - and queryread.is_reverse: - for targetread in iterreads_4: - if (targetread. - reference_start - == pos and targetread.query_alignment_length - in target_range and not - targetread.is_reverse): - queryreadseq = self.revcomp( - queryread.query_sequence) - targetreadseq = targetread.query_sequence - stringresult.append( - '>%s|%s|%s|%s|n=%s\n%s\n' % - (chrom, queryread.reference_start+1, 'R', - queryread.query_alignment_length, - self.readdic[queryread.query_sequence], - queryreadseq)) - stringresult.append( - '>%s|%s|%s|%s|n=%s\n%s\n' % - (chrom, targetread.reference_start+1, - 'F', targetread.query_alignment_length, - self.readdic[targetread.query_sequence], - targetreadseq)) - stringresult = sorted(set(stringresult), - key=lambda x: stringresult.index(x)) + for pos in self.all_query_positions[chrom]: + stringbuffer = [] + uppers = self.alignement_dic[chrom, pos, 'F'] + lowers = self.alignement_dic[chrom, pos+overlap-1, 'R'] + if uppers and lowers: + for upread in uppers: + for downread in lowers: + if (len(upread) in query_range and len(downread) in + target_range) or (len(upread) in target_range + and len(downread) in + query_range): + stringbuffer.append( + header_template % + (chrom, pos+1, '+', len(upread), + self.readdic[upread], upread)) + stringbuffer.append( + header_template % + (chrom, pos+overlap-len(downread)+1, '-', + len(downread), self.readdic[downread], + self.revcomp(downread))) + stringresult.extend(sorted(set(stringbuffer))) F.write(''.join(stringresult)) def revcomp(self, sequence): @@ -137,13 +122,7 @@ return "".join([antidict[i] for i in revseq]) -def main(input, minquery, maxquery, mintarget, maxtarget, output, overlap=10): - mapobj = Map(input) - mapobj.direct_pairing(minquery, maxquery, mintarget, maxtarget, - output, overlap) - - if __name__ == "__main__": args = Parser() - main(args.input, args.minquery, args.maxquery, args.mintarget, - args.maxtarget, args.output, args.overlap) + mapobj = Map(args.input, args.output, args.minquery, args.maxquery, + args.mintarget, args.maxtarget, args.overlap) diff -r 20d28cfdeefe -r a7fd04208764 overlapping_reads.xml --- a/overlapping_reads.xml Fri Sep 08 04:44:22 2017 -0400 +++ b/overlapping_reads.xml Sat Sep 09 11:57:39 2017 -0400 @@ -1,4 +1,4 @@ - + pysam @@ -47,6 +47,24 @@ + + + + + + + + + + + + + + + + + + @@ -70,10 +88,12 @@ overlap. Searching query reads of 20-22 nt that overlap by 10 nt with target -reads of 23-29 nt is different from searching query reads of 23-29 nt that overlap by 10 nt -with target reads of 20-22 nt. i.e, searching for siRNAs that pair with piRNAs is distinct -from searching for siRNAs that pairs with piRNAs, although of course the number of possibly -formed piRNA/siRNA pairs is the same as the number of possibly formed siRNA/piRNA pairs. +reads of 23-29 nt is equivalent to searching query reads of 23-29 nt that overlap by 10 nt +with target reads of 20-22 nt. i.e, searching for siRNAs that pair with piRNAs is equivalent +to searching for siRNAs that pairs with piRNAs. In contrast, searching query reads of 20-22 nt +that overlap by 10 nt with target reads of 23-29 nt is different from searching query reads of +23-29 nt that overlap by 10 nt with target reads of 23-29 nt, since the number of "heterotypic" +pairs of reads is likely to be different from the number of "homotypic" pairs of reads. *Overlap* The number of nucleotides by which the pairs of sequences will overlap @@ -84,17 +104,18 @@ a fasta file of pairable reads such as : ->FBgn0000004_17.6|5855|F|23|n=1 +>FBgn0000004_17.6|coord=5839|strand -|size=26|nreads=1 + +TTTTCGTCAATTGTGCCAAATAGGTA + +>FBgn0000004_17.6|coord=5855|strand +|size=23|nreads=1 TTGACGAAAATGATCGAGTGGAT ->FBgn0000004_17.6|5839|R|26|n=1 - -TTTTCGTCAATTGTGCCAAATAGGTA where FBgn0000004_17.6 stands for the chromosome, 5839 stands for the 1-based read position, -R stand for reverse strand (F forward strand), 26 stands for the size of the sequence and -n=1 stands for the number of reads of the sequence in the dataset. +'strand -' stands for lower strand of chromosome, 26 stands for the size of the sequence and +nreads=1 stands for the number of reads of the sequence in the dataset. the second sequence in this example corresponds to 1 read that overlap by 10 nt with 1 read of the first sequence. diff -r 20d28cfdeefe -r a7fd04208764 test-data/paired.fa --- a/test-data/paired.fa Fri Sep 08 04:44:22 2017 -0400 +++ b/test-data/paired.fa Sat Sep 09 11:57:39 2017 -0400 @@ -1,668 +1,668 @@ ->FBgn0000004_17.6|5855|F|23|n=1 -TTGACGAAAATGATCGAGTGGAT ->FBgn0000004_17.6|5839|R|26|n=1 +>FBgn0000004_17.6|coord=5839|strand -|size=26|nreads=1 TTTTCGTCAATTGTGCCAAATAGGTA ->FBgn0000006_412|759|F|24|n=3 -TTTGGTCGAAAGCTCTAAAGCTAC ->FBgn0000006_412|742|R|27|n=1 +>FBgn0000004_17.6|coord=5855|strand +|size=23|nreads=1 +TTGACGAAAATGATCGAGTGGAT +>FBgn0000006_412|coord=742|strand -|size=27|nreads=1 TTCGACCAAACCGGTGGCGTTTGCTGA ->FBgn0000006_412|744|R|25|n=2 +>FBgn0000006_412|coord=744|strand -|size=25|nreads=2 TTCGACCAAACCGGTGGCGTTTGCT ->FBgn0000006_412|745|R|24|n=2 +>FBgn0000006_412|coord=745|strand -|size=24|nreads=2 TTCGACCAAACCGGTGGCGTTTGC ->FBgn0000006_412|759|F|25|n=1 +>FBgn0000006_412|coord=759|strand +|size=24|nreads=3 +TTTGGTCGAAAGCTCTAAAGCTAC +>FBgn0000006_412|coord=759|strand +|size=25|nreads=1 TTTGGTCGAAAGCTCTAAAGCTACA ->FBgn0000006_412|759|F|27|n=3 +>FBgn0000006_412|coord=759|strand +|size=27|nreads=3 TTTGGTCGAAAGCTCTAAAGCTACATG ->FBgn0000006_412|760|F|26|n=6 -TTGGTCGAAAGCTCTAAAGCTACATG ->FBgn0000006_412|744|R|26|n=2 +>FBgn0000006_412|coord=744|strand -|size=26|nreads=2 TTTCGACCAAACCGGTGGCGTTTGCT ->FBgn0000006_412|745|R|25|n=1 +>FBgn0000006_412|coord=745|strand -|size=25|nreads=1 TTTCGACCAAACCGGTGGCGTTTGC ->FBgn0000007_1731|4555|F|24|n=1 +>FBgn0000006_412|coord=760|strand +|size=26|nreads=6 +TTGGTCGAAAGCTCTAAAGCTACATG +>FBgn0000007_1731|coord=4539|strand -|size=26|nreads=1 +TTGAGAGCAAAGGCCGAATGAGTAAA +>FBgn0000007_1731|coord=4555|strand +|size=24|nreads=1 TTGCTCTCAATGCGCTGAGTTTGG ->FBgn0000007_1731|4539|R|26|n=1 -TTGAGAGCAAAGGCCGAATGAGTAAA ->FBgn0000155_roo|2176|F|24|n=1 -TTTTGACCAAGCGGTATGAGAATA ->FBgn0000155_roo|2159|R|27|n=1 +>FBgn0000155_roo|coord=2159|strand -|size=27|nreads=1 TTGGTCAAAAACTCCCAAGTGGCTTCA ->FBgn0000155_roo|2161|R|25|n=1 +>FBgn0000155_roo|coord=2161|strand -|size=25|nreads=1 TTGGTCAAAAACTCCCAAGTGGCTT ->FBgn0000155_roo|2692|F|24|n=1 -TTGGTAAAAAATGTATAAGTGAGC ->FBgn0000155_roo|2675|R|27|n=1 +>FBgn0000155_roo|coord=2176|strand +|size=24|nreads=1 +TTTTGACCAAGCGGTATGAGAATA +>FBgn0000155_roo|coord=2675|strand -|size=27|nreads=1 TTTTTACCAAACGGATGCCTCAGACAT ->FBgn0000155_roo|2676|R|26|n=5 +>FBgn0000155_roo|coord=2676|strand -|size=26|nreads=5 TTTTTACCAAACGGATGCCTCAGACA ->FBgn0000155_roo|2677|R|25|n=14 +>FBgn0000155_roo|coord=2677|strand -|size=25|nreads=14 TTTTTACCAAACGGATGCCTCAGAC ->FBgn0000155_roo|2678|R|24|n=14 +>FBgn0000155_roo|coord=2678|strand -|size=24|nreads=14 TTTTTACCAAACGGATGCCTCAGA ->FBgn0000155_roo|2679|R|23|n=2 +>FBgn0000155_roo|coord=2679|strand -|size=23|nreads=2 TTTTTACCAAACGGATGCCTCAG ->FBgn0000155_roo|2692|F|27|n=1 +>FBgn0000155_roo|coord=2692|strand +|size=24|nreads=1 +TTGGTAAAAAATGTATAAGTGAGC +>FBgn0000155_roo|coord=2692|strand +|size=27|nreads=1 TTGGTAAAAAATGTATAAGTGAGCAGC ->FBgn0000155_roo|3149|F|26|n=1 -TTTTAATAAACCGGGTCGCATTGATT ->FBgn0000155_roo|3132|R|27|n=1 +>FBgn0000155_roo|coord=3132|strand -|size=27|nreads=1 TTTATTAAAATCGGGGTCGGCTAATTT ->FBgn0000155_roo|3241|F|24|n=1 -TTGGGCAAAAAACTGATTTCGGGT ->FBgn0000155_roo|3225|R|26|n=1 +>FBgn0000155_roo|coord=3149|strand +|size=26|nreads=1 +TTTTAATAAACCGGGTCGCATTGATT +>FBgn0000155_roo|coord=3225|strand -|size=26|nreads=1 TTTTGCCCAAGGAGACCGTCTATTTT ->FBgn0000155_roo|3226|R|25|n=1 +>FBgn0000155_roo|coord=3226|strand -|size=25|nreads=1 TTTTGCCCAAGGAGACCGTCTATTT ->FBgn0000155_roo|3227|R|24|n=2 +>FBgn0000155_roo|coord=3227|strand -|size=24|nreads=2 TTTTGCCCAAGGAGACCGTCTATT ->FBgn0000155_roo|3228|R|23|n=1 +>FBgn0000155_roo|coord=3228|strand -|size=23|nreads=1 TTTTGCCCAAGGAGACCGTCTAT ->FBgn0000155_roo|3241|F|27|n=1 +>FBgn0000155_roo|coord=3241|strand +|size=24|nreads=1 +TTGGGCAAAAAACTGATTTCGGGT +>FBgn0000155_roo|coord=3241|strand +|size=27|nreads=1 TTGGGCAAAAAACTGATTTCGGGTGGA ->FBgn0000155_roo|3241|F|28|n=1 +>FBgn0000155_roo|coord=3241|strand +|size=28|nreads=1 TTGGGCAAAAAACTGATTTCGGGTGGAT ->FBgn0000155_roo|8655|F|25|n=1 -TTTGGCAGAATGTTCACACATGAAA ->FBgn0000155_roo|8639|R|26|n=1 +>FBgn0000155_roo|coord=8639|strand -|size=26|nreads=1 TTCTGCCAAAGGGCCAGCAAAGCTGA ->FBgn0000155_roo|8639|R|26|n=1 +>FBgn0000155_roo|coord=8639|strand -|size=26|nreads=1 TTCTGCCAAAGTGCCAGCAAAGCTGA ->FBgn0000349_copia|670|F|25|n=1 -TTCTTGAGAATTTGGACGCCGTTTA ->FBgn0000349_copia|653|R|27|n=1 +>FBgn0000155_roo|coord=8655|strand +|size=25|nreads=1 +TTTGGCAGAATGTTCACACATGAAA +>FBgn0000349_copia|coord=653|strand -|size=27|nreads=1 TTCTCAAGAATCTGACGCGCCGTAATG ->FBgn0000349_copia|657|R|23|n=1 +>FBgn0000349_copia|coord=657|strand -|size=23|nreads=1 TTCTCAAGAATCTGACGCGCCGT ->FBgn0000349_copia|4628|F|24|n=1 +>FBgn0000349_copia|coord=670|strand +|size=25|nreads=1 +TTCTTGAGAATTTGGACGCCGTTTA +>FBgn0000349_copia|coord=4614|strand -|size=24|nreads=1 +TTGCAGCAAACCCAATTTGTCTCG +>FBgn0000349_copia|coord=4628|strand +|size=24|nreads=1 TTTGCTGCAAGACGACCAATCGAA ->FBgn0000349_copia|4614|R|24|n=1 -TTGCAGCAAACCCAATTTGTCTCG ->FBgn0000349_copia|4628|F|28|n=1 +>FBgn0000349_copia|coord=4628|strand +|size=28|nreads=1 TTTGCTGCAAGACGACCAATCGAATGCT ->FBgn0000481_Doc|1830|F|25|n=1 -TTCATGCAAAATACTTTGCAAGAGC ->FBgn0000481_Doc|1812|R|28|n=1 +>FBgn0000481_Doc|coord=1812|strand -|size=28|nreads=1 TTTGCATGAACGTCATGAAGTCTTTCAT ->FBgn0000481_Doc|1815|R|25|n=1 +>FBgn0000481_Doc|coord=1815|strand -|size=25|nreads=1 TTTGCATGAACGTCATAAAGTCTTT ->FBgn0000481_Doc|1815|R|25|n=1 +>FBgn0000481_Doc|coord=1815|strand -|size=25|nreads=1 TTTGCATGAACGTCATGAAGTCTTT ->FBgn0000481_Doc|1816|R|24|n=1 +>FBgn0000481_Doc|coord=1816|strand -|size=24|nreads=1 TTTGCATGAAGGTCATGAAGTCTT ->FBgn0000481_Doc|1830|F|26|n=1 +>FBgn0000481_Doc|coord=1830|strand +|size=25|nreads=1 +TTCATGCAAAATACTTTGCAAGAGC +>FBgn0000481_Doc|coord=1830|strand +|size=26|nreads=1 TTCATGCAAAATACTTTGCAAGAGCT ->FBgn0000481_Doc|3548|F|27|n=1 -TTTAGAGAAAAACATGGAACCATCGAA ->FBgn0000481_Doc|3531|R|27|n=1 +>FBgn0000481_Doc|coord=3531|strand -|size=27|nreads=1 TTTCTCTAAAGCCAAATTGATGTGTTG ->FBgn0000481_Doc|3532|R|26|n=1 +>FBgn0000481_Doc|coord=3532|strand -|size=26|nreads=1 TTTCTCTAAAGCCAAATTGATGTGTT ->FBgn0000481_Doc|3533|R|25|n=7 +>FBgn0000481_Doc|coord=3533|strand -|size=25|nreads=7 TTTCTCTAAAGCCAAATTGATGTGT ->FBgn0000481_Doc|3534|R|24|n=1 +>FBgn0000481_Doc|coord=3534|strand -|size=24|nreads=1 TTTCTCTAAAGCCAAATTGATGTG ->FBgn0000481_Doc|3535|R|23|n=2 +>FBgn0000481_Doc|coord=3535|strand -|size=23|nreads=2 TTTCTCTAAAGCCAAATTGATGT ->FBgn0000652_F-element|1564|F|23|n=2 -TTTTCTCGAAAGCAGCAAGTTTC ->FBgn0000652_F-element|1546|R|28|n=1 +>FBgn0000481_Doc|coord=3548|strand +|size=27|nreads=1 +TTTAGAGAAAAACATGGAACCATCGAA +>FBgn0000652_F-element|coord=1546|strand -|size=28|nreads=1 TTCGAGAAAATTACTTCAGGATTTGTCT ->FBgn0000652_F-element|1546|R|28|n=1 +>FBgn0000652_F-element|coord=1546|strand -|size=28|nreads=1 TTCGGGAAAATTACTTCAGGATTTGTCT ->FBgn0000652_F-element|1547|R|27|n=74 -TTCGAGAAAATTACTTCAGGATTTGTC ->FBgn0000652_F-element|1547|R|27|n=1 +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=1 TTCGGGAAAATTACTTCAGGATTTGTC ->FBgn0000652_F-element|1547|R|27|n=1 +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=1 TTTGAGAAAATTACTTCAGGATTTGTC ->FBgn0000652_F-element|1548|R|26|n=3 +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=74 +TTCGAGAAAATTACTTCAGGATTTGTC +>FBgn0000652_F-element|coord=1548|strand -|size=26|nreads=3 TTCGAGAAAATTACTTCAGGATTTGT ->FBgn0000652_F-element|1549|R|25|n=22 -TTCGAGAAAATTACTTCAGGATTTG ->FBgn0000652_F-element|1549|R|25|n=1 +>FBgn0000652_F-element|coord=1549|strand -|size=25|nreads=1 TTCGGGAAAATTACTTCAGGATTTG ->FBgn0000652_F-element|1550|R|24|n=2 +>FBgn0000652_F-element|coord=1549|strand -|size=25|nreads=22 +TTCGAGAAAATTACTTCAGGATTTG +>FBgn0000652_F-element|coord=1550|strand -|size=24|nreads=2 TTCGAGAAAATTACTTCAGGATTT ->FBgn0000652_F-element|1551|R|23|n=7 +>FBgn0000652_F-element|coord=1551|strand -|size=23|nreads=7 TTCGAGAAAATTACTTCAGGATT ->FBgn0000652_F-element|1564|F|24|n=2 +>FBgn0000652_F-element|coord=1564|strand +|size=23|nreads=2 +TTTTCTCGAAAGCAGCAAGTTTC +>FBgn0000652_F-element|coord=1564|strand +|size=23|nreads=2 +TTTTCTCGAAAGCAGCTAGTTTC +>FBgn0000652_F-element|coord=1564|strand +|size=24|nreads=2 TTTTCTCGAAAGCAGCAAGTTTCG ->FBgn0000652_F-element|1564|F|23|n=2 -TTTTCTCGAAAGCAGCTAGTTTC ->FBgn0000652_F-element|1564|F|24|n=5 +>FBgn0000652_F-element|coord=1564|strand +|size=24|nreads=5 TTTTCTCGAAAGCAGCTAGTTTCG ->FBgn0000652_F-element|1564|F|25|n=1 +>FBgn0000652_F-element|coord=1564|strand +|size=25|nreads=1 TTTTCTCGAAAGCAGCTAGTTTCGC ->FBgn0000652_F-element|3524|F|23|n=1 -TTTCGCGAAAGCCACGGAACCAT ->FBgn0000652_F-element|3507|R|27|n=1 +>FBgn0000652_F-element|coord=3507|strand -|size=27|nreads=1 TTTCGCGAAATCCAAATTGGTGGGCTG ->FBgn0000652_F-element|3509|R|25|n=6 +>FBgn0000652_F-element|coord=3509|strand -|size=25|nreads=6 TTTCGCGAAATCCAAATTGGTGGGC ->FBgn0000652_F-element|3510|R|24|n=1 +>FBgn0000652_F-element|coord=3510|strand -|size=24|nreads=1 TTTCGCGAAATCCAAATTGGTGGG ->FBgn0000652_F-element|3524|F|27|n=1 -TTTCGCGAAAGCCACGGAACCATTGAA ->FBgn0000652_F-element|3524|F|24|n=1 +>FBgn0000652_F-element|coord=3524|strand +|size=23|nreads=1 +TTTCGCGAAAGCCACGGAACCAT +>FBgn0000652_F-element|coord=3524|strand +|size=24|nreads=1 TTTCGCGAAAGCCATGGAACCATT ->FBgn0000652_F-element|3524|F|26|n=1 +>FBgn0000652_F-element|coord=3524|strand +|size=26|nreads=1 TTTCGCGAAAGCCATGGAACCATTGA ->FBgn0002697_mdg1|4313|F|25|n=1 -TTCCAAAGAATGATGACCCTTGCAT ->FBgn0002697_mdg1|4296|R|27|n=1 +>FBgn0000652_F-element|coord=3524|strand +|size=27|nreads=1 +TTTCGCGAAAGCCACGGAACCATTGAA +>FBgn0002697_mdg1|coord=4296|strand -|size=27|nreads=1 TTCTTTGGAAAGAATTTGGGGCTATTT ->FBgn0002697_mdg1|4297|R|26|n=2 +>FBgn0002697_mdg1|coord=4297|strand -|size=26|nreads=2 TTCTTTGGAAAGAATTTGGGGCTATT ->FBgn0002697_mdg1|4298|R|25|n=3 +>FBgn0002697_mdg1|coord=4298|strand -|size=25|nreads=3 TTCTTTGGAAAGAATTTGGGGCTAT ->FBgn0002697_mdg1|4299|R|24|n=1 +>FBgn0002697_mdg1|coord=4299|strand -|size=24|nreads=1 TTCTTTGGAAAGAATTTGGGGCTA ->FBgn0002697_mdg1|4686|F|24|n=1 -TTTGTAAAAAGAATGTTCCATTTG ->FBgn0002697_mdg1|4670|R|26|n=2 +>FBgn0002697_mdg1|coord=4313|strand +|size=25|nreads=1 +TTCCAAAGAATGATGACCCTTGCAT +>FBgn0002697_mdg1|coord=4670|strand -|size=26|nreads=2 TTTTTACAAAGCCTCGTTAAGTGGCG ->FBgn0002697_mdg1|4671|R|25|n=4 +>FBgn0002697_mdg1|coord=4671|strand -|size=25|nreads=4 TTTTTACAAAGCCTCGTTAAGTGGC ->FBgn0002697_mdg1|4672|R|24|n=3 +>FBgn0002697_mdg1|coord=4672|strand -|size=24|nreads=3 TTTTTACAAAGCCTCGTTAAGTGG ->FBgn0002697_mdg1|4673|R|23|n=1 +>FBgn0002697_mdg1|coord=4673|strand -|size=23|nreads=1 TTTTTACAAAGCCTCGTTAAATG ->FBgn0002697_mdg1|4673|R|23|n=6 +>FBgn0002697_mdg1|coord=4673|strand -|size=23|nreads=6 TTTTTACAAAGCCTCGTTAAGTG ->FBgn0003122_pogo|1320|F|25|n=1 -TTGTGGTAAATCTACTGTGGAATTT ->FBgn0003122_pogo|1305|R|25|n=1 +>FBgn0002697_mdg1|coord=4686|strand +|size=24|nreads=1 +TTTGTAAAAAGAATGTTCCATTTG +>FBgn0003122_pogo|coord=1305|strand -|size=25|nreads=1 TTTACCACAATTAACAGCAATGAGC ->FBgn0003122_pogo|1819|F|26|n=3 -TTCTATGGAAGACAAGCTGTTTAATT ->FBgn0003122_pogo|1804|R|25|n=1 +>FBgn0003122_pogo|coord=1320|strand +|size=25|nreads=1 +TTGTGGTAAATCTACTGTGGAATTT +>FBgn0003122_pogo|coord=1804|strand -|size=25|nreads=1 TTCCATAGAATTCAAGTTTTGCAAA ->FBgn0003122_pogo|1806|R|23|n=1 +>FBgn0003122_pogo|coord=1806|strand -|size=23|nreads=1 TTCCATAGAATTCAAGTTTTGCA ->FBgn0003490_springer|1390|F|24|n=1 -TTGTGGGGAAACATTGGATGCCGT ->FBgn0003490_springer|1376|R|24|n=1 +>FBgn0003122_pogo|coord=1819|strand +|size=26|nreads=3 +TTCTATGGAAGACAAGCTGTTTAATT +>FBgn0003490_springer|coord=1376|strand -|size=24|nreads=1 TTCCCCACAAGGGACCAGTCCGGT ->FBgn0003490_springer|4208|F|26|n=1 -TTGTTGAAGAGCAAGAACCGGAGTCG ->FBgn0003490_springer|4195|R|23|n=1 +>FBgn0003490_springer|coord=1390|strand +|size=24|nreads=1 +TTGTGGGGAAACATTGGATGCCGT +>FBgn0003490_springer|coord=4195|strand -|size=23|nreads=1 TTTTCAACAACGTTGAGTTGTTG ->FBgn0003490_springer|5284|F|24|n=6 -TTGACAAGAAAACGAGAGAACGCT ->FBgn0003490_springer|5267|R|27|n=7 +>FBgn0003490_springer|coord=4208|strand +|size=26|nreads=1 +TTGTTGAAGAGCAAGAACCGGAGTCG +>FBgn0003490_springer|coord=5267|strand -|size=27|nreads=7 TTCTTGTCAAAATCTGGGCGTTTTTGA ->FBgn0003490_springer|5269|R|25|n=1 +>FBgn0003490_springer|coord=5269|strand -|size=25|nreads=1 TTCTTGTCAAAATCTGGGCGTTTTT ->FBgn0003490_springer|5271|R|23|n=2 +>FBgn0003490_springer|coord=5271|strand -|size=23|nreads=2 TTCTTGTCAAAATCTGGGCGTTT ->FBgn0003490_springer|5284|F|26|n=1 +>FBgn0003490_springer|coord=5284|strand +|size=24|nreads=6 +TTGACAAGAAAACGAGAGAACGCT +>FBgn0003490_springer|coord=5284|strand +|size=26|nreads=1 TTGACAAGAAAACGAGAGAACGCTTC ->FBgn0003490_springer|6929|F|23|n=2 +>FBgn0003490_springer|coord=6910|strand -|size=29|nreads=2 +TTTGCTCCAAGTTCTTTTCACTTAAACGG +>FBgn0003490_springer|coord=6929|strand +|size=23|nreads=2 TTGGAGCAAATCAGGAACTTCGA ->FBgn0003490_springer|6910|R|29|n=2 -TTTGCTCCAAGTTCTTTTCACTTAAACGG ->FBgn0003908_R1A1-element|4690|F|23|n=8 -TTGGCGAAAACTGGATCTTCGAG ->FBgn0003908_R1A1-element|4671|R|29|n=1 +>FBgn0003908_R1A1-element|coord=4671|strand -|size=29|nreads=1 TTTTCGCCAAGGCGCTGCACTCCAAGTCC ->FBgn0003908_R1A1-element|4672|R|28|n=8 +>FBgn0003908_R1A1-element|coord=4672|strand -|size=28|nreads=8 TTTTCGCCAAGGCGCTGCACTCCAAGTC ->FBgn0003908_R1A1-element|4673|R|27|n=1 +>FBgn0003908_R1A1-element|coord=4673|strand -|size=27|nreads=1 TTTTCGCCAAGGCGCTGCACCCCAAGT ->FBgn0003908_R1A1-element|4673|R|27|n=4 +>FBgn0003908_R1A1-element|coord=4673|strand -|size=27|nreads=4 TTTTCGCCAAGGCGCTGCACTCCAAGT ->FBgn0003908_R1A1-element|4674|R|26|n=1 +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=1 TTTTCGCCAAGGCGCTGCACCCCAAG ->FBgn0003908_R1A1-element|4674|R|26|n=29 +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=1 +TTTTCGTCAAGGCGCTGCACTCCAAG +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=2 +TTTTCGCCAAGGCGCTGCACTTCAAG +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=29 TTTTCGCCAAGGCGCTGCACTCCAAG ->FBgn0003908_R1A1-element|4674|R|26|n=2 -TTTTCGCCAAGGCGCTGCACTTCAAG ->FBgn0003908_R1A1-element|4674|R|26|n=1 -TTTTCGTCAAGGCGCTGCACTCCAAG ->FBgn0003908_R1A1-element|4675|R|25|n=1 +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=1 TTTTCGCCAAGGCGCTGCACCCCAA ->FBgn0003908_R1A1-element|4675|R|25|n=10 -TTTTCGCCAAGGCGCTGCACTCCAA ->FBgn0003908_R1A1-element|4675|R|25|n=1 +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=1 TTTTCGCCAAGGCGCTGCACTTCAA ->FBgn0003908_R1A1-element|4676|R|24|n=21 -TTTTCGCCAAGGCGCTGCACTCCA ->FBgn0003908_R1A1-element|4676|R|24|n=2 +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=10 +TTTTCGCCAAGGCGCTGCACTCCAA +>FBgn0003908_R1A1-element|coord=4676|strand -|size=24|nreads=2 TTTTCGCCAAGGCGCTGCACTTCA ->FBgn0003908_R1A1-element|4677|R|23|n=12 +>FBgn0003908_R1A1-element|coord=4676|strand -|size=24|nreads=21 +TTTTCGCCAAGGCGCTGCACTCCA +>FBgn0003908_R1A1-element|coord=4677|strand -|size=23|nreads=12 TTTTCGCCAAGGCGCTGCACTCC ->FBgn0003908_R1A1-element|4690|F|24|n=9 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=23|nreads=8 +TTGGCGAAAACTGGATCTTCGAG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=24|nreads=7 +TTGGCGAAAACTGGATCTTCGAGG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=24|nreads=9 TTGGCGAAAACTGGATCTTCGAGA ->FBgn0003908_R1A1-element|4690|F|25|n=11 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=25|nreads=11 TTGGCGAAAACTGGATCTTCGAGAG ->FBgn0003908_R1A1-element|4690|F|26|n=6 -TTGGCGAAAACTGGATCTTCGAGAGA ->FBgn0003908_R1A1-element|4690|F|27|n=20 -TTGGCGAAAACTGGATCTTCGAGAGAA ->FBgn0003908_R1A1-element|4690|F|28|n=4 -TTGGCGAAAACTGGATCTTCGAGAGAAT ->FBgn0003908_R1A1-element|4690|F|24|n=7 -TTGGCGAAAACTGGATCTTCGAGG ->FBgn0003908_R1A1-element|4690|F|25|n=12 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=25|nreads=12 TTGGCGAAAACTGGATCTTCGAGGG ->FBgn0003908_R1A1-element|4690|F|26|n=2 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=26|nreads=2 TTGGCGAAAACTGGATCTTCGAGGGA ->FBgn0003908_R1A1-element|4690|F|27|n=9 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=26|nreads=6 +TTGGCGAAAACTGGATCTTCGAGAGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=27|nreads=20 +TTGGCGAAAACTGGATCTTCGAGAGAA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=27|nreads=9 TTGGCGAAAACTGGATCTTCGAGGGAA ->FBgn0003908_R1A1-element|4690|F|28|n=1 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=28|nreads=1 TTGGCGAAAACTGGATCTTCGAGGGAAT ->FBgn0004082_Tirant|4214|F|25|n=1 -TTCATTAGAATGCCGTTTGGCCTCA ->FBgn0004082_Tirant|4197|R|27|n=1 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=28|nreads=4 +TTGGCGAAAACTGGATCTTCGAGAGAAT +>FBgn0004082_Tirant|coord=4197|strand -|size=27|nreads=1 TTCTAATGAACTCGTAGTGGCCCCCCT ->FBgn0005384_3S18|4758|F|23|n=1 -TTTTCTTCAACGAAAGGGCACAA ->FBgn0005384_3S18|4741|R|27|n=2 +>FBgn0004082_Tirant|coord=4214|strand +|size=25|nreads=1 +TTCATTAGAATGCCGTTTGGCCTCA +>FBgn0005384_3S18|coord=4741|strand -|size=27|nreads=2 TTGAAGAAAACAGGATTTGCATTGGAA ->FBgn0005384_3S18|4742|R|26|n=2 +>FBgn0005384_3S18|coord=4742|strand -|size=26|nreads=2 TTGAAGAAAACAGGATTTGCATTGGA ->FBgn0005384_3S18|4743|R|25|n=4 +>FBgn0005384_3S18|coord=4743|strand -|size=25|nreads=4 TTGAAGAAAACAGGATTTGCATTGG ->FBgn0005384_3S18|4744|R|24|n=1 +>FBgn0005384_3S18|coord=4744|strand -|size=24|nreads=1 TTGAAGAAAACAGGATTTGCATTG ->FBgn0005384_3S18|4745|R|23|n=2 +>FBgn0005384_3S18|coord=4745|strand -|size=23|nreads=2 TTGAAGAAAACAGGATTTGCATT ->FBgn0005384_3S18|4758|F|28|n=1 +>FBgn0005384_3S18|coord=4758|strand +|size=23|nreads=1 +TTTTCTTCAACGAAAGGGCACAA +>FBgn0005384_3S18|coord=4758|strand +|size=28|nreads=1 TTTTCTTCAACGAAAGGGCACAAGCAAC ->FBgn0005384_3S18|5255|F|25|n=1 -TTGGATCAAAGGCTTTAACGTTTGA ->FBgn0005384_3S18|5237|R|28|n=1 +>FBgn0005384_3S18|coord=5237|strand -|size=28|nreads=1 TTTGATCCAAGTATTCGTTTCATATGGA ->FBgn0005384_3S18|5241|R|24|n=2 -TTTGATCCAAGTATCCGTTTCATA ->FBgn0005384_3S18|5241|R|24|n=1 +>FBgn0005384_3S18|coord=5241|strand -|size=24|nreads=1 TTTGATCCAAGTATTCGTTTCATA ->FBgn0005384_3S18|5255|F|28|n=4 +>FBgn0005384_3S18|coord=5241|strand -|size=24|nreads=2 +TTTGATCCAAGTATCCGTTTCATA +>FBgn0005384_3S18|coord=5255|strand +|size=25|nreads=1 +TTGGATCAAAGGCTTTAACGTTTGA +>FBgn0005384_3S18|coord=5255|strand +|size=28|nreads=4 TTGGATCAAAGGCTTTAACGTTTGAGGA ->FBgn0005673_1360|2056|F|24|n=1 -TTTTCACAAAAGTCGAATTGCGAG ->FBgn0005673_1360|2038|R|28|n=1 +>FBgn0005673_1360|coord=2038|strand -|size=28|nreads=1 TTTGTGAAAATTTAAAAATGTGTAGAGA ->FBgn0005673_1360|2042|R|24|n=3 +>FBgn0005673_1360|coord=2042|strand -|size=24|nreads=3 TTTGTGAAAATTTAAAAATGTGTA ->FBgn0005673_1360|2178|F|24|n=1 -TTTTCCAAATTCGTGCAAGACAAT ->FBgn0005673_1360|2165|R|23|n=2 +>FBgn0005673_1360|coord=2056|strand +|size=24|nreads=1 +TTTTCACAAAAGTCGAATTGCGAG +>FBgn0005673_1360|coord=2165|strand -|size=23|nreads=2 TTTTGGAAAATGATACAGAGTAT ->FBgn0005673_1360|3209|F|23|n=1 -TTCTAGCACAACACGCACACATA ->FBgn0005673_1360|3195|R|24|n=1 +>FBgn0005673_1360|coord=2178|strand +|size=24|nreads=1 +TTTTCCAAATTCGTGCAAGACAAT +>FBgn0005673_1360|coord=3195|strand -|size=24|nreads=1 TTTGCTAGAAGACGATTTTCGGGC ->FBgn0005673_1360|3209|F|26|n=1 +>FBgn0005673_1360|coord=3209|strand +|size=23|nreads=1 +TTCTAGCACAACACGCACACATA +>FBgn0005673_1360|coord=3209|strand +|size=26|nreads=1 TTCTAGCACAACACGCACACATATAC ->FBgn0005673_1360|3209|F|27|n=1 +>FBgn0005673_1360|coord=3209|strand +|size=27|nreads=1 TTCTAGCACAACACGCACACATATACG ->FBgn0005773_Bari1|1631|F|24|n=1 +>FBgn0005773_Bari1|coord=1617|strand -|size=24|nreads=1 +TTGCCTGAAATAGTTCTTATCGCT +>FBgn0005773_Bari1|coord=1631|strand +|size=24|nreads=1 TTTCAGGCAAATCGGACAACAACA ->FBgn0005773_Bari1|1617|R|24|n=1 -TTGCCTGAAATAGTTCTTATCGCT ->FBgn0010103_aurora-element|1444|F|27|n=1 +>FBgn0010103_aurora-element|coord=1431|strand -|size=23|nreads=1 +TTGCTGGGAACGGCTGGCTGCCG +>FBgn0010103_aurora-element|coord=1444|strand +|size=27|nreads=1 TTCCCAGCAACAGTCTGGAGAGAGGAG ->FBgn0010103_aurora-element|1431|R|23|n=1 -TTGCTGGGAACGGCTGGCTGCCG ->FBgn0010302_Burdock|3141|F|23|n=1 -TTTTCTTCAAGGAAAGCGTCGAG ->FBgn0010302_Burdock|3125|R|26|n=1 +>FBgn0010302_Burdock|coord=3125|strand -|size=26|nreads=1 TTGAAGAAAAACGATTTCTCTTTAGA ->FBgn0010302_Burdock|3127|R|24|n=1 +>FBgn0010302_Burdock|coord=3127|strand -|size=24|nreads=1 TTGAAGAAAAACGATTTCTCTTTA ->FBgn0010302_Burdock|3141|F|24|n=1 +>FBgn0010302_Burdock|coord=3141|strand +|size=23|nreads=1 +TTTTCTTCAAGGAAAGCGTCGAG +>FBgn0010302_Burdock|coord=3141|strand +|size=24|nreads=1 TTTTCTTCAAGGAAAGCGTCGAGT ->FBgn0010302_Burdock|3401|F|25|n=2 +>FBgn0010302_Burdock|coord=3385|strand -|size=26|nreads=1 +TTTCATCGAAAGAAATTGGTATCTTT +>FBgn0010302_Burdock|coord=3401|strand +|size=25|nreads=2 TTCGATGAAAGACAATGTTCTGCTT ->FBgn0010302_Burdock|3385|R|26|n=1 -TTTCATCGAAAGAAATTGGTATCTTT ->FBgn0014947_flea|818|F|23|n=1 +>FBgn0014947_flea|coord=801|strand -|size=27|nreads=4 +TTCTCTAGAATTGCTTGTATTTGGTCG +>FBgn0014947_flea|coord=802|strand -|size=26|nreads=11 +TTCTCTAGAATTGCTTGTATTTGGTC +>FBgn0014947_flea|coord=803|strand -|size=25|nreads=12 +TTCTCTAGAATTGCTTGTATTTGGT +>FBgn0014947_flea|coord=804|strand -|size=24|nreads=2 +TTCTCTAGAATTGCTTGTATTTGG +>FBgn0014947_flea|coord=805|strand -|size=23|nreads=1 +TTCTCTAGAATTGCTTGTATTTG +>FBgn0014947_flea|coord=818|strand +|size=23|nreads=1 TTCTAGAGAACGAAAGCGAGGAC ->FBgn0014947_flea|801|R|27|n=4 -TTCTCTAGAATTGCTTGTATTTGGTCG ->FBgn0014947_flea|802|R|26|n=11 -TTCTCTAGAATTGCTTGTATTTGGTC ->FBgn0014947_flea|803|R|25|n=12 -TTCTCTAGAATTGCTTGTATTTGGT ->FBgn0014947_flea|804|R|24|n=2 -TTCTCTAGAATTGCTTGTATTTGG ->FBgn0014947_flea|805|R|23|n=1 -TTCTCTAGAATTGCTTGTATTTG ->FBgn0014947_flea|1182|F|23|n=1 +>FBgn0014947_flea|coord=1164|strand -|size=28|nreads=2 +TTCTAAGAAAAGTTCTGCTGATCCAATC +>FBgn0014947_flea|coord=1166|strand -|size=26|nreads=2 +TTCTAAGAAAAGTTCTGCTGATCCAA +>FBgn0014947_flea|coord=1167|strand -|size=25|nreads=1 +TTCTAAGAAAAGTTCTGCTGATCCA +>FBgn0014947_flea|coord=1168|strand -|size=24|nreads=1 +TTCTAAGAAAAGTTCTGCTGATCC +>FBgn0014947_flea|coord=1169|strand -|size=23|nreads=1 +TTCTAAGAAAAGTTCTGCTGATC +>FBgn0014947_flea|coord=1182|strand +|size=23|nreads=1 TTTCTTAGAATCTGAATGTGTCA ->FBgn0014947_flea|1164|R|28|n=2 -TTCTAAGAAAAGTTCTGCTGATCCAATC ->FBgn0014947_flea|1166|R|26|n=2 -TTCTAAGAAAAGTTCTGCTGATCCAA ->FBgn0014947_flea|1167|R|25|n=1 -TTCTAAGAAAAGTTCTGCTGATCCA ->FBgn0014947_flea|1168|R|24|n=1 -TTCTAAGAAAAGTTCTGCTGATCC ->FBgn0014947_flea|1169|R|23|n=1 -TTCTAAGAAAAGTTCTGCTGATC ->FBgn0014947_flea|1182|F|25|n=2 +>FBgn0014947_flea|coord=1182|strand +|size=25|nreads=2 TTTCTTAGAATCTGAATGTGTCAGT ->FBgn0014947_flea|2765|F|24|n=4 -TTGGTCTAAAAATAAAATGGAAGA ->FBgn0014947_flea|2749|R|26|n=1 +>FBgn0014947_flea|coord=2749|strand -|size=26|nreads=1 TTTAGACCAAATTCTGCAGCTCTCTT ->FBgn0014947_flea|2750|R|25|n=9 +>FBgn0014947_flea|coord=2750|strand -|size=25|nreads=9 TTTAGACCAAATTCTGCAGCTCTCT ->FBgn0014947_flea|2751|R|24|n=1 +>FBgn0014947_flea|coord=2751|strand -|size=24|nreads=1 TTTAGACCAAATTCTGCAGCTCTC ->FBgn0014947_flea|2752|R|23|n=2 +>FBgn0014947_flea|coord=2752|strand -|size=23|nreads=2 TTTAGACCAAATTCTGCAGCTCT ->FBgn0014947_flea|2765|F|25|n=1 +>FBgn0014947_flea|coord=2765|strand +|size=24|nreads=4 +TTGGTCTAAAAATAAAATGGAAGA +>FBgn0014947_flea|coord=2765|strand +|size=25|nreads=1 TTGGTCTAAAAATAAAATGGAAGAA ->FBgn0014947_flea|2765|F|26|n=1 +>FBgn0014947_flea|coord=2765|strand +|size=26|nreads=1 TTGGTCTAAAAATAAAATGGAAGAAG ->FBgn0014947_flea|2765|F|28|n=1 +>FBgn0014947_flea|coord=2765|strand +|size=28|nreads=1 TTGGTCTAAAAATAAAATGGAAGAAGTG ->FBgn0015786_Porto1|1018|F|23|n=1 +>FBgn0015786_Porto1|coord=1003|strand -|size=25|nreads=1 +TTTCTTCCAATGAATTTAAAGCAGT +>FBgn0015786_Porto1|coord=1018|strand +|size=23|nreads=1 TTGGAAGAAACACGATATGAACT ->FBgn0015786_Porto1|1003|R|25|n=1 -TTTCTTCCAATGAATTTAAAGCAGT ->FBgn0015786_Porto1|4489|F|25|n=1 +>FBgn0015786_Porto1|coord=4472|strand -|size=27|nreads=1 +TTTGTCTCAAGTTTGAGTTTTGGTGGC +>FBgn0015786_Porto1|coord=4473|strand -|size=26|nreads=1 +TTTGTCTCAAGTTTGAGTTTTGGTGG +>FBgn0015786_Porto1|coord=4489|strand +|size=25|nreads=1 TTGAGACAAATACCGATGACAGAGT ->FBgn0015786_Porto1|4472|R|27|n=1 -TTTGTCTCAAGTTTGAGTTTTGGTGGC ->FBgn0015786_Porto1|4473|R|26|n=1 -TTTGTCTCAAGTTTGAGTTTTGGTGG ->FBgn0015945_GATE|3158|F|23|n=18 +>FBgn0015945_GATE|coord=3140|strand -|size=28|nreads=9 +TTGGAACGAAATTGGCCTGATTAGCGGA +>FBgn0015945_GATE|coord=3141|strand -|size=27|nreads=4 +TTGGAACGAAATTGGCCTGATTAGCGG +>FBgn0015945_GATE|coord=3142|strand -|size=26|nreads=17 +TTGGAACGAAATTGGCCTGATTAGCG +>FBgn0015945_GATE|coord=3143|strand -|size=25|nreads=86 +TTGGAACGAAATTGGCCTGATTAGC +>FBgn0015945_GATE|coord=3144|strand -|size=24|nreads=17 +TTGGAACGAAATTGGCCTGATTAG +>FBgn0015945_GATE|coord=3158|strand +|size=23|nreads=18 TTCGTTCCAAATGAGCAAGCCGG ->FBgn0015945_GATE|3140|R|28|n=9 -TTGGAACGAAATTGGCCTGATTAGCGGA ->FBgn0015945_GATE|3141|R|27|n=4 -TTGGAACGAAATTGGCCTGATTAGCGG ->FBgn0015945_GATE|3142|R|26|n=17 -TTGGAACGAAATTGGCCTGATTAGCG ->FBgn0015945_GATE|3143|R|25|n=86 -TTGGAACGAAATTGGCCTGATTAGC ->FBgn0015945_GATE|3144|R|24|n=17 -TTGGAACGAAATTGGCCTGATTAG ->FBgn0015945_GATE|3158|F|24|n=10 +>FBgn0015945_GATE|coord=3158|strand +|size=24|nreads=10 TTCGTTCCAAATGAGCAAGCCGGT ->FBgn0015945_GATE|3158|F|25|n=10 +>FBgn0015945_GATE|coord=3158|strand +|size=25|nreads=10 TTCGTTCCAAATGAGCAAGCCGGTG ->FBgn0015945_GATE|3158|F|26|n=5 +>FBgn0015945_GATE|coord=3158|strand +|size=26|nreads=5 TTCGTTCCAAATGAGCAAGCCGGTGT ->FBgn0015945_GATE|3158|F|27|n=1 +>FBgn0015945_GATE|coord=3158|strand +|size=27|nreads=1 TTCGTTCCAAATGAGCAAGCCGGTGTT ->FBgn0015945_GATE|6246|F|25|n=1 +>FBgn0015945_GATE|coord=6230|strand -|size=26|nreads=1 +TTGAAGGAAATCGCGGGAAAGCAGGG +>FBgn0015945_GATE|coord=6231|strand -|size=25|nreads=1 +TTGAAGGAAATCGAGGGAAAGCAGG +>FBgn0015945_GATE|coord=6232|strand -|size=24|nreads=2 +TTGAAGGAAATCGCGGGAAAGCAG +>FBgn0015945_GATE|coord=6246|strand +|size=25|nreads=1 TTTCCTTCAAGCCGTAAAAGAGTCG ->FBgn0015945_GATE|6230|R|26|n=1 -TTGAAGGAAATCGCGGGAAAGCAGGG ->FBgn0015945_GATE|6231|R|25|n=1 -TTGAAGGAAATCGAGGGAAAGCAGG ->FBgn0015945_GATE|6232|R|24|n=2 -TTGAAGGAAATCGCGGGAAAGCAG ->FBgn0015945_GATE|6246|F|26|n=1 +>FBgn0015945_GATE|coord=6246|strand +|size=26|nreads=1 TTTCCTTCAAGCCGTAAAAGAGTCGG ->FBgn0022937_Circe|2086|F|25|n=2 +>FBgn0022937_Circe|coord=2068|strand -|size=28|nreads=1 +TTCGAAAGAAATCTTCGTGACGATGACA +>FBgn0022937_Circe|coord=2069|strand -|size=27|nreads=1 +TTCGAAAGAAATCTTCGTGACGATGAC +>FBgn0022937_Circe|coord=2070|strand -|size=26|nreads=1 +TTCGAAAGAAATCTTCGTGACGATGA +>FBgn0022937_Circe|coord=2071|strand -|size=25|nreads=5 +TTCGAAAGAAATCTTCGTGACGATG +>FBgn0022937_Circe|coord=2086|strand +|size=25|nreads=2 TTCTTTCGAAGCACCCGGACAAAGC ->FBgn0022937_Circe|2068|R|28|n=1 -TTCGAAAGAAATCTTCGTGACGATGACA ->FBgn0022937_Circe|2069|R|27|n=1 -TTCGAAAGAAATCTTCGTGACGATGAC ->FBgn0022937_Circe|2070|R|26|n=1 -TTCGAAAGAAATCTTCGTGACGATGA ->FBgn0022937_Circe|2071|R|25|n=5 -TTCGAAAGAAATCTTCGTGACGATG ->FBgn0022937_Circe|2086|F|26|n=1 +>FBgn0022937_Circe|coord=2086|strand +|size=26|nreads=1 TTCTTTCGAAGCACCCGGACAAAGCC ->FBgn0022937_Circe|2086|F|28|n=1 +>FBgn0022937_Circe|coord=2086|strand +|size=28|nreads=1 TTCTTTCGAAGCACCCGGACAAAGCCAA ->FBgn0022937_Circe|3691|F|26|n=1 -TTTGTCCGAAGTAGCCACCCAATTGC ->FBgn0022937_Circe|3676|R|25|n=1 +>FBgn0022937_Circe|coord=3676|strand -|size=25|nreads=1 TTCGGACAAATGCAAAAGATGGTCT ->FBgn0022937_Circe|5431|F|24|n=2 -TTTCAAAGAATTCGCTCCAACAGT ->FBgn0022937_Circe|5416|R|25|n=1 +>FBgn0022937_Circe|coord=3691|strand +|size=26|nreads=1 +TTTGTCCGAAGTAGCCACCCAATTGC +>FBgn0022937_Circe|coord=5416|strand -|size=25|nreads=1 TTCTTTGAAATTCGTCAGTTCTTGA ->FBgn0022937_Circe|5418|R|23|n=1 +>FBgn0022937_Circe|coord=5418|strand -|size=23|nreads=1 TTCTTTGAAATTCGTCAGTTCTT ->FBgn0022937_Circe|5431|F|25|n=1 +>FBgn0022937_Circe|coord=5431|strand +|size=24|nreads=2 +TTTCAAAGAATTCGCTCCAACAGT +>FBgn0022937_Circe|coord=5431|strand +|size=25|nreads=1 TTTCAAAGAATTCGCTCCAACAGTG ->FBgn0022937_Circe|5431|F|25|n=1 +>FBgn0022937_Circe|coord=5431|strand +|size=25|nreads=1 TTTCAAAGAATTCGCTCCAACATTG ->FBgn0042231_X-element|285|F|25|n=1 +>FBgn0042231_X-element|coord=269|strand -|size=26|nreads=2 +TTCTAGCCAAAACTTGAACCCTGGGA +>FBgn0042231_X-element|coord=285|strand +|size=25|nreads=1 TTGGCTAGAACCCTGGTGATTTGGT ->FBgn0042231_X-element|269|R|26|n=2 -TTCTAGCCAAAACTTGAACCCTGGGA ->FBgn0042231_X-element|3955|F|24|n=2 +>FBgn0042231_X-element|coord=3939|strand -|size=26|nreads=2 +TTGATGCCAATATTCCAACGTCTTGC +>FBgn0042231_X-element|coord=3955|strand +|size=24|nreads=2 TTGGCATCAATAGCAGTAAATCCA ->FBgn0042231_X-element|3939|R|26|n=2 -TTGATGCCAATATTCCAACGTCTTGC ->FBgn0042682_Rt1b|1086|F|23|n=1 -TTGCCAAGAATGCTAGCACGGGT ->FBgn0042682_Rt1b|1070|R|26|n=2 +>FBgn0042682_Rt1b|coord=1070|strand -|size=26|nreads=2 TTCTTGGCGACAGATGCGTAGCTGCC ->FBgn0042682_Rt1b|1071|R|25|n=1 +>FBgn0042682_Rt1b|coord=1071|strand -|size=25|nreads=1 TTCTTGGAGACAGATGCGTAGCTGC ->FBgn0042682_Rt1b|1071|R|25|n=3 +>FBgn0042682_Rt1b|coord=1071|strand -|size=25|nreads=3 TTCTTGGCGACAGATGCGTAGCTGC ->FBgn0042682_Rt1b|1072|R|24|n=3 +>FBgn0042682_Rt1b|coord=1072|strand -|size=24|nreads=3 TTCTTGGCGACAGATGCGTAGCTG ->FBgn0042682_Rt1b|1073|R|23|n=1 +>FBgn0042682_Rt1b|coord=1073|strand -|size=23|nreads=1 TTCTTGGCGACAGATGCGTAGCT ->FBgn0042682_Rt1b|2920|F|23|n=1 -TTGTTACCAAAAAGCTAAGGAGG ->FBgn0042682_Rt1b|2902|R|28|n=1 +>FBgn0042682_Rt1b|coord=1086|strand +|size=23|nreads=1 +TTGCCAAGAATGCTAGCACGGGT +>FBgn0042682_Rt1b|coord=2902|strand -|size=28|nreads=1 TTGGTAACAAGCTTGTAGGCGAGGCCCC ->FBgn0042682_Rt1b|2903|R|27|n=1 +>FBgn0042682_Rt1b|coord=2903|strand -|size=27|nreads=1 TTGGTAACAAGCTTGTAGGCGAGGCCC ->FBgn0042682_Rt1b|2904|R|26|n=2 +>FBgn0042682_Rt1b|coord=2904|strand -|size=26|nreads=1 +TTGGTAACAAGCTTGTAGGCGAGTCC +>FBgn0042682_Rt1b|coord=2904|strand -|size=26|nreads=2 TTGGTAACAAGCTTGTAGGCGAGGCC ->FBgn0042682_Rt1b|2904|R|26|n=1 -TTGGTAACAAGCTTGTAGGCGAGTCC ->FBgn0042682_Rt1b|2905|R|25|n=2 +>FBgn0042682_Rt1b|coord=2905|strand -|size=25|nreads=1 +TTGGTAACAAGCTTGTAGGCGAGGT +>FBgn0042682_Rt1b|coord=2905|strand -|size=25|nreads=2 TTGGTAACAAGCTTGTAGGCGAGGC ->FBgn0042682_Rt1b|2905|R|25|n=1 -TTGGTAACAAGCTTGTAGGCGAGGT ->FBgn0042682_Rt1b|2906|R|24|n=25 +>FBgn0042682_Rt1b|coord=2906|strand -|size=24|nreads=25 TTGGTAACAAGCTTGTAGGCGAGG ->FBgn0042682_Rt1b|2907|R|23|n=1 +>FBgn0042682_Rt1b|coord=2907|strand -|size=23|nreads=1 TTGGTAACAAGCTTGGAGGCGAG ->FBgn0042682_Rt1b|2907|R|23|n=15 +>FBgn0042682_Rt1b|coord=2907|strand -|size=23|nreads=15 TTGGTAACAAGCTTGTAGGCGAG ->FBgn0042682_Rt1b|2920|F|25|n=1 -TTGTTACCAAAAAGCTAAGGAGGAG ->FBgn0042682_Rt1b|2920|F|26|n=1 -TTGTTACCAAAAAGCTAAGGAGGAGA ->FBgn0042682_Rt1b|2920|F|27|n=1 -TTGTTACCAAAAAGCTAAGGAGGAGAG ->FBgn0042682_Rt1b|2920|F|23|n=1 +>FBgn0042682_Rt1b|coord=2920|strand +|size=23|nreads=1 +TTGTTACCAAAAAGCTAAGGAGG +>FBgn0042682_Rt1b|coord=2920|strand +|size=23|nreads=1 TTGTTACCAACAAGCTAAGGAGG ->FBgn0042682_Rt1b|2920|F|24|n=2 +>FBgn0042682_Rt1b|coord=2920|strand +|size=24|nreads=2 TTGTTACCAACAAGCTAAGGAGGA ->FBgn0042682_Rt1b|4376|F|24|n=1 -TTCCAGGCAAGAGGCACACGAGTG ->FBgn0042682_Rt1b|4357|R|29|n=2 +>FBgn0042682_Rt1b|coord=2920|strand +|size=25|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAG +>FBgn0042682_Rt1b|coord=2920|strand +|size=26|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAGA +>FBgn0042682_Rt1b|coord=2920|strand +|size=27|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAGAG +>FBgn0042682_Rt1b|coord=4357|strand -|size=29|nreads=2 TTGCCTGGAAGCGCCACTCCGCATTAGGC ->FBgn0042682_Rt1b|4359|R|27|n=1 +>FBgn0042682_Rt1b|coord=4359|strand -|size=27|nreads=1 TTGCCTGGAAGCGCCACTCCGCATTAG ->FBgn0042682_Rt1b|4360|R|26|n=5 +>FBgn0042682_Rt1b|coord=4360|strand -|size=26|nreads=5 TTGCCTGGAAGCGCCACTCCGCATTA ->FBgn0042682_Rt1b|4361|R|25|n=4 +>FBgn0042682_Rt1b|coord=4361|strand -|size=25|nreads=4 TTGCCTGGAAGCGCCACTCCGCATA ->FBgn0042682_Rt1b|4361|R|25|n=6 +>FBgn0042682_Rt1b|coord=4361|strand -|size=25|nreads=6 TTGCCTGGAAGCGCCACTCCGCATT ->FBgn0042682_Rt1b|4362|R|24|n=6 +>FBgn0042682_Rt1b|coord=4362|strand -|size=24|nreads=6 TTGCCTGGAAGCGCCACTCCGCAT ->FBgn0042682_Rt1b|4363|R|23|n=2 +>FBgn0042682_Rt1b|coord=4363|strand -|size=23|nreads=2 TTGCCTGGAAGCGCCACTCCGCA ->FBgn0042682_Rt1b|4376|F|26|n=1 +>FBgn0042682_Rt1b|coord=4376|strand +|size=24|nreads=1 +TTCCAGGCAAGAGGCACACGAGTG +>FBgn0042682_Rt1b|coord=4376|strand +|size=26|nreads=1 TTCCAGGCAAGAGGCACACGAGTGGC ->FBgn0044355_Quasimodo|1386|F|24|n=1 +>FBgn0044355_Quasimodo|coord=1370|strand -|size=26|nreads=1 +TTCTTAGCAACTCTTCGTATGGGATT +>FBgn0044355_Quasimodo|coord=1372|strand -|size=24|nreads=1 +TTCTTAGCAACTCTTCGTATGGGA +>FBgn0044355_Quasimodo|coord=1386|strand +|size=24|nreads=1 TTGCTAAGAAGACTTTACAACACC ->FBgn0044355_Quasimodo|1370|R|26|n=1 -TTCTTAGCAACTCTTCGTATGGGATT ->FBgn0044355_Quasimodo|1372|R|24|n=1 -TTCTTAGCAACTCTTCGTATGGGA ->FBgn0063427_invader4|707|F|23|n=3 +>FBgn0063427_invader4|coord=691|strand -|size=26|nreads=15 +TTCCTACGAATCGCTGTATGAACAGT +>FBgn0063427_invader4|coord=707|strand +|size=23|nreads=3 TTCGTAGGAATTGAGACGTCGGC ->FBgn0063427_invader4|691|R|26|n=15 -TTCCTACGAATCGCTGTATGAACAGT ->FBgn0063428_invader3|440|F|23|n=1 +>FBgn0063428_invader3|coord=425|strand -|size=25|nreads=1 +TTCTGGGGAAATGGCCTGCAGACGC +>FBgn0063428_invader3|coord=427|strand -|size=23|nreads=1 +TTCTGGGGAAATGGCCTGCAGAC +>FBgn0063428_invader3|coord=440|strand +|size=23|nreads=1 TTCCCCAGAAACGCGTGGAGATT ->FBgn0063428_invader3|425|R|25|n=1 -TTCTGGGGAAATGGCCTGCAGACGC ->FBgn0063428_invader3|427|R|23|n=1 -TTCTGGGGAAATGGCCTGCAGAC ->FBgn0063428_invader3|440|F|29|n=1 +>FBgn0063428_invader3|coord=440|strand +|size=27|nreads=1 +TTCCCCAGAAACGCGTGGCGATTCACC +>FBgn0063428_invader3|coord=440|strand +|size=29|nreads=1 TTCCCCAGAAACGCGTGGAGATTCACCGC ->FBgn0063428_invader3|440|F|27|n=1 -TTCCCCAGAAACGCGTGGCGATTCACC ->FBgn0063428_invader3|1939|F|25|n=1 +>FBgn0063428_invader3|coord=1923|strand -|size=26|nreads=2 +TTTCGTCCAAGAACTACATTATGACT +>FBgn0063428_invader3|coord=1939|strand +|size=25|nreads=1 TTGGACGAAATTTCATGGAAGCGTG ->FBgn0063428_invader3|1923|R|26|n=2 -TTTCGTCCAAGAACTACATTATGACT ->FBgn0063429_invader2|1474|F|25|n=1 +>FBgn0063429_invader2|coord=1460|strand -|size=24|nreads=1 +TTTGCTGCAAAGTGCCCCATCTCA +>FBgn0063429_invader2|coord=1474|strand +|size=25|nreads=1 TTGCAGCAAAGTGCCTAAAAAACAA ->FBgn0063429_invader2|1460|R|24|n=1 -TTTGCTGCAAAGTGCCCCATCTCA ->FBgn0063430_invader1|637|F|27|n=4 -TTGTCCGAAAACCAACTGGAAGGCAGC ->FBgn0063430_invader1|621|R|26|n=1 +>FBgn0063430_invader1|coord=621|strand -|size=26|nreads=1 TTTCGGACAAGATGTAGTCCACCGTT ->FBgn0063430_invader1|1766|F|25|n=1 -TTGTCAAGAATTCCATAGGCGTAGT ->FBgn0063430_invader1|1750|R|26|n=3 +>FBgn0063430_invader1|coord=637|strand +|size=27|nreads=4 +TTGTCCGAAAACCAACTGGAAGGCAGC +>FBgn0063430_invader1|coord=1750|strand -|size=26|nreads=3 TTCTTGACAATTTTTGGAACCGGATT ->FBgn0063430_invader1|1751|R|25|n=2 +>FBgn0063430_invader1|coord=1751|strand -|size=25|nreads=2 TTCTTGACAATTTTTGGAACCGGAT ->FBgn0063430_invader1|1752|R|24|n=3 +>FBgn0063430_invader1|coord=1752|strand -|size=24|nreads=3 TTCTTGACAATTTTTGGAACCGGA ->FBgn0063430_invader1|1766|F|27|n=1 +>FBgn0063430_invader1|coord=1766|strand +|size=25|nreads=1 +TTGTCAAGAATTCCATAGGCGTAGT +>FBgn0063430_invader1|coord=1766|strand +|size=27|nreads=1 TTGTCAAGAATTCCATAGGCGTAGTCG ->FBgn0063430_invader1|2092|F|24|n=1 +>FBgn0063430_invader1|coord=2077|strand -|size=25|nreads=3 +TTTTATCGAACCAATAGAACTCGTA +>FBgn0063430_invader1|coord=2079|strand -|size=23|nreads=1 +TTTTATCGAACCAATAGAACTCG +>FBgn0063430_invader1|coord=2092|strand +|size=24|nreads=1 TTCGATAAAATGTCTAAGTATGTT ->FBgn0063430_invader1|2077|R|25|n=3 -TTTTATCGAACCAATAGAACTCGTA ->FBgn0063430_invader1|2079|R|23|n=1 -TTTTATCGAACCAATAGAACTCG ->FBgn0063430_invader1|2092|F|26|n=1 +>FBgn0063430_invader1|coord=2092|strand +|size=26|nreads=1 TTCGATAAAATGTCTAAGTATGTTCG ->FBgn0063431_gypsy6|3050|F|25|n=1 -TTCTTAGAAATGCTGAAGACTAGGA ->FBgn0063431_gypsy6|3031|R|29|n=1 +>FBgn0063431_gypsy6|coord=3031|strand -|size=29|nreads=1 TTTCTAAGAACGCGTTTCTGACTAAGGGT ->FBgn0063433_gypsy4|2753|F|24|n=2 -TTGACCTCAAATCGGGATTTCATC ->FBgn0063433_gypsy4|2735|R|28|n=1 +>FBgn0063431_gypsy6|coord=3050|strand +|size=25|nreads=1 +TTCTTAGAAATGCTGAAGACTAGGA +>FBgn0063433_gypsy4|coord=2735|strand -|size=28|nreads=1 TTGAGGTCAAGAGTAGTAAAGTACTGTG ->FBgn0063433_gypsy4|2736|R|27|n=5 +>FBgn0063433_gypsy4|coord=2736|strand -|size=27|nreads=5 TTGAGGTCAAGAGTAGTAAAGTACTGT ->FBgn0063433_gypsy4|2737|R|26|n=11 +>FBgn0063433_gypsy4|coord=2737|strand -|size=26|nreads=11 TTGAGGTCAAGAGTAGTAAAGTACTG ->FBgn0063433_gypsy4|2738|R|25|n=5 +>FBgn0063433_gypsy4|coord=2738|strand -|size=25|nreads=1 +TTGAGGTCAAGGGTAGTAAAGTACT +>FBgn0063433_gypsy4|coord=2738|strand -|size=25|nreads=5 TTGAGGTCAAGAGTAGTAAAGTACT ->FBgn0063433_gypsy4|2738|R|25|n=1 -TTGAGGTCAAGGGTAGTAAAGTACT ->FBgn0063433_gypsy4|2739|R|24|n=25 +>FBgn0063433_gypsy4|coord=2739|strand -|size=24|nreads=2 +TTGAGGTCAAGGGTAGTAAAGTAC +>FBgn0063433_gypsy4|coord=2739|strand -|size=24|nreads=25 TTGAGGTCAAGAGTAGTAAAGTAC ->FBgn0063433_gypsy4|2739|R|24|n=2 -TTGAGGTCAAGGGTAGTAAAGTAC ->FBgn0063433_gypsy4|2740|R|23|n=1 +>FBgn0063433_gypsy4|coord=2740|strand -|size=23|nreads=1 TTGAGGTCAAGAGTAGTAAAGTA ->FBgn0063433_gypsy4|2770|F|23|n=1 +>FBgn0063433_gypsy4|coord=2753|strand +|size=24|nreads=2 +TTGACCTCAAATCGGGATTTCATC +>FBgn0063433_gypsy4|coord=2753|strand -|size=27|nreads=1 +TTTGATGAAATCCCGATTTGAGGTCAA +>FBgn0063433_gypsy4|coord=2754|strand -|size=26|nreads=1 +TTTGATGAAATCCCGATTTGAGGTCA +>FBgn0063433_gypsy4|coord=2770|strand +|size=23|nreads=1 TTTCATCAAATCGAATTAGCGGA ->FBgn0063433_gypsy4|2753|R|27|n=1 -TTTGATGAAATCCCGATTTGAGGTCAA ->FBgn0063433_gypsy4|2754|R|26|n=1 -TTTGATGAAATCCCGATTTGAGGTCA ->FBgn0063433_gypsy4|3058|F|24|n=1 +>FBgn0063433_gypsy4|coord=3040|strand -|size=28|nreads=1 +TTTTGAAGAACTTGGATTTTTCTTGAGA +>FBgn0063433_gypsy4|coord=3044|strand -|size=24|nreads=1 +TTTTGAAGAACTTGGATTTTTCTT +>FBgn0063433_gypsy4|coord=3058|strand +|size=24|nreads=1 TTCTTCAAAAAGAGCGTGGAATAT ->FBgn0063433_gypsy4|3040|R|28|n=1 -TTTTGAAGAACTTGGATTTTTCTTGAGA ->FBgn0063433_gypsy4|3044|R|24|n=1 -TTTTGAAGAACTTGGATTTTTCTT ->FBgn0063436_gtwin|5264|F|27|n=1 +>FBgn0063436_gtwin|coord=5250|strand -|size=24|nreads=1 +TTTTAACGAAAACCTCGTCTCCTA +>FBgn0063436_gtwin|coord=5264|strand +|size=27|nreads=1 TTCGTTAAAAACAACAGAAGGTTAGGA ->FBgn0063436_gtwin|5250|R|24|n=1 -TTTTAACGAAAACCTCGTCTCCTA ->FBgn0063440_baggins|3312|F|24|n=1 +>FBgn0063440_baggins|coord=3296|strand -|size=26|nreads=3 +TTTTAGCAAAAACGATGTCAAGCTGA +>FBgn0063440_baggins|coord=3298|strand -|size=24|nreads=1 +TTTTAGCAAAAACGATGTCAAGCT +>FBgn0063440_baggins|coord=3312|strand +|size=24|nreads=1 TTTGCTAAAAACGTTCGAAAAGCT ->FBgn0063440_baggins|3296|R|26|n=3 -TTTTAGCAAAAACGATGTCAAGCTGA ->FBgn0063440_baggins|3298|R|24|n=1 -TTTTAGCAAAAACGATGTCAAGCT ->FBgn0063507_G2|1923|F|29|n=1 +>FBgn0063507_G2|coord=1906|strand -|size=27|nreads=1 +TTCCGTGGGATCGCCTGAAGCCAAACT +>FBgn0063507_G2|coord=1906|strand -|size=27|nreads=1 +TTTCGTGGGATCGCCTGAAGCCAAACT +>FBgn0063507_G2|coord=1908|strand -|size=25|nreads=3 +TTCCGTGGGATCGCCTGAAGCCAAA +>FBgn0063507_G2|coord=1923|strand +|size=29|nreads=1 TTCCACGGAACACCCGAGCAATGCCACCG ->FBgn0063507_G2|1906|R|27|n=1 -TTCCGTGGGATCGCCTGAAGCCAAACT ->FBgn0063507_G2|1906|R|27|n=1 -TTTCGTGGGATCGCCTGAAGCCAAACT ->FBgn0063507_G2|1908|R|25|n=3 -TTCCGTGGGATCGCCTGAAGCCAAA ->FBgn0063534_Doc2-element|342|F|25|n=1 -TTGCAACGAAACAACGCGTACTTCT ->FBgn0063534_Doc2-element|327|R|25|n=1 +>FBgn0063534_Doc2-element|coord=327|strand -|size=25|nreads=1 TTCGTTGCAATGAGAGCCGGCGATC ->FBgn0063534_Doc2-element|3623|F|23|n=1 -TTCGCAAAAATCACGGAACGATC ->FBgn0063534_Doc2-element|3605|R|28|n=1 +>FBgn0063534_Doc2-element|coord=342|strand +|size=25|nreads=1 +TTGCAACGAAACAACGCGTACTTCT +>FBgn0063534_Doc2-element|coord=3605|strand -|size=28|nreads=1 TTTTTGCGAAAGCCAAACTGATGCGATG ->FBgn0063534_Doc2-element|3606|R|27|n=2 +>FBgn0063534_Doc2-element|coord=3606|strand -|size=27|nreads=2 TTTTTGCGAAAGCCAAACTGATGCGAT ->FBgn0063534_Doc2-element|3607|R|26|n=4 +>FBgn0063534_Doc2-element|coord=3607|strand -|size=26|nreads=4 TTTTTGCGAAAGCCAAACTGATGCGA ->FBgn0063534_Doc2-element|3608|R|25|n=7 +>FBgn0063534_Doc2-element|coord=3608|strand -|size=25|nreads=7 TTTTTGCGAAAGCCAAACTGATGCG ->FBgn0063534_Doc2-element|3609|R|24|n=1 +>FBgn0063534_Doc2-element|coord=3609|strand -|size=24|nreads=1 TTTTTGCGAAAGCCAAACTGATGC ->FBgn0063534_Doc2-element|3610|R|23|n=3 +>FBgn0063534_Doc2-element|coord=3610|strand -|size=23|nreads=3 TTTTTGCGAAAGCCAAACTGATG ->FBgn0063534_Doc2-element|3623|F|26|n=1 +>FBgn0063534_Doc2-element|coord=3623|strand +|size=23|nreads=1 +TTCGCAAAAATCACGGAACGATC +>FBgn0063534_Doc2-element|coord=3623|strand +|size=26|nreads=1 TTCGCAAAAATCACGGAACGATCGAA ->FBgn0063594_Cr1a|2054|F|24|n=2 -TTTGTAACAAGTCCTGAAAGTGTG ->FBgn0063594_Cr1a|2037|R|27|n=1 +>FBgn0063594_Cr1a|coord=2037|strand -|size=27|nreads=1 TTGTTACAAGACATAGATCCAACAGTC ->FBgn0063594_Cr1a|2039|R|25|n=1 +>FBgn0063594_Cr1a|coord=2039|strand -|size=25|nreads=1 TTGTTACAAAACATAGATCCAACAG ->FBgn0063919_Max-element|3898|F|23|n=1 -TTCTCAGCAAGTTCTGGGAGGTG ->FBgn0063919_Max-element|3879|R|29|n=1 +>FBgn0063594_Cr1a|coord=2054|strand +|size=24|nreads=2 +TTTGTAACAAGTCCTGAAAGTGTG +>FBgn0063919_Max-element|coord=3879|strand -|size=29|nreads=1 TTGCTGAGAAGCGTGTTGAGCGAATCAGG ->FBgn0063919_Max-element|3880|R|28|n=1 +>FBgn0063919_Max-element|coord=3880|strand -|size=28|nreads=1 TTGCTGAGAAGCGTGTCGAGCGAATCAG ->FBgn0063919_Max-element|3880|R|28|n=1 +>FBgn0063919_Max-element|coord=3880|strand -|size=28|nreads=1 TTGCTGAGAAGCGTGTTGAGCGAATCAG ->FBgn0063919_Max-element|3882|R|26|n=1 +>FBgn0063919_Max-element|coord=3882|strand -|size=26|nreads=1 TTGCTGAGAAGCGTGTCGAGCGAATC ->FBgn0063919_Max-element|3883|R|25|n=1 +>FBgn0063919_Max-element|coord=3883|strand -|size=25|nreads=1 TTGCTGAGAAGCGTGTCGAGCGAAT ->FBgn0063919_Max-element|3884|R|24|n=1 +>FBgn0063919_Max-element|coord=3884|strand -|size=24|nreads=1 TTGCTGAGAAGCGTGTTGAGCGAA ->FBgn0063919_Max-element|3898|F|24|n=2 -TTCTCAGCAAGTTCTGGGAGGTGG ->FBgn0063919_Max-element|3898|F|25|n=1 -TTCTCAGCAAGTTCTGGGAGGTGGA ->FBgn0063919_Max-element|3898|F|24|n=1 +>FBgn0063919_Max-element|coord=3898|strand +|size=23|nreads=1 +TTCTCAGCAAGTTCTGGGAGGTG +>FBgn0063919_Max-element|coord=3898|strand +|size=24|nreads=1 TTCTCAGCAAGTTCTGGGAGGTGT ->FBgn0067385_invader6|3024|F|26|n=1 -TTGACTAGAATGACTTAGACTTAGAA ->FBgn0067385_invader6|3007|R|27|n=4 +>FBgn0063919_Max-element|coord=3898|strand +|size=24|nreads=2 +TTCTCAGCAAGTTCTGGGAGGTGG +>FBgn0063919_Max-element|coord=3898|strand +|size=25|nreads=1 +TTCTCAGCAAGTTCTGGGAGGTGGA +>FBgn0067385_invader6|coord=3007|strand -|size=27|nreads=4 TTCTAGTCAAAGTCGAAGGACTGCATA ->FBgn0067385_invader6|3008|R|26|n=3 +>FBgn0067385_invader6|coord=3008|strand -|size=26|nreads=3 TTCTAGTCAAAGTCGAAGGACTGCAT ->FBgn0067385_invader6|3009|R|25|n=5 +>FBgn0067385_invader6|coord=3009|strand -|size=25|nreads=5 TTCTAGTCAAAGTCGAAGGACTGCA ->FBgn0067385_invader6|3010|R|24|n=4 +>FBgn0067385_invader6|coord=3010|strand -|size=24|nreads=4 TTCTAGTCAAAGTCGAAGGACTGC ->FBgn0067385_invader6|3011|R|23|n=1 +>FBgn0067385_invader6|coord=3011|strand -|size=23|nreads=1 TTCTAGTCAAAGTCGAAGGACTG ->FBgn0067624_BS3|1026|F|26|n=1 -TTGGCATCAATGGTGACAAATCAGCG ->FBgn0067624_BS3|1011|R|25|n=3 +>FBgn0067385_invader6|coord=3024|strand +|size=26|nreads=1 +TTGACTAGAATGACTTAGACTTAGAA +>FBgn0067624_BS3|coord=1011|strand -|size=25|nreads=3 TTGATGCCAATGTTCCAGCGTTTTG ->FBgn0067624_BS3|1013|R|23|n=3 +>FBgn0067624_BS3|coord=1013|strand -|size=23|nreads=3 TTGATGCCAATGTTCCAACGTCT ->FBgn0067624_BS3|1026|F|24|n=1 +>FBgn0067624_BS3|coord=1026|strand +|size=24|nreads=1 TTGGCATCAATGGTGACAAATCTG ->FBgn0067624_BS3|1026|F|25|n=1 +>FBgn0067624_BS3|coord=1026|strand +|size=25|nreads=1 TTGGCATCAATGGTGACAAATCTGC +>FBgn0067624_BS3|coord=1026|strand +|size=26|nreads=1 +TTGGCATCAATGGTGACAAATCAGCG diff -r 20d28cfdeefe -r a7fd04208764 test-data/paired_2.fa --- a/test-data/paired_2.fa Fri Sep 08 04:44:22 2017 -0400 +++ b/test-data/paired_2.fa Sat Sep 09 11:57:39 2017 -0400 @@ -1,370 +1,416 @@ ->FBgn0000004_17.6|5844|R|21|n=1 +>FBgn0000004_17.6|coord=5844|strand -|size=21|nreads=1 TTTTCGTCAAGTGTGCTAAAT ->FBgn0000004_17.6|5855|F|23|n=1 +>FBgn0000004_17.6|coord=5855|strand +|size=23|nreads=1 TTGACGAAAATGATCGAGTGGAT ->FBgn0000005_297|1347|F|21|n=1 +>FBgn0000005_297|coord=1334|strand -|size=23|nreads=1 +TTTTGCGCAATGGTAATTAAGGA +>FBgn0000005_297|coord=1347|strand +|size=21|nreads=1 TTGCACAAAATGAGGGAATTT ->FBgn0000005_297|1334|R|23|n=1 -TTTTGCGCAATGGTAATTAAGGA ->FBgn0000007_1731|4545|R|20|n=1 +>FBgn0000007_1731|coord=4545|strand -|size=20|nreads=1 TTGAGAGCAAAGGCCGAATG ->FBgn0000007_1731|4555|F|24|n=1 +>FBgn0000007_1731|coord=4555|strand +|size=24|nreads=1 TTGCTCTCAATGCGCTGAGTTTGG ->FBgn0000155_roo|2682|R|20|n=2 +>FBgn0000155_roo|coord=2682|strand -|size=20|nreads=2 TTTTTACCAAACGGATGCCT ->FBgn0000155_roo|2692|F|24|n=1 +>FBgn0000155_roo|coord=2692|strand +|size=24|nreads=1 TTGGTAAAAAATGTATAAGTGAGC ->FBgn0000155_roo|2692|F|27|n=1 +>FBgn0000155_roo|coord=2692|strand +|size=27|nreads=1 TTGGTAAAAAATGTATAAGTGAGCAGC ->FBgn0000155_roo|3241|F|20|n=1 -TTGGGCAAAAAACTGATTTC ->FBgn0000155_roo|3225|R|26|n=1 +>FBgn0000155_roo|coord=3225|strand -|size=26|nreads=1 TTTTGCCCAAGGAGACCGTCTATTTT ->FBgn0000155_roo|3226|R|25|n=1 +>FBgn0000155_roo|coord=3226|strand -|size=25|nreads=1 TTTTGCCCAAGGAGACCGTCTATTT ->FBgn0000155_roo|3227|R|24|n=2 +>FBgn0000155_roo|coord=3227|strand -|size=24|nreads=2 TTTTGCCCAAGGAGACCGTCTATT ->FBgn0000155_roo|3228|R|23|n=1 +>FBgn0000155_roo|coord=3228|strand -|size=23|nreads=1 TTTTGCCCAAGGAGACCGTCTAT ->FBgn0000155_roo|3229|R|22|n=2 +>FBgn0000155_roo|coord=3229|strand -|size=22|nreads=2 TTTTGCCCAAGGAGACCGTCTA ->FBgn0000155_roo|3241|F|24|n=1 +>FBgn0000155_roo|coord=3230|strand -|size=21|nreads=1 +TTTTGCCCAAGGAGACCGTCT +>FBgn0000155_roo|coord=3231|strand -|size=20|nreads=2 +TTTTGCCCAAGGAGACCGTC +>FBgn0000155_roo|coord=3241|strand +|size=20|nreads=1 +TTGGGCAAAAAACTGATTTC +>FBgn0000155_roo|coord=3241|strand +|size=24|nreads=1 TTGGGCAAAAAACTGATTTCGGGT ->FBgn0000155_roo|3241|F|27|n=1 +>FBgn0000155_roo|coord=3241|strand +|size=27|nreads=1 TTGGGCAAAAAACTGATTTCGGGTGGA ->FBgn0000155_roo|3241|F|28|n=1 +>FBgn0000155_roo|coord=3241|strand +|size=28|nreads=1 TTGGGCAAAAAACTGATTTCGGGTGGAT ->FBgn0000155_roo|8644|R|21|n=1 +>FBgn0000155_roo|coord=8644|strand -|size=21|nreads=1 TTCTGCCAAAGGGCCAGCAAG ->FBgn0000155_roo|8655|F|25|n=1 +>FBgn0000155_roo|coord=8645|strand -|size=20|nreads=1 +TTCTGCCAAAGGGCCAGCAA +>FBgn0000155_roo|coord=8655|strand +|size=25|nreads=1 TTTGGCAGAATGTTCACACATGAAA ->FBgn0000349_copia|658|R|22|n=1 +>FBgn0000349_copia|coord=658|strand -|size=22|nreads=1 TTCTCAAGAATCTGACGCGCCG ->FBgn0000349_copia|670|F|25|n=1 +>FBgn0000349_copia|coord=670|strand +|size=25|nreads=1 TTCTTGAGAATTTGGACGCCGTTTA ->FBgn0000349_copia|4628|F|20|n=1 +>FBgn0000349_copia|coord=4614|strand -|size=24|nreads=1 +TTGCAGCAAACCCAATTTGTCTCG +>FBgn0000349_copia|coord=4628|strand +|size=20|nreads=1 TTTGCTGCAAGACGACCAAT ->FBgn0000349_copia|4614|R|24|n=1 -TTGCAGCAAACCCAATTTGTCTCG ->FBgn0000652_F-element|1564|F|20|n=2 -TTTTCTCGAAAGCAGCAAGT ->FBgn0000652_F-element|1546|R|28|n=1 +>FBgn0000652_F-element|coord=1546|strand -|size=28|nreads=1 TTCGAGAAAATTACTTCAGGATTTGTCT ->FBgn0000652_F-element|1546|R|28|n=1 +>FBgn0000652_F-element|coord=1546|strand -|size=28|nreads=1 TTCGGGAAAATTACTTCAGGATTTGTCT ->FBgn0000652_F-element|1547|R|27|n=74 +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=1 +TTCGGGAAAATTACTTCAGGATTTGTC +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=1 +TTTGAGAAAATTACTTCAGGATTTGTC +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=74 TTCGAGAAAATTACTTCAGGATTTGTC ->FBgn0000652_F-element|1547|R|27|n=1 -TTCGGGAAAATTACTTCAGGATTTGTC ->FBgn0000652_F-element|1547|R|27|n=1 -TTTGAGAAAATTACTTCAGGATTTGTC ->FBgn0000652_F-element|1548|R|26|n=3 +>FBgn0000652_F-element|coord=1548|strand -|size=26|nreads=3 TTCGAGAAAATTACTTCAGGATTTGT ->FBgn0000652_F-element|1549|R|25|n=22 +>FBgn0000652_F-element|coord=1549|strand -|size=25|nreads=1 +TTCGGGAAAATTACTTCAGGATTTG +>FBgn0000652_F-element|coord=1549|strand -|size=25|nreads=22 TTCGAGAAAATTACTTCAGGATTTG ->FBgn0000652_F-element|1549|R|25|n=1 -TTCGGGAAAATTACTTCAGGATTTG ->FBgn0000652_F-element|1550|R|24|n=2 +>FBgn0000652_F-element|coord=1550|strand -|size=24|nreads=2 TTCGAGAAAATTACTTCAGGATTT ->FBgn0000652_F-element|1551|R|23|n=7 +>FBgn0000652_F-element|coord=1551|strand -|size=23|nreads=7 TTCGAGAAAATTACTTCAGGATT ->FBgn0000652_F-element|1554|R|20|n=1 +>FBgn0000652_F-element|coord=1554|strand -|size=20|nreads=1 TTCGAGAAAATTACTTCAGG ->FBgn0000652_F-element|1564|F|23|n=2 +>FBgn0000652_F-element|coord=1564|strand +|size=20|nreads=1 +TTTTCTCGAAAGCAGCTAGT +>FBgn0000652_F-element|coord=1564|strand +|size=20|nreads=2 +TTTTCTCGAAAGCAGCAAGT +>FBgn0000652_F-element|coord=1564|strand +|size=23|nreads=2 TTTTCTCGAAAGCAGCAAGTTTC ->FBgn0000652_F-element|1564|F|24|n=2 +>FBgn0000652_F-element|coord=1564|strand +|size=23|nreads=2 +TTTTCTCGAAAGCAGCTAGTTTC +>FBgn0000652_F-element|coord=1564|strand +|size=24|nreads=2 TTTTCTCGAAAGCAGCAAGTTTCG ->FBgn0000652_F-element|1564|F|23|n=2 -TTTTCTCGAAAGCAGCTAGTTTC ->FBgn0000652_F-element|1564|F|24|n=5 +>FBgn0000652_F-element|coord=1564|strand +|size=24|nreads=5 TTTTCTCGAAAGCAGCTAGTTTCG ->FBgn0000652_F-element|1564|F|25|n=1 +>FBgn0000652_F-element|coord=1564|strand +|size=25|nreads=1 TTTTCTCGAAAGCAGCTAGTTTCGC ->FBgn0000652_F-element|2248|F|20|n=1 -TTTCTTCCAAGCACTAGGGC ->FBgn0000652_F-element|2231|R|27|n=1 +>FBgn0000652_F-element|coord=2231|strand -|size=27|nreads=1 TTGGAAGAAATCCAGGAATTGAGCTTC ->FBgn0000652_F-element|2233|R|25|n=5 +>FBgn0000652_F-element|coord=2233|strand -|size=25|nreads=5 TTGGAAGAAATCCAGGAATTGAGCT ->FBgn0000652_F-element|2471|R|21|n=2 +>FBgn0000652_F-element|coord=2248|strand +|size=20|nreads=1 +TTTCTTCCAAGCACTAGGGC +>FBgn0000652_F-element|coord=2248|strand +|size=21|nreads=1 +TTTCTTCCAAGCACTAGGGCC +>FBgn0000652_F-element|coord=2471|strand -|size=21|nreads=2 TTTAACCAAACTGCGGGAAAT ->FBgn0000652_F-element|2482|F|23|n=2 +>FBgn0000652_F-element|coord=2472|strand -|size=20|nreads=1 +TTTAACCAAACTGCGGGAAA +>FBgn0000652_F-element|coord=2482|strand +|size=23|nreads=2 TTTGGTTAAAGCTGAATGTCTGC ->FBgn0000652_F-element|2482|F|24|n=2 +>FBgn0000652_F-element|coord=2482|strand +|size=24|nreads=2 TTTGGTTAAAGCTGAATGTCTGCC ->FBgn0000652_F-element|2482|F|26|n=3 +>FBgn0000652_F-element|coord=2482|strand +|size=26|nreads=3 TTTGGTTAAAGCTGAATGTCTGCCGG ->FBgn0000652_F-element|2482|F|27|n=1 +>FBgn0000652_F-element|coord=2482|strand +|size=27|nreads=1 TTTGGTTAAAGCTGAATGTCTGCCGGA ->FBgn0000652_F-element|3524|F|21|n=2 -TTTCGCGAAAGCCACGGAACC ->FBgn0000652_F-element|3507|R|27|n=1 +>FBgn0000652_F-element|coord=3507|strand -|size=27|nreads=1 TTTCGCGAAATCCAAATTGGTGGGCTG ->FBgn0000652_F-element|3509|R|25|n=6 +>FBgn0000652_F-element|coord=3509|strand -|size=25|nreads=6 TTTCGCGAAATCCAAATTGGTGGGC ->FBgn0000652_F-element|3510|R|24|n=1 +>FBgn0000652_F-element|coord=3510|strand -|size=24|nreads=1 TTTCGCGAAATCCAAATTGGTGGG ->FBgn0000652_F-element|3513|R|21|n=3 +>FBgn0000652_F-element|coord=3513|strand -|size=21|nreads=3 TTTCGCGAAATCCAAATTGGT ->FBgn0000652_F-element|3524|F|23|n=1 +>FBgn0000652_F-element|coord=3524|strand +|size=20|nreads=2 +TTTCGCGAAAGCCATGGAAC +>FBgn0000652_F-element|coord=3524|strand +|size=21|nreads=2 +TTTCGCGAAAGCCACGGAACC +>FBgn0000652_F-element|coord=3524|strand +|size=22|nreads=1 +TTTCGCGAAAGCCACGGAACCA +>FBgn0000652_F-element|coord=3524|strand +|size=23|nreads=1 TTTCGCGAAAGCCACGGAACCAT ->FBgn0000652_F-element|3524|F|27|n=1 -TTTCGCGAAAGCCACGGAACCATTGAA ->FBgn0000652_F-element|3524|F|24|n=1 +>FBgn0000652_F-element|coord=3524|strand +|size=24|nreads=1 TTTCGCGAAAGCCATGGAACCATT ->FBgn0000652_F-element|3524|F|26|n=1 +>FBgn0000652_F-element|coord=3524|strand +|size=26|nreads=1 TTTCGCGAAAGCCATGGAACCATTGA ->FBgn0002697_mdg1|4301|R|22|n=1 +>FBgn0000652_F-element|coord=3524|strand +|size=27|nreads=1 +TTTCGCGAAAGCCACGGAACCATTGAA +>FBgn0002697_mdg1|coord=4301|strand -|size=22|nreads=1 TTCTTTGGAAAGAATTTGGGGC ->FBgn0002697_mdg1|4313|F|25|n=1 +>FBgn0002697_mdg1|coord=4302|strand -|size=21|nreads=1 +TTCTTTGGAAAGAATTTGGGG +>FBgn0002697_mdg1|coord=4303|strand -|size=20|nreads=1 +TTCTTTGGAAAGAATTTGGG +>FBgn0002697_mdg1|coord=4313|strand +|size=25|nreads=1 TTCCAAAGAATGATGACCCTTGCAT ->FBgn0003007_opus|5558|F|21|n=1 -TTCCTAGAAATTTATCGTTGC ->FBgn0003007_opus|5540|R|28|n=1 +>FBgn0003007_opus|coord=5540|strand -|size=28|nreads=1 TTTCTAGGAACGTAGAATGGAATCTCTC ->FBgn0003007_opus|5540|R|28|n=1 +>FBgn0003007_opus|coord=5540|strand -|size=28|nreads=1 TTTCTAGGAACGTAGAGTGGAATCTCTC ->FBgn0003007_opus|5542|R|26|n=1 +>FBgn0003007_opus|coord=5542|strand -|size=26|nreads=1 TTTCTAGGAACGTAGAATGGAATCTC ->FBgn0003007_opus|5542|R|26|n=2 +>FBgn0003007_opus|coord=5542|strand -|size=26|nreads=2 TTTCTAGGAACGTAGAGTGGAATCTC ->FBgn0003007_opus|5543|R|25|n=1 +>FBgn0003007_opus|coord=5543|strand -|size=25|nreads=1 TTTCTAGGAACGTAGAGTGGAATCT ->FBgn0003007_opus|5544|R|24|n=7 +>FBgn0003007_opus|coord=5544|strand -|size=24|nreads=7 TTTCTAGGAACGTAGAGTGGAATC ->FBgn0003122_pogo|1819|F|22|n=1 -TTCTATGGAAGACAAGCTGTTT ->FBgn0003122_pogo|1804|R|25|n=1 +>FBgn0003007_opus|coord=5558|strand +|size=21|nreads=1 +TTCCTAGAAATTTATCGTTGC +>FBgn0003122_pogo|coord=1804|strand -|size=25|nreads=1 TTCCATAGAATTCAAGTTTTGCAAA ->FBgn0003122_pogo|1806|R|23|n=1 +>FBgn0003122_pogo|coord=1806|strand -|size=23|nreads=1 TTCCATAGAATTCAAGTTTTGCA ->FBgn0003908_R1A1-element|4690|F|22|n=1 -TTGGCGAAAACTAGATCTTCGA ->FBgn0003908_R1A1-element|4671|R|29|n=1 +>FBgn0003122_pogo|coord=1819|strand +|size=22|nreads=1 +TTCTATGGAAGACAAGCTGTTT +>FBgn0003908_R1A1-element|coord=4671|strand -|size=29|nreads=1 TTTTCGCCAAGGCGCTGCACTCCAAGTCC ->FBgn0003908_R1A1-element|4672|R|28|n=8 +>FBgn0003908_R1A1-element|coord=4672|strand -|size=28|nreads=8 TTTTCGCCAAGGCGCTGCACTCCAAGTC ->FBgn0003908_R1A1-element|4673|R|27|n=1 +>FBgn0003908_R1A1-element|coord=4673|strand -|size=27|nreads=1 TTTTCGCCAAGGCGCTGCACCCCAAGT ->FBgn0003908_R1A1-element|4673|R|27|n=4 +>FBgn0003908_R1A1-element|coord=4673|strand -|size=27|nreads=4 TTTTCGCCAAGGCGCTGCACTCCAAGT ->FBgn0003908_R1A1-element|4674|R|26|n=1 +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=1 TTTTCGCCAAGGCGCTGCACCCCAAG ->FBgn0003908_R1A1-element|4674|R|26|n=29 +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=1 +TTTTCGTCAAGGCGCTGCACTCCAAG +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=2 +TTTTCGCCAAGGCGCTGCACTTCAAG +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=29 TTTTCGCCAAGGCGCTGCACTCCAAG ->FBgn0003908_R1A1-element|4674|R|26|n=2 -TTTTCGCCAAGGCGCTGCACTTCAAG ->FBgn0003908_R1A1-element|4674|R|26|n=1 -TTTTCGTCAAGGCGCTGCACTCCAAG ->FBgn0003908_R1A1-element|4675|R|25|n=1 +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=1 TTTTCGCCAAGGCGCTGCACCCCAA ->FBgn0003908_R1A1-element|4675|R|25|n=10 +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=1 +TTTTCGCCAAGGCGCTGCACTTCAA +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=10 TTTTCGCCAAGGCGCTGCACTCCAA ->FBgn0003908_R1A1-element|4675|R|25|n=1 -TTTTCGCCAAGGCGCTGCACTTCAA ->FBgn0003908_R1A1-element|4676|R|24|n=21 +>FBgn0003908_R1A1-element|coord=4676|strand -|size=24|nreads=2 +TTTTCGCCAAGGCGCTGCACTTCA +>FBgn0003908_R1A1-element|coord=4676|strand -|size=24|nreads=21 TTTTCGCCAAGGCGCTGCACTCCA ->FBgn0003908_R1A1-element|4676|R|24|n=2 -TTTTCGCCAAGGCGCTGCACTTCA ->FBgn0003908_R1A1-element|4677|R|23|n=12 +>FBgn0003908_R1A1-element|coord=4677|strand -|size=23|nreads=12 TTTTCGCCAAGGCGCTGCACTCC ->FBgn0003908_R1A1-element|4678|R|22|n=18 +>FBgn0003908_R1A1-element|coord=4678|strand -|size=22|nreads=1 +TTTTCGCCAAGGCGCTGCACTT +>FBgn0003908_R1A1-element|coord=4678|strand -|size=22|nreads=18 TTTTCGCCAAGGCGCTGCACTC ->FBgn0003908_R1A1-element|4690|F|23|n=8 +>FBgn0003908_R1A1-element|coord=4679|strand -|size=21|nreads=1 +TTTTCGCCAAGGCGCTGCACC +>FBgn0003908_R1A1-element|coord=4679|strand -|size=21|nreads=6 +TTTTCGCCAAGGCGCTGCACT +>FBgn0003908_R1A1-element|coord=4680|strand -|size=20|nreads=4 +TTTTCGCCAAGGCGCTGCAC +>FBgn0003908_R1A1-element|coord=4690|strand +|size=20|nreads=2 +TTGGCGAAAACTGGATCTTC +>FBgn0003908_R1A1-element|coord=4690|strand +|size=21|nreads=6 +TTGGCGAAAACTGGATCTTCG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=22|nreads=1 +TTGGCGAAAACTAGATCTTCGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=22|nreads=8 +TTGGCGAAAACTGGATCTTCGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=23|nreads=8 TTGGCGAAAACTGGATCTTCGAG ->FBgn0003908_R1A1-element|4690|F|24|n=9 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=24|nreads=7 +TTGGCGAAAACTGGATCTTCGAGG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=24|nreads=9 TTGGCGAAAACTGGATCTTCGAGA ->FBgn0003908_R1A1-element|4690|F|25|n=11 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=25|nreads=11 TTGGCGAAAACTGGATCTTCGAGAG ->FBgn0003908_R1A1-element|4690|F|26|n=6 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=25|nreads=12 +TTGGCGAAAACTGGATCTTCGAGGG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=26|nreads=2 +TTGGCGAAAACTGGATCTTCGAGGGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=26|nreads=6 TTGGCGAAAACTGGATCTTCGAGAGA ->FBgn0003908_R1A1-element|4690|F|27|n=20 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=27|nreads=20 TTGGCGAAAACTGGATCTTCGAGAGAA ->FBgn0003908_R1A1-element|4690|F|28|n=4 +>FBgn0003908_R1A1-element|coord=4690|strand +|size=27|nreads=9 +TTGGCGAAAACTGGATCTTCGAGGGAA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=28|nreads=1 +TTGGCGAAAACTGGATCTTCGAGGGAAT +>FBgn0003908_R1A1-element|coord=4690|strand +|size=28|nreads=4 TTGGCGAAAACTGGATCTTCGAGAGAAT ->FBgn0003908_R1A1-element|4690|F|24|n=7 -TTGGCGAAAACTGGATCTTCGAGG ->FBgn0003908_R1A1-element|4690|F|25|n=12 -TTGGCGAAAACTGGATCTTCGAGGG ->FBgn0003908_R1A1-element|4690|F|26|n=2 -TTGGCGAAAACTGGATCTTCGAGGGA ->FBgn0003908_R1A1-element|4690|F|27|n=9 -TTGGCGAAAACTGGATCTTCGAGGGAA ->FBgn0003908_R1A1-element|4690|F|28|n=1 -TTGGCGAAAACTGGATCTTCGAGGGAAT ->FBgn0005673_1360|773|R|22|n=1 +>FBgn0005673_1360|coord=773|strand -|size=22|nreads=1 TTTTCGCAATCATTCCATCCTG ->FBgn0005673_1360|785|F|26|n=6 +>FBgn0005673_1360|coord=785|strand +|size=26|nreads=6 TTTGCGAAAAATTGTTTGCTCAGAGC ->FBgn0005673_1360|3197|R|22|n=1 +>FBgn0005673_1360|coord=3197|strand -|size=22|nreads=1 TTTGCTAGAAGACGATTTTCGG ->FBgn0005673_1360|3209|F|23|n=1 +>FBgn0005673_1360|coord=3209|strand +|size=23|nreads=1 TTCTAGCACAACACGCACACATA ->FBgn0005673_1360|3209|F|26|n=1 +>FBgn0005673_1360|coord=3209|strand +|size=26|nreads=1 TTCTAGCACAACACGCACACATATAC ->FBgn0005673_1360|3209|F|27|n=1 +>FBgn0005673_1360|coord=3209|strand +|size=27|nreads=1 TTCTAGCACAACACGCACACATATACG ->FBgn0010302_Burdock|3390|R|21|n=1 +>FBgn0010302_Burdock|coord=3390|strand -|size=21|nreads=1 TTTCATCGAAAGAAATTGGTA ->FBgn0010302_Burdock|3401|F|25|n=2 +>FBgn0010302_Burdock|coord=3401|strand +|size=25|nreads=2 TTCGATGAAAGACAATGTTCTGCTT ->FBgn0014947_flea|818|F|22|n=1 -TTCTAGAGAACGAAAGCGAGGA ->FBgn0014947_flea|801|R|27|n=4 +>FBgn0014947_flea|coord=801|strand -|size=27|nreads=4 TTCTCTAGAATTGCTTGTATTTGGTCG ->FBgn0014947_flea|802|R|26|n=11 +>FBgn0014947_flea|coord=802|strand -|size=26|nreads=11 TTCTCTAGAATTGCTTGTATTTGGTC ->FBgn0014947_flea|803|R|25|n=12 +>FBgn0014947_flea|coord=803|strand -|size=25|nreads=12 TTCTCTAGAATTGCTTGTATTTGGT ->FBgn0014947_flea|804|R|24|n=2 +>FBgn0014947_flea|coord=804|strand -|size=24|nreads=2 TTCTCTAGAATTGCTTGTATTTGG ->FBgn0014947_flea|805|R|23|n=1 +>FBgn0014947_flea|coord=805|strand -|size=23|nreads=1 TTCTCTAGAATTGCTTGTATTTG ->FBgn0014947_flea|1182|F|22|n=1 -TTTCTTAGAATCTGAATGTGTC ->FBgn0014947_flea|1164|R|28|n=2 +>FBgn0014947_flea|coord=818|strand +|size=22|nreads=1 +TTCTAGAGAACGAAAGCGAGGA +>FBgn0014947_flea|coord=1164|strand -|size=28|nreads=2 TTCTAAGAAAAGTTCTGCTGATCCAATC ->FBgn0014947_flea|1166|R|26|n=2 +>FBgn0014947_flea|coord=1166|strand -|size=26|nreads=2 TTCTAAGAAAAGTTCTGCTGATCCAA ->FBgn0014947_flea|1167|R|25|n=1 +>FBgn0014947_flea|coord=1167|strand -|size=25|nreads=1 TTCTAAGAAAAGTTCTGCTGATCCA ->FBgn0014947_flea|1168|R|24|n=1 +>FBgn0014947_flea|coord=1168|strand -|size=24|nreads=1 TTCTAAGAAAAGTTCTGCTGATCC ->FBgn0014947_flea|1169|R|23|n=1 +>FBgn0014947_flea|coord=1169|strand -|size=23|nreads=1 TTCTAAGAAAAGTTCTGCTGATC ->FBgn0014947_flea|2754|R|21|n=1 +>FBgn0014947_flea|coord=1182|strand +|size=22|nreads=1 +TTTCTTAGAATCTGAATGTGTC +>FBgn0014947_flea|coord=2754|strand -|size=21|nreads=1 TTTAGACCAAATTCTGCAGCT ->FBgn0014947_flea|2765|F|24|n=4 +>FBgn0014947_flea|coord=2765|strand +|size=24|nreads=4 TTGGTCTAAAAATAAAATGGAAGA ->FBgn0014947_flea|2765|F|25|n=1 +>FBgn0014947_flea|coord=2765|strand +|size=25|nreads=1 TTGGTCTAAAAATAAAATGGAAGAA ->FBgn0014947_flea|2765|F|26|n=1 +>FBgn0014947_flea|coord=2765|strand +|size=26|nreads=1 TTGGTCTAAAAATAAAATGGAAGAAG ->FBgn0014947_flea|2765|F|28|n=1 +>FBgn0014947_flea|coord=2765|strand +|size=28|nreads=1 TTGGTCTAAAAATAAAATGGAAGAAGTG ->FBgn0015945_GATE|3158|F|20|n=3 -TTCGTTCCAAATGAGCAAGC ->FBgn0015945_GATE|3140|R|28|n=9 +>FBgn0015945_GATE|coord=3140|strand -|size=28|nreads=9 TTGGAACGAAATTGGCCTGATTAGCGGA ->FBgn0015945_GATE|3141|R|27|n=4 +>FBgn0015945_GATE|coord=3141|strand -|size=27|nreads=4 TTGGAACGAAATTGGCCTGATTAGCGG ->FBgn0015945_GATE|3142|R|26|n=17 +>FBgn0015945_GATE|coord=3142|strand -|size=26|nreads=17 TTGGAACGAAATTGGCCTGATTAGCG ->FBgn0015945_GATE|3143|R|25|n=86 +>FBgn0015945_GATE|coord=3143|strand -|size=25|nreads=86 TTGGAACGAAATTGGCCTGATTAGC ->FBgn0015945_GATE|3144|R|24|n=17 +>FBgn0015945_GATE|coord=3144|strand -|size=24|nreads=17 TTGGAACGAAATTGGCCTGATTAG ->FBgn0015945_GATE|6234|R|22|n=1 +>FBgn0015945_GATE|coord=3158|strand +|size=20|nreads=3 +TTCGTTCCAAATGAGCAAGC +>FBgn0015945_GATE|coord=3158|strand +|size=21|nreads=1 +TTCGTTCCAAATGAGCAAGCC +>FBgn0015945_GATE|coord=3158|strand +|size=22|nreads=2 +TTCGTTCCAAATGAGCAAGCCG +>FBgn0015945_GATE|coord=6234|strand -|size=22|nreads=1 TTGAAGGAAATCGCGGGAAAGC ->FBgn0015945_GATE|6246|F|25|n=1 +>FBgn0015945_GATE|coord=6246|strand +|size=25|nreads=1 TTTCCTTCAAGCCGTAAAAGAGTCG ->FBgn0015945_GATE|6246|F|26|n=1 +>FBgn0015945_GATE|coord=6246|strand +|size=26|nreads=1 TTTCCTTCAAGCCGTAAAAGAGTCGG ->FBgn0042682_Rt1b|1075|R|21|n=1 +>FBgn0042682_Rt1b|coord=1075|strand -|size=21|nreads=1 TTCTTGGCGACAGATGCGTAG ->FBgn0042682_Rt1b|1086|F|23|n=1 +>FBgn0042682_Rt1b|coord=1076|strand -|size=20|nreads=1 +TTCTTGGCGACAGATGCGTA +>FBgn0042682_Rt1b|coord=1086|strand +|size=23|nreads=1 TTGCCAAGAATGCTAGCACGGGT ->FBgn0042682_Rt1b|2920|F|22|n=1 -TTGTTACCAAAAAGCTAAGGAG ->FBgn0042682_Rt1b|2902|R|28|n=1 +>FBgn0042682_Rt1b|coord=2902|strand -|size=28|nreads=1 TTGGTAACAAGCTTGTAGGCGAGGCCCC ->FBgn0042682_Rt1b|2903|R|27|n=1 +>FBgn0042682_Rt1b|coord=2903|strand -|size=27|nreads=1 TTGGTAACAAGCTTGTAGGCGAGGCCC ->FBgn0042682_Rt1b|2904|R|26|n=2 -TTGGTAACAAGCTTGTAGGCGAGGCC ->FBgn0042682_Rt1b|2904|R|26|n=1 +>FBgn0042682_Rt1b|coord=2904|strand -|size=26|nreads=1 TTGGTAACAAGCTTGTAGGCGAGTCC ->FBgn0042682_Rt1b|2905|R|25|n=2 -TTGGTAACAAGCTTGTAGGCGAGGC ->FBgn0042682_Rt1b|2905|R|25|n=1 +>FBgn0042682_Rt1b|coord=2904|strand -|size=26|nreads=2 +TTGGTAACAAGCTTGTAGGCGAGGCC +>FBgn0042682_Rt1b|coord=2905|strand -|size=25|nreads=1 TTGGTAACAAGCTTGTAGGCGAGGT ->FBgn0042682_Rt1b|2906|R|24|n=25 +>FBgn0042682_Rt1b|coord=2905|strand -|size=25|nreads=2 +TTGGTAACAAGCTTGTAGGCGAGGC +>FBgn0042682_Rt1b|coord=2906|strand -|size=24|nreads=25 TTGGTAACAAGCTTGTAGGCGAGG ->FBgn0042682_Rt1b|2907|R|23|n=1 +>FBgn0042682_Rt1b|coord=2907|strand -|size=23|nreads=1 TTGGTAACAAGCTTGGAGGCGAG ->FBgn0042682_Rt1b|2907|R|23|n=15 +>FBgn0042682_Rt1b|coord=2907|strand -|size=23|nreads=15 TTGGTAACAAGCTTGTAGGCGAG ->FBgn0042682_Rt1b|2908|R|22|n=1 +>FBgn0042682_Rt1b|coord=2908|strand -|size=22|nreads=1 TTGGTAACAAGCTTGTAGGCGA ->FBgn0042682_Rt1b|2920|F|23|n=1 +>FBgn0042682_Rt1b|coord=2909|strand -|size=21|nreads=6 +TTGGTAACAAGCTTGTAGGCG +>FBgn0042682_Rt1b|coord=2920|strand +|size=22|nreads=1 +TTGTTACCAAAAAGCTAAGGAG +>FBgn0042682_Rt1b|coord=2920|strand +|size=23|nreads=1 TTGTTACCAAAAAGCTAAGGAGG ->FBgn0042682_Rt1b|2920|F|25|n=1 -TTGTTACCAAAAAGCTAAGGAGGAG ->FBgn0042682_Rt1b|2920|F|26|n=1 -TTGTTACCAAAAAGCTAAGGAGGAGA ->FBgn0042682_Rt1b|2920|F|27|n=1 -TTGTTACCAAAAAGCTAAGGAGGAGAG ->FBgn0042682_Rt1b|2920|F|23|n=1 +>FBgn0042682_Rt1b|coord=2920|strand +|size=23|nreads=1 TTGTTACCAACAAGCTAAGGAGG ->FBgn0042682_Rt1b|2920|F|24|n=2 +>FBgn0042682_Rt1b|coord=2920|strand +|size=24|nreads=2 TTGTTACCAACAAGCTAAGGAGGA ->FBgn0042682_Rt1b|4364|R|22|n=1 +>FBgn0042682_Rt1b|coord=2920|strand +|size=25|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAG +>FBgn0042682_Rt1b|coord=2920|strand +|size=26|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAGA +>FBgn0042682_Rt1b|coord=2920|strand +|size=27|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAGAG +>FBgn0042682_Rt1b|coord=4364|strand -|size=22|nreads=1 TTGCCTGGAAGCGCCACTCCGC ->FBgn0042682_Rt1b|4376|F|24|n=1 +>FBgn0042682_Rt1b|coord=4365|strand -|size=21|nreads=1 +TTGCCTGGAAGCGCCACTCCG +>FBgn0042682_Rt1b|coord=4366|strand -|size=20|nreads=4 +TTGCCTGGAAGCGCCACTCC +>FBgn0042682_Rt1b|coord=4376|strand +|size=24|nreads=1 TTCCAGGCAAGAGGCACACGAGTG ->FBgn0042682_Rt1b|4376|F|26|n=1 +>FBgn0042682_Rt1b|coord=4376|strand +|size=26|nreads=1 TTCCAGGCAAGAGGCACACGAGTGGC ->FBgn0062343_Dm88|4210|R|21|n=1 +>FBgn0062343_Dm88|coord=4210|strand -|size=21|nreads=1 TTGGTTAGAACATCTGCCATC ->FBgn0062343_Dm88|4221|F|24|n=1 +>FBgn0062343_Dm88|coord=4221|strand +|size=24|nreads=1 TTCTAACCAAGAATTTGAATAGAT ->FBgn0063427_invader4|707|F|22|n=2 +>FBgn0063427_invader4|coord=691|strand -|size=26|nreads=15 +TTCCTACGAATCGCTGTATGAACAGT +>FBgn0063427_invader4|coord=707|strand +|size=22|nreads=2 TTCGTAGGAATGGAGACGTCGG ->FBgn0063427_invader4|691|R|26|n=15 -TTCCTACGAATCGCTGTATGAACAGT ->FBgn0063428_invader3|440|F|22|n=2 +>FBgn0063428_invader3|coord=425|strand -|size=25|nreads=1 +TTCTGGGGAAATGGCCTGCAGACGC +>FBgn0063428_invader3|coord=427|strand -|size=23|nreads=1 +TTCTGGGGAAATGGCCTGCAGAC +>FBgn0063428_invader3|coord=440|strand +|size=22|nreads=2 TTCCCCAGAAACGCGTGGCGAT ->FBgn0063428_invader3|425|R|25|n=1 -TTCTGGGGAAATGGCCTGCAGACGC ->FBgn0063428_invader3|427|R|23|n=1 -TTCTGGGGAAATGGCCTGCAGAC ->FBgn0063430_invader1|2082|R|20|n=1 +>FBgn0063430_invader1|coord=2082|strand -|size=20|nreads=1 TTTTATCGAACCAATAGAAC ->FBgn0063430_invader1|2092|F|24|n=1 +>FBgn0063430_invader1|coord=2092|strand +|size=24|nreads=1 TTCGATAAAATGTCTAAGTATGTT ->FBgn0063430_invader1|2092|F|26|n=1 +>FBgn0063430_invader1|coord=2092|strand +|size=26|nreads=1 TTCGATAAAATGTCTAAGTATGTTCG ->FBgn0063433_gypsy4|3058|F|22|n=1 +>FBgn0063433_gypsy4|coord=3040|strand -|size=28|nreads=1 +TTTTGAAGAACTTGGATTTTTCTTGAGA +>FBgn0063433_gypsy4|coord=3044|strand -|size=24|nreads=1 +TTTTGAAGAACTTGGATTTTTCTT +>FBgn0063433_gypsy4|coord=3058|strand +|size=22|nreads=1 TTCTTCAAAAAGAGCGTGGAAT ->FBgn0063433_gypsy4|3040|R|28|n=1 -TTTTGAAGAACTTGGATTTTTCTTGAGA ->FBgn0063433_gypsy4|3044|R|24|n=1 -TTTTGAAGAACTTGGATTTTTCTT ->FBgn0063440_baggins|5170|F|21|n=1 +>FBgn0063440_baggins|coord=5154|strand -|size=26|nreads=1 +TTTTGTGCAAATGGCTGTGAAGTCGG +>FBgn0063440_baggins|coord=5170|strand +|size=21|nreads=1 TTGCACAAAATTGGCATTGCA ->FBgn0063440_baggins|5154|R|26|n=1 -TTTTGTGCAAATGGCTGTGAAGTCGG ->FBgn0063919_Max-element|3887|R|21|n=2 +>FBgn0063919_Max-element|coord=3887|strand -|size=21|nreads=2 TTGCTGAGAAGCGTGTTGAGC ->FBgn0063919_Max-element|3898|F|23|n=1 +>FBgn0063919_Max-element|coord=3898|strand +|size=23|nreads=1 TTCTCAGCAAGTTCTGGGAGGTG ->FBgn0063919_Max-element|3898|F|24|n=2 -TTCTCAGCAAGTTCTGGGAGGTGG ->FBgn0063919_Max-element|3898|F|25|n=1 -TTCTCAGCAAGTTCTGGGAGGTGGA ->FBgn0063919_Max-element|3898|F|24|n=1 +>FBgn0063919_Max-element|coord=3898|strand +|size=24|nreads=1 TTCTCAGCAAGTTCTGGGAGGTGT ->FBgn0067385_invader6|3024|F|21|n=1 -TTGACTAGAATGACTTAGACT ->FBgn0067385_invader6|3007|R|27|n=4 +>FBgn0063919_Max-element|coord=3898|strand +|size=24|nreads=2 +TTCTCAGCAAGTTCTGGGAGGTGG +>FBgn0063919_Max-element|coord=3898|strand +|size=25|nreads=1 +TTCTCAGCAAGTTCTGGGAGGTGGA +>FBgn0067385_invader6|coord=3007|strand -|size=27|nreads=4 TTCTAGTCAAAGTCGAAGGACTGCATA ->FBgn0067385_invader6|3008|R|26|n=3 +>FBgn0067385_invader6|coord=3008|strand -|size=26|nreads=3 TTCTAGTCAAAGTCGAAGGACTGCAT ->FBgn0067385_invader6|3009|R|25|n=5 +>FBgn0067385_invader6|coord=3009|strand -|size=25|nreads=5 TTCTAGTCAAAGTCGAAGGACTGCA ->FBgn0067385_invader6|3010|R|24|n=4 +>FBgn0067385_invader6|coord=3010|strand -|size=24|nreads=4 TTCTAGTCAAAGTCGAAGGACTGC ->FBgn0067385_invader6|3011|R|23|n=1 +>FBgn0067385_invader6|coord=3011|strand -|size=23|nreads=1 TTCTAGTCAAAGTCGAAGGACTG ->FBgn0067385_invader6|3014|R|20|n=1 +>FBgn0067385_invader6|coord=3014|strand -|size=20|nreads=1 TTCTAGTCAAAGTCGAAGGA ->FBgn0067385_invader6|3024|F|26|n=1 +>FBgn0067385_invader6|coord=3024|strand +|size=21|nreads=1 +TTGACTAGAATGACTTAGACT +>FBgn0067385_invader6|coord=3024|strand +|size=26|nreads=1 TTGACTAGAATGACTTAGACTTAGAA ->FBgn0067624_BS3|1016|R|20|n=1 +>FBgn0067624_BS3|coord=1016|strand -|size=20|nreads=1 TTGATGCCAATGTTCCAACG ->FBgn0067624_BS3|1026|F|26|n=1 +>FBgn0067624_BS3|coord=1026|strand +|size=24|nreads=1 +TTGGCATCAATGGTGACAAATCTG +>FBgn0067624_BS3|coord=1026|strand +|size=25|nreads=1 +TTGGCATCAATGGTGACAAATCTGC +>FBgn0067624_BS3|coord=1026|strand +|size=26|nreads=1 TTGGCATCAATGGTGACAAATCAGCG ->FBgn0067624_BS3|1026|F|24|n=1 -TTGGCATCAATGGTGACAAATCTG ->FBgn0067624_BS3|1026|F|25|n=1 -TTGGCATCAATGGTGACAAATCTGC diff -r 20d28cfdeefe -r a7fd04208764 test-data/paired_3.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/paired_3.fa Sat Sep 09 11:57:39 2017 -0400 @@ -0,0 +1,416 @@ +>FBgn0000004_17.6|coord=5844|strand -|size=21|nreads=1 +TTTTCGTCAAGTGTGCTAAAT +>FBgn0000004_17.6|coord=5855|strand +|size=23|nreads=1 +TTGACGAAAATGATCGAGTGGAT +>FBgn0000005_297|coord=1334|strand -|size=23|nreads=1 +TTTTGCGCAATGGTAATTAAGGA +>FBgn0000005_297|coord=1347|strand +|size=21|nreads=1 +TTGCACAAAATGAGGGAATTT +>FBgn0000007_1731|coord=4545|strand -|size=20|nreads=1 +TTGAGAGCAAAGGCCGAATG +>FBgn0000007_1731|coord=4555|strand +|size=24|nreads=1 +TTGCTCTCAATGCGCTGAGTTTGG +>FBgn0000155_roo|coord=2682|strand -|size=20|nreads=2 +TTTTTACCAAACGGATGCCT +>FBgn0000155_roo|coord=2692|strand +|size=24|nreads=1 +TTGGTAAAAAATGTATAAGTGAGC +>FBgn0000155_roo|coord=2692|strand +|size=27|nreads=1 +TTGGTAAAAAATGTATAAGTGAGCAGC +>FBgn0000155_roo|coord=3225|strand -|size=26|nreads=1 +TTTTGCCCAAGGAGACCGTCTATTTT +>FBgn0000155_roo|coord=3226|strand -|size=25|nreads=1 +TTTTGCCCAAGGAGACCGTCTATTT +>FBgn0000155_roo|coord=3227|strand -|size=24|nreads=2 +TTTTGCCCAAGGAGACCGTCTATT +>FBgn0000155_roo|coord=3228|strand -|size=23|nreads=1 +TTTTGCCCAAGGAGACCGTCTAT +>FBgn0000155_roo|coord=3229|strand -|size=22|nreads=2 +TTTTGCCCAAGGAGACCGTCTA +>FBgn0000155_roo|coord=3230|strand -|size=21|nreads=1 +TTTTGCCCAAGGAGACCGTCT +>FBgn0000155_roo|coord=3231|strand -|size=20|nreads=2 +TTTTGCCCAAGGAGACCGTC +>FBgn0000155_roo|coord=3241|strand +|size=20|nreads=1 +TTGGGCAAAAAACTGATTTC +>FBgn0000155_roo|coord=3241|strand +|size=24|nreads=1 +TTGGGCAAAAAACTGATTTCGGGT +>FBgn0000155_roo|coord=3241|strand +|size=27|nreads=1 +TTGGGCAAAAAACTGATTTCGGGTGGA +>FBgn0000155_roo|coord=3241|strand +|size=28|nreads=1 +TTGGGCAAAAAACTGATTTCGGGTGGAT +>FBgn0000155_roo|coord=8644|strand -|size=21|nreads=1 +TTCTGCCAAAGGGCCAGCAAG +>FBgn0000155_roo|coord=8645|strand -|size=20|nreads=1 +TTCTGCCAAAGGGCCAGCAA +>FBgn0000155_roo|coord=8655|strand +|size=25|nreads=1 +TTTGGCAGAATGTTCACACATGAAA +>FBgn0000349_copia|coord=658|strand -|size=22|nreads=1 +TTCTCAAGAATCTGACGCGCCG +>FBgn0000349_copia|coord=670|strand +|size=25|nreads=1 +TTCTTGAGAATTTGGACGCCGTTTA +>FBgn0000349_copia|coord=4614|strand -|size=24|nreads=1 +TTGCAGCAAACCCAATTTGTCTCG +>FBgn0000349_copia|coord=4628|strand +|size=20|nreads=1 +TTTGCTGCAAGACGACCAAT +>FBgn0000652_F-element|coord=1546|strand -|size=28|nreads=1 +TTCGAGAAAATTACTTCAGGATTTGTCT +>FBgn0000652_F-element|coord=1546|strand -|size=28|nreads=1 +TTCGGGAAAATTACTTCAGGATTTGTCT +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=1 +TTCGGGAAAATTACTTCAGGATTTGTC +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=1 +TTTGAGAAAATTACTTCAGGATTTGTC +>FBgn0000652_F-element|coord=1547|strand -|size=27|nreads=74 +TTCGAGAAAATTACTTCAGGATTTGTC +>FBgn0000652_F-element|coord=1548|strand -|size=26|nreads=3 +TTCGAGAAAATTACTTCAGGATTTGT +>FBgn0000652_F-element|coord=1549|strand -|size=25|nreads=1 +TTCGGGAAAATTACTTCAGGATTTG +>FBgn0000652_F-element|coord=1549|strand -|size=25|nreads=22 +TTCGAGAAAATTACTTCAGGATTTG +>FBgn0000652_F-element|coord=1550|strand -|size=24|nreads=2 +TTCGAGAAAATTACTTCAGGATTT +>FBgn0000652_F-element|coord=1551|strand -|size=23|nreads=7 +TTCGAGAAAATTACTTCAGGATT +>FBgn0000652_F-element|coord=1554|strand -|size=20|nreads=1 +TTCGAGAAAATTACTTCAGG +>FBgn0000652_F-element|coord=1564|strand +|size=20|nreads=1 +TTTTCTCGAAAGCAGCTAGT +>FBgn0000652_F-element|coord=1564|strand +|size=20|nreads=2 +TTTTCTCGAAAGCAGCAAGT +>FBgn0000652_F-element|coord=1564|strand +|size=23|nreads=2 +TTTTCTCGAAAGCAGCAAGTTTC +>FBgn0000652_F-element|coord=1564|strand +|size=23|nreads=2 +TTTTCTCGAAAGCAGCTAGTTTC +>FBgn0000652_F-element|coord=1564|strand +|size=24|nreads=2 +TTTTCTCGAAAGCAGCAAGTTTCG +>FBgn0000652_F-element|coord=1564|strand +|size=24|nreads=5 +TTTTCTCGAAAGCAGCTAGTTTCG +>FBgn0000652_F-element|coord=1564|strand +|size=25|nreads=1 +TTTTCTCGAAAGCAGCTAGTTTCGC +>FBgn0000652_F-element|coord=2231|strand -|size=27|nreads=1 +TTGGAAGAAATCCAGGAATTGAGCTTC +>FBgn0000652_F-element|coord=2233|strand -|size=25|nreads=5 +TTGGAAGAAATCCAGGAATTGAGCT +>FBgn0000652_F-element|coord=2248|strand +|size=20|nreads=1 +TTTCTTCCAAGCACTAGGGC +>FBgn0000652_F-element|coord=2248|strand +|size=21|nreads=1 +TTTCTTCCAAGCACTAGGGCC +>FBgn0000652_F-element|coord=2471|strand -|size=21|nreads=2 +TTTAACCAAACTGCGGGAAAT +>FBgn0000652_F-element|coord=2472|strand -|size=20|nreads=1 +TTTAACCAAACTGCGGGAAA +>FBgn0000652_F-element|coord=2482|strand +|size=23|nreads=2 +TTTGGTTAAAGCTGAATGTCTGC +>FBgn0000652_F-element|coord=2482|strand +|size=24|nreads=2 +TTTGGTTAAAGCTGAATGTCTGCC +>FBgn0000652_F-element|coord=2482|strand +|size=26|nreads=3 +TTTGGTTAAAGCTGAATGTCTGCCGG +>FBgn0000652_F-element|coord=2482|strand +|size=27|nreads=1 +TTTGGTTAAAGCTGAATGTCTGCCGGA +>FBgn0000652_F-element|coord=3507|strand -|size=27|nreads=1 +TTTCGCGAAATCCAAATTGGTGGGCTG +>FBgn0000652_F-element|coord=3509|strand -|size=25|nreads=6 +TTTCGCGAAATCCAAATTGGTGGGC +>FBgn0000652_F-element|coord=3510|strand -|size=24|nreads=1 +TTTCGCGAAATCCAAATTGGTGGG +>FBgn0000652_F-element|coord=3513|strand -|size=21|nreads=3 +TTTCGCGAAATCCAAATTGGT +>FBgn0000652_F-element|coord=3524|strand +|size=20|nreads=2 +TTTCGCGAAAGCCATGGAAC +>FBgn0000652_F-element|coord=3524|strand +|size=21|nreads=2 +TTTCGCGAAAGCCACGGAACC +>FBgn0000652_F-element|coord=3524|strand +|size=22|nreads=1 +TTTCGCGAAAGCCACGGAACCA +>FBgn0000652_F-element|coord=3524|strand +|size=23|nreads=1 +TTTCGCGAAAGCCACGGAACCAT +>FBgn0000652_F-element|coord=3524|strand +|size=24|nreads=1 +TTTCGCGAAAGCCATGGAACCATT +>FBgn0000652_F-element|coord=3524|strand +|size=26|nreads=1 +TTTCGCGAAAGCCATGGAACCATTGA +>FBgn0000652_F-element|coord=3524|strand +|size=27|nreads=1 +TTTCGCGAAAGCCACGGAACCATTGAA +>FBgn0002697_mdg1|coord=4301|strand -|size=22|nreads=1 +TTCTTTGGAAAGAATTTGGGGC +>FBgn0002697_mdg1|coord=4302|strand -|size=21|nreads=1 +TTCTTTGGAAAGAATTTGGGG +>FBgn0002697_mdg1|coord=4303|strand -|size=20|nreads=1 +TTCTTTGGAAAGAATTTGGG +>FBgn0002697_mdg1|coord=4313|strand +|size=25|nreads=1 +TTCCAAAGAATGATGACCCTTGCAT +>FBgn0003007_opus|coord=5540|strand -|size=28|nreads=1 +TTTCTAGGAACGTAGAATGGAATCTCTC +>FBgn0003007_opus|coord=5540|strand -|size=28|nreads=1 +TTTCTAGGAACGTAGAGTGGAATCTCTC +>FBgn0003007_opus|coord=5542|strand -|size=26|nreads=1 +TTTCTAGGAACGTAGAATGGAATCTC +>FBgn0003007_opus|coord=5542|strand -|size=26|nreads=2 +TTTCTAGGAACGTAGAGTGGAATCTC +>FBgn0003007_opus|coord=5543|strand -|size=25|nreads=1 +TTTCTAGGAACGTAGAGTGGAATCT +>FBgn0003007_opus|coord=5544|strand -|size=24|nreads=7 +TTTCTAGGAACGTAGAGTGGAATC +>FBgn0003007_opus|coord=5558|strand +|size=21|nreads=1 +TTCCTAGAAATTTATCGTTGC +>FBgn0003122_pogo|coord=1804|strand -|size=25|nreads=1 +TTCCATAGAATTCAAGTTTTGCAAA +>FBgn0003122_pogo|coord=1806|strand -|size=23|nreads=1 +TTCCATAGAATTCAAGTTTTGCA +>FBgn0003122_pogo|coord=1819|strand +|size=22|nreads=1 +TTCTATGGAAGACAAGCTGTTT +>FBgn0003908_R1A1-element|coord=4671|strand -|size=29|nreads=1 +TTTTCGCCAAGGCGCTGCACTCCAAGTCC +>FBgn0003908_R1A1-element|coord=4672|strand -|size=28|nreads=8 +TTTTCGCCAAGGCGCTGCACTCCAAGTC +>FBgn0003908_R1A1-element|coord=4673|strand -|size=27|nreads=1 +TTTTCGCCAAGGCGCTGCACCCCAAGT +>FBgn0003908_R1A1-element|coord=4673|strand -|size=27|nreads=4 +TTTTCGCCAAGGCGCTGCACTCCAAGT +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=1 +TTTTCGCCAAGGCGCTGCACCCCAAG +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=1 +TTTTCGTCAAGGCGCTGCACTCCAAG +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=2 +TTTTCGCCAAGGCGCTGCACTTCAAG +>FBgn0003908_R1A1-element|coord=4674|strand -|size=26|nreads=29 +TTTTCGCCAAGGCGCTGCACTCCAAG +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=1 +TTTTCGCCAAGGCGCTGCACCCCAA +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=1 +TTTTCGCCAAGGCGCTGCACTTCAA +>FBgn0003908_R1A1-element|coord=4675|strand -|size=25|nreads=10 +TTTTCGCCAAGGCGCTGCACTCCAA +>FBgn0003908_R1A1-element|coord=4676|strand -|size=24|nreads=2 +TTTTCGCCAAGGCGCTGCACTTCA +>FBgn0003908_R1A1-element|coord=4676|strand -|size=24|nreads=21 +TTTTCGCCAAGGCGCTGCACTCCA +>FBgn0003908_R1A1-element|coord=4677|strand -|size=23|nreads=12 +TTTTCGCCAAGGCGCTGCACTCC +>FBgn0003908_R1A1-element|coord=4678|strand -|size=22|nreads=1 +TTTTCGCCAAGGCGCTGCACTT +>FBgn0003908_R1A1-element|coord=4678|strand -|size=22|nreads=18 +TTTTCGCCAAGGCGCTGCACTC +>FBgn0003908_R1A1-element|coord=4679|strand -|size=21|nreads=1 +TTTTCGCCAAGGCGCTGCACC +>FBgn0003908_R1A1-element|coord=4679|strand -|size=21|nreads=6 +TTTTCGCCAAGGCGCTGCACT +>FBgn0003908_R1A1-element|coord=4680|strand -|size=20|nreads=4 +TTTTCGCCAAGGCGCTGCAC +>FBgn0003908_R1A1-element|coord=4690|strand +|size=20|nreads=2 +TTGGCGAAAACTGGATCTTC +>FBgn0003908_R1A1-element|coord=4690|strand +|size=21|nreads=6 +TTGGCGAAAACTGGATCTTCG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=22|nreads=1 +TTGGCGAAAACTAGATCTTCGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=22|nreads=8 +TTGGCGAAAACTGGATCTTCGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=23|nreads=8 +TTGGCGAAAACTGGATCTTCGAG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=24|nreads=7 +TTGGCGAAAACTGGATCTTCGAGG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=24|nreads=9 +TTGGCGAAAACTGGATCTTCGAGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=25|nreads=11 +TTGGCGAAAACTGGATCTTCGAGAG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=25|nreads=12 +TTGGCGAAAACTGGATCTTCGAGGG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=26|nreads=2 +TTGGCGAAAACTGGATCTTCGAGGGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=26|nreads=6 +TTGGCGAAAACTGGATCTTCGAGAGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=27|nreads=20 +TTGGCGAAAACTGGATCTTCGAGAGAA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=27|nreads=9 +TTGGCGAAAACTGGATCTTCGAGGGAA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=28|nreads=1 +TTGGCGAAAACTGGATCTTCGAGGGAAT +>FBgn0003908_R1A1-element|coord=4690|strand +|size=28|nreads=4 +TTGGCGAAAACTGGATCTTCGAGAGAAT +>FBgn0005673_1360|coord=773|strand -|size=22|nreads=1 +TTTTCGCAATCATTCCATCCTG +>FBgn0005673_1360|coord=785|strand +|size=26|nreads=6 +TTTGCGAAAAATTGTTTGCTCAGAGC +>FBgn0005673_1360|coord=3197|strand -|size=22|nreads=1 +TTTGCTAGAAGACGATTTTCGG +>FBgn0005673_1360|coord=3209|strand +|size=23|nreads=1 +TTCTAGCACAACACGCACACATA +>FBgn0005673_1360|coord=3209|strand +|size=26|nreads=1 +TTCTAGCACAACACGCACACATATAC +>FBgn0005673_1360|coord=3209|strand +|size=27|nreads=1 +TTCTAGCACAACACGCACACATATACG +>FBgn0010302_Burdock|coord=3390|strand -|size=21|nreads=1 +TTTCATCGAAAGAAATTGGTA +>FBgn0010302_Burdock|coord=3401|strand +|size=25|nreads=2 +TTCGATGAAAGACAATGTTCTGCTT +>FBgn0014947_flea|coord=801|strand -|size=27|nreads=4 +TTCTCTAGAATTGCTTGTATTTGGTCG +>FBgn0014947_flea|coord=802|strand -|size=26|nreads=11 +TTCTCTAGAATTGCTTGTATTTGGTC +>FBgn0014947_flea|coord=803|strand -|size=25|nreads=12 +TTCTCTAGAATTGCTTGTATTTGGT +>FBgn0014947_flea|coord=804|strand -|size=24|nreads=2 +TTCTCTAGAATTGCTTGTATTTGG +>FBgn0014947_flea|coord=805|strand -|size=23|nreads=1 +TTCTCTAGAATTGCTTGTATTTG +>FBgn0014947_flea|coord=818|strand +|size=22|nreads=1 +TTCTAGAGAACGAAAGCGAGGA +>FBgn0014947_flea|coord=1164|strand -|size=28|nreads=2 +TTCTAAGAAAAGTTCTGCTGATCCAATC +>FBgn0014947_flea|coord=1166|strand -|size=26|nreads=2 +TTCTAAGAAAAGTTCTGCTGATCCAA +>FBgn0014947_flea|coord=1167|strand -|size=25|nreads=1 +TTCTAAGAAAAGTTCTGCTGATCCA +>FBgn0014947_flea|coord=1168|strand -|size=24|nreads=1 +TTCTAAGAAAAGTTCTGCTGATCC +>FBgn0014947_flea|coord=1169|strand -|size=23|nreads=1 +TTCTAAGAAAAGTTCTGCTGATC +>FBgn0014947_flea|coord=1182|strand +|size=22|nreads=1 +TTTCTTAGAATCTGAATGTGTC +>FBgn0014947_flea|coord=2754|strand -|size=21|nreads=1 +TTTAGACCAAATTCTGCAGCT +>FBgn0014947_flea|coord=2765|strand +|size=24|nreads=4 +TTGGTCTAAAAATAAAATGGAAGA +>FBgn0014947_flea|coord=2765|strand +|size=25|nreads=1 +TTGGTCTAAAAATAAAATGGAAGAA +>FBgn0014947_flea|coord=2765|strand +|size=26|nreads=1 +TTGGTCTAAAAATAAAATGGAAGAAG +>FBgn0014947_flea|coord=2765|strand +|size=28|nreads=1 +TTGGTCTAAAAATAAAATGGAAGAAGTG +>FBgn0015945_GATE|coord=3140|strand -|size=28|nreads=9 +TTGGAACGAAATTGGCCTGATTAGCGGA +>FBgn0015945_GATE|coord=3141|strand -|size=27|nreads=4 +TTGGAACGAAATTGGCCTGATTAGCGG +>FBgn0015945_GATE|coord=3142|strand -|size=26|nreads=17 +TTGGAACGAAATTGGCCTGATTAGCG +>FBgn0015945_GATE|coord=3143|strand -|size=25|nreads=86 +TTGGAACGAAATTGGCCTGATTAGC +>FBgn0015945_GATE|coord=3144|strand -|size=24|nreads=17 +TTGGAACGAAATTGGCCTGATTAG +>FBgn0015945_GATE|coord=3158|strand +|size=20|nreads=3 +TTCGTTCCAAATGAGCAAGC +>FBgn0015945_GATE|coord=3158|strand +|size=21|nreads=1 +TTCGTTCCAAATGAGCAAGCC +>FBgn0015945_GATE|coord=3158|strand +|size=22|nreads=2 +TTCGTTCCAAATGAGCAAGCCG +>FBgn0015945_GATE|coord=6234|strand -|size=22|nreads=1 +TTGAAGGAAATCGCGGGAAAGC +>FBgn0015945_GATE|coord=6246|strand +|size=25|nreads=1 +TTTCCTTCAAGCCGTAAAAGAGTCG +>FBgn0015945_GATE|coord=6246|strand +|size=26|nreads=1 +TTTCCTTCAAGCCGTAAAAGAGTCGG +>FBgn0042682_Rt1b|coord=1075|strand -|size=21|nreads=1 +TTCTTGGCGACAGATGCGTAG +>FBgn0042682_Rt1b|coord=1076|strand -|size=20|nreads=1 +TTCTTGGCGACAGATGCGTA +>FBgn0042682_Rt1b|coord=1086|strand +|size=23|nreads=1 +TTGCCAAGAATGCTAGCACGGGT +>FBgn0042682_Rt1b|coord=2902|strand -|size=28|nreads=1 +TTGGTAACAAGCTTGTAGGCGAGGCCCC +>FBgn0042682_Rt1b|coord=2903|strand -|size=27|nreads=1 +TTGGTAACAAGCTTGTAGGCGAGGCCC +>FBgn0042682_Rt1b|coord=2904|strand -|size=26|nreads=1 +TTGGTAACAAGCTTGTAGGCGAGTCC +>FBgn0042682_Rt1b|coord=2904|strand -|size=26|nreads=2 +TTGGTAACAAGCTTGTAGGCGAGGCC +>FBgn0042682_Rt1b|coord=2905|strand -|size=25|nreads=1 +TTGGTAACAAGCTTGTAGGCGAGGT +>FBgn0042682_Rt1b|coord=2905|strand -|size=25|nreads=2 +TTGGTAACAAGCTTGTAGGCGAGGC +>FBgn0042682_Rt1b|coord=2906|strand -|size=24|nreads=25 +TTGGTAACAAGCTTGTAGGCGAGG +>FBgn0042682_Rt1b|coord=2907|strand -|size=23|nreads=1 +TTGGTAACAAGCTTGGAGGCGAG +>FBgn0042682_Rt1b|coord=2907|strand -|size=23|nreads=15 +TTGGTAACAAGCTTGTAGGCGAG +>FBgn0042682_Rt1b|coord=2908|strand -|size=22|nreads=1 +TTGGTAACAAGCTTGTAGGCGA +>FBgn0042682_Rt1b|coord=2909|strand -|size=21|nreads=6 +TTGGTAACAAGCTTGTAGGCG +>FBgn0042682_Rt1b|coord=2920|strand +|size=22|nreads=1 +TTGTTACCAAAAAGCTAAGGAG +>FBgn0042682_Rt1b|coord=2920|strand +|size=23|nreads=1 +TTGTTACCAAAAAGCTAAGGAGG +>FBgn0042682_Rt1b|coord=2920|strand +|size=23|nreads=1 +TTGTTACCAACAAGCTAAGGAGG +>FBgn0042682_Rt1b|coord=2920|strand +|size=24|nreads=2 +TTGTTACCAACAAGCTAAGGAGGA +>FBgn0042682_Rt1b|coord=2920|strand +|size=25|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAG +>FBgn0042682_Rt1b|coord=2920|strand +|size=26|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAGA +>FBgn0042682_Rt1b|coord=2920|strand +|size=27|nreads=1 +TTGTTACCAAAAAGCTAAGGAGGAGAG +>FBgn0042682_Rt1b|coord=4364|strand -|size=22|nreads=1 +TTGCCTGGAAGCGCCACTCCGC +>FBgn0042682_Rt1b|coord=4365|strand -|size=21|nreads=1 +TTGCCTGGAAGCGCCACTCCG +>FBgn0042682_Rt1b|coord=4366|strand -|size=20|nreads=4 +TTGCCTGGAAGCGCCACTCC +>FBgn0042682_Rt1b|coord=4376|strand +|size=24|nreads=1 +TTCCAGGCAAGAGGCACACGAGTG +>FBgn0042682_Rt1b|coord=4376|strand +|size=26|nreads=1 +TTCCAGGCAAGAGGCACACGAGTGGC +>FBgn0062343_Dm88|coord=4210|strand -|size=21|nreads=1 +TTGGTTAGAACATCTGCCATC +>FBgn0062343_Dm88|coord=4221|strand +|size=24|nreads=1 +TTCTAACCAAGAATTTGAATAGAT +>FBgn0063427_invader4|coord=691|strand -|size=26|nreads=15 +TTCCTACGAATCGCTGTATGAACAGT +>FBgn0063427_invader4|coord=707|strand +|size=22|nreads=2 +TTCGTAGGAATGGAGACGTCGG +>FBgn0063428_invader3|coord=425|strand -|size=25|nreads=1 +TTCTGGGGAAATGGCCTGCAGACGC +>FBgn0063428_invader3|coord=427|strand -|size=23|nreads=1 +TTCTGGGGAAATGGCCTGCAGAC +>FBgn0063428_invader3|coord=440|strand +|size=22|nreads=2 +TTCCCCAGAAACGCGTGGCGAT +>FBgn0063430_invader1|coord=2082|strand -|size=20|nreads=1 +TTTTATCGAACCAATAGAAC +>FBgn0063430_invader1|coord=2092|strand +|size=24|nreads=1 +TTCGATAAAATGTCTAAGTATGTT +>FBgn0063430_invader1|coord=2092|strand +|size=26|nreads=1 +TTCGATAAAATGTCTAAGTATGTTCG +>FBgn0063433_gypsy4|coord=3040|strand -|size=28|nreads=1 +TTTTGAAGAACTTGGATTTTTCTTGAGA +>FBgn0063433_gypsy4|coord=3044|strand -|size=24|nreads=1 +TTTTGAAGAACTTGGATTTTTCTT +>FBgn0063433_gypsy4|coord=3058|strand +|size=22|nreads=1 +TTCTTCAAAAAGAGCGTGGAAT +>FBgn0063440_baggins|coord=5154|strand -|size=26|nreads=1 +TTTTGTGCAAATGGCTGTGAAGTCGG +>FBgn0063440_baggins|coord=5170|strand +|size=21|nreads=1 +TTGCACAAAATTGGCATTGCA +>FBgn0063919_Max-element|coord=3887|strand -|size=21|nreads=2 +TTGCTGAGAAGCGTGTTGAGC +>FBgn0063919_Max-element|coord=3898|strand +|size=23|nreads=1 +TTCTCAGCAAGTTCTGGGAGGTG +>FBgn0063919_Max-element|coord=3898|strand +|size=24|nreads=1 +TTCTCAGCAAGTTCTGGGAGGTGT +>FBgn0063919_Max-element|coord=3898|strand +|size=24|nreads=2 +TTCTCAGCAAGTTCTGGGAGGTGG +>FBgn0063919_Max-element|coord=3898|strand +|size=25|nreads=1 +TTCTCAGCAAGTTCTGGGAGGTGGA +>FBgn0067385_invader6|coord=3007|strand -|size=27|nreads=4 +TTCTAGTCAAAGTCGAAGGACTGCATA +>FBgn0067385_invader6|coord=3008|strand -|size=26|nreads=3 +TTCTAGTCAAAGTCGAAGGACTGCAT +>FBgn0067385_invader6|coord=3009|strand -|size=25|nreads=5 +TTCTAGTCAAAGTCGAAGGACTGCA +>FBgn0067385_invader6|coord=3010|strand -|size=24|nreads=4 +TTCTAGTCAAAGTCGAAGGACTGC +>FBgn0067385_invader6|coord=3011|strand -|size=23|nreads=1 +TTCTAGTCAAAGTCGAAGGACTG +>FBgn0067385_invader6|coord=3014|strand -|size=20|nreads=1 +TTCTAGTCAAAGTCGAAGGA +>FBgn0067385_invader6|coord=3024|strand +|size=21|nreads=1 +TTGACTAGAATGACTTAGACT +>FBgn0067385_invader6|coord=3024|strand +|size=26|nreads=1 +TTGACTAGAATGACTTAGACTTAGAA +>FBgn0067624_BS3|coord=1016|strand -|size=20|nreads=1 +TTGATGCCAATGTTCCAACG +>FBgn0067624_BS3|coord=1026|strand +|size=24|nreads=1 +TTGGCATCAATGGTGACAAATCTG +>FBgn0067624_BS3|coord=1026|strand +|size=25|nreads=1 +TTGGCATCAATGGTGACAAATCTGC +>FBgn0067624_BS3|coord=1026|strand +|size=26|nreads=1 +TTGGCATCAATGGTGACAAATCAGCG diff -r 20d28cfdeefe -r a7fd04208764 test-data/paired_4.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/paired_4.fa Sat Sep 09 11:57:39 2017 -0400 @@ -0,0 +1,70 @@ +>FBgn0000155_roo|coord=3229|strand -|size=22|nreads=2 +TTTTGCCCAAGGAGACCGTCTA +>FBgn0000155_roo|coord=3230|strand -|size=21|nreads=1 +TTTTGCCCAAGGAGACCGTCT +>FBgn0000155_roo|coord=3231|strand -|size=20|nreads=2 +TTTTGCCCAAGGAGACCGTC +>FBgn0000155_roo|coord=3241|strand +|size=20|nreads=1 +TTGGGCAAAAAACTGATTTC +>FBgn0000652_F-element|coord=1554|strand -|size=20|nreads=1 +TTCGAGAAAATTACTTCAGG +>FBgn0000652_F-element|coord=1564|strand +|size=20|nreads=1 +TTTTCTCGAAAGCAGCTAGT +>FBgn0000652_F-element|coord=1564|strand +|size=20|nreads=2 +TTTTCTCGAAAGCAGCAAGT +>FBgn0000652_F-element|coord=2471|strand -|size=21|nreads=2 +TTTAACCAAACTGCGGGAAAT +>FBgn0000652_F-element|coord=2472|strand -|size=20|nreads=1 +TTTAACCAAACTGCGGGAAA +>FBgn0000652_F-element|coord=2482|strand +|size=21|nreads=1 +TTTGGTTAAAGCTGAATGTCT +>FBgn0000652_F-element|coord=2482|strand +|size=22|nreads=2 +TTTGGTTAAAGCTGAATGTCTG +>FBgn0000652_F-element|coord=3513|strand -|size=21|nreads=3 +TTTCGCGAAATCCAAATTGGT +>FBgn0000652_F-element|coord=3524|strand +|size=20|nreads=2 +TTTCGCGAAAGCCATGGAAC +>FBgn0000652_F-element|coord=3524|strand +|size=21|nreads=2 +TTTCGCGAAAGCCACGGAACC +>FBgn0000652_F-element|coord=3524|strand +|size=22|nreads=1 +TTTCGCGAAAGCCACGGAACCA +>FBgn0002697_mdg1|coord=4646|strand -|size=21|nreads=1 +TTTCTCAGAAAAGTTCTTAAT +>FBgn0002697_mdg1|coord=4657|strand +|size=22|nreads=1 +TTCTGAGAAATCACGCCACTTA +>FBgn0002697_mdg1|coord=5354|strand -|size=21|nreads=2 +TTTCAACAAACACTTATGCTT +>FBgn0002697_mdg1|coord=5365|strand +|size=21|nreads=2 +TTTGTTGAAAAGAGGAAAACA +>FBgn0003519_Stalker|coord=6708|strand -|size=21|nreads=1 +TTTGTCTCAAAGCATTTTTGT +>FBgn0003519_Stalker|coord=6719|strand +|size=21|nreads=1 +TTGAGACAAAACATTGCTAAT +>FBgn0003908_R1A1-element|coord=4678|strand -|size=22|nreads=1 +TTTTCGCCAAGGCGCTGCACTT +>FBgn0003908_R1A1-element|coord=4678|strand -|size=22|nreads=18 +TTTTCGCCAAGGCGCTGCACTC +>FBgn0003908_R1A1-element|coord=4679|strand -|size=21|nreads=1 +TTTTCGCCAAGGCGCTGCACC +>FBgn0003908_R1A1-element|coord=4679|strand -|size=21|nreads=6 +TTTTCGCCAAGGCGCTGCACT +>FBgn0003908_R1A1-element|coord=4680|strand -|size=20|nreads=4 +TTTTCGCCAAGGCGCTGCAC +>FBgn0003908_R1A1-element|coord=4690|strand +|size=20|nreads=2 +TTGGCGAAAACTGGATCTTC +>FBgn0003908_R1A1-element|coord=4690|strand +|size=21|nreads=6 +TTGGCGAAAACTGGATCTTCG +>FBgn0003908_R1A1-element|coord=4690|strand +|size=22|nreads=1 +TTGGCGAAAACTAGATCTTCGA +>FBgn0003908_R1A1-element|coord=4690|strand +|size=22|nreads=8 +TTGGCGAAAACTGGATCTTCGA +>FBgn0042682_Rt1b|coord=2908|strand -|size=22|nreads=1 +TTGGTAACAAGCTTGTAGGCGA +>FBgn0042682_Rt1b|coord=2909|strand -|size=21|nreads=6 +TTGGTAACAAGCTTGTAGGCG +>FBgn0042682_Rt1b|coord=2920|strand +|size=22|nreads=1 +TTGTTACCAAAAAGCTAAGGAG +>FBgn0067385_invader6|coord=3014|strand -|size=20|nreads=1 +TTCTAGTCAAAGTCGAAGGA +>FBgn0067385_invader6|coord=3024|strand +|size=21|nreads=1 +TTGACTAGAATGACTTAGACT