Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 215 of 250
Found at i:66613954 original size:25 final size:25
Alignment explanation
Indices: 66613878--66613954 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 25
66613868 TTTCCATAGT
* *
66613878 ATTTAATATTTTTTTAATTTATGCA
1 ATTTAATATTTTTTTCATTTATACA
*
66613903 ATTTTAAT-TAATTTTTCA---ATACA
1 A-TTTAATAT-TTTTTTCATTTATACA
66613926 ATTTAATATTTTTTTCATTTATACA
1 ATTTAATATTTTTTTCATTTATACA
66613951 ATTT
1 ATTT
66613955 TAATTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
22 13 0.31
23 6 0.14
25 11 0.26
26 12 0.29
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (25 bp):
ATTTAATATTTTTTTCATTTATACA
Found at i:66614917 original size:7 final size:7
Alignment explanation
Indices: 66614905--66614964 Score: 93
Period size: 7 Copynumber: 8.6 Consensus size: 7
66614895 ACTCGTTTCT
66614905 TATTTAG
1 TATTTAG
*
66614912 TATTTAA
1 TATTTAG
66614919 TATTTAG
1 TATTTAG
*
66614926 TATTTGG
1 TATTTAG
66614933 TATTTAG
1 TATTTAG
66614940 TATTTAG
1 TATTTAG
66614947 TATTTAG
1 TATTTAG
*
66614954 TATCTAG
1 TATTTAG
66614961 TATT
1 TATT
66614965 ACTTATACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (7 bp):
TATTTAG
Found at i:66616065 original size:27 final size:27
Alignment explanation
Indices: 66616035--66616132 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
66616025 TAAAAGTTGT
66616035 TTTTAATATTT-TAATTATAATTTACTC
1 TTTT-ATATTTGTAATTATAATTTACTC
* * *
66616062 TTTTATATTTGTAATAAAATAAAAGTT-GT-
1 TTTTATATTTGTAAT----TATAATTTACTC
66616091 TTTTAGTATTT-TAATTATAATTTACTC
1 TTTTA-TATTTGTAATTATAATTTACTC
66616118 TTTTATATTTGTAAT
1 TTTTATATTTGTAAT
66616133 AAAATAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 6 0.11
26 12 0.21
27 17 0.30
29 9 0.16
30 6 0.11
31 6 0.11
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTTATATTTGTAATTATAATTTACTC
Found at i:66616082 original size:56 final size:56
Alignment explanation
Indices: 66616017--66616154 Score: 258
Period size: 56 Copynumber: 2.5 Consensus size: 56
66616007 TTCTTTCATT
66616017 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
*
66616073 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
*
66616129 TAATAAAATAAAAGTTGTTTTGAATA
1 TAATAAAATAAAAGTTGTTTTTAATA
66616155 AGGAAATATT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 79 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
Found at i:66619055 original size:50 final size:50
Alignment explanation
Indices: 66618931--66619179 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
66618921 GATAATAACA
* * ** * *
66618931 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
66618982 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
66619032 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
66619082 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
66619137 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
66619180 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:66619109 original size:100 final size:104
Alignment explanation
Indices: 66618930--66619179 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
66618920 TGATAATAAC
**
66618930 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
66618995 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
66619032 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
66619095 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
66619137 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
66619180 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:66619295 original size:13 final size:13
Alignment explanation
Indices: 66619274--66619304 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
66619264 GCTTGGATCA
*
66619274 TCATCAAATAAAT
1 TCATAAAATAAAT
66619287 TCATAAAATAAAT
1 TCATAAAATAAAT
66619300 TCATA
1 TCATA
66619305 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:66619551 original size:30 final size:30
Alignment explanation
Indices: 66619516--66619573 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66619506 CCTCGACTCT
*
66619516 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
66619546 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
66619574 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:66622234 original size:126 final size:126
Alignment explanation
Indices: 66622007--66622372 Score: 459
Period size: 126 Copynumber: 2.9 Consensus size: 126
66621997 GGAACTACTG
* * * *
66622007 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTCTCAGTAATTTTTG-TGAAAGTGCATACTGCATGA
1 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAA-TTTTGCTGACAGTGCATCCTGCTTGA
* * * * * *
66622071 AGCGTTTTTGACATTATTTGTTCAGAAAGGTCATCTCACAATTATTTTTTCAGATACCACTG
65 AGCGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTA
** * * * *
66622133 TATCAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGTATCCTGCTTAAA
1 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
** *
66622198 GTATTTTTTACACTACTTT-TTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTA
66 GCGTTTTTGACACTA-TTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTA
* * *
66622259 TAGAAAAAAAACGTCCACGTGGGAGCATTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
1 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
* * * *
66622324 GCGTTTTGGATACTATTTCTTCAGAAACTTCTTCTTAAAATT-TTTTTTC
66 GCGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTC
66622373 CAAATACTAC
Statistics
Matches: 203, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
125 15 0.07
126 185 0.91
127 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (126 bp):
TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
GCGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTA
Found at i:66622607 original size:6 final size:6
Alignment explanation
Indices: 66622596--66622634 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
66622586 CTTAAAAAAA
66622596 CCTAAC CCTAAC CCTAAC CC--AC CCTAAC CCTAAC CCTAA
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAA
66622635 AAAACCCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
6 27 0.87
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.15
Consensus pattern (6 bp):
CCTAAC
Found at i:66622621 original size:16 final size:16
Alignment explanation
Indices: 66622600--66622631 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
66622590 AAAAAACCTA
66622600 ACCCTAACCCTAACCC
1 ACCCTAACCCTAACCC
66622616 ACCCTAACCCTAACCC
1 ACCCTAACCCTAACCC
66622632 TAAAAAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.56, G:0.00, T:0.12
Consensus pattern (16 bp):
ACCCTAACCCTAACCC
Found at i:66622641 original size:22 final size:22
Alignment explanation
Indices: 66622588--66622644 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
66622578 CCATACACCT
*
66622588 TAAAAAAACCTAACCCTAACCC
1 TAAAAAACCCTAACCCTAACCC
***
66622610 TAACCCACCCTAACCCTAACCC
1 TAAAAAACCCTAACCCTAACCC
66622632 TAAAAAACCCTAA
1 TAAAAAACCCTAA
66622645 TTCCAACAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (22 bp):
TAAAAAACCCTAACCCTAACCC
Found at i:66636330 original size:22 final size:21
Alignment explanation
Indices: 66636305--66636363 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
66636295 AAACCCTAAT
*
66636305 TTCTCCTTTTTCTTTTCTTTTC
1 TTCT-CTTTTTCTTTTCGTTTC
66636327 TTCT-TTCTTTCTATTTCGTTTC
1 TTCTCTT-TTTCT-TTTCGTTTC
*
66636349 TTCTCTGTTTCTTTT
1 TTCTCTTTTTCTTTT
66636364 TCTTGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 8 0.25
22 21 0.66
23 1 0.03
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (21 bp):
TTCTCTTTTTCTTTTCGTTTC
Found at i:66636366 original size:14 final size:15
Alignment explanation
Indices: 66636327--66636371 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
66636317 TTTTCTTTTC
*
66636327 TTCTTTCTT-TCTAT
1 TTCTTTCTTCTCTGT
66636341 TTCGTTTCTTCTCTGT
1 TTC-TTTCTTCTCTGT
66636357 TTCTTT-TTCT-TGT
1 TTCTTTCTTCTCTGT
66636370 TT
1 TT
66636372 TTCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 9 0.32
16 7 0.25
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (15 bp):
TTCTTTCTTCTCTGT
Found at i:66641413 original size:18 final size:18
Alignment explanation
Indices: 66641390--66641425 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66641380 ATGAAGCGGT
66641390 AAAATGGTTCTTTCTTTA
1 AAAATGGTTCTTTCTTTA
66641408 AAAATGGTTCTTTCTTTA
1 AAAATGGTTCTTTCTTTA
66641426 CAATTGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
AAAATGGTTCTTTCTTTA
Found at i:66641482 original size:40 final size:40
Alignment explanation
Indices: 66641438--66641517 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
66641428 ATTGTGTTTA
66641438 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
1 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
66641478 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
1 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
66641518 TGTTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (40 bp):
CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
Found at i:66642216 original size:12 final size:12
Alignment explanation
Indices: 66642199--66642234 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
66642189 TCGATTGAAT
66642199 AAATTATTAAAA
1 AAATTATTAAAA
*
66642211 AAATTACT-AAA
1 AAATTATTAAAA
66642222 AAATTATTAAAA
1 AAATTATTAAAA
66642234 A
1 A
66642235 TCTGGTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTATTAAAA
Found at i:66648651 original size:21 final size:21
Alignment explanation
Indices: 66648625--66648665 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66648615 ATCTGCTCAA
* *
66648625 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
66648646 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
66648666 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:66653518 original size:34 final size:37
Alignment explanation
Indices: 66653457--66653530 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 37
66653447 TAAAATATAG
*
66653457 ATATGTGTTTTAAAATAATATACAATAA-ATAATAAAAT
1 ATATGTGTTTGAAAATAATATA-AATAATA-AATAAAAT
66653495 ATATG-GTTTGAAAATAAT-T-AATAATAAATAAAAT
1 ATATGTGTTTGAAAATAATATAAATAATAAATAAAAT
66653529 AT
1 AT
66653531 GTAAGATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
34 15 0.44
35 1 0.03
36 1 0.03
37 12 0.35
38 5 0.15
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (37 bp):
ATATGTGTTTGAAAATAATATAAATAATAAATAAAAT
Found at i:66660415 original size:16 final size:18
Alignment explanation
Indices: 66660387--66660420 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66660377 TGACATATAT
66660387 TTTTATATA-TTTTAAAA
1 TTTTATATATTTTTAAAA
66660404 TTTTAT-TATTTTTAAAA
1 TTTTATATATTTTTAAAA
66660421 ATTAAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATATATTTTTAAAA
Found at i:66668197 original size:23 final size:25
Alignment explanation
Indices: 66668171--66668230 Score: 63
Period size: 28 Copynumber: 2.4 Consensus size: 25
66668161 TGTATTCGAG
*
66668171 TTTAGTATTTTT-T-TAATGTAGTA
1 TTTAGTATTTTTGTCTAATATAGTA
66668194 TTTATGTTATTTTTTGTCTAATATAGTA
1 TTTA-G-TA-TTTTTGTCTAATATAGTA
66668222 TTT-GTATTT
1 TTTAGTATTT
66668231 GATAAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 4 0.13
26 6 0.19
27 1 0.03
28 12 0.39
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.63
Consensus pattern (25 bp):
TTTAGTATTTTTGTCTAATATAGTA
Found at i:66676077 original size:6 final size:6
Alignment explanation
Indices: 66676066--66676099 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
66676056 GGATTGCAAG
*
66676066 TTTTCA TTTTCA TTTTCA TTTTCA TTTCCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
66676100 TGGAAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCA
Found at i:66677368 original size:24 final size:24
Alignment explanation
Indices: 66677341--66677405 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 24
66677331 TGAAAGAGCG
*
66677341 TCCCGTTATTAGCTCTCATAAGCT
1 TCCCGTTATTAGCTCTCACAAGCT
* * * *
66677365 TCCCGTTATATGGTTCTTACGAGCT
1 TCCCGTTAT-TAGCTCTCACAAGCT
*
66677390 TCCCGTTAATAGCTCT
1 TCCCGTTATTAGCTCT
66677406 TCGGAGCATC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.38
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTCACAAGCT
Found at i:66677412 original size:24 final size:25
Alignment explanation
Indices: 66677336--66677406 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 25
66677326 CAGCTTGAAA
* * *
66677336 GAGCGTCCCGTTAT-TAGCTCTCAT
1 GAGCTTCCCGTTATATAGCTCTTAC
* * *
66677360 AAGCTTCCCGTTATATGGTTCTTAC
1 GAGCTTCCCGTTATATAGCTCTTAC
66677385 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
66677407 CGGAGCATCC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTAC
Found at i:66677509 original size:25 final size:26
Alignment explanation
Indices: 66677464--66677530 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
66677454 ACAACTCTTA
* *
66677464 TGAGCGTCCCGA-TATATGGCTCTAAG
1 TGAGCTTCCCGATTA-AAGGCTCTAAG
**
66677490 -GAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTAAG
*
66677515 TGAGCTTCCTGATTAA
1 TGAGCTTCCCGATTAA
66677531 TTGGCTCTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 18 0.53
26 16 0.47
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTAAG
Found at i:66678271 original size:46 final size:46
Alignment explanation
Indices: 66678211--66678392 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
66678201 TTTGACGTGA
* * * * * *
66678211 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
66678257 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
66678303 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66678349 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
66678393 AGAGCACACT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 3 0.02
46 122 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:66680061 original size:3 final size:3
Alignment explanation
Indices: 66680055--66680100 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
66680045 CATCATCATC
**
66680055 ATT ATT ATT ATT ATT ACC ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
66680101 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:66684419 original size:17 final size:18
Alignment explanation
Indices: 66684385--66684430 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
66684375 CCGTTATGTC
66684385 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
66684400 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
66684417 CGCGACCGCGACCG
1 CGCGACCGCGACCG
66684431 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:66686930 original size:24 final size:25
Alignment explanation
Indices: 66686903--66687021 Score: 84
Period size: 25 Copynumber: 4.8 Consensus size: 25
66686893 TTCTCGATAT
*
66686903 TGGCTCATATGAGCTTCCTGTTA-A
1 TGGCTCATATGAGCTTCCCGTTACA
*
66686927 TGGCTC-TCAGGAGCTTCCCGTTACA
1 TGGCTCAT-ATGAGCTTCCCGTTACA
* * * *
66686952 TGGCTTACATGAGCTTCCCATTATA
1 TGGCTCATATGAGCTTCCCGTTACA
* ** *
66686977 TGGCTCGA-AAGAGCTTCTTGTT-TA
1 TGGCTC-ATATGAGCTTCCCGTTACA
66687001 TGTGCTCATATGAGCATTCCC
1 TG-GCTCATATGAGC-TTCCC
66687022 AAATATGAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
23 1 0.01
24 24 0.33
25 44 0.60
26 4 0.05
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
TGGCTCATATGAGCTTCCCGTTACA
Found at i:66693319 original size:8 final size:8
Alignment explanation
Indices: 66693306--66693334 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
66693296 TTATGTTTAG
66693306 TATATTAT
1 TATATTAT
66693314 TATATTAT
1 TATATTAT
66693322 TATATTAT
1 TATATTAT
66693330 TATAT
1 TATAT
66693335 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:66693367 original size:5 final size:5
Alignment explanation
Indices: 66693357--66693387 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
66693347 TTATGTTTTA
66693357 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
66693388 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:66694672 original size:101 final size:101
Alignment explanation
Indices: 66694501--66694735 Score: 420
Period size: 101 Copynumber: 2.3 Consensus size: 101
66694491 AAAAAGTTTC
66694501 AAATTTTCATTATACCTTTTAATTTGTTTTAAATTTTTTGAAAAAGTTTCACTTCTCCTTAAAGT
1 AAATTTTCATTATACCTTTTAATTTGTTTTAAATTTTTTGAAAAAGTTTCACTTCTCCTTAAAGT
66694566 TTTTTAAAAAATTTAATTACACCCATCAAG-TTTTA
66 TTTTTAAAAAATTTAATTACACCCATCAAGTTTTTA
66694601 TAAATTTTCATTATACCTTTTAATTTGTTTTAAATTTTTTGAAAAAGTTTCACTTCTCCTTAAAG
1 -AAATTTTCATTATACCTTTTAATTTGTTTTAAATTTTTTGAAAAAGTTTCACTTCTCCTTAAAG
* * *
66694666 TTTTTTAAAAAATTTAGTTAGACCCTTCAAGTTTTTA
65 TTTTTTAAAAAATTTAATTACACCCATCAAGTTTTTA
66694703 AAATTTTCATTATACCTTTTAATTTG-TTTAAAT
1 AAATTTTCATTATACCTTTTAATTTGTTTTAAAT
66694736 AATTTTAATT
Statistics
Matches: 130, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
100 7 0.05
101 118 0.91
102 5 0.04
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.50
Consensus pattern (101 bp):
AAATTTTCATTATACCTTTTAATTTGTTTTAAATTTTTTGAAAAAGTTTCACTTCTCCTTAAAGT
TTTTTAAAAAATTTAATTACACCCATCAAGTTTTTA
Found at i:66699525 original size:18 final size:18
Alignment explanation
Indices: 66699499--66699533 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66699489 GAATTATTCG
*
66699499 AATCGAGTTAATCGAATT
1 AATCAAGTTAATCGAATT
66699517 AATCAAGTTAATCGAAT
1 AATCAAGTTAATCGAAT
66699534 CAGCTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
AATCAAGTTAATCGAATT
Found at i:66699902 original size:12 final size:12
Alignment explanation
Indices: 66699885--66699917 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
66699875 TATTTTTTAG
66699885 TTATTTACTCAC
1 TTATTTACTCAC
*
66699897 TTATTTATTCAC
1 TTATTTACTCAC
66699909 TTATTTACT
1 TTATTTACT
66699918 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:66701212 original size:30 final size:29
Alignment explanation
Indices: 66701178--66701236 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
66701168 AAAATTTTAA
* *
66701178 AAATATTTTTTATAATTATTATACTTTTTT
1 AAATAATTTTAATAATTATTA-ACTTTTTT
* *
66701208 AAATAATTTTAATGATTTTTAACTTTTTT
1 AAATAATTTTAATAATTATTAACTTTTTT
66701237 TGAATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (29 bp):
AAATAATTTTAATAATTATTAACTTTTTT
Found at i:66701719 original size:15 final size:15
Alignment explanation
Indices: 66701699--66701729 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66701689 ATTTCAAAGG
66701699 ACCAAAAACAAACCA
1 ACCAAAAACAAACCA
*
66701714 ACCAAAACCAAACCA
1 ACCAAAAACAAACCA
66701729 A
1 A
66701730 ACACAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (15 bp):
ACCAAAAACAAACCA
Found at i:66709455 original size:19 final size:20
Alignment explanation
Indices: 66709418--66709456 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
66709408 TTTTAAAAAC
* *
66709418 ATTTTTATTTGGAATTTTAA
1 ATTTTTATTTGAAAATTTAA
66709438 ATTTTT-TTTGAAAATTTAA
1 ATTTTTATTTGAAAATTTAA
66709457 GATTATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
ATTTTTATTTGAAAATTTAA
Found at i:66709569 original size:6 final size:6
Alignment explanation
Indices: 66709558--66709587 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
66709548 AAACATAATC
*
66709558 CAAAAA CAAAAA AAAAAA CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
66709588 ATGACATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:66710095 original size:14 final size:14
Alignment explanation
Indices: 66710068--66710114 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66710058 TTCGTTATAG
*
66710068 TTTT-TTTTTGTTT
1 TTTTATTTTTATTT
66710081 TTTTATTTTTATTT
1 TTTTATTTTTATTT
*
66710095 TTTCATTTTTATATT
1 TTTTATTTTTAT-TT
66710110 TTTTA
1 TTTTA
66710115 ACATTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 4 0.14
14 19 0.66
15 6 0.21
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:66711764 original size:50 final size:50
Alignment explanation
Indices: 66711649--66711841 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
66711639 GATAATAACA
* * ** * *
66711649 TGCCAAAGCCATGTTCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
66711700 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
66711750 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66711800 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
66711842 TTACCCAAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 96 0.75
51 32 0.25
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:66711957 original size:13 final size:13
Alignment explanation
Indices: 66711936--66711966 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
66711926 GCTTAGATCA
*
66711936 TCATCAAATAAAT
1 TCATAAAATAAAT
66711949 TCATAAAATAAAT
1 TCATAAAATAAAT
66711962 TCATA
1 TCATA
66711967 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:66712214 original size:30 final size:30
Alignment explanation
Indices: 66712179--66712236 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
66712169 TCTCGACTCT
*
66712179 AACTTTTTCAAAATTAAAATTTTGCCCCTA
1 AACTTTTACAAAATTAAAATTTTGCCCCTA
* * *
66712209 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTAAAATTTTGCCCC
66712237 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTAAAATTTTGCCCCTA
Found at i:66721371 original size:11 final size:10
Alignment explanation
Indices: 66721322--66721372 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
66721312 AGGTTAATGT
66721322 TAATTAATTA
1 TAATTAATTA
*
66721332 TTGATTAATTA
1 -TAATTAATTA
*
66721343 -AACTAATTA
1 TAATTAATTA
*
66721352 TGATTAATTA
1 TAATTAATTA
66721362 TAAGTTAATTA
1 TAA-TTAATTA
66721373 AAGGCATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.22
10 9 0.28
11 16 0.50
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (10 bp):
TAATTAATTA
Found at i:66722587 original size:43 final size:43
Alignment explanation
Indices: 66722519--66722672 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 43
66722509 GCTATAGCAG
* * * * * *
66722519 ACGCTGCTAAAGAGCATGACTTTTAGCGGCACTTTTTTTACAA
1 ACGCCGCTAAAAATCATGACCTTTAGCGGCACTTTTCTCACAA
* *
66722562 ACGCCGCTAAAAACCATGACCTTTAGCGGCACTTTTCCCGA-AA
1 ACGCCGCTAAAAATCATGACCTTTAGCGGCACTTTTCTC-ACAA
* * * * *
66722605 ACGCCTCTAAAGATCATGACCTTTGGCGACGCTTTTCTCACAA
1 ACGCCGCTAAAAATCATGACCTTTAGCGGCACTTTTCTCACAA
*
66722648 ACGCCGCTAAAAATCATGAACTTTA
1 ACGCCGCTAAAAATCATGACCTTTA
66722673 AAAAAATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 89 0.98
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
ACGCCGCTAAAAATCATGACCTTTAGCGGCACTTTTCTCACAA
Found at i:66722721 original size:22 final size:23
Alignment explanation
Indices: 66722693--66722735 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
66722683 TTTATTTTAA
*
66722693 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
66722715 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
66722736 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:66725941 original size:43 final size:42
Alignment explanation
Indices: 66725893--66726094 Score: 156
Period size: 43 Copynumber: 4.7 Consensus size: 42
66725883 GCAAAATTTT
* *
66725893 GCGGCGTTTATTTAAAAAACGCCGCTAAAGACCATGGCCTTTA
1 GCGGCGTTT-TTCAAAAAACGCCGCTAAAGACCATGACCTTTA
* **
66725936 GCGGCGCTTTTCACGTAAACGCCGCTAAAGACCATGACCTTTA
1 GCGGCGTTTTTCA-AAAAACGCCGCTAAAGACCATGACCTTTA
* * * *
66725979 GCGGCGCTTTTCCCAAAAACGCCGCTAAAAAACATGACCTTTA
1 GCGGCG-TTTTTCAAAAAACGCCGCTAAAGACCATGACCTTTA
* * ** * * * * *
66726022 GCAGCACTTTTTTTACAAACGCCACTACAGAACA-AACCTTTA
1 GCGGC-GTTTTTCAAAAAACGCCGCTAAAGACCATGACCTTTA
* *
66726064 GCGGCGCTTTTCTC-ACAAACGCTGCTAAAGA
1 GCGGCG-TTTT-TCAAAAAACGCCGCTAAAGA
66726095 ATATAACCTT
Statistics
Matches: 126, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
42 32 0.25
43 90 0.71
44 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
GCGGCGTTTTTCAAAAAACGCCGCTAAAGACCATGACCTTTA
Found at i:66726042 original size:86 final size:84
Alignment explanation
Indices: 66725907--66726106 Score: 222
Period size: 86 Copynumber: 2.3 Consensus size: 84
66725897 CGTTTATTTA
* * * * * * *
66725907 AAAAACGCCGCTAAAGACCATGGCCTTTAGCGGCGCTTTTCACGTAAACGCCGCTAAAGACCATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTCACG-AAACGCCACTAAAGAACA-A
66725972 ACCTTTAGCGGCGCTTTTCCC
64 ACCTTTAGCGGCGCTTTTCCC
* * *
66725993 AAAAACGCCGCTAAAAAACATGACCTTTAGCAGCACTTTTTTTAC-AAACGCCACTACAGAACAA
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCAGCAC--TTTTCACGAAACGCCACTAAAGAACAA
*
66726057 ACCTTTAGCGGCGCTTTTCTC
64 ACCTTTAGCGGCGCTTTTCCC
* * * *
66726078 ACAAACGCTGCTAAAGAATATAACCTTTA
1 AAAAACGCCGCTAAAGAACATGACCTTTA
66726107 AAAAATATAT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
85 44 0.46
86 46 0.48
88 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTCACGAAACGCCACTAAAGAACAAAC
CTTTAGCGGCGCTTTTCCC
Found at i:66726074 original size:42 final size:43
Alignment explanation
Indices: 66725930--66726106 Score: 158
Period size: 43 Copynumber: 4.1 Consensus size: 43
66725920 AAGACCATGG
* ** * * * *
66725930 CCTTTAGCGGCGCTTTTCACGTAAACGCCGCTAAAGACCATGA
1 CCTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAAAACATAA
* * * *
66725973 CCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAAACATGA
1 CCTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAAAACATAA
* * * * * *
66726016 CCTTTAGCAGCACTTTTTTTACAAACGCCACTACAGAACA-AA
1 CCTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAAAACATAA
** * *
66726058 CCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAATATAA
1 CCTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAAAACATAA
66726101 CCTTTA
1 CCTTTA
66726107 AAAAATATAT
Statistics
Matches: 110, Mismatches: 23, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
42 33 0.30
43 77 0.70
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
CCTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAAAACATAA
Found at i:66726127 original size:20 final size:20
Alignment explanation
Indices: 66726104--66726141 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66726094 AATATAACCT
66726104 TTAAAAAATATATATTTTTA
1 TTAAAAAATATATATTTTTA
* *
66726124 TTAAATAATATTTATTTT
1 TTAAAAAATATATATTTT
66726142 CTATATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAAAAATATATATTTTTA
Found at i:66731847 original size:21 final size:22
Alignment explanation
Indices: 66731818--66731864 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
66731808 CAGAAGGAGT
*
66731818 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66731840 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66731861 GAGT
1 GAGT
66731865 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:66733661 original size:17 final size:18
Alignment explanation
Indices: 66733628--66733661 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66733618 TATCTCTTAA
66733628 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
66733646 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
66733662 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:66733917 original size:20 final size:20
Alignment explanation
Indices: 66733868--66733924 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
66733858 TTCTAACATA
* *
66733868 AAACCCTAAACCTAAATCCT
1 AAACCCTAAACATATATCCT
**
66733888 AAACTATAAACATATATCCT
1 AAACCCTAAACATATATCCT
*
66733908 AAACCCTAAATATATAT
1 AAACCCTAAACATATAT
66733925 ATTACAAGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (20 bp):
AAACCCTAAACATATATCCT
Found at i:66734145 original size:43 final size:42
Alignment explanation
Indices: 66734092--66734243 Score: 117
Period size: 43 Copynumber: 3.6 Consensus size: 42
66734082 AAAAAACCAC
*
66734092 AAACTCTAAACCATAAACAATAAACATTATATCATAAACCCT
1 AAACCCTAAACCATAAACAATAAACATTATATCATAAACCCT
** * * * * * *
66734134 AAACCCTTAAACCATGGACATTAAACCTTAAATCTTAAATCAT
1 AAACCC-TAAACCATAAACAATAAACATTATATCATAAACCCT
** * * *
66734177 AAATTCTAAACCCTAAAATAATAAACATTATATCATAACCCCT
1 AAACCCTAAACCAT-AAACAATAAACATTATATCATAAACCCT
** *
66734220 ATCCCCTAAACTC-TAAACCATAAA
1 AAACCCTAAAC-CATAAACAATAAA
66734244 ACATAAACTA
Statistics
Matches: 79, Mismatches: 28, Indels: 6
0.70 0.25 0.05
Matches are distributed among these distances:
42 20 0.25
43 58 0.73
44 1 0.01
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (42 bp):
AAACCCTAAACCATAAACAATAAACATTATATCATAAACCCT
Found at i:66734866 original size:43 final size:41
Alignment explanation
Indices: 66734807--66734956 Score: 228
Period size: 41 Copynumber: 3.6 Consensus size: 41
66734797 TATTTTTTTA
* * *
66734807 CGGCGTTTTTCCAAAAGCGCCGCTAAAATCACGATCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAG
* *
66734848 CGGCGTTTTTTTCCAAAAGCGCCGGTAAAACCTCAACCTATAG
1 CGGCG--TTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAG
66734891 CGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAG
*
66734932 CAGCGTTTTTCCAAAAGCGCCGCTA
1 CGGCGTTTTTCCAAAAGCGCCGCTA
66734957 TTATTCAGTT
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
41 63 0.64
43 36 0.36
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (41 bp):
CGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAG
Found at i:66735051 original size:41 final size:41
Alignment explanation
Indices: 66734942--66735060 Score: 159
Period size: 40 Copynumber: 2.9 Consensus size: 41
66734932 CAGCGTTTTT
* * *
66734942 CCAAAAGCGCCGCTATTATTCAGTTTTTAGCGGTGTTTGGA
1 CCAAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTGGA
66734983 CCAAAAACGCCGCTATTACTCAGTTTTTAG-GGCGTTTGGA
1 CCAAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTGGA
* * * * *
66735023 TCAAAAACGCCGCTCTTGCTCAGTTTTTTGCAGCGTTT
1 CCAAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTT
66735061 TATTGCAAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 35 0.51
41 34 0.49
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
CCAAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTGGA
Found at i:66736027 original size:17 final size:17
Alignment explanation
Indices: 66736005--66736042 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
66735995 CTAATTTGAG
66736005 TCTTGATTAATGCTTAA
1 TCTTGATTAATGCTTAA
66736022 TCTTGATTAATGCTTAA
1 TCTTGATTAATGCTTAA
66736039 TCTT
1 TCTT
66736043 AGTTTGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (17 bp):
TCTTGATTAATGCTTAA
Found at i:66736531 original size:19 final size:20
Alignment explanation
Indices: 66736507--66736555 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
66736497 TGCTAAAATG
66736507 GTATCGATACC-AAAAGAAA
1 GTATCGATACCTAAAAGAAA
* *
66736526 GTATCGGTACCTAAAGGAAA
1 GTATCGATACCTAAAAGAAA
*
66736546 GTATCAATAC
1 GTATCGATAC
66736556 TTCAAACCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (20 bp):
GTATCGATACCTAAAAGAAA
Found at i:66740013 original size:13 final size:13
Alignment explanation
Indices: 66739995--66740019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66739985 TTACATAATA
66739995 GTACTAAATATAG
1 GTACTAAATATAG
66740008 GTACTAAATATA
1 GTACTAAATATA
66740020 TATATACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
GTACTAAATATAG
Found at i:66745519 original size:18 final size:19
Alignment explanation
Indices: 66745491--66745526 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
66745481 AGTCGAATAC
66745491 ATTATATTATAAATATTAT
1 ATTATATTATAAATATTAT
*
66745510 ATTA-ATTATATATATTA
1 ATTATATTATAAATATTA
66745527 AATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATATTATAAATATTAT
Found at i:66745540 original size:22 final size:22
Alignment explanation
Indices: 66745515--66745558 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
66745505 ATTATATTAA
*
66745515 TTATATATATTAAATAATAATT
1 TTATATATATCAAATAATAATT
* *
66745537 TTATATTTATCCAATAATAATT
1 TTATATATATCAAATAATAATT
66745559 AAATTCATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATATATATCAAATAATAATT
Found at i:66745692 original size:39 final size:41
Alignment explanation
Indices: 66745636--66745726 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 41
66745626 AAAAATTATA
* * * *
66745636 TTTAATACAATACAATATTTATTGTATTTAT-TTGTA-TTT
1 TTTAATATAATAAAATATTTATTATATTTATGTAGTATTTT
66745675 TTTAATATAATAAAATATTTATTATATTTATGGTAGTATTTT
1 TTTAATATAATAAAATATTTATTATATTTAT-GTAGTATTTT
66745717 TTTAATATAA
1 TTTAATATAA
66745727 ATATTTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 28 0.62
41 4 0.09
42 13 0.29
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.55
Consensus pattern (41 bp):
TTTAATATAATAAAATATTTATTATATTTATGTAGTATTTT
Found at i:66746025 original size:19 final size:19
Alignment explanation
Indices: 66745989--66746027 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66745979 TAAAATGCCT
*
66745989 TTTTCTATATTTTTAATTA
1 TTTTCTATATTTTAAATTA
66746008 TTTTC-ATATTTTAAAATTA
1 TTTTCTATATTTT-AAATTA
66746027 T
1 T
66746028 AATTTCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCTATATTTTAAATTA
Found at i:66748867 original size:23 final size:20
Alignment explanation
Indices: 66748814--66748857 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
66748804 GTTGCGTGAG
66748814 ATTTTGATGGAGAAAACAAC
1 ATTTTGATGGAGAAAACAAC
66748834 ATTTTGATGGAGAAAACAAC
1 ATTTTGATGGAGAAAACAAC
66748854 ATTT
1 ATTT
66748858 ACCTTATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (20 bp):
ATTTTGATGGAGAAAACAAC
Found at i:66752446 original size:26 final size:26
Alignment explanation
Indices: 66752417--66752524 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
66752407 TGGTACAAAT
*
66752417 TGATAATGGGTTAGTTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66752443 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66752469 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66752495 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66752521 TGAT
1 TGAT
66752525 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66755962 original size:61 final size:58
Alignment explanation
Indices: 66755838--66756005 Score: 164
Period size: 61 Copynumber: 2.9 Consensus size: 58
66755828 CTTAATATTA
* * * * * *
66755838 AATTAATATAATACTTATTAAGATAAATATTAGATTAATTTTAATATTAAATCTATTC
1 AATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTTAAAATTAAATATAATC
66755896 AATTAATAGAATACTTATCTACAAGATAAATATTAAATTAAATTTAAAATT-AATATAATC
1 AATTAATAGAATACTTAT-T--AAGATAAATATTAAATTAAATTTAAAATTAAATATAATC
* * * * *
66755956 ACATTAATATTAA-A-TTAATAAAAT-ACTATTAAATTAAATTTAATATTAAA
1 A-ATTAATA-GAATACTTATTAAGATAAATATTAAATTAAATTTAAAATTAAA
66756006 ACTTTTAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
56 21 0.23
57 6 0.06
58 17 0.18
59 2 0.02
60 11 0.12
61 34 0.37
62 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (58 bp):
AATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTTAAAATTAAATATAATC
Found at i:66755986 original size:25 final size:24
Alignment explanation
Indices: 66755932--66756000 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 24
66755922 TAAATATTAA
*
66755932 ATTAAATTTAAAATTAATATAATCAC
1 ATTAAA-TT-AAATTAATAAAATCAC
66755958 ATTAATATTAAATTAATAAAAT-AC
1 ATTAA-ATTAAATTAATAAAATCAC
66755982 TATTAAATTAAATTTAATA
1 -ATTAAATTAAA-TTAATA
66756001 TTAAAACTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 8 0.21
25 23 0.59
26 7 0.18
27 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAAATTAAATTAATAAAATCAC
Found at i:66757113 original size:139 final size:139
Alignment explanation
Indices: 66756863--66757137 Score: 401
Period size: 139 Copynumber: 2.0 Consensus size: 139
66756853 ATGATATCTT
* *
66756863 TGATACATTTGAGTTAAATTCGTTCACTCAATATAGTCCTATTTTATCTCATCGTCACCATTATG
1 TGATACATTTGAGTTAAATTCGTTCACTCAATACAATCCTATTTTATCTCATCGTCACCATTATG
* *
66756928 TCTTCTTAATGATTAATATGCTTACTGTCAACAAATAACTATGATAAATTT-CTCGTTCGAGAAC
66 TCTTCTTAATGATTAATATGATCACTGTCAACAAATAACTATGAT-AATTTGCTCGTTCGAGAAC
66756992 AAGCAACCCG
130 AAGCAACCCG
* * * *
66757002 TGATACATTTGAGTTAAATTCGTTCGCTTAATACAATCCTATTTTA-CTTCATTGTCACCATTGT
1 TGATACATTTGAGTTAAATTCGTTCACTCAATACAATCCTATTTTATC-TCATCGTCACCATTAT
* * * * *
66757066 GTCTTCTTAATTATTAATATGATCATTGTCAACAAATTACTGTGATAATTTGCTCGTTTGAGAAC
65 GTCTTCTTAATGATTAATATGATCACTGTCAACAAATAACTATGATAATTTGCTCGTTCGAGAAC
66757131 AAGCAAC
130 AAGCAAC
66757138 TCGAGGTCAC
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
138 6 0.05
139 115 0.95
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (139 bp):
TGATACATTTGAGTTAAATTCGTTCACTCAATACAATCCTATTTTATCTCATCGTCACCATTATG
TCTTCTTAATGATTAATATGATCACTGTCAACAAATAACTATGATAATTTGCTCGTTCGAGAACA
AGCAACCCG
Found at i:66758123 original size:22 final size:22
Alignment explanation
Indices: 66758081--66758123 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
66758071 TATTTATGTT
*
66758081 TAATTTAAAAAATTATATTTAA
1 TAATTTAAAAAATAATATTTAA
66758103 TAATTTAAGAAAATAAT-TTTA
1 TAATTTAA-AAAATAATATTTA
66758124 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATTTAAAAAATAATATTTAA
Found at i:66759041 original size:18 final size:18
Alignment explanation
Indices: 66759000--66759042 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
66758990 TTAATTTTTT
* *
66759000 TTCTTTTATATTTTTTTA
1 TTCTTTTATACTTTTTCA
**
66759018 AACTTTTATACTTTTTCA
1 TTCTTTTATACTTTTTCA
66759036 TTCTTTT
1 TTCTTTT
66759043 CTCATTCTCC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (18 bp):
TTCTTTTATACTTTTTCA
Found at i:66760063 original size:40 final size:41
Alignment explanation
Indices: 66760019--66760124 Score: 144
Period size: 40 Copynumber: 2.6 Consensus size: 41
66760009 GAAAAAATCG
* *
66760019 AATAGATGGAGTTTTAGCGGCGTTTTTTTAAAAA-CGACGC
1 AATAGATCGAGCTTTAGCGGCGTTTTTTTAAAAAGCGACGC
*
66760059 AATAGATCGAGCTTTAGCGGCG-TTTTTTAAAAAGCGCCGC
1 AATAGATCGAGCTTTAGCGGCGTTTTTTTAAAAAGCGACGC
* * *
66760099 TATAGGTCGACCTTTAGCGGCGTTTT
1 AATAGATCGAGCTTTAGCGGCGTTTT
66760125 ACCAAAACGC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 11 0.19
40 44 0.76
41 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
AATAGATCGAGCTTTAGCGGCGTTTTTTTAAAAAGCGACGC
Found at i:66760289 original size:114 final size:113
Alignment explanation
Indices: 66760086--66760360 Score: 295
Period size: 114 Copynumber: 2.4 Consensus size: 113
66760076 CGGCGTTTTT
* * * * * *
66760086 TAAAAAGCGCCGCTATAGGTCGACCTTTAGCGGCG-TTTT-ACCAAAACGCCGCAAAAGGTTAAG
1 TAAAAA-CGCCGCAATAGATCGAACTTTAGCGGCGTTTTTGA-AAAAACACCACAAAAGGTTAAG
* * * *
66760149 CAAAACGACGCCGTTTTACATGAGCTTCATTGGCAGTAACGGCGTTTTCCC
64 CAAAACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCG-CTGCCC
* *
66760200 -AAAAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTTGAAAAAACACCACTAAAATGTTAAGC
1 TAAAAACGCCGCAATAGATCGAACTTTAGCGGCGTTTTTGAAAAAACACCAC-AAAAGGTTAAGC
* ** * *
66760264 AAAACGACGTCGTTTTTTATGAGCTTCAATGACATTAGCGGCGCTGCCC
65 AAAACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCGCTGCCC
* * * *
66760313 TAAAAACGCCGCAATAGCTTGCACTTTAGCGGCATTTTTGTAAAAAAC
1 TAAAAACGCCGCAATAGATCGAACTTTAGCGGCGTTTTTG-AAAAAAC
66760361 GCTGCTATAG
Statistics
Matches: 134, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
112 24 0.18
113 21 0.16
114 82 0.61
115 7 0.05
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (113 bp):
TAAAAACGCCGCAATAGATCGAACTTTAGCGGCGTTTTTGAAAAAACACCACAAAAGGTTAAGCA
AAACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCGCTGCCC
Found at i:66760357 original size:40 final size:41
Alignment explanation
Indices: 66760313--66760411 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
66760303 GGCGCTGCCC
* *
66760313 TAAAAACGCCGCAATAGCT-TGCACTTTAGCGGCATTTTTG
1 TAAAAACGCCGCAATAGCTCTCCACATTAGCGGCATTTTTG
* * * * *
66760353 TAAAAAACGCTGCTATAGGTCTCCCCATTAGTGGCATTTTTG
1 T-AAAAACGCCGCAATAGCTCTCCACATTAGCGGCATTTTTG
66760395 T-AAAACGCCGCTAATAG
1 TAAAAACGCCGC-AATAG
66760412 GTTAATCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
40 10 0.21
41 19 0.40
42 18 0.38
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (41 bp):
TAAAAACGCCGCAATAGCTCTCCACATTAGCGGCATTTTTG
Found at i:66760522 original size:269 final size:266
Alignment explanation
Indices: 66760047--66760593 Score: 650
Period size: 269 Copynumber: 2.0 Consensus size: 266
66760037 GGCGTTTTTT
* * * * *
66760047 TAAAAACGACGCAATAGATCGAGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTCGACCT
1 TAAAAACGCCGCAATAGATCGAGCTTTAGCGGCATTTTTTAAAAAACGCCGCTATAGGTCCACCA
* *
66760112 TTAGCGGCGTTTTACCAAAACGCCGCAAAAGGTTAAGCAAAACGACGCCGTTTTACATGAGCTTC
66 TTAGCGGCATTTTACCAAAACGCCGCAAAAGGTTAAGCAAAACGACGCCGTTTTAAATGAGCTTC
* * * *
66760177 ATTGGCAGTAACGGCGTTTTCCCAAAAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTTGAAA
131 AATGGCAGTAACGGCGTTTTACCAAAAACGCCGCAATACATCAAACTTTAACGGCGTTTTTGAAA
** * *
66760242 AAACACCACTAAAATGTTAAGCAAAACGACGTCGTTTT-TTATGAGCTTCAATGACATTAGCGGC
196 AAACACCACTAAAACATTAAGCAAAACCACGTCGTTTTGTT-TGAACTTCAATGACATTAGCGGC
66760306 GCTGCCC
260 GCTGCCC
* * * *
66760313 TAAAAACGCCGCAATAGCTTGCA-CTTTAGCGGCATTTTTGTAAAAAACGCTGCTATAGGTCTCC
1 TAAAAACGCCGCAATAGATCG-AGCTTTAGCGGCATTTTT-TAAAAAACGCCGCTATAGGTC-CA
* *** * * * *
66760377 CCATTAGTGGCATTTTTGTAAAACGCCGCTAATAGGTTAATCAAAACGACGTCGTTTTAAATTAG
63 CCATTAGCGGCATTTTACCAAAACGCCGC-AAAAGGTTAAGCAAAACGACGCCGTTTTAAATGAG
* * *
66760442 CTTCAATGGCA-TCAGCGGCGTTTTACTAAAAACGCCGCAATACATCAATCTTTAACGGCGTTTT
127 CTTCAATGGCAGT-AACGGCGTTTTACCAAAAACGCCGCAATACATCAAACTTTAACGGCGTTTT
** * * * * *
66760506 TTTAAAAACGCCACTAAAACATTAAGCAGATCCATGTCGTTTTGTTTGAACTTCAATGGCATTAG
191 TGAAAAAACACCACTAAAACATTAAGCAAAACCACGTCGTTTTGTTTGAACTTCAATGACATTAG
* * *
66760571 CGGCGTTTCTC
256 CGGCGCTGCCC
*
66760582 GAAAAACGCCGC
1 TAAAAACGCCGC
66760594 TAGAGTTTAT
Statistics
Matches: 234, Mismatches: 41, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
266 33 0.14
267 20 0.09
268 24 0.10
269 155 0.66
270 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (266 bp):
TAAAAACGCCGCAATAGATCGAGCTTTAGCGGCATTTTTTAAAAAACGCCGCTATAGGTCCACCA
TTAGCGGCATTTTACCAAAACGCCGCAAAAGGTTAAGCAAAACGACGCCGTTTTAAATGAGCTTC
AATGGCAGTAACGGCGTTTTACCAAAAACGCCGCAATACATCAAACTTTAACGGCGTTTTTGAAA
AAACACCACTAAAACATTAAGCAAAACCACGTCGTTTTGTTTGAACTTCAATGACATTAGCGGCG
CTGCCC
Found at i:66761162 original size:15 final size:14
Alignment explanation
Indices: 66761144--66761186 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
66761134 TTTGATATTT
66761144 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
66761159 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
66761174 TTATGATTTAGGG
1 TTATGGTTTAGGG
66761187 TTGATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:66761196 original size:14 final size:13
Alignment explanation
Indices: 66761151--66761220 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 13
66761141 TTTTTATAGG
*
66761151 TTTAGGGGTTATGGG
1 TTTA-GGGTTAT-GA
66761166 TTTAAGGGTTATGA
1 TTT-AGGGTTATGA
*
66761180 TTTAGGGTTGATTA
1 TTTAGGGTT-ATGA
**
66761194 TTTATGTTTTATGA
1 TTTA-GGGTTATGA
66761208 TTTAGGGTT-TGA
1 TTTAGGGTTATGA
66761220 T
1 T
66761221 GTTTATAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
12 4 0.09
13 9 0.20
14 18 0.40
15 13 0.29
16 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTATGA
Found at i:66761232 original size:28 final size:28
Alignment explanation
Indices: 66761174--66761232 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
66761164 GGTTTAAGGG
**
66761174 TTATGATTTAGGGTTGATTATTTATGTT
1 TTATGATTTAGGGTTGATTATTTATAAT
*
66761202 TTATGATTTAGGGTTTGA-TGTTTATAAT
1 TTATGATTTAGGG-TTGATTATTTATAAT
66761230 TTA
1 TTA
66761233 GAAGGTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (28 bp):
TTATGATTTAGGGTTGATTATTTATAAT
Found at i:66761700 original size:13 final size:13
Alignment explanation
Indices: 66761682--66761706 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66761672 GGTTATGCTA
66761682 TTAGGGTTTAAGG
1 TTAGGGTTTAAGG
66761695 TTAGGGTTTAAG
1 TTAGGGTTTAAG
66761707 CTGGTAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (13 bp):
TTAGGGTTTAAGG
Found at i:66761759 original size:7 final size:7
Alignment explanation
Indices: 66761747--66761771 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66761737 TTTTAGGGTG
66761747 TTAGGCT
1 TTAGGCT
66761754 TTAGGCT
1 TTAGGCT
66761761 TTAGGCT
1 TTAGGCT
66761768 TTAG
1 TTAG
66761772 AGTTTATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.44
Consensus pattern (7 bp):
TTAGGCT
Found at i:66765801 original size:23 final size:23
Alignment explanation
Indices: 66765771--66765820 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
66765761 AACATTAATC
66765771 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
*
66765794 AAATGTATGAATTGTAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
66765817 AAAT
1 AAAT
66765821 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:66766355 original size:241 final size:241
Alignment explanation
Indices: 66765932--66766418 Score: 920
Period size: 241 Copynumber: 2.0 Consensus size: 241
66765922 ATGAATTAAT
*
66765932 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGATGACCTTCTCTCCAACCTT
66765997 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* *
66766062 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
66766127 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
66766173 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGATGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGATGACCTTCTCTCCAACCTT
*
66766238 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCTTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66766303 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
* *
66766368 AAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
66766414 TTTAT
1 TTTAT
66766419 ATAACCTTAA
Statistics
Matches: 240, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 240 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGATGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:66766622 original size:9 final size:9
Alignment explanation
Indices: 66766599--66766804 Score: 187
Period size: 9 Copynumber: 21.6 Consensus size: 9
66766589 TTTGATCATT
*
66766599 ACTTAAATA
1 ACTTACATA
*
66766608 AATTACATA
1 ACTTACATA
66766617 ACTTACATA
1 ACTTACATA
* *
66766626 ACTCATATA
1 ACTTACATA
66766635 ACTTACATA
1 ACTTACATA
*
66766644 ATTTACATAACA
1 ACTTACAT---A
66766656 ACTTACATA
1 ACTTACATA
*
66766665 ACTCACATA
1 ACTTACATA
66766674 ACTTACATA
1 ACTTACATA
*
66766683 ATTTACATAACA
1 ACTTACAT---A
66766695 ACTTACATA
1 ACTTACATA
*
66766704 ACTCACATA
1 ACTTACATA
66766713 ACTTACATA
1 ACTTACATA
*
66766722 ATTTACATGACA
1 ACTTACAT---A
66766734 ACTTACATA
1 ACTTACATA
*
66766743 ACTCACATA
1 ACTTACATA
66766752 ACTTACATA
1 ACTTACATA
*
66766761 ATTTACATA
1 ACTTACATA
*
66766770 ACTCACATA
1 ACTTACATA
*
66766779 ACGTACATAACA
1 ACTTACAT---A
66766791 ACTTACATA
1 ACTTACATA
66766800 ACTTA
1 ACTTA
66766805 ACTAATACAT
Statistics
Matches: 160, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
9 128 0.80
12 32 0.20
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:66766668 original size:39 final size:39
Alignment explanation
Indices: 66766616--66766771 Score: 294
Period size: 39 Copynumber: 4.0 Consensus size: 39
66766606 TAAATTACAT
*
66766616 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
66766655 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
66766694 AACTTACATAACTCACATAACTTACATAATTTACATGAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
66766733 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
66766772 TCACATAACG
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:66766800 original size:39 final size:37
Alignment explanation
Indices: 66766599--66766789 Score: 262
Period size: 39 Copynumber: 5.1 Consensus size: 37
66766589 TTTGATCATT
* * *
66766599 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
66766635 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
66766674 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
66766713 ACTTACATAATTTACATGACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
66766752 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
66766788 AC
1 AC
66766790 AACTTACATA
Statistics
Matches: 146, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
36 33 0.23
37 1 0.01
39 112 0.77
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:66772363 original size:21 final size:21
Alignment explanation
Indices: 66772337--66772384 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
66772327 TCAACTTAGA
*
66772337 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
66772358 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
66772379 GCGGAG
1 GCGGAG
66772385 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:66772794 original size:43 final size:44
Alignment explanation
Indices: 66772723--66772820 Score: 171
Period size: 43 Copynumber: 2.2 Consensus size: 44
66772713 GTCCCTGTCT
66772723 TTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAAGTCCTAGTCA
1 TTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAAGTCCTAGTCA
* *
66772767 TTCGCGGCGTTTTTT-AAAAAAGCGCCGCTAAAAGTCCTGGTCA
1 TTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAAGTCCTAGTCA
66772810 TTAGCGGCGTT
1 TTAGCGGCGTT
66772821 ACATATAGCG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 37 0.73
44 14 0.27
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (44 bp):
TTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAAGTCCTAGTCA
Found at i:66774804 original size:209 final size:212
Alignment explanation
Indices: 66774440--66774827 Score: 683
Period size: 209 Copynumber: 1.8 Consensus size: 212
66774430 AAACAAACCA
66774440 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
66774505 TATATATATAGATATTTACGCATGTAACACATTACAAAAACAAAAATTTAAATACTTATACCTAA
66 TATATATATA-ATATTTACGCATGTAACACATTACAAAAACAAAAATTTAAATACTTATACCTAA
*
66774570 TAAAATATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTATAATTTTATTT
130 TAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTATAATTTTATTT
66774635 CTTATTTAATATTTTAAT
195 CTTATTTAATATTTTAAT
* *
66774653 TTAATTTTAATAATGCATACTTTATCCGGATGTAGTATGTATTAGCAGATTCACTAATATGA-T-
1 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
* **
66774716 TCTATATAT-ATATTTACGCATGTATTACATTACAAAAACAAAAATTTAAATACTTATACCTAAT
66 TATATATATAATATTTACGCATGTAACACATTACAAAAACAAAAATTTAAATACTTATACCTAAT
*
66774780 AAAACATGTATCTCATTACAATAATAGTTATTTTTCAAATAACATATT
131 AAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATT
66774828 ATTTTCCAAA
Statistics
Matches: 168, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
209 99 0.59
211 8 0.05
212 1 0.01
213 60 0.36
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (212 bp):
TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
TATATATATAATATTTACGCATGTAACACATTACAAAAACAAAAATTTAAATACTTATACCTAAT
AAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTATAATTTTATTTC
TTATTTAATATTTTAAT
Found at i:66783548 original size:22 final size:22
Alignment explanation
Indices: 66783523--66783573 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
66783513 TAACTAGTTA
66783523 GTCTCGAGACAATTACTCTTAG
1 GTCTCGAGACAATTACTCTTAG
66783545 GTCTCGAGACAATTACTCTTAG
1 GTCTCGAGACAATTACTCTTAG
66783567 GTCTCGA
1 GTCTCGA
66783574 AACAGAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (22 bp):
GTCTCGAGACAATTACTCTTAG
Found at i:66788118 original size:29 final size:30
Alignment explanation
Indices: 66788071--66788138 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
66788061 TGGCCCAAGA
* *
66788071 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
66788101 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
66788131 GCAAATAT
1 GTAAATAT
66788139 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:66790618 original size:46 final size:46
Alignment explanation
Indices: 66790561--66790880 Score: 516
Period size: 46 Copynumber: 7.0 Consensus size: 46
66790551 AGTGTGCTCT
* * *
66790561 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66790607 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
66790653 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
66790699 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66790745 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
66790791 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
66790837 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
66790881 TCATGTCAAA
Statistics
Matches: 260, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 259 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:66797663 original size:15 final size:15
Alignment explanation
Indices: 66797643--66797676 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66797633 AAATAATACT
66797643 AAAGGAAAAGAAAGA
1 AAAGGAAAAGAAAGA
* *
66797658 AAAGGAAAGGAAAGT
1 AAAGGAAAAGAAAGA
66797673 AAAG
1 AAAG
66797677 AAATAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
AAAGGAAAAGAAAGA
Found at i:66798996 original size:18 final size:19
Alignment explanation
Indices: 66798975--66799013 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66798965 ATTAGGATAT
*
66798975 TTTTATAAA-TATTTGGAA
1 TTTTAAAAATTATTTGGAA
*
66798993 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTGGAA
66799012 TT
1 TT
66799014 ATTTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATTTGGAA
Found at i:66802280 original size:13 final size:13
Alignment explanation
Indices: 66802262--66802286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66802252 TCCCCTTGGG
66802262 TTATTTTTTTATT
1 TTATTTTTTTATT
66802275 TTATTTTTTTAT
1 TTATTTTTTTAT
66802287 GGATTTTCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTATTTTTTTATT
Found at i:66804820 original size:21 final size:21
Alignment explanation
Indices: 66804708--66804865 Score: 104
Period size: 21 Copynumber: 7.5 Consensus size: 21
66804698 TCGAAAGCTA
* * *
66804708 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGTTG
*
66804729 AACAGAAGCTCGTAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
* * * *
66804750 AACAAAAACACA-AATGAGTTA
1 AACAGAAGCTCATAA-GAGTTG
* * *
66804771 AACAAAAGCTCATAAAAGCTG
1 AACAGAAGCTCATAAGAGTTG
*
66804792 AATAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
* ** *
66804813 AAGAGAAGCTCGA-AAGACCTA
1 AACAGAAGCTC-ATAAGAGTTG
* * * *
66804834 AACCGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGTTG
66804855 AACAGAAGCTC
1 AACAGAAGCTC
66804866 GTGAGAGCTA
Statistics
Matches: 103, Mismatches: 30, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.03
21 97 0.94
22 3 0.03
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTG
Found at i:66804877 original size:42 final size:42
Alignment explanation
Indices: 66804689--66804877 Score: 159
Period size: 42 Copynumber: 4.5 Consensus size: 42
66804679 GTACATCGTT
* * * *
66804689 AACATAAGCTCG-AA-AGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
* * * *
66804729 AACAGAAGCTCGTAAGAGTTGAACAAAAACACA-AATGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAA-GAGTTA
* * * * * * *
66804771 AACAAAAGCTCATAAAAGCTGAATAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
* * * * *
66804813 AAGAGAAGCTCGAAAGACCTAAACCGAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
*
66804855 AACAGAAGCTCGTGAGAGCTAAA
1 AACAGAAGCTCGTAAGAGCTAAA
66804878 TGGAAAGTAA
Statistics
Matches: 113, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
40 11 0.10
41 4 0.04
42 96 0.85
43 2 0.02
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
Found at i:66805071 original size:2 final size:2
Alignment explanation
Indices: 66805064--66805089 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66805054 ACAATAGAAC
66805064 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
66805090 TACCAATCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66805103 original size:7 final size:7
Alignment explanation
Indices: 66805091--66805124 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
66805081 TATATATATT
66805091 ACCAATC
1 ACCAATC
66805098 ACCAATC
1 ACCAATC
66805105 ACCAATC
1 ACCAATC
66805112 ACCAATC
1 ACCAATC
66805119 ACCAAT
1 ACCAAT
66805125 TAACATTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCAATC
Found at i:66805134 original size:14 final size:14
Alignment explanation
Indices: 66805091--66805134 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
66805081 TATATATATT
*
66805091 ACCAATCACCAATC
1 ACCAATCAACAATC
*
66805105 ACCAATCACCAATC
1 ACCAATCAACAATC
* *
66805119 ACCAATTAACATTC
1 ACCAATCAACAATC
66805133 AC
1 AC
66805135 TTTAATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (14 bp):
ACCAATCAACAATC
Found at i:66805134 original size:21 final size:21
Alignment explanation
Indices: 66805091--66805134 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
66805081 TATATATATT
*
66805091 ACCAATCACCAATCACCAATC
1 ACCAATCACCAATCAACAATC
* *
66805112 ACCAATCACCAATTAACATTC
1 ACCAATCACCAATCAACAATC
66805133 AC
1 AC
66805135 TTTAATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (21 bp):
ACCAATCACCAATCAACAATC
Found at i:66815493 original size:17 final size:17
Alignment explanation
Indices: 66815450--66815494 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
66815440 CGCACATCAA
* *
66815450 TCACAACTTGGTTAAGC
1 TCACAACTTTGCTAAGC
* *
66815467 TCGCATCTTTGCTAAGC
1 TCACAACTTTGCTAAGC
66815484 TCACAACTTTG
1 TCACAACTTTG
66815495 GATGAGTTCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (17 bp):
TCACAACTTTGCTAAGC
Found at i:66815540 original size:18 final size:18
Alignment explanation
Indices: 66815491--66815542 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
66815481 AGCTCACAAC
**
66815491 TTTGGATGAGTTCACAGA
1 TTTGGATGAGTTCGTAGA
66815509 TTTGGATGAGTTCGTAGA
1 TTTGGATGAGTTCGTAGA
66815527 TTTGGATGAGTTCGTA
1 TTTGGATGAGTTCGTA
66815543 ACTGTGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (18 bp):
TTTGGATGAGTTCGTAGA
Found at i:66818811 original size:54 final size:55
Alignment explanation
Indices: 66818752--66818890 Score: 172
Period size: 58 Copynumber: 2.5 Consensus size: 55
66818742 CCCATTCATT
* * * *
66818752 TATGATAACATAGTTTTATCTTTAAAA-GACCGACCGATCAATTTACTTTACAAA
1 TATGATAATATAATTTTATCTTTAAAATGACCGACCAATCAATTTAATTTACAAA
* * *
66818806 TATGATAATATAATTTTGTCTTTTAAAAATTGACCGATCAATCAATTTAATTTTCAAA
1 TATGATAATATAATTTTATC-TTT-AAAA-TGACCGACCAATCAATTTAATTTACAAA
*
66818864 TATAATAATATAATTTTATCTTTAAAA
1 TATGATAATATAATTTTATCTTTAAAA
66818891 ACAGATAAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
54 17 0.24
55 3 0.04
56 8 0.11
57 3 0.04
58 41 0.57
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (55 bp):
TATGATAATATAATTTTATCTTTAAAATGACCGACCAATCAATTTAATTTACAAA
Found at i:66827879 original size:13 final size:14
Alignment explanation
Indices: 66827863--66827898 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
66827853 CAATCTCATA
66827863 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
66827876 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
66827889 TCTC-ATTTCA
1 TCTCAATTTCA
66827899 TTCCAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:66827888 original size:18 final size:19
Alignment explanation
Indices: 66827850--66827890 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
66827840 TGGTTCATGT
66827850 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
66827869 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
66827887 TTTC
1 TTTC
66827891 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:66828025 original size:23 final size:23
Alignment explanation
Indices: 66827995--66828052 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
66827985 GTGGATTCCT
*
66827995 CCCAAACACACTAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
66828018 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
66828041 CCCAAACACACC
1 CCCAAACACACC
66828053 CGGAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.41, G:0.03, T:0.09
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:66828574 original size:15 final size:15
Alignment explanation
Indices: 66828554--66828600 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
66828544 TAATATATAT
66828554 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
66828569 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
66828584 TTCAATCAATATAAA
1 TTCAATCAATATAAA
66828599 TT
1 TT
66828601 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:66829900 original size:13 final size:13
Alignment explanation
Indices: 66829882--66829913 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
66829872 TTATATTTCA
66829882 TTTATTTCTTTAT
1 TTTATTTCTTTAT
66829895 TTTATTTCTTTAT
1 TTTATTTCTTTAT
66829908 TTTATT
1 TTTATT
66829914 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:66833057 original size:62 final size:62
Alignment explanation
Indices: 66832926--66833045 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
66832916 TATATTTTGG
* * ** * * * *
66832926 TGATGCACTATGTGTCAGTATGATATGATAGTGCTAAGTGCAGATTACTTCTGTCTTTTCAA
1 TGATGCACTATGTGCCAATATGATATGATAGCACTAAGCGAAGATTACTTCAGACTTTTCAA
*
66832988 TGATGCACTATGTGCCAATATGATTTGATAGCACTAAGCGAAGATTACTTCAGACTTT
1 TGATGCACTATGTGCCAATATGATATGATAGCACTAAGCGAAGATTACTTCAGACTTT
66833046 CTGATGATGC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (62 bp):
TGATGCACTATGTGCCAATATGATATGATAGCACTAAGCGAAGATTACTTCAGACTTTTCAA
Found at i:66837230 original size:30 final size:30
Alignment explanation
Indices: 66837196--66837269 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
66837186 GTTAGCCGTC
* *
66837196 AATTCTATACGTGGAAATGGTCAAAATAAG
1 AATTCTATACATGGAAATAGTCAAAATAAG
* *
66837226 AATTCTATATATGGAAATAGTCACAATAAG
1 AATTCTATACATGGAAATAGTCAAAATAAG
* *
66837256 AATTTTATATATGG
1 AATTCTATACATGG
66837270 GAACTCGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (30 bp):
AATTCTATACATGGAAATAGTCAAAATAAG
Found at i:66844402 original size:181 final size:180
Alignment explanation
Indices: 66843758--66844501 Score: 949
Period size: 180 Copynumber: 4.1 Consensus size: 180
66843748 CTTCACTGCA
* * *
66843758 AACTT-AGGGGGATAAAATCTTCAATTCTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACT
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* * * * * *
66843822 CATTCTTCAACCTGCTCTCCTGCTACCTCAGAGTGATGAGGC-TCGTGGTAAAATTTACTCCATT
66 CATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCATT
* * ** * * ** *
66843886 GCCAATACATGGAAATAAGATTTATTATCTGCGAAAATTTGTTCCGCTAT
131 GCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTACTCCGCTAC
* * * *
66843936 AACTTTAGGGAAATAAAATCTTCAATTCTTAGTCTGTTTCCTTGCTACCTC-GAGAAGATAAGAC
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAG-GAAGATAAGAC
* * * *
66844000 TCATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGTTTAGTAGTAAAATCTGCTCAAT
65 TCATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCAT
* * * * * * *
66844065 TGCTGAA-ATATGAAGATAAAATTCACCATTTGCGAAGATCTGCTCCGCTGC
130 TGC-CAATACATGGAGATAAGATTCACCATCTGCGAAGATCTACTCCGCTAC
* * *
66844116 AACTTCAGGGAGATAAAATTTTCAATTCTTAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACT
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* * * *
66844181 CATTCTTCAACCCGCTTTCCTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATTTGCTCCATT
66 CATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCATT
* * * *
66844246 GCCGATACATGGAGATAAGATTCACCATTTGTGAATATCTACTCCGCTAC
131 GCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTACTCCGCTAC
* * * *
66844296 AATTTCTGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTTGCTACCTTAGGAAGATAAGAC
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGAC
* *
66844361 TCATTCTTCAACCTGCTCTTCTGCTACTTCAGAGAGATAAGGCTTGATAGTAAAATCTACTCCAT
65 TCATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCAT
* * *
66844426 TGCCAATACATGGGGATAAGATTCACCATCTGCAAAGATCTACTCC-CTCC
130 TGCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTACTCCGCTAC
66844476 AACTTCAGGGAGATAAAATCTTCAAT
1 AACTTCAGGGAGATAAAATCTTCAAT
66844502 CTTTACCAAT
Statistics
Matches: 488, Mismatches: 71, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
178 5 0.01
179 91 0.19
180 268 0.55
181 124 0.25
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (180 bp):
AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
CATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCATT
GCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTACTCCGCTAC
Found at i:66844667 original size:64 final size:64
Alignment explanation
Indices: 66844566--66844691 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
66844556 TTATATGCAC
* **
66844566 ATGCTTATGCCAAATAATTAGGATCCTATGATCGAAATGAATCAAGTGTTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATCCTATGATCGAAATGAATCAAATACTCCTAACTAAATGTG
* *
66844630 ATGCTTATGTCAAATAATTA-GAGTGCTATGATCGAAATGAATCAAATACTCCTAACTAAATG
1 ATGCTTATGCCAAATAATTAGGA-TCCTATGATCGAAATGAATCAAATACTCCTAACTAAATG
66844692 ATATATGTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 2 0.04
64 54 0.96
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATCCTATGATCGAAATGAATCAAATACTCCTAACTAAATGTG
Found at i:66845711 original size:54 final size:56
Alignment explanation
Indices: 66845625--66845729 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 56
66845615 TCTCTTTTTC
*
66845625 TTTCTTTTTTAATATTGGGTCTCAAAGCGCCCTTTGCGGGTTATCACTTTGGCCTT
1 TTTCATTTTTAATATTGGGTCTCAAAGCGCCCTTTGCGGGTTATCACTTTGGCCTT
* *
66845681 TTTCATTTTT-AT-TTGGGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTG
1 TTTCATTTTTAATATTGGGTCTCAAAGCGCCCTTTGCGGGTTATCACTTTG
66845730 ACTTCCCTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 35 0.76
55 2 0.04
56 9 0.20
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (56 bp):
TTTCATTTTTAATATTGGGTCTCAAAGCGCCCTTTGCGGGTTATCACTTTGGCCTT
Found at i:66860556 original size:26 final size:27
Alignment explanation
Indices: 66860527--66860593 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
66860517 CCGTTATATA
66860527 GCTCTTCGTGAGCTTT-CTGATTAAAG
1 GCTCTTCGTGAGCTTTCCTGATTAAAG
* *
66860553 GCTCTTTGTGAG-TTTCCTGATTAATG
1 GCTCTTCGTGAGCTTTCCTGATTAAAG
66860579 GCTCTTCG-GAGCTTT
1 GCTCTTCGTGAGCTTT
66860594 TCGATATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 6 0.17
26 30 0.83
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (27 bp):
GCTCTTCGTGAGCTTTCCTGATTAAAG
Found at i:66860689 original size:24 final size:23
Alignment explanation
Indices: 66860662--66860709 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
66860652 TATCAGTTAT
66860662 TGGCTCGCATGAGCTTCCCGATTA
1 TGGCTCGCATGAGCTTCCC-ATTA
** *
66860686 TGGCTCTTATGAGTTTCCCATTA
1 TGGCTCGCATGAGCTTCCCATTA
66860709 T
1 T
66860710 ATAGTCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (23 bp):
TGGCTCGCATGAGCTTCCCATTA
Found at i:66879048 original size:39 final size:39
Alignment explanation
Indices: 66878983--66879125 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
66878973 ATATCCGAAA
* *
66878983 TTAGGGTCCGC-GGCTATGTGCCGGAATTATATCCAGAC
1 TTAGGGTCCGCAGGCTATATGCTGGAATTATATCCAGAC
*
66879021 TTAGGGTCCGCAGGCTATATGCTGGAATTATATCCGGAC
1 TTAGGGTCCGCAGGCTATATGCTGGAATTATATCCAGAC
66879060 TTAGGGTCCGCAGGCTATATGCTGGAATTATATCCAGAC
1 TTAGGGTCCGCAGGCTATATGCTGGAATTATATCCAGAC
* **
66879099 TTAAGGTCCGCAGGCTACGTGCTGGAA
1 TTAGGGTCCGCAGGCTATATGCTGGAA
66879126 ATATGTCCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 11 0.11
39 86 0.89
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TTAGGGTCCGCAGGCTATATGCTGGAATTATATCCAGAC
Found at i:66879100 original size:78 final size:77
Alignment explanation
Indices: 66878972--66879135 Score: 238
Period size: 78 Copynumber: 2.1 Consensus size: 77
66878962 TTCAGTGATG
* * *
66878972 TATATCCGAAATTAGGGTCCGCGGCTATGTGCCGGAATTATATCCAGACTTAGGGTCCGCAGGCT
1 TATATCCGGAATTAGGGTCCGCGGCTATATGCCGGAATTATATCCAGACTTAAGGTCCGCAGGCT
* *
66879037 ATATGCTGGAAT
66 ACATGCTGGAAA
* *
66879049 TATATCCGGACTTAGGGTCCGCAGGCTATATGCTGGAATTATATCCAGACTTAAGGTCCGCAGGC
1 TATATCCGGAATTAGGGTCCGC-GGCTATATGCCGGAATTATATCCAGACTTAAGGTCCGCAGGC
*
66879114 TACGTGCTGGAAA
65 TACATGCTGGAAA
*
66879127 TATGTCCGG
1 TATATCCGG
66879136 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 20 0.26
78 57 0.74
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (77 bp):
TATATCCGGAATTAGGGTCCGCGGCTATATGCCGGAATTATATCCAGACTTAAGGTCCGCAGGCT
ACATGCTGGAAA
Found at i:66879169 original size:78 final size:78
Alignment explanation
Indices: 66878988--66879153 Score: 219
Period size: 78 Copynumber: 2.1 Consensus size: 78
66878978 CGAAATTAGG
* * * * *
66878988 GTCCGC-GGCTATGTGCCGGAATTATATCCAGACTTAGGGTCCGCAGGCTATATGCTGGAATTAT
1 GTCCGCAGGCTATATGCTGGAATTATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAATAT
**
66879052 ATCCGGACTTAGG
66 ATCCGGACTTAAA
*
66879065 GTCCGCAGGCTATATGCTGGAATTATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATAT
1 GTCCGCAGGCTATATGCTGGAATTATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAATAT
* *
66879130 GTCCGGGC-TAAA
66 ATCCGGACTTAAA
66879142 GTCCCGCAGGCT
1 GT-CCGCAGGCT
66879154 TCGAGCTGGT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 10 0.13
78 67 0.87
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (78 bp):
GTCCGCAGGCTATATGCTGGAATTATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAATAT
ATCCGGACTTAAA
Found at i:66885686 original size:39 final size:39
Alignment explanation
Indices: 66885632--66885796 Score: 285
Period size: 39 Copynumber: 4.2 Consensus size: 39
66885622 TTCAGTGATG
66885632 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
66885671 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
66885710 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
66885749 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
66885788 TATGTCCGG
1 TATATCCGG
66885797 GCTAAAGTCT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:66885811 original size:39 final size:39
Alignment explanation
Indices: 66885632--66885866 Score: 271
Period size: 39 Copynumber: 6.0 Consensus size: 39
66885622 TTCAGTGATG
*
66885632 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
66885671 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
66885710 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
66885749 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
66885788 TATGTCCGGGC-TAAAGTCTCGCAGGCT-TCGAGCTGGTAT
1 TATATCCGGACTTAAGGTC-CGCAGGCTAT-GTGCTGGAAT
** **
66885827 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
66885866 T
1 T
66885867 GGTTTCAAGT
Statistics
Matches: 174, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 17 0.10
39 156 0.90
40 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:66889493 original size:18 final size:19
Alignment explanation
Indices: 66889447--66889495 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
66889437 AGAAGAAAGA
66889447 AAAAGAAAAATTTAACCTG
1 AAAAGAAAAATTTAACCTG
66889466 AAAAGAAAAATTTAACCTG
1 AAAAGAAAAATTTAACCTG
*
66889485 AAAACAAAAAT
1 AAAAGAAAAAT
66889496 GAAAATGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAAGAAAAATTTAACCTG
Found at i:66891069 original size:27 final size:27
Alignment explanation
Indices: 66891039--66891138 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 27
66891029 AGACCGGCCG
66891039 ATCAATTTACTTTACAAATATGATAAT
1 ATCAATTTACTTTACAAATATGATAAT
* * * *
66891066 ATCATTTTGTCTTTTAAAAAT-TGAATGAT
1 ATCAATTT-AC-TTTACAAATATG-ATAAT
*
66891095 CAATCAATTTACTTTTCAAATATGATAAT
1 --ATCAATTTACTTTACAAATATGATAAT
*
66891124 ATCATTTTATCTTTA
1 ATCAATTTA-CTTTA
66891139 AAAAAATTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
27 15 0.27
28 7 0.13
29 23 0.42
30 3 0.05
31 7 0.13
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (27 bp):
ATCAATTTACTTTACAAATATGATAAT
Done.