Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 76 of 344
Found at i:24725598 original size:21 final size:22
Alignment explanation
Indices: 24725573--24725613 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24725563 ACGTCCATGT
*
24725573 GAAGG-GGCACCCGCCCGTGCA
1 GAAGGAGGCACACGCCCGTGCA
*
24725594 GAAGGAGGCACATGCCCGTG
1 GAAGGAGGCACACGCCCGTG
24725614 TGACCTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.32, G:0.39, T:0.07
Consensus pattern (22 bp):
GAAGGAGGCACACGCCCGTGCA
Found at i:24729734 original size:25 final size:25
Alignment explanation
Indices: 24729655--24729734 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
24729645 GCATGTAAAT
* *
24729655 GGGAAGCTCTTCCGAGCCATATAAT-
1 GGGAAGCTCTTGCGAGCCAAAT-ATC
** * *
24729680 GGGAAGCT-TATGTAAGCCGAATAAC
1 GGGAAGCTCT-TGCGAGCCAAATATC
*
24729705 AGGAAGCTCTTGCGAGCCAAATATC
1 GGGAAGCTCTTGCGAGCCAAATATC
24729730 GGGAA
1 GGGAA
24729735 ACTCATACGA
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
24 2 0.05
25 37 0.93
26 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
GGGAAGCTCTTGCGAGCCAAATATC
Found at i:24741336 original size:40 final size:39
Alignment explanation
Indices: 24741287--24741372 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
24741277 CATTCCAATA
*
24741287 AAAAAAATATTTATAGTCAAAAGTAAACCATTAAATAAAC
1 AAAAAAATATTTATAGT-AAAAGTAAAACATTAAATAAAC
* *
24741327 CAAAAAATATTTATAGTAAAAGTAAAACATTGAATAAAC
1 AAAAAAATATTTATAGTAAAAGTAAAACATTAAATAAAC
24741366 AAAAAAA
1 AAAAAAA
24741373 AAAAGAAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.62
40 16 0.38
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (39 bp):
AAAAAAATATTTATAGTAAAAGTAAAACATTAAATAAAC
Found at i:24741373 original size:40 final size:41
Alignment explanation
Indices: 24741286--24741373 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 41
24741276 CCATTCCAAT
*
24741286 AAAAAAAATATTTATAGTCAAAAGTAAACCATTAAATAAAC
1 AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
* *
24741327 -CAAAAAATATTTATAGT-AAAAGTAAAACATTGAATAAAC
1 AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
24741366 AAAAAAAA
1 AAAAAAAA
24741374 AAAGAAGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 20 0.48
40 22 0.52
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (41 bp):
AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
Found at i:24744794 original size:37 final size:37
Alignment explanation
Indices: 24744722--24744794 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
24744712 AGTCTTAAGG
*
24744722 TTTGGGTAGAAAACTTAAGGAAGTTATAATCTTAAAA
1 TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAAA
* * * * *
24744759 TTTGGGTAGAAAATTTGAGGGAGTTGTAAGGTTAAA
1 TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAA
24744795 CATTGTCCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (37 bp):
TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAAA
Found at i:24745880 original size:23 final size:23
Alignment explanation
Indices: 24745853--24745899 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24745843 TGATAATTTT
24745853 TTAAATCTACTTATGAATTACAC
1 TTAAATCTACTTATGAATTACAC
24745876 TTAAATCTACTTATGAATTACAC
1 TTAAATCTACTTATGAATTACAC
24745899 T
1 T
24745900 GTGAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAAATCTACTTATGAATTACAC
Found at i:24746885 original size:159 final size:159
Alignment explanation
Indices: 24746685--24746987 Score: 498
Period size: 159 Copynumber: 1.9 Consensus size: 159
24746675 GATCAAGTCA
* * *
24746685 GTAAATATTATCTGTTAATATTTACAAGCCTATTAAAGTGTTATAGTGATTTTTGGTCCGGAAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
* * * *
24746750 TTTGTTGATCGGTTAGTAATTAAAATATAAGGACTAAATCGTAAAAATAGTAAAAGTTGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
24746815 ATTGGCTTTATCTAATAAATGATCAGTTG
131 ATTGGCTTTATCTAATAAATGATCAGTTG
* * *
24746844 GTAAATATTATCTATTAATATTTACAAACTTATTAAGGTGTTATAGTGATCTTTGGTCCGGTAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
*
24746909 TTTGTTGATCAGTTAGTAATTAAAGCATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
*
24746974 ATTGGTTTTATCTA
131 ATTGGCTTTATCTA
24746988 GTAATTGAGT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 132 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (159 bp):
GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
TTTGTTGATCAGTTAGTAATTAAAACATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
ATTGGCTTTATCTAATAAATGATCAGTTG
Found at i:24748065 original size:22 final size:22
Alignment explanation
Indices: 24748040--24748114 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
24748030 TTTCACTTCG
*
24748040 GTGCCTACTGATTCGTACTACA
1 GTGCCTACTGATTCGCACTACA
* *
24748062 GTGCCTACT-ATTCAGCATTTCA
1 GTGCCTACTGATTC-GCACTACA
* * *
24748084 GTACTTATTGATTCGCACTAC-
1 GTGCCTACTGATTCGCACTACA
24748105 GTGCCTACTG
1 GTGCCTACTG
24748115 CTTAGTACTT
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
21 11 0.28
22 25 0.62
23 4 0.10
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (22 bp):
GTGCCTACTGATTCGCACTACA
Found at i:24753667 original size:12 final size:12
Alignment explanation
Indices: 24753652--24753684 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
24753642 CACTGCCTTA
24753652 CACACGGCCTAC
1 CACACGGCCTAC
*
24753664 CACACGGCCTAT
1 CACACGGCCTAC
24753676 CACACGGCC
1 CACACGGCC
24753685 GTGTGGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:24764093 original size:25 final size:25
Alignment explanation
Indices: 24764065--24764175 Score: 91
Period size: 25 Copynumber: 4.4 Consensus size: 25
24764055 ACTTGTAATT
* * *
24764065 CCTTTGTGGTGATTTATTTGGGAAG
1 CCTTTGTGGTGAGTTACTTGGAAAG
* ** *
24764090 CCTTTGTGGCGAGTTACTTATAAAA
1 CCTTTGTGGTGAGTTACTTGGAAAG
* * *
24764115 CCTTTATGGTGATTTATTTGCG-AAG
1 CCTTTGTGGTGAGTTACTTG-GAAAG
24764140 CCTTTGTGGT-AGGTTACTTGGAAAG
1 CCTTTGTGGTGA-GTTACTTGGAAAG
*
24764165 CCTATGTGGTG
1 CCTTTGTGGTG
24764176 TAATGTCTAG
Statistics
Matches: 64, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
24 2 0.03
25 62 0.97
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.40
Consensus pattern (25 bp):
CCTTTGTGGTGAGTTACTTGGAAAG
Found at i:24764096 original size:50 final size:50
Alignment explanation
Indices: 24764042--24764148 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
24764032 AAGCCAAGTA
* ** * *
24764042 TTTGTGGC-ATGTCACTTGTAATTCCTTTGTGGTGATTTATTTGGGAAGCC
1 TTTGTGGCGA-GTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
*
24764092 TTTGTGGCGAGTTACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
1 TTTGTGGCGAGTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
24764142 TTTGTGG
1 TTTGTGG
24764149 TAGGTTACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (50 bp):
TTTGTGGCGAGTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
Found at i:24764175 original size:50 final size:50
Alignment explanation
Indices: 24764069--24764175 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 50
24764059 GTAATTCCTT
* * * *
24764069 TGTGGTGATTTATTTGGGAAGCCTTTGTGGCGAGTTACTTATAAAACCTT
1 TGTGGTGATTTATTTGCGAAGCCTTTGTGGAGAGTTACTTAGAAAACCTA
* * *
24764119 TATGGTGATTTATTTGCGAAGCCTTTGTGGTAG-GTTACTTGGAAAGCCTA
1 TGTGGTGATTTATTTGCGAAGCCTTTGTGG-AGAGTTACTTAGAAAACCTA
24764169 TGTGGTG
1 TGTGGTG
24764176 TAATGTCTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (50 bp):
TGTGGTGATTTATTTGCGAAGCCTTTGTGGAGAGTTACTTAGAAAACCTA
Found at i:24771780 original size:40 final size:40
Alignment explanation
Indices: 24771743--24771874 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
24771733 GCTACTCGTT
*
24771743 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
24771783 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *** * *
24771823 CCAATGCCTTCAGG-CTTTGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
24771862 CAAATGCCTTCGG
1 CAAATGCCTTCGG
24771875 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 31 0.39
40 47 0.59
41 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:24780039 original size:39 final size:40
Alignment explanation
Indices: 24779914--24780098 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
24779904 GCTACTCGTT
*
24779914 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
24779954 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
24779994 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
24780033 CTAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
24780074 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24780099 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24794847 original size:50 final size:50
Alignment explanation
Indices: 24794788--24794924 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 50
24794778 ATATGAGATC
* * * *
24794788 CCATGTAAGACCATGTTTGGGACATGGAATTGGCATCGATGTGTGTGATT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
*
24794838 CCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATATGTGTGAAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
* *
24794888 CCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
24794925 TTACTATGTG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
Found at i:24798862 original size:20 final size:20
Alignment explanation
Indices: 24798833--24798877 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24798823 AGCACATGTA
*
24798833 TTCATAAAATTTCATAATTT
1 TTCATAAAATTTCACAATTT
* *
24798853 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTCACAATTT
24798873 TTCAT
1 TTCAT
24798878 TTGAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTCACAATTT
Found at i:24801894 original size:40 final size:40
Alignment explanation
Indices: 24801845--24802128 Score: 405
Period size: 40 Copynumber: 7.1 Consensus size: 40
24801835 CGGAATTTAA
** * *
24801845 CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24801885 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24801925 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24801964 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
24802004 CCGGATATAGTAACTCGCACAAATGCATTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24802044 CCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24802084 CCGGATATAGTAACTCCCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24802124 CCGGA
1 CCGGA
24802129 CATCATTCGA
Statistics
Matches: 219, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.15
40 180 0.82
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24805500 original size:21 final size:20
Alignment explanation
Indices: 24805474--24805526 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
24805464 TTTTGTGCCT
24805474 CTAAACCCTAGACCCCTAACC
1 CTAAACCCTA-ACCCCTAACC
*
24805495 CTAAACCCTAAGCCCTAAGCC
1 CTAAACCCTAACCCCTAA-CC
* *
24805516 ATGAACCCTAA
1 CTAAACCCTAA
24805527 AAAACTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.42, G:0.08, T:0.15
Consensus pattern (20 bp):
CTAAACCCTAACCCCTAACC
Found at i:24806150 original size:5 final size:6
Alignment explanation
Indices: 24806133--24806158 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24806123 GGAGAATATT
24806133 AGAAAA AGAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAAA AGAAAA AGAAAA AG
24806159 GGAGAATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:24806175 original size:35 final size:36
Alignment explanation
Indices: 24806097--24806178 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
24806087 GAAAGAATGA
* *
24806097 AGGAAAACAAAAAAAAAAAGAAAGAAGGAGAATATT
1 AGGAAAAGAAAAAAAAAAAGAAAGAAGGAGAATATG
* *
24806133 AGAAAAAGAAAAAGAAAAAGAAA-AAGGGAGAATA-G
1 AGGAAAAGAAAAAAAAAAAGAAAGAA-GGAGAATATG
*
24806168 GGGAAAAGAAA
1 AGGAAAAGAAA
24806179 CGTGAGAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
35 11 0.28
36 28 0.72
ACGTcount: A:0.70, C:0.01, G:0.24, T:0.05
Consensus pattern (36 bp):
AGGAAAAGAAAAAAAAAAAGAAAGAAGGAGAATATG
Found at i:24806514 original size:47 final size:47
Alignment explanation
Indices: 24806442--24806535 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
24806432 CTTAAATAGA
* * * *
24806442 GTTACATACAATGTCTTTACTTGATTTAGACCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
* *
24806489 GTTACATATAATATCTCTACCTGATTCAGCCCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
24806536 ATACATTAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
Found at i:24807775 original size:24 final size:23
Alignment explanation
Indices: 24807725--24807784 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
24807715 ATTTGTCATG
* * *
24807725 TTCTTTTTATTTTTTTCCCTTTC
1 TTCTTATTCTTTTCTTCCCTTTC
*
24807748 TTCTCTA-TCTTTTCTTCCTCTTTT
1 TTCT-TATTCTTTTCTTCC-CTTTC
24807772 TTCTTATTCTTTT
1 TTCTTATTCTTTT
24807785 TTAATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (23 bp):
TTCTTATTCTTTTCTTCCCTTTC
Found at i:24808167 original size:5 final size:5
Alignment explanation
Indices: 24808157--24808188 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24808147 TTGTGTGTTA
24808157 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24808189 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:24808168 original size:9 final size:9
Alignment explanation
Indices: 24808154--24808187 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
24808144 AATTTGTGTG
24808154 TTATTTATT
1 TTATTTATT
24808163 TTATTTATT
1 TTATTTATT
24808172 TTATTTTATT
1 TTA-TTTATT
24808182 TTATTT
1 TTATTT
24808188 TTCACAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTATT
Found at i:24812617 original size:5 final size:5
Alignment explanation
Indices: 24812607--24812638 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24812597 TTGTGTGTTC
24812607 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24812639 TCACAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:24812621 original size:9 final size:9
Alignment explanation
Indices: 24812607--24812637 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
24812597 TTGTGTGTTC
24812607 TTTATTTTA
1 TTTATTTTA
24812616 TTTATTTTA
1 TTTATTTTA
24812625 TTTTATTTTA
1 -TTTATTTTA
24812635 TTT
1 TTT
24812638 TTCACAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:24825454 original size:34 final size:35
Alignment explanation
Indices: 24825416--24825492 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
24825406 TTCTTTTTCT
*
24825416 AATTTTCCATGGATGATTCACC-AAATATCAACTA
1 AATTTTCCATGGATAATTCACCAAAATATCAACTA
*
24825450 AATTTTCCATGGGTAATTCACCAAAAATATCAACTA
1 AATTTTCCATGGATAATTCACC-AAAATATCAACTA
24825486 AATTTTC
1 AATTTTC
24825493 TTAATGGCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 20 0.51
36 19 0.49
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (35 bp):
AATTTTCCATGGATAATTCACCAAAATATCAACTA
Found at i:24860459 original size:42 final size:42
Alignment explanation
Indices: 24860321--24860468 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
24860311 GTTCCAAACG
** * *
24860321 TGGTCTTACATGGGATCTCACATCAATGCCATATCCAAGAAA
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
* * * * * * **
24860363 TGGTCTTATACGAATTCTCATTTCAACGCCATGTCCCAGACG
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
* *
24860405 TGGTCTTACATGAAATCTCATATCAACGCCATATCCTAGATA
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
24860447 TGGTCTTACATGATAA-CTCATA
1 TGGTCTTACATGA-AATCTCATA
24860469 CTGATGCTGA
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 83 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
Found at i:24860467 original size:84 final size:84
Alignment explanation
Indices: 24860302--24860456 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
24860292 AATAAAATGC
* ** *
24860302 CAACGCCATGTTCCAAACGTGGTCTTACATGGGATCTCACATCAATGCCATATCCAAGAAATGGT
1 CAACGCCATGTCCCAAACGTGGTCTTACATGAAATCTCACATCAACGCCATATCCAAGAAATGGT
* *
24860367 CTTATACGAATTCTCATTT
66 CTTACACGAATACTCATTT
* * * *
24860386 CAACGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATATCAACGCCATATCCTAGATATGGT
1 CAACGCCATGTCCCAAACGTGGTCTTACATGAAATCTCACATCAACGCCATATCCAAGAAATGGT
24860451 CTTACA
66 CTTACA
24860457 TGATAACTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (84 bp):
CAACGCCATGTCCCAAACGTGGTCTTACATGAAATCTCACATCAACGCCATATCCAAGAAATGGT
CTTACACGAATACTCATTT
Found at i:24864627 original size:46 final size:45
Alignment explanation
Indices: 24864559--24864653 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 45
24864549 GTAAGAATAA
* * *
24864559 CTGCATATGAATGTGATTTGTTCTGTATATGAAACTGAAATTGCTT
1 CTGCATATGAATCTGATCTGTTCTATATATG-AACTGAAATTGCTT
* *
24864605 CTGCATATGTAA-CTGATCTGTTCTATATCTGAACTGAAATTGTTT
1 CTGCATATG-AATCTGATCTGTTCTATATATGAACTGAAATTGCTT
24864650 CTGC
1 CTGC
24864654 TACCTAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 17 0.40
46 24 0.56
47 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (45 bp):
CTGCATATGAATCTGATCTGTTCTATATATGAACTGAAATTGCTT
Found at i:24869161 original size:26 final size:25
Alignment explanation
Indices: 24869132--24869231 Score: 73
Period size: 26 Copynumber: 4.0 Consensus size: 25
24869122 TAAAATAAAG
*
24869132 TATAAATCAATTTTAAATAAATAATT
1 TATAAATCAA-TTAAAATAAATAATT
* * * *
24869158 TATAAAGCAATTTAGAGTAAATAATA
1 TATAAATCAA-TTAAAATAAATAATT
24869184 TATAAAAT-AATTTAAAAT-AATAA-T
1 TAT-AAATCAA-TTAAAATAAATAATT
*
24869208 AATAAA-CGAATTAAAATAAATAAT
1 TATAAATC-AATTAAAATAAATAAT
24869232 ACGGTAAAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
23 10 0.17
24 9 0.15
25 5 0.08
26 32 0.54
27 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (25 bp):
TATAAATCAATTAAAATAAATAATT
Found at i:24869219 original size:24 final size:25
Alignment explanation
Indices: 24869146--24869292 Score: 95
Period size: 27 Copynumber: 5.8 Consensus size: 25
24869136 AATCAATTTT
*
24869146 AAATAAATAATTTAT-AAAGCAATTTA
1 AAATAAATAATATATAAAAG-AA-TTA
* * *
24869172 GAGTAAATAATATATAAAATAATTTA
1 AAATAAATAATATATAAAAGAA-TTA
*
24869198 AAAT-AATAATA-ATAAACGAATTA
1 AAATAAATAATATATAAAAGAATTA
** *
24869221 AAATAAATAATACGGTAAAACAATTTA
1 AAATAAATAATA-TATAAAAGAA-TTA
* ** *
24869248 AAACAAATACCATATGAAAAAAACTTA
1 AAATAAATAATATAT-AAAAGAA-TTA
24869275 AAATAAATAATA-ATAAAA
1 AAATAAATAATATATAAAA
24869293 TTGTTCAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 13
0.73 0.16 0.10
Matches are distributed among these distances:
23 7 0.07
24 14 0.15
25 11 0.12
26 29 0.31
27 33 0.35
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (25 bp):
AAATAAATAATATATAAAAGAATTA
Found at i:24869364 original size:50 final size:50
Alignment explanation
Indices: 24869310--24869446 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 50
24869300 AAATAAATAT
*
24869310 TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGCACA
1 TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGAACA
* * * * *
24869360 TATGAAAAGATCTAAAAT-AATAAAAT-AATCAAGTTTAAT-ATAAATAATA
1 TATG-AATGATTTATAATAAATAAAATAAAT-AAGTTTAATAATAAAGAACA
* *
24869409 TATGAGAT-ATTT-TAA-AAATAAAATAAATACGCTTAATA
1 TATGA-ATGATTTATAATAAATAAAATAAATAAGTTTAATA
24869447 CAAATAGTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
47 17 0.24
48 7 0.10
49 15 0.21
50 21 0.30
51 10 0.14
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.32
Consensus pattern (50 bp):
TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGAACA
Found at i:24869432 original size:47 final size:47
Alignment explanation
Indices: 24869300--24869481 Score: 136
Period size: 47 Copynumber: 3.7 Consensus size: 47
24869290 AAATTGTTCA
* *
24869300 AAATAAATATTATGA-ATGATTTATAATAAATAAAATAAATAAGTTTAATAAT
1 AAAT-AATA-TATGAGAT-ATTTA-AA-AAATAAAATAAATAAGCTTAAT-AC
** * * * * * *
24869352 AAAGCACATATGAAAAGATCTAAAATAATAAAAT-AATCAAGTTTAATAT
1 AAATAATATATG-AGATATTTAAAA-AATAAAATAAAT-AAGCTTAATAC
* *
24869401 AAATAATATATGAGATATTTTAAAAATAAAATAAATACGCTTAATAC
1 AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
* *
24869448 AAATAGTATCTGAGATATTTAAAAAAT-AAATAAA
1 AAATAATATATGAGATATTTAAAAAATAAAATAAA
24869482 ATATGTAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
46 7 0.07
47 40 0.37
48 11 0.10
49 15 0.14
50 23 0.21
51 7 0.07
52 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (47 bp):
AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
Found at i:24871085 original size:28 final size:28
Alignment explanation
Indices: 24871054--24871137 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
24871044 AACTGTGATC
24871054 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
24871082 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
24871104 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
24871132 ACGTGT
1 ACGTGT
24871138 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:24871177 original size:49 final size:49
Alignment explanation
Indices: 24871006--24871228 Score: 302
Period size: 49 Copynumber: 4.5 Consensus size: 49
24870996 TGAGGTCGCA
* * * *
24871006 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
24871057 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
24871107 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
24871156 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
24871205 TGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGTACTAAGTGCAGGCTAC
24871229 CATGCGTACC
Statistics
Matches: 154, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 75 0.49
50 45 0.29
51 34 0.22
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:24879815 original size:50 final size:50
Alignment explanation
Indices: 24879747--24879889 Score: 250
Period size: 50 Copynumber: 2.9 Consensus size: 50
24879737 ACATAGTAAG
* * *
24879747 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
*
24879797 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
24879847 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
24879890 CATAGCCTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
Found at i:24881050 original size:18 final size:18
Alignment explanation
Indices: 24881010--24881051 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
24881000 GAAATTATAC
24881010 ACATAG-CATATATTTGA
1 ACATAGTCATATATTTGA
* * *
24881027 AAATAGTCATGTATTTGT
1 ACATAGTCATATATTTGA
24881045 ACATAGT
1 ACATAGT
24881052 TCGGGTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
ACATAGTCATATATTTGA
Found at i:24888887 original size:16 final size:18
Alignment explanation
Indices: 24888866--24888898 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
24888856 CATACTAGCT
24888866 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
24888882 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
24888899 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:24889483 original size:41 final size:44
Alignment explanation
Indices: 24889429--24889642 Score: 197
Period size: 45 Copynumber: 4.9 Consensus size: 44
24889419 ATTCATCCAT
* *
24889429 CGACATT-TCGCCTGCTAGCT-GAA-GCCC-AATA-TCATTTCAC
1 CGACATTATAGCCTGCTAGCTCGAAGGCCCGAATAGT-ATATCAC
*
24889469 CGACATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATATGAC
1 CGACATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTATATCAC
* * * * *
24889514 CGACATTATAGCCTGCTAGGCTCAAAAGCTCGAATGGTATCTCAC
1 CGACATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTATATCAC
* * ** *
24889559 C-AGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCCCGC
1 CGA-CATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTATATCAC
* *
24889604 CGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CGACATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTA
24889643 CCATACGATA
Statistics
Matches: 151, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
40 7 0.05
41 9 0.06
42 3 0.02
43 3 0.02
44 5 0.03
45 122 0.81
46 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
CGACATTATAGCCTGCTAGCTCGAAGGCCCGAATAGTATATCAC
Found at i:24889520 original size:45 final size:45
Alignment explanation
Indices: 24889467--24889642 Score: 239
Period size: 45 Copynumber: 3.9 Consensus size: 45
24889457 ATATCATTTC
* * *
24889467 ACCGACATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATATG
1 ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTG
* * * * *
24889512 ACCGACATTATAGCCTGCTAGGCTCAAAAGCTCGAATGGTATCTC
1 ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTG
*
24889557 ACC-AGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCCCG
1 ACCGA-CATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT-CTG
24889603 -CCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
24889643 CCATACGATA
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 113 0.97
46 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (45 bp):
ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTG
Found at i:24905493 original size:27 final size:27
Alignment explanation
Indices: 24905441--24905542 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
24905431 GCTCTTCTTT
* * * *
24905441 AGAGTTCGTTATACCTACTGTTCCTTC
1 AGAGTTCGTCATACATACTATCCCTTC
24905468 AGAGTTCGTCATACATACTATCCCTTCC
1 AGAGTTCGTCATACATACTATCCCTT-C
* * * *
24905496 A-TGTT-TTCCACATATACTATCCCTTC
1 AGAGTTCGT-CATACATACTATCCCTTC
* *
24905522 AGAGTTCGTCAGAAATACTAT
1 AGAGTTCGTCATACATACTAT
24905543 TTCTTTCTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 3 0.05
27 53 0.90
28 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (27 bp):
AGAGTTCGTCATACATACTATCCCTTC
Found at i:24905984 original size:27 final size:27
Alignment explanation
Indices: 24905929--24905991 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
24905919 TGATCACCAA
* * *
24905929 AAAAGCTTCCATATTATATATTTCTAC
1 AAAAGCTTCCATATTATAAATTGCCAC
24905956 AAAAGCTTCCAT-TTCATAAATTGCCAC
1 AAAAGCTTCCATATT-ATAAATTGCCAC
*
24905983 AAAGGCTTC
1 AAAAGCTTC
24905992 TAATTTCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAAGCTTCCATATTATAAATTGCCAC
Found at i:24920349 original size:16 final size:17
Alignment explanation
Indices: 24920328--24920360 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24920318 ATTTAATCCT
*
24920328 AATT-AAATTGGATATA
1 AATTAAAATTGAATATA
24920344 AATTAAAATTGAATATA
1 AATTAAAATTGAATATA
24920361 TCATGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTAAAATTGAATATA
Found at i:24923428 original size:30 final size:30
Alignment explanation
Indices: 24923394--24923454 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
24923384 TTCCCGAGCC
24923394 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
24923424 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
24923454 T
1 T
24923455 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:24923958 original size:95 final size:95
Alignment explanation
Indices: 24923846--24924035 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
24923836 CATTGAATTA
24923846 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
1 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
24923911 AATAAGGCAATGTGTAATTTAATGTTATTG
66 AATAAGGCAATGTGTAATTTAATGTTATTG
24923941 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
1 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
24924006 AATAAGGCAATGTGTAATTTAATGTTATTG
66 AATAAGGCAATGTGTAATTTAATGTTATTG
24924036 CCTTGATATT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (95 bp):
TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
AATAAGGCAATGTGTAATTTAATGTTATTG
Found at i:24926988 original size:16 final size:16
Alignment explanation
Indices: 24926969--24927009 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
24926959 AATTATTAAT
*
24926969 AATTCAATAATTGAAA
1 AATTAAATAATTGAAA
24926985 AATTAAATAATTGAATAA
1 AATTAAATAATTG-A-AA
24927003 AATTAAA
1 AATTAAA
24927010 ATTTAGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (16 bp):
AATTAAATAATTGAAA
Found at i:24927770 original size:22 final size:19
Alignment explanation
Indices: 24927731--24927772 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
24927721 TGCAAAGTTG
24927731 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
24927750 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
24927772 A
1 A
24927773 AAGGTTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:24934092 original size:35 final size:34
Alignment explanation
Indices: 24934068--24934142 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 34
24934058 ATGTTATTTC
24934068 ACATACATACTTATTAAATCGAAATAATCTCTTGT
1 ACATACATACTTATTAAATCGAAAT-ATCTCTTGT
24934103 ACATACATACTTATTAAATCGAAATAATCTCTTGT
1 ACATACATACTTATTAAATCGAAAT-ATCTCTTGT
*
24934138 TCATA
1 ACATA
24934143 TTCTTATGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.37
Consensus pattern (34 bp):
ACATACATACTTATTAAATCGAAATATCTCTTGT
Found at i:24936095 original size:39 final size:40
Alignment explanation
Indices: 24936036--24936176 Score: 106
Period size: 40 Copynumber: 3.6 Consensus size: 40
24936026 AATCAAGCAT
* * * *
24936036 CTTCGGGT-TTTAGCCGGATATAACCACTCGCA-CAAGGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
*** *
24936074 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
* * ** * * *
24936114 CTTCGGGACTTAGCCCGGATATATTCGCTAGCACAAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
* **
24936154 CTTCGGATCTTAGTCCGGATATA
1 CTTCGGGTCTTAACCCGGATATA
24936177 GTCGCTTAGC
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
38 8 0.10
39 18 0.21
40 58 0.69
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
Found at i:24936119 original size:40 final size:40
Alignment explanation
Indices: 24936036--24936257 Score: 196
Period size: 41 Copynumber: 5.5 Consensus size: 40
24936026 AATCAAGCAT
* ** * *
24936036 CTTCGGGTTTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
24936074 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
24936114 CTTCGGGACTTAGCCCGGATATATTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
24936154 CTTCGGATCTTAGTCCGGATATAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
** * * * * * *
24936195 AGTCGGATCTTAGTCTGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
24936236 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
24936258 CATTCGAGTA
Statistics
Matches: 151, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
38 11 0.07
39 15 0.10
40 62 0.41
41 63 0.42
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:24936201 original size:41 final size:41
Alignment explanation
Indices: 24936072--24936257 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 41
24936062 CTCGCACAAG
* * * * * *
24936072 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
24936112 GCCTTCGGGA-CTTAGCCCGGATATATTCGC-TAGCACAAAT
1 GCCTTC-GGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
24936152 GCCTTCGGATCTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
** * * *
24936193 GCAGTCGGATCTTAGTCTGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
24936234 GCCTTCGGGA-CTTAGCCCGGATAT
1 GCCTTC-GGATCTTAGCCCGGATAT
24936258 CATTCGAGTA
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 55 0.44
41 63 0.51
42 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (41 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:24937488 original size:38 final size:38
Alignment explanation
Indices: 24937446--24937521 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
24937436 CAAGAACTCC
24937446 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
24937484 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
24937522 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:24952465 original size:40 final size:41
Alignment explanation
Indices: 24952418--24952603 Score: 232
Period size: 41 Copynumber: 4.6 Consensus size: 41
24952408 CTCACACAAG
* * * * *
24952418 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
24952458 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
24952498 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
24952539 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
24952580 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
24952604 CATTCGAGTA
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
40 61 0.47
41 70 0.53
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:24952559 original size:81 final size:82
Alignment explanation
Indices: 24952418--24952601 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 82
24952408 CTCACACAAG
* * * * * * *
24952418 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
24952482 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
* *
24952498 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTC-GGATCTTAGTCCGGAT
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGA-CTTAGCCCGGAT
*
24952561 GTAGTCGCTTAGCACAAAA
64 ATAGTCGCTTAGCACAAAA
24952580 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
24952602 ATCATTCGAG
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
79 2 0.02
80 24 0.28
81 32 0.37
82 26 0.30
83 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:24953834 original size:38 final size:38
Alignment explanation
Indices: 24953792--24953867 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
24953782 CAAGAACTCC
*
24953792 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
24953830 TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
24953868 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
Found at i:24970282 original size:36 final size:37
Alignment explanation
Indices: 24970218--24970290 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 37
24970208 TTCATTTCAA
24970218 ATCTCAACAAAAATGGGGCTTAAATTAAT-TTAAGGG
1 ATCTCAACAAAAATGGGGCTTAAATTAATATTAAGGG
*
24970254 ATCTCAACAATAAT-GGG-TTAAAGGTTAATATTAAGGG
1 ATCTCAACAAAAATGGGGCTTAAA--TTAATATTAAGGG
24970291 TAATACAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 5 0.15
35 3 0.09
36 18 0.55
37 7 0.21
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (37 bp):
ATCTCAACAAAAATGGGGCTTAAATTAATATTAAGGG
Found at i:24977612 original size:48 final size:48
Alignment explanation
Indices: 24977541--24977682 Score: 196
Period size: 48 Copynumber: 3.0 Consensus size: 48
24977531 CATTAGGGCG
24977541 ATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCA
1 ATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCA
* ** * * *
24977589 ATATGTGATCCCATATAAGACCATGCCTGAGACTTGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCA
* * *
24977637 ATATTTGATCCCATGTAAGA-CATATCTAGGATATGGCATTGGCATC
1 ATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC
24977683 TTACTATGCG
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 20 0.25
48 60 0.75
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCA
Found at i:24982832 original size:40 final size:40
Alignment explanation
Indices: 24982795--24982950 Score: 226
Period size: 40 Copynumber: 3.9 Consensus size: 40
24982785 GGATATAGCT
* *
24982795 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
24982835 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
24982875 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
24982915 ACTCACACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
24982951 CATCCGAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
40 100 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:24992022 original size:40 final size:40
Alignment explanation
Indices: 24991971--24992124 Score: 222
Period size: 40 Copynumber: 3.9 Consensus size: 40
24991961 ATATAGCTAT
* *
24991971 TCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC
* *
24992011 TCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAAC
*
24992051 TCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAC
*
24992091 TCACACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
24992125 CATCCGAATA
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
40 98 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC
Found at i:24996519 original size:27 final size:27
Alignment explanation
Indices: 24996485--24996539 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
24996475 TAGGGAAGTG
*
24996485 TGTGTGCTTTCGGTTTTAGTTTTCAAT
1 TGTGTGCTTTCGGATTTAGTTTTCAAT
24996512 TGTGTGCTTTCGGATTTAGTTTTCAAT
1 TGTGTGCTTTCGGATTTAGTTTTCAAT
24996539 T
1 T
24996540 CTTGGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.13, C:0.11, G:0.22, T:0.55
Consensus pattern (27 bp):
TGTGTGCTTTCGGATTTAGTTTTCAAT
Found at i:25000455 original size:24 final size:24
Alignment explanation
Indices: 25000428--25000474 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25000418 ATTGAAATGG
25000428 ATTG-ATTTAGTATATGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
25000452 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
25000475 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:25008390 original size:40 final size:40
Alignment explanation
Indices: 25008323--25008494 Score: 190
Period size: 40 Copynumber: 4.3 Consensus size: 40
25008313 ACCCAAGTAT
* *
25008323 CTTCGGGAT-TTAG-CCAGATATAACAACTCGCGCAAATGC
1 CTTCGGG-TCTTAGCCCAGATATAGCAACTCGCACAAATGC
*
25008362 CTTCGGGTCTTAGCCCAGATATAGCAACTTGCACAAATGC
1 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
* * *
25008402 CTTCGGGTCTTAGCCCAGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCAGATAT-AGCAACTCGCACAAATGC
* * **
25008442 CTTCGGGACATAGCCC-GAATATAGCAACTCGCATGAATGC
1 CTTCGGGTCTTAGCCCAG-ATATAGCAACTCGCACAAATGC
*
25008482 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
25008495 TCCGGTTATC
Statistics
Matches: 114, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 97 0.85
41 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
Found at i:25029584 original size:11 final size:11
Alignment explanation
Indices: 25029568--25029600 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
25029558 AAATGCTTAC
25029568 TCTATGTATTT
1 TCTATGTATTT
25029579 TCTATGTATTT
1 TCTATGTATTT
25029590 TCTATGT-TTT
1 TCTATGTATTT
25029600 T
1 T
25029601 AGTGAATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (11 bp):
TCTATGTATTT
Found at i:25034522 original size:25 final size:25
Alignment explanation
Indices: 25034494--25034597 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
25034484 ATAAATGGGT
*
25034494 AGCTCTTTCGATCCATATAATAGGA
1 AGCTCTTTCGAGCCATATAATAGGA
* * **
25034519 AGCTCATGT-GAGCCATGTAACGGGA
1 AGCTC-TTTCGAGCCATATAATAGGA
* *
25034544 AGCTCTTGCGAGCCA-ATTATAGGGA
1 AGCTCTTTCGAGCCATATAATA-GGA
* * *
25034569 AGCTCATACGAGCCATA-AATGGGA
1 AGCTCTTTCGAGCCATATAATAGGA
25034593 AGCTC
1 AGCTC
25034598 AATAGAGCCA
Statistics
Matches: 60, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
24 11 0.18
25 46 0.77
26 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTCTTTCGAGCCATATAATAGGA
Found at i:25034548 original size:50 final size:48
Alignment explanation
Indices: 25034464--25034597 Score: 135
Period size: 50 Copynumber: 2.7 Consensus size: 48
25034454 ATTCATATTC
* * *
25034464 AGGAATGCTCATGTGAG-CATATAAATGGGTAGCTCTTTCGATCCATATAAT
1 AGGAA-GCTCATGTGAGCCAT-T-AATGGGAAGCTCTTGCGAGCCA-ATAAT
* *
25034515 AGGAAGCTCATGTGAGCCATGTAACGGGAAGCTCTTGCGAGCCAATTAT
1 AGGAAGCTCATGTGAGCCAT-TAATGGGAAGCTCTTGCGAGCCAATAAT
** *
25034564 AGGGAAGCTCATACGAGCCATAAATGGGAAGCTC
1 A-GGAAGCTCATGTGAGCCATTAATGGGAAGCTC
25034598 AATAGAGCCA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
49 16 0.23
50 46 0.65
51 9 0.13
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (48 bp):
AGGAAGCTCATGTGAGCCATTAATGGGAAGCTCTTGCGAGCCAATAAT
Found at i:25034622 original size:25 final size:24
Alignment explanation
Indices: 25034540--25034622 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
25034530 GCCATGTAAC
* * *
25034540 GGGAAGCTCTTGCGAGCCAATTAT
1 GGGAAGCTCATACGAGCCAAATAT
25034564 AGGGAAGCTCATACGAGCCATAA-AT
1 -GGGAAGCTCATACGAGCCA-AATAT
25034589 GGGAAGCTCAATA-GAGCCAAATAT
1 GGGAAGCTC-ATACGAGCCAAATAT
25034613 CGGGAAGCTC
1 -GGGAAGCTC
25034623 TGAAAAGCCA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.04
24 17 0.33
25 31 0.61
26 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCATACGAGCCAAATAT
Found at i:25034632 original size:49 final size:50
Alignment explanation
Indices: 25034541--25034675 Score: 134
Period size: 49 Copynumber: 2.7 Consensus size: 50
25034531 CCATGTAACG
* * * * ** *
25034541 GGAAGCTCTTGCGAGCCAATTATAGGGAAGCTCATACGAGCCATAAAT-G
1 GGAAGCTCATGAGAGCCAAATATCGGGAAGCTCATAAAAGCCATAAATCA
*
25034590 GGAAGCTCAAT-AGAGCCAAATATCGGGAAGCTC-TGAAAAGCCATTAATCA
1 GGAAGCTC-ATGAGAGCCAAATATCGGGAAGCTCAT-AAAAGCCATAAATCA
* *
25034640 GGAAGCTCATGAGAGCCATA-ATCAGGAAGCTCATAA
1 GGAAGCTCATGAGAGCCAAATATCGGGAAGCTCATAA
25034676 GATCTATGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
48 1 0.01
49 52 0.73
50 18 0.25
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (50 bp):
GGAAGCTCATGAGAGCCAAATATCGGGAAGCTCATAAAAGCCATAAATCA
Found at i:25034643 original size:25 final size:24
Alignment explanation
Indices: 25034615--25034673 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
25034605 CCAAATATCG
25034615 GGAAGCTC-TGAAAAGCCATTAATCA
1 GGAAGCTCATG-AAAGCCA-TAATCA
*
25034640 GGAAGCTCATGAGAGCCATAATCA
1 GGAAGCTCATGAAAGCCATAATCA
25034664 GGAAGCTCAT
1 GGAAGCTCAT
25034674 AAGATCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 16 0.50
25 14 0.44
26 2 0.06
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATGAAAGCCATAATCA
Found at i:25044755 original size:46 final size:46
Alignment explanation
Indices: 25044705--25044874 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
25044695 TTGAGCATCT
*
25044705 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
25044751 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
*
25044798 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
25044843 TGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25044875 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 55 0.53
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:25044858 original size:93 final size:93
Alignment explanation
Indices: 25044699--25044869 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
25044689 GGATGGTTGA
* * *
25044699 GCATCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
25044764 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
25044792 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
25044856 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
25044870 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:25049392 original size:30 final size:30
Alignment explanation
Indices: 25049356--25049415 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25049346 TTCCCGAGCC
*
25049356 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
25049386 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
25049416 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:25056847 original size:30 final size:30
Alignment explanation
Indices: 25056811--25056870 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25056801 TTCCCGAGCC
*
25056811 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
25056841 TAGGGGCAAAAATGTAATTTTGGAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
25056871 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:25061276 original size:43 final size:43
Alignment explanation
Indices: 25061223--25061330 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
25061213 TATCCCAGAT
* * *
25061223 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
* * * *
25061266 A-GAGTCTTACACGAAATCGA-TTAACGATGCCAATGTCCCAGAC
1 ATG-GTCTTACATGTAATC-ACATAACGATGCCAATGTCCCAAAC
25061309 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
25061331 CTCAAAAACC
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.04
43 47 0.92
44 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
Found at i:25068423 original size:43 final size:43
Alignment explanation
Indices: 25068370--25068470 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 43
25068360 CCATTATCCT
* * * * *
25068370 AGACAGGGTCTTACACGAAAT-TGATTAACGATGCCAATGTTCC
1 AGACATGGTCTTACACGAAATCTCAAT-ACAATGCCAATGTCCC
* * *
25068413 AGATATGGTCTTATACGTAATCTCAATACAATGCCAATGTCCC
1 AGACATGGTCTTACACGAAATCTCAATACAATGCCAATGTCCC
25068456 AGACATGGTCTTACA
1 AGACATGGTCTTACA
25068471 TGTAATCACA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 44 0.94
44 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
AGACATGGTCTTACACGAAATCTCAATACAATGCCAATGTCCC
Found at i:25071791 original size:25 final size:25
Alignment explanation
Indices: 25071693--25071785 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
25071683 TCATTAGGGA
* *
25071693 TTACCAATTCTTAGCTCGTATGAGC
1 TTACCGATTCTAAGCTCGTATGAGC
*
25071718 TTACCGATTGC-AA-CTGGTGA-GAGC
1 TTACCGATT-CTAAGCTCGT-ATGAGC
*
25071742 TTACCGATTCTAAGCTCATATGAGC
1 TTACCGATTCTAAGCTCGTATGAGC
25071767 TTACCGATT-TATAGCTCGT
1 TTACCGATTCTA-AGCTCGT
25071786 GAGAGCATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.02
24 22 0.39
25 32 0.57
26 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
TTACCGATTCTAAGCTCGTATGAGC
Found at i:25076853 original size:42 final size:42
Alignment explanation
Indices: 25076790--25076873 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
25076780 TAACCTAATT
*
25076790 GGGAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAA
*
25076832 GGGAAAATAATTCCATTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAA
25076874 AATAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAA
Found at i:25076881 original size:42 final size:42
Alignment explanation
Indices: 25076792--25076886 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
25076782 ACCTAATTGG
* **
25076792 GAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAAGG
1 GAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAAAA
*
25076834 GAAAATAATTCCATTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAAAA
*
25076876 TAAAAT-ATTCC
1 GAAAATAATTCC
25076887 TAGAATATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 5 0.10
42 43 0.90
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAAAA
Found at i:25080587 original size:21 final size:21
Alignment explanation
Indices: 25080550--25080589 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25080540 AATCATTAAA
*
25080550 TTGATGTTATGATATGTGTCT
1 TTGATGTTATGAAATGTGTCT
25080571 TTGATGTGTAT-AAATGTGT
1 TTGATGT-TATGAAATGTGT
25080590 AAGGGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGATGTTATGAAATGTGTCT
Found at i:25092153 original size:38 final size:38
Alignment explanation
Indices: 25092100--25092175 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
25092090 GCACGATGAG
25092100 AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
1 AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
*
25092138 AATGTGTATCTATTATCGACAGCTCGATAAAATGACCA
1 AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
25092176 TCAAGAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (38 bp):
AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
Found at i:25094164 original size:41 final size:41
Alignment explanation
Indices: 25094119--25094201 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
25094109 ATTCAAAATT
25094119 AACCCTTTAATTCACCAAGTCATTCAAATCAATCCATAAAC
1 AACCCTTTAATTCACCAAGTCATTCAAATCAATCCATAAAC
25094160 AACCCTTTAATTCACCAAGTCATTCAAATCAATCCATAAAC
1 AACCCTTTAATTCACCAAGTCATTCAAATCAATCCATAAAC
25094201 A
1 A
25094202 TTCATTTAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (41 bp):
AACCCTTTAATTCACCAAGTCATTCAAATCAATCCATAAAC
Found at i:25103043 original size:29 final size:29
Alignment explanation
Indices: 25103009--25103068 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
25102999 TAGCCATTTT
25103009 TATTTTCTTTCAGAGACTAAAATGTGACA
1 TATTTTCTTTCAGAGACTAAAATGTGACA
25103038 TATTTTCTTTCAGAGACTAAAATGTGACA
1 TATTTTCTTTCAGAGACTAAAATGTGACA
25103067 TA
1 TA
25103069 CTGTTGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (29 bp):
TATTTTCTTTCAGAGACTAAAATGTGACA
Found at i:25104160 original size:41 final size:41
Alignment explanation
Indices: 25104103--25104186 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
25104093 GGTACCAGAT
25104103 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
1 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
25104144 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
1 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
25104185 CA
1 CA
25104187 GAGAATAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (41 bp):
CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
Found at i:25104445 original size:27 final size:27
Alignment explanation
Indices: 25104410--25104464 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
25104400 TATTTTAGCC
25104410 AAAAGAGACGAAAATAAAAAGGATCAA
1 AAAAGAGACGAAAATAAAAAGGATCAA
25104437 AAAAGAGACGAAAATAAAAAGGATCAA
1 AAAAGAGACGAAAATAAAAAGGATCAA
25104464 A
1 A
25104465 CTTTTGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.67, C:0.07, G:0.18, T:0.07
Consensus pattern (27 bp):
AAAAGAGACGAAAATAAAAAGGATCAA
Found at i:25108455 original size:19 final size:20
Alignment explanation
Indices: 25108433--25108475 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
25108423 AATATTTAAA
25108433 TTAGTTAATATTATTAT-TT
1 TTAGTTAATATTATTATATT
25108452 TTAG-TAATATTATTATATT
1 TTAGTTAATATTATTATATT
25108471 TTAGT
1 TTAGT
25108476 AAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTAGTTAATATTATTATATT
Found at i:25108461 original size:18 final size:19
Alignment explanation
Indices: 25108433--25108477 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
25108423 AATATTTAAA
25108433 TTAGTTAATATTATTAT-TT
1 TTAG-TAATATTATTATATT
25108452 TTAGTAATATTATTATATT
1 TTAGTAATATTATTATATT
25108471 TTAGTAA
1 TTAGTAA
25108478 AAATATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TTAGTAATATTATTATATT
Found at i:25109539 original size:11 final size:12
Alignment explanation
Indices: 25109509--25109542 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
25109499 CGGCCTGCCC
25109509 ATATTAATTTTT
1 ATATTAATTTTT
25109521 ATATTAATTTTT
1 ATATTAATTTTT
25109533 ATA-TAATTTT
1 ATATTAATTTT
25109543 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:25109783 original size:22 final size:22
Alignment explanation
Indices: 25109758--25109800 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
25109748 TATCTAAACA
25109758 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
25109780 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
25109801 AATAGGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:25109804 original size:11 final size:11
Alignment explanation
Indices: 25109765--25109805 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
25109755 ACAATAACAA
25109765 CAAAATAGTAG
1 CAAAATAGTAG
* *
25109776 CAACATAATAG
1 CAAAATAGTAG
*
25109787 TAAAATAGTAG
1 CAAAATAGTAG
25109798 CAAAATAG
1 CAAAATAG
25109806 GGATAAAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:25114674 original size:19 final size:18
Alignment explanation
Indices: 25114623--25114676 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
25114613 TAGAAATATA
*
25114623 TTAAAAAACTTATAATATT
1 TTAAAAAA-TTATAAAATT
* *
25114642 TTGAAATATATATAAAATTT
1 TTAAAAAAT-TATAAAA-TT
25114662 TTAAAAAATTATAAA
1 TTAAAAAATTATAAA
25114677 TATATATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 18 0.64
20 9 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAAAAAATTATAAAATT
Found at i:25114704 original size:37 final size:37
Alignment explanation
Indices: 25114663--25114744 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
25114653 ATAAAATTTT
* * *
25114663 TAAAAAATTATAAATATATATAAATGTATAAAACAAC
1 TAAAAAATTATAAATATATAAAAATATATAAAAAAAC
** *
25114700 TAAAATTTTATAAATTTATAAAAATATATAAAAAAAC
1 TAAAAAATTATAAATATATAAAAATATATAAAAAAAC
25114737 TAAAAAAT
1 TAAAAAAT
25114745 CCCGTGAATC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (37 bp):
TAAAAAATTATAAATATATAAAAATATATAAAAAAAC
Found at i:25122352 original size:5 final size:5
Alignment explanation
Indices: 25122328--25122382 Score: 51
Period size: 5 Copynumber: 10.4 Consensus size: 5
25122318 GCAACCCAAT
25122328 TTTTA TTTT- TCTTTA TTTTTA TTTTTA TTTTA TTATT- TTATTA TTTTA
1 TTTTA TTTTA T-TTTA -TTTTA -TTTTA TTTTA TT-TTA TT-TTA TTTTA
25122376 TTTTA TT
1 TTTTA TT
25122383 ATTAATCACT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.02
5 29 0.64
6 14 0.31
7 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:25122365 original size:8 final size:8
Alignment explanation
Indices: 25122352--25122386 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
25122342 ATTTTTATTT
25122352 TTATTTTA
1 TTATTTTA
25122360 TTATTTTA
1 TTATTTTA
25122368 TTATTTTA
1 TTATTTTA
25122376 TT-TTATTA
1 TTATT-TTA
25122384 TTA
1 TTA
25122387 ATCACTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 23 0.92
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:25122368 original size:13 final size:13
Alignment explanation
Indices: 25122344--25122385 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
25122334 TTTTCTTTAT
25122344 TTTTATTTTTATT-
1 TTTTA-TTTTATTA
25122357 TTATTATTTTATTA
1 TT-TTATTTTATTA
25122371 TTTTATTTTATTA
1 TTTTATTTTATTA
25122384 TT
1 TT
25122386 AATCACTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:25122371 original size:16 final size:16
Alignment explanation
Indices: 25122339--25122386 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
25122329 TTTATTTTTC
*
25122339 TTTATTTTTATTTTTAT
1 TTTA-TTTTATTATTAT
25122356 TTTATTATT-TTATTAT
1 TTTATT-TTATTATTAT
25122372 TTTATTTTATTATTA
1 TTTATTTTATTATTA
25122387 ATCACTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 2 0.07
16 20 0.71
17 6 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTTTATTATTAT
Found at i:25137682 original size:20 final size:22
Alignment explanation
Indices: 25137659--25137704 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
25137649 AATAGTGGAT
25137659 TATTTTTAA-AATA-TTAAAAA
1 TATTTTTAACAATATTTAAAAA
*
25137679 TA--TTTAACTATATTTAAAAA
1 TATTTTTAACAATATTTAAAAA
25137699 TATTTT
1 TATTTT
25137705 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 11 0.52
22 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTAACAATATTTAAAAA
Found at i:25137701 original size:10 final size:10
Alignment explanation
Indices: 25137666--25137703 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
25137656 GATTATTTTT
25137666 AAAATA-TTA
1 AAAATATTTA
25137675 AAAATATTTA
1 AAAATATTTA
**
25137685 ACTATATTTA
1 AAAATATTTA
25137695 AAAATATTT
1 AAAATATTT
25137704 TATTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATATTTA
Found at i:25145253 original size:46 final size:46
Alignment explanation
Indices: 25145186--25145504 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
25145176 AGTGTGCTCT
25145186 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
25145232 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25145278 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25145323 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** **
25145369 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
25145415 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
25145461 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
25145505 TCATGTCAAA
Statistics
Matches: 243, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
45 45 0.19
46 198 0.81
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:25145434 original size:137 final size:138
Alignment explanation
Indices: 25145186--25145527 Score: 422
Period size: 137 Copynumber: 2.5 Consensus size: 138
25145176 AGTGTGCTCT
* * * ***
25145186 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* **
25145251 ACCATGGTTGAAAGATACCATGACAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGACAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
*
25145316 ATGG-CAC
131 ATGGAAAC
* *
25145323 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* ** *
25145388 ACCATGGTTGAAAGATACCATGGCAGTGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGACAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
25145453 ATGGAAAC
131 ATGGAAAC
* * * * * * * *
25145461 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA--AAGATAAATA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATAAATA
25145523 AGACC
64 AGACC
25145528 GTGGATGGGA
Statistics
Matches: 176, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.01
137 132 0.75
138 42 0.24
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGACAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
ATGGAAAC
Found at i:25150933 original size:19 final size:20
Alignment explanation
Indices: 25150883--25150934 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
25150873 AATGCACTCG
*
25150883 GGTGCCTTTGATAGCATATTT
1 GGTGCC-TTGATTGCATATTT
*
25150904 -GTGTCCCTGATTGCAT-TTT
1 GGTG-CCTTGATTGCATATTT
25150923 GGTGCCTTGATT
1 GGTGCCTTGATT
25150935 ACACACTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 10 0.38
20 14 0.54
21 2 0.08
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.44
Consensus pattern (20 bp):
GGTGCCTTGATTGCATATTT
Found at i:25155843 original size:93 final size:93
Alignment explanation
Indices: 25155684--25155869 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
25155674 TATGTGAAGT
*
25155684 GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATATTAAAATATGGTTAAGAAAT
1 GTTTTATTATTTAATTAATGCTTATAGAGTTATACGAGGGTCATATTAAAATATGGTTAAGAAAT
25155749 TATAATGTTTAGATAGTTAATTAAGTAA
66 TATAATGTTTAGATAGTTAATTAAGTAA
*
25155777 GTTTTTTTATTTAATTAATGCTTATAGAGTTATACGAGGGTCATATTAAAATATGGTTAAGAAAT
1 GTTTTATTATTTAATTAATGCTTATAGAGTTATACGAGGGTCATATTAAAATATGGTTAAGAAAT
25155842 TATAATGTTTAGATAGTTAATTAAGTAA
66 TATAATGTTTAGATAGTTAATTAAGTAA
25155870 AAAAAGATTA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (93 bp):
GTTTTATTATTTAATTAATGCTTATAGAGTTATACGAGGGTCATATTAAAATATGGTTAAGAAAT
TATAATGTTTAGATAGTTAATTAAGTAA
Found at i:25157052 original size:41 final size:39
Alignment explanation
Indices: 25156964--25157114 Score: 129
Period size: 41 Copynumber: 3.9 Consensus size: 39
25156954 ACGTGCTTTC
*
25156964 ATTGCACA-TCGGTGCCCCTGTGAA-CACTTTGGTGTCCCT-
1 ATTGCACATTC-GTGCCCC--TGAATCACTTTGGTGCCCCTG
25157003 ATTTGCACATTCGTGCCCCTTGAATGCACTTTGGTGCCCCTG
1 A-TTGCACATTCGTGCCCC-TGAAT-CACTTTGGTGCCCCTG
* *
25157045 ATAGCACATTCGTGCCCCTG-AT---TTCGGTG-CCCTG
1 ATTGCACATTCGTGCCCCTGAATCACTTTGGTGCCCCTG
* * *
25157079 ATTGCACACTCGTGCTCCTGATTGCACTTTGGTGCC
1 ATTGCACATTCGTGCCCCTGAAT-CACTTTGGTGCC
25157115 TCTTTTTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
34 22 0.24
35 7 0.08
39 13 0.14
40 17 0.18
41 32 0.35
42 1 0.01
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.32
Consensus pattern (39 bp):
ATTGCACATTCGTGCCCCTGAATCACTTTGGTGCCCCTG
Found at i:25157059 original size:20 final size:21
Alignment explanation
Indices: 25157006--25157066 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
25156996 TGTCCCTATT
25157006 TGCACATTCGTGCCCCTTGA-A
1 TGCACATTCGTGCCCC-TGATA
* *
25157027 TGCACTTTGGTGCCCCTGATA
1 TGCACATTCGTGCCCCTGATA
25157048 -GCACATTCGTGCCCCTGAT
1 TGCACATTCGTGCCCCTGAT
25157067 TTCGGTGCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.57
21 15 0.43
ACGTcount: A:0.16, C:0.33, G:0.21, T:0.30
Consensus pattern (21 bp):
TGCACATTCGTGCCCCTGATA
Found at i:25157080 original size:34 final size:35
Alignment explanation
Indices: 25157035--25157101 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25157025 AATGCACTTT
*
25157035 GGTGCCCCTGATAGCACATTCGTGCCCCTGATTTC
1 GGTGCCCCTGATAGCACACTCGTGCCCCTGATTTC
* *
25157070 GGTG-CCCTGATTGCACACTCGTGCTCCTGATT
1 GGTGCCCCTGATAGCACACTCGTGCCCCTGATT
25157102 GCACTTTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.13, C:0.33, G:0.24, T:0.30
Consensus pattern (35 bp):
GGTGCCCCTGATAGCACACTCGTGCCCCTGATTTC
Found at i:25164046 original size:44 final size:44
Alignment explanation
Indices: 25163888--25164058 Score: 161
Period size: 44 Copynumber: 3.9 Consensus size: 44
25163878 AGCTCGTACA
* * *
25163888 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACGTCCCAGACGTAGTCTTACACGTAAATCATAA-GTCG
* * *
25163931 ATGCC-ACTATCCTAGACAG-AGTCTTACATGTAAATCATAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTAGTCTTACACGTAAATCATAAGTCG
* * * *
25163975 ATGTCAATGTCCCAGATGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTAGTCTTACACGTAAATCATAAGTCG
* * *
25164019 ATGCCAACGTCCCATACGTAGTTTTACACGAAATATCATA
1 ATGCCAACGTCCCAGACGTAGTCTTACACGTAA-ATCATA
25164059 TTGGATCCTA
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 2 0.02
43 24 0.23
44 68 0.66
45 9 0.09
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTAGTCTTACACGTAAATCATAAGTCG
Found at i:25170266 original size:51 final size:51
Alignment explanation
Indices: 25170144--25170266 Score: 124
Period size: 51 Copynumber: 2.4 Consensus size: 51
25170134 GATCACATGT
* * *
25170144 GTGGTACTAAGTGCAGGCCACTATGTATAAAAGATAGATTTGGTCACAAGT
1 GTGGTACTATGTGCAGGCCACTATGTATAAAAGATAGATTTGCTCACAAGG
* * * * * * *
25170195 ATGGTACTATGTGAAAGCCACTTTGTGA-ATAAGGTAGTTTTGACT-ACAAGG
1 GTGGTACTATGTGCAGGCCACTATGT-ATAAAAGATAGATTTG-CTCACAAGG
25170246 GTGGTACTATGTGCAGGCCAC
1 GTGGTACTATGTGCAGGCCAC
25170267 CGGGCATCTG
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
51 55 0.96
52 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
GTGGTACTATGTGCAGGCCACTATGTATAAAAGATAGATTTGCTCACAAGG
Found at i:25177216 original size:17 final size:18
Alignment explanation
Indices: 25177191--25177228 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
25177181 ACGAACTGAA
25177191 TTTAATTAAA-GATTTTT
1 TTTAATTAAAGGATTTTT
*
25177208 TTTACTTAAAGGATTTTT
1 TTTAATTAAAGGATTTTT
25177226 TTT
1 TTT
25177229 GTGTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTAATTAAAGGATTTTT
Found at i:25178766 original size:20 final size:20
Alignment explanation
Indices: 25178725--25178766 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25178715 TTAATATGTT
*
25178725 AATGCAATATTTTCAGAAAA
1 AATGCAATATTTTCAAAAAA
25178745 AATGCAGAT-TTTTCAAAAAA
1 AATGCA-ATATTTTCAAAAAA
25178765 AA
1 AA
25178767 AACTTCCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
AATGCAATATTTTCAAAAAA
Found at i:25179531 original size:32 final size:32
Alignment explanation
Indices: 25179495--25179566 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
25179485 ATGCTCCTGT
*
25179495 GGCCCACACAA-CCCAAACGACCCAGACTGTGA
1 GGCCCACA-AAGCCCAAACAACCCAGACTGTGA
* *
25179527 GGCCCACAAAGCCTAAACAACCCAGACTGTGT
1 GGCCCACAAAGCCCAAACAACCCAGACTGTGA
*
25179559 GGACCACA
1 GGCCCACA
25179567 GAGTTTGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.35, C:0.38, G:0.19, T:0.08
Consensus pattern (32 bp):
GGCCCACAAAGCCCAAACAACCCAGACTGTGA
Found at i:25184307 original size:39 final size:39
Alignment explanation
Indices: 25184240--25184314 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
25184230 TGAGTATTGT
25184240 ATGATATAGGTTTAGCTCAGACGAGTAACCTGATATGTC
1 ATGATATAGGTTTAGCTCAGACGAGTAACCTGATATGTC
* * *
25184279 ATGATATAGGTTTGGC-CTGAACGGGTAACCTGATAT
1 ATGATATAGGTTTAGCTCAG-ACGAGTAACCTGATAT
25184315 AAATTTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (39 bp):
ATGATATAGGTTTAGCTCAGACGAGTAACCTGATATGTC
Found at i:25200575 original size:95 final size:97
Alignment explanation
Indices: 25200331--25200600 Score: 284
Period size: 95 Copynumber: 2.8 Consensus size: 97
25200321 ATGTACCGAC
* * * * * *
25200331 GCCATGTCCCGGACATGGTCTCACACT-G-GCTCACACATCAAAGTCGATGCCATGTCCCAGACA
1 GCCATATCCCAGACATGGTCTTACACTAGCTCTCATATATCAAAGTCGATGCCATGTCCCAGACA
* **
25200394 TGGTCTTACACTGACTCTCATATATCGGGGTCAAT
66 TGGTCTTACACTG---CGCATATATCGAAGTCAAT
* * * * *
25200429 GCCATATCCCAGACATGGTCTTACACTGGTTCTCATCTATCGATG-CTGATGCCATGTCCCAGAC
1 GCCATATCCCAGACATGGTCTTACACTAGCTCTCATATATCAAAGTC-GATGCCATGTCCCAGAC
*
25200493 ATGGTCTTACACTG-GCATATATC-AAGTCGAT
65 ATGGTCTTACACTGCGCATATATCGAAGTCAAT
* *
25200524 GCCA-AGTCCCAGACATAGG-CTTACACTAGCTCTCATATCTCAAGGTCGATGCCATGTCCCAGA
1 GCCATA-TCCCAGACAT-GGTCTTACACTAGCTCTCATATATCAAAGTCGATGCCATGTCCCAGA
25200587 CATGGTCTTACACT
64 CATGGTCTTACACT
25200601 AGCTCTCATA
Statistics
Matches: 147, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
94 1 0.01
95 69 0.47
96 11 0.07
98 24 0.16
99 2 0.01
100 40 0.27
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (97 bp):
GCCATATCCCAGACATGGTCTTACACTAGCTCTCATATATCAAAGTCGATGCCATGTCCCAGACA
TGGTCTTACACTGCGCATATATCGAAGTCAAT
Found at i:25200597 original size:145 final size:147
Alignment explanation
Indices: 25200331--25200609 Score: 395
Period size: 145 Copynumber: 1.9 Consensus size: 147
25200321 ATGTACCGAC
* *
25200331 GCCATGTCCCGGACATGGTCTCACACTGGCTCACACATCAAAGTCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTCACACTGGC-CACACATCAAAGTCGATGCCAAGTCCCAGACATG
** * *
25200396 GTCTTACACTGACTCTCATATATCGGGGTCAATGCCATATCCCAGACATGGTCTTACACTGGTTC
65 GTCTTACACTGACTCTCATATATCAAGGTCAATGCCATATCCCAGACATGGTCTTACACTAGCTC
25200461 TCATCTATCGATGCTGAT
130 TCATCTATCGATGCTGAT
* * *
25200479 GCCATGTCCCAGACATGGTCTTACACTGG-CATATATC-AAGTCGATGCCAAGTCCCAGACATAG
1 GCCATGTCCCAGACATGGTCTCACACTGGCCACACATCAAAGTCGATGCCAAGTCCCAGACAT-G
* * *
25200542 G-CTTACACT-AGCTCTCATATCTCAAGGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
65 GTCTTACACTGA-CTCTCATATATCAAGGTCAATGCCATATCCCAGACATGGTCTTACACTAGCT
25200605 CTCAT
129 CTCAT
25200610 ATCTCTCTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
144 1 0.01
145 81 0.69
146 8 0.07
148 27 0.23
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (147 bp):
GCCATGTCCCAGACATGGTCTCACACTGGCCACACATCAAAGTCGATGCCAAGTCCCAGACATGG
TCTTACACTGACTCTCATATATCAAGGTCAATGCCATATCCCAGACATGGTCTTACACTAGCTCT
CATCTATCGATGCTGAT
Found at i:25200614 original size:50 final size:49
Alignment explanation
Indices: 25200331--25200611 Score: 306
Period size: 50 Copynumber: 5.8 Consensus size: 49
25200321 ATGTACCGAC
* * * * * *
25200331 GCCATGTCCCGGACATGGTCTCACACTG-GCTCACACATCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCAAGGTCGAT
** *
25200379 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGGGGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTG-CTCTCATATATCAAGGTCGAT
* * * * *
25200429 GCCATATCCCAGACATGGTCTTACACTGGTTCTCATCTATCGATG-CTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATATCAAGGTC-GAT
*
25200479 GCCATGTCCCAGACATGGTCTTACACTG---GCATATATCAA-GTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCAAGGTCGAT
* *
25200524 GCCAAGTCCCAGACATAGG-CTTACACTAGCTCTCATATCTCAAGGTCGAT
1 GCCATGTCCCAGACAT-GGTCTTACACT-GCTCTCATATATCAAGGTCGAT
25200574 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAT
25200612 CTCTCTAACA
Statistics
Matches: 198, Mismatches: 23, Indels: 22
0.81 0.09 0.09
Matches are distributed among these distances:
45 27 0.14
46 12 0.06
48 26 0.13
49 13 0.07
50 119 0.60
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCAAGGTCGAT
Found at i:25204604 original size:22 final size:23
Alignment explanation
Indices: 25204564--25204607 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
25204554 AATTAATTTC
*
25204564 TAGAAAATAGATTAAATTTTTTA
1 TAGAAAATAAATTAAATTTTTTA
*
25204587 TAGAAAA-AAATTATATTTTTT
1 TAGAAAATAAATTAAATTTTTT
25204608 TGATGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (23 bp):
TAGAAAATAAATTAAATTTTTTA
Found at i:25204832 original size:28 final size:28
Alignment explanation
Indices: 25204782--25204838 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
25204772 TAATTTTTTG
* *
25204782 TAATAATTAATATCATATAAAAATTTAA
1 TAATAAATAATATCATATAAAAACTTAA
*
25204810 TAATAAATAATATC-TAATTAAAACTTAA
1 TAATAAATAATATCAT-ATAAAAACTTAA
25204838 T
1 T
25204839 TTAAAGTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (28 bp):
TAATAAATAATATCATATAAAAACTTAA
Found at i:25207883 original size:45 final size:45
Alignment explanation
Indices: 25207811--25207917 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 45
25207801 GAGGCTTTCA
*
25207811 AAAGGTAATAAAGTGGCATTGCTCTCGTACATAAGAGGAAG-CTTATG
1 AAAGGTAAT-AA-TGGCATTGCTCTCGTACATAAG-GGAAGACTTACG
* *
25207858 AAAGGTAATAATGGTATTGCTCTCGTACATAAGGGGAGACTTACG
1 AAAGGTAATAATGGCATTGCTCTCGTACATAAGGGAAGACTTACG
* *
25207903 GAAGGTAGTAATGGC
1 AAAGGTAATAATGGC
25207918 CCTGCTCCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 4 0.08
45 38 0.72
46 2 0.04
47 9 0.17
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (45 bp):
AAAGGTAATAATGGCATTGCTCTCGTACATAAGGGAAGACTTACG
Found at i:25207941 original size:92 final size:94
Alignment explanation
Indices: 25207845--25208057 Score: 238
Period size: 92 Copynumber: 2.3 Consensus size: 94
25207835 TCGTACATAA
25207845 GAGGAAGCTTATGAAAGGTAATAATGGTATTGCTCTCGTACATA-A-GGGGAGACTTACGGAAGG
1 GAGGAAGCTTATGAAAGGTAATAATGGTATTGCTC-C-TACATATAGGGGGAGACTTACGGAAGG
*
25207908 TAGT-AA-TGGCCCTGCTCCCAAACGCATGG
64 TAATAAAGTGGCCCTGCTCCCAAACGCATGG
*** * * *
25207937 GAGG-AGACTTGCAAAAGGTAATAATGGTCTTGCTCCTGCATATAGGGGGAGGCTTACGGAAGGT
1 GAGGAAG-CTTATGAAAGGTAATAATGGTATTGCTCCTACATATAGGGGGAGACTTACGGAAGGT
* * * *
25208001 AATAAAGTGGCCTTGCTCCTAGATGCATGG
65 AATAAAGTGGCCCTGCTCCCAAACGCATGG
* * *
25208031 GAGGAGGTTTATGGAAGGTAATAATGG
1 GAGGAAGCTTATGAAAGGTAATAATGG
25208058 CCCTACTCTT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
90 5 0.05
91 4 0.04
92 48 0.49
93 2 0.02
94 38 0.39
95 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.24
Consensus pattern (94 bp):
GAGGAAGCTTATGAAAGGTAATAATGGTATTGCTCCTACATATAGGGGGAGACTTACGGAAGGTA
ATAAAGTGGCCCTGCTCCCAAACGCATGG
Found at i:25208047 original size:49 final size:49
Alignment explanation
Indices: 25207892--25208189 Score: 172
Period size: 47 Copynumber: 6.3 Consensus size: 49
25207882 GTACATAAGG
* * * * *
25207892 GGAGACTTACGGAAGGTAGT-AA-TGGCCCTGCTCCCAAACGCATGGGA
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCATGGGA
* **** * * **
25207939 GGAGACTTGCAAAAGGTAAT-AA-TGGTCTTGCTCCT-G-CATATAGGG-
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCAT-GGGA
* * *
25207984 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGATGCATGGGA
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCATGGGA
* * * *
25208033 GGAGGTTTATGGAAGGTAAT-AA-TGGCCCTACT-CTTG-CACATAGGGA
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCAT-GGGA
* * * * * *
25208079 GGA-GCTTATGAAAGATCATAAAGTGGCCTTGCTCCAAGACACATGGGA
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCATGGGA
* * ** ** *
25208127 GAAGGCTTACGGAAGGTGGTAATAGAAGCCCTGCTCCTAGACGAATGGG-
1 GGAGGCTTATGGAAGGTAATAA-AGTGGCCCTGCTCCTAGACGCATGGGA
25208176 GGAGGCTTATGGAA
1 GGAGGCTTATGGAA
25208190 AAATAGTGGT
Statistics
Matches: 191, Mismatches: 47, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
45 34 0.18
46 17 0.09
47 56 0.29
48 14 0.07
49 50 0.26
50 20 0.10
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (49 bp):
GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCATGGGA
Found at i:25208056 original size:94 final size:94
Alignment explanation
Indices: 25207614--25208143 Score: 292
Period size: 94 Copynumber: 5.8 Consensus size: 94
25207604 TCCTAAACGC
* * * * * *
25207614 ATAGGGGAAGGCTTACAAAAGGTGATAAAGCGGCATTGCTCCT-G-TACAT-GGAGGGAGG-TGT
1 ATAGGGGGAGGCTTACGAAAGGTAATAAAGTGGCCTTGCTCCTAGACACATGGGA-GGAGGCT-T
** *
25207675 AC--AAGGTAATAATGG-CTTTGCTCCCACAC
64 ACGAAAGGTAATAATGGTC-TTGCTCCTGCAT
* * * * * * *
25207704 ATAGGAGGAGG-TTATGGAAGGTAAT-AA-TGACTTTGCTCCT--ACACATGGGGGGAGGCCTAC
1 ATAGGGGGAGGCTTACGAAAGGTAATAAAGTGGCCTTGCTCCTAGACACATGGGAGGAGGCTTAC
* ** * * *
25207764 GAATGGTAATAATATGACCCTT-CTCCCGTAC
66 GAAAGGTAAT-A-ATG-GTCTTGCTCCTGCAT
* * * * * ** * *
25207795 AT-GGGGGAGGCTTTCAAAAGGTAATAAAGTGGCATTGCT-CTCG-TACATAAGAGGAAGCTTAT
1 ATAGGGGGAGGCTTACGAAAGGTAATAAAGTGGCCTTGCTCCTAGACACATGGGAGGAGGCTTAC
* *
25207857 GAAAGGTAATAATGGTATTGCTCTCGTACAT
66 GAAAGGTAATAATGGTCTTGCTC-C-TGCAT
* * * * * * * * *
25207888 A-A-GGGGAGACTTACGGAAGGTAGT-AA-TGGCCCTGCTCCCAAACGCATGGGAGGAGACTTGC
1 ATAGGGGGAGGCTTACGAAAGGTAATAAAGTGGCCTTGCTCCTAGACACATGGGAGGAGGCTTAC
*
25207949 AAAAGGTAATAATGGTCTTGCTCCTGCAT
66 GAAAGGTAATAATGGTCTTGCTCCTGCAT
* ** * *
25207978 ATAGGGGGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGATGCATGGGAGGAGGTTTAT
1 ATAGGGGGAGGCTTACGAAAGGTAATAAAGTGGCCTTGCTCCTAGACACATGGGAGGAGGCTTAC
* * * * * *
25208043 GGAAGGTAATAATGGCCCTACTCTTGCAC
66 GAAAGGTAATAATGGTCTTGCTCCTGCAT
* * * * *
25208072 ATAGGGAGGA-GCTTATGAAAGATCATAAAGTGGCCTTGCTCCAAGACACATGGGAGAAGGCTTA
1 ATAGGG-GGAGGCTTACGAAAGGTAATAAAGTGGCCTTGCTCCTAGACACATGGGAGGAGGCTTA
*
25208136 CGGAAGGT
65 CGAAAGGT
25208144 GGTAATAGAA
Statistics
Matches: 329, Mismatches: 86, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
87 22 0.07
88 4 0.01
89 17 0.05
90 32 0.10
91 33 0.10
92 77 0.23
93 34 0.10
94 107 0.33
95 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (94 bp):
ATAGGGGGAGGCTTACGAAAGGTAATAAAGTGGCCTTGCTCCTAGACACATGGGAGGAGGCTTAC
GAAAGGTAATAATGGTCTTGCTCCTGCAT
Found at i:25210964 original size:72 final size:72
Alignment explanation
Indices: 25210888--25211034 Score: 267
Period size: 72 Copynumber: 2.0 Consensus size: 72
25210878 AATTGGCCTC
* *
25210888 TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAACACCATTCAAATTTTAATAATATAAATTA
1 TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
25210953 AAAGATA
66 AAAGATA
*
25210960 TTTAAAAAGTTTTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
1 TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
25211025 AAAGATA
66 AAAGATA
25211032 TTT
1 TTT
25211035 GAAGGTTACA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (72 bp):
TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
AAAGATA
Done.