Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 49 of 259
Found at i:15403303 original size:9 final size:9
Alignment explanation
Indices: 15403274--15403391 Score: 58
Period size: 9 Copynumber: 12.1 Consensus size: 9
15403264 AATAGTTTTT
*
15403274 TTTTTGTAA
1 TTTTTATAA
*
15403283 TTTTTA-AT
1 TTTTTATAA
*
15403291 TTTTTATCA
1 TTTTTATAA
*
15403300 TTTTAATAA
1 TTTTTATAA
15403309 TTTTTATATGA
1 TTTTTATA--A
*
15403320 TTATGTATAA
1 TT-TTTATAA
*
15403330 CTTTTTTTTATAG
1 ----TTTTTATAA
15403343 TTTTTATAA
1 TTTTTATAA
15403352 TTTTTAATAA
1 TTTTT-ATAA
*
15403362 TTTTTCTTTAA
1 -TTTT-TATAA
* *
15403373 TTTCTAAAA
1 TTTTTATAA
15403382 TTTTTATAA
1 TTTTTATAA
15403391 T
1 T
15403392 ACGTTCATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
8 7 0.09
9 43 0.53
10 8 0.10
11 10 0.12
12 6 0.07
13 5 0.06
14 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15403632 original size:31 final size:30
Alignment explanation
Indices: 15403587--15403676 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 30
15403577 TTTTTAGGCT
* ** **
15403587 TAAATAATTGAAAATTCAATTAAGTTCTTG
1 TAAATAATTAAAAATTCAATTAAGCCCTCA
15403617 TAAAGTAATTAAAAATT-AATTAAGCCCTCA
1 TAAA-TAATTAAAAATTCAATTAAGCCCTCA
*
15403647 TAAAATAATTAAAAAGTCAATTAAGCCCTC
1 T-AAATAATTAAAAATTCAATTAAGCCCTC
15403677 CATACCAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 25 0.49
31 26 0.51
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
TAAATAATTAAAAATTCAATTAAGCCCTCA
Found at i:15415587 original size:230 final size:230
Alignment explanation
Indices: 15415184--15415646 Score: 845
Period size: 230 Copynumber: 2.0 Consensus size: 230
15415174 CCCATCCATT
*
15415184 TAAACGGTTTCAAACTTTATCTAACACAAAGGAGAAAGTATTCCTCCCAACCCTATGATGAAAGA
1 TAAACGGTTTCAAACTTTATCTAACACAAAAGAGAAAGTATTCCTCCCAACCCTATGATGAAAGA
*
15415249 GAAGCATACCAAGGTAAACTCCCAAGTCCTCCACTCTAGTGAAACCCAACTTTGCACTTATTTCA
66 AAAGCATACCAAGGTAAACTCCCAAGTCCTCCACTCTAGTGAAACCCAACTTTGCACTTATTTCA
**
15415314 TTAGCTGCTAAATCTGACACATTGTTTGAGAAAAATACCTGCGTCTTTTGTCTATTGACTTTATG
131 TTAGCTGCTAAATCTGACACATTACTTGAGAAAAATACCTGCGTCTTTTGTCTATTGACTTTATG
15415379 ACCAGAGAACCAACAGAAACTCTCCAACACAATTC
196 ACCAGAGAACCAACAGAAACTCTCCAACACAATTC
15415414 TAAACGGTTTCAAACTTTATCTAACACAAAAGAGAAAGTATTCCTCCCAACCCTATGATGAAAGA
1 TAAACGGTTTCAAACTTTATCTAACACAAAAGAGAAAGTATTCCTCCCAACCCTATGATGAAAGA
*
15415479 AAAGCATACCAAGGTAAACTCCCAAGTCCTCCACTCTAGTGAAACCTAACTTTGCACTTATTTCA
66 AAAGCATACCAAGGTAAACTCCCAAGTCCTCCACTCTAGTGAAACCCAACTTTGCACTTATTTCA
*
15415544 TTAGCTGCTAAATCTGACACATTACTTGAGAAAAATACCTGCGTTTTTTGTCTATTGACTTTATG
131 TTAGCTGCTAAATCTGACACATTACTTGAGAAAAATACCTGCGTCTTTTGTCTATTGACTTTATG
* * *
15415609 ACCAGAGAACTAATAGAAACTCTCCAACACATTTC
196 ACCAGAGAACCAACAGAAACTCTCCAACACAATTC
15415644 TAA
1 TAA
15415647 GACAATCTGC
Statistics
Matches: 224, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
230 224 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (230 bp):
TAAACGGTTTCAAACTTTATCTAACACAAAAGAGAAAGTATTCCTCCCAACCCTATGATGAAAGA
AAAGCATACCAAGGTAAACTCCCAAGTCCTCCACTCTAGTGAAACCCAACTTTGCACTTATTTCA
TTAGCTGCTAAATCTGACACATTACTTGAGAAAAATACCTGCGTCTTTTGTCTATTGACTTTATG
ACCAGAGAACCAACAGAAACTCTCCAACACAATTC
Found at i:15428685 original size:159 final size:158
Alignment explanation
Indices: 15428330--15428702 Score: 441
Period size: 158 Copynumber: 2.4 Consensus size: 158
15428320 TAAATAGCTC
* *
15428330 GTTAATGGATATGTTCATTGCAAGCCATGATGATCATTATTCAGACATGTTCTTGAGTCTGCCAT
1 GTTAATGGATAAGTTCATTGCAAGCCATGATGATCATTATTCAGACATGTTCTTTAGTCTGCCAT
* *
15428395 GTAAGGATAAGTTTAGTTAGCTGTAGTGATGGCATTTTAACCATTTTTTATCCTTTAAGGATAAA
66 GTAAGGATAAGTTTAGTTAGATGTAGTGATGACATTTTAACCATTTTTTATCCTTTAAGGATAAA
* * * * *
15428460 TTTAGTCTGCCTTGAAAGGATAAGTTTA
131 TTCAGACTGACGTGAAAGGATAAGTCTA
* * **
15428488 CTTAATGGATAAGTTCATTGCAAGCCATGATGATCATTATGCAGACATGTTCTTTAGTCTGCTTT
1 GTTAATGGATAAGTTCATTGCAAGCCATGATGATCATTATTCAGACATGTTCTTTAGTCTGCCAT
* * ** *
15428553 GTAAGGATAAG-TT-GTTGGATGTAGTGATGACATTTTGACCATTTTTTATCCATTCTTTTGGCT
66 GTAAGGATAAGTTTAGTTAGATGTAGTGATGACATTTTAACCATTTTTTATCC--T-TTAAGGAT
* * * *
15428616 CATAGTTCAGACATGAGGT-AAAGTAT-TG-CTA
128 -A-AATTCAGAC-TGACGTGAAAGGATAAGTCTA
* *
15428647 GTTAATGGATAAGTACATTGCAAGCCATGATGATCATTATTCAGACATGTTTTTTA
1 GTTAATGGATAAGTTCATTGCAAGCCATGATGATCATTATTCAGACATGTTCTTTA
15428703 ACCTGTCATG
Statistics
Matches: 183, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
156 34 0.19
157 2 0.01
158 71 0.39
159 59 0.32
160 2 0.01
161 12 0.07
162 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (158 bp):
GTTAATGGATAAGTTCATTGCAAGCCATGATGATCATTATTCAGACATGTTCTTTAGTCTGCCAT
GTAAGGATAAGTTTAGTTAGATGTAGTGATGACATTTTAACCATTTTTTATCCTTTAAGGATAAA
TTCAGACTGACGTGAAAGGATAAGTCTA
Found at i:15430848 original size:30 final size:30
Alignment explanation
Indices: 15430812--15430874 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15430802 ATTTAACAAG
*
15430812 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
*
15430842 CAAATGCCTTTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
15430872 CAA
1 CAA
15430875 TAAAATAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:15431836 original size:75 final size:76
Alignment explanation
Indices: 15431688--15431829 Score: 173
Period size: 75 Copynumber: 1.9 Consensus size: 76
15431678 AGGGGGAGAA
* * *** *
15431688 ATAAAATATTTATGGGGGATTTTGATTTTTGGGAGAAAAGGGGGAGGGAAAGTAAAAATTTTTGG
1 ATAAAAAATTTATAGGGGATTTTGATTTTTGGGAGAAAAGGGGGAGGGAAAGTAAAAAAAATTGA
15431753 AGGTAAGAGGG
66 AGGTAAGAGGG
* *
15431764 ATAAAAAATTTGTAGGGGA-TTTGATTTTTGGG-GTAAAA-GGGGAGGGGAAGTTAAAAAAAATT
1 ATAAAAAATTTATAGGGGATTTTGATTTTTGGGAG-AAAAGGGGGAGGGAAAG-TAAAAAAAATT
15431826 GAAG
64 GAAG
15431830 AGAAGAGTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
74 12 0.21
75 28 0.50
76 16 0.29
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (76 bp):
ATAAAAAATTTATAGGGGATTTTGATTTTTGGGAGAAAAGGGGGAGGGAAAGTAAAAAAAATTGA
AGGTAAGAGGG
Found at i:15439059 original size:16 final size:17
Alignment explanation
Indices: 15439020--15439059 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
15439010 AAATAAATTA
15439020 AACTAAATTGAATAAAC
1 AACTAAATTGAATAAAC
15439037 AGA--AAATTGAA-AAAC
1 A-ACTAAATTGAATAAAC
15439052 AACTAAAT
1 AACTAAAT
15439060 CATAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.05
15 5 0.25
16 12 0.60
17 1 0.05
18 1 0.05
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (17 bp):
AACTAAATTGAATAAAC
Found at i:15446117 original size:6 final size:6
Alignment explanation
Indices: 15446106--15446130 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15446096 CATTTCCATG
15446106 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
15446131 GGAGAAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:15446179 original size:62 final size:62
Alignment explanation
Indices: 15446107--15446238 Score: 187
Period size: 62 Copynumber: 2.1 Consensus size: 62
15446097 ATTTCCATGT
* * *
15446107 CATTTTCATTTTCATTTTC-ATTTTGGAGAAAGCCACATTCATTTCCAAATGATTCAT-TTCTC
1 CATTTTCATTTTCA-TTTCAATTGTGGAGAAAACCACAGTCATTTCCAAATG-TTCATATTCTC
* *
15446169 CATTTTCATTTTCATTTCAATTGTGGAGAAAACCATAGTCATTTCCAAATGTTCCTATTCTC
1 CATTTTCATTTTCATTTCAATTGTGGAGAAAACCACAGTCATTTCCAAATGTTCATATTCTC
15446231 CATTTTCA
1 CATTTTCA
15446239 CCATTTCTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
61 8 0.13
62 55 0.87
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (62 bp):
CATTTTCATTTTCATTTCAATTGTGGAGAAAACCACAGTCATTTCCAAATGTTCATATTCTC
Found at i:15447068 original size:17 final size:17
Alignment explanation
Indices: 15447023--15447097 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
15447013 ATAATTACTT
15447023 TAATATTAAATT-AATA
1 TAATATTAAATTAAATA
* *
15447039 AAATACT--ATTAAA-A
1 TAATATTAAATTAAATA
*
15447053 TAAGTATTAAATTAAATT
1 TAA-TATTAAATTAAATA
*
15447071 TAATATTAAATTATTAAAA
1 TAATATTAAATTA--AATA
15447090 TAATATTA
1 TAATATTA
15447098 TTTTTGGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
14 6 0.13
15 5 0.11
16 5 0.11
17 16 0.36
18 3 0.07
19 10 0.22
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
TAATATTAAATTAAATA
Found at i:15453937 original size:38 final size:38
Alignment explanation
Indices: 15453856--15454006 Score: 176
Period size: 38 Copynumber: 3.9 Consensus size: 38
15453846 GAATCCAGTC
* * * *
15453856 ACCAGCACAAAGCCTGCGGAACTTTAAGCCCGGATATAGT
1 ACCAGTACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
15453896 ACCAGTACTATGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGTACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
15453934 ACCAGCACGAAGCCTGCAGGATTTAACCCGGATATATT
1 ACCAGTACGAAGCCTGCGGGATTTAACCCGGATATATT
* ** *
15453972 ACCAGTACGAAGCCTACTAGACTTAACCCGGATAT
1 ACCAGTACGAAGCCTGCGGGATTTAACCCGGATAT
15454007 GTATCGAGTG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 75 0.77
39 5 0.05
40 17 0.18
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGTACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:15453976 original size:76 final size:78
Alignment explanation
Indices: 15453856--15454006 Score: 200
Period size: 76 Copynumber: 2.0 Consensus size: 78
15453846 GAATCCAGTC
* * * * *
15453856 ACCAGCACAAAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGTACTATGCCTGCGGGATTTA
1 ACCAGCACAAAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGTACGAAGCCTACGAGACTTA
15453921 ACCCGGATATATT
66 ACCCGGATATATT
* * *
15453934 ACCAGCACGAAGCCTGCAGG-A-TTTAA-CCCGGATATATTACCAGTACGAAGCCTACTAGACTT
1 ACCAGCACAAAGCCTGC-GGAACTTTAAGCCCGGATATAGTACCAGTACGAAGCCTACGAGACTT
15453996 AACCCGGATAT
65 AACCCGGATAT
15454007 GTATCGAGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
76 40 0.62
77 5 0.08
78 17 0.27
79 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (78 bp):
ACCAGCACAAAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGTACGAAGCCTACGAGACTTA
ACCCGGATATATT
Found at i:15461191 original size:38 final size:38
Alignment explanation
Indices: 15461070--15461260 Score: 238
Period size: 38 Copynumber: 4.9 Consensus size: 38
15461060 GAATCCAGTC
*
15461070 ACCAGCACAAAGCCTGCGGAACTTTAAGCCCGGATATAGT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGGATATAGT
*
15461110 ACCAGCACAAAGCCTGCGGAACTTTAAGCCCGGATATAGT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGGATATAGT
* *
15461150 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAGT
* * * *
15461188 ACCAGCACGAAGTCTGCGGGATTTAACCTGGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAGT
* * * *
15461226 ACCAGCACGAAGCCTGGGGGACTTAACCTGGATAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATAT
15461261 GTATCGAGTG
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 78 0.55
39 5 0.04
40 59 0.42
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAGT
Found at i:15464270 original size:30 final size:30
Alignment explanation
Indices: 15464229--15464297 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
15464219 AAAATCATAT
* * * *
15464229 TTTGGCAAAATTATATTTTTGTCCCTAAAC
1 TTTGTCAAAATTACACTTTTGCCCCTAAAC
*
15464259 TTTGTCAAAATTACACTTTTGCCCCTAGAC
1 TTTGTCAAAATTACACTTTTGCCCCTAAAC
15464289 -TTGT-AAAAT
1 TTTGTCAAAAT
15464298 AGTTTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 5 0.15
29 4 0.12
30 25 0.74
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (30 bp):
TTTGTCAAAATTACACTTTTGCCCCTAAAC
Found at i:15467023 original size:13 final size:13
Alignment explanation
Indices: 15467007--15467072 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
15466997 TTTAAACCAA
15467007 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
15467020 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
15467033 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
15467046 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
15467059 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
15467072 A
1 A
15467073 TTGCCAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 5 0.11
13 36 0.80
14 4 0.09
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:15469079 original size:22 final size:22
Alignment explanation
Indices: 15469054--15469101 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
15469044 CACACGCCTA
*
15469054 TGTGGACGCAGGGGCACGCCCG
1 TGTGGACGCAGGGGCACACCCG
15469076 TGTGGACGCAGGGGCACACCCG
1 TGTGGACGCAGGGGCACACCCG
15469098 TGTG
1 TGTG
15469102 CCATCAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.29, G:0.44, T:0.12
Consensus pattern (22 bp):
TGTGGACGCAGGGGCACACCCG
Found at i:15478418 original size:4 final size:4
Alignment explanation
Indices: 15478404--15478514 Score: 62
Period size: 4 Copynumber: 28.8 Consensus size: 4
15478394 ATTTTTCAAT
*
15478404 TTTA TTTTA TTTA -TT- TTTA TTT- TTATT TTTA TTT- TATTA TTTA -TTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA T-TTA TTTA TTTA
*
15478450 TTTA -TTA TTTA -TTA TTTA -TTA CTTTA -TTA CTTTA TTTTA ATTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA -TTTA TTTA TTTA
* *
15478497 -TTA CTTA ATTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
15478515 TATTATTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
3 25 0.29
4 44 0.51
5 17 0.20
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:15478418 original size:22 final size:22
Alignment explanation
Indices: 15478391--15478466 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 22
15478381 CAATTTGTAT
15478391 TTTATTTTTCAATTTTA-TTTTA
1 TTTATTTTT-AATTTTATTTTTA
*
15478413 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTTAATTTTATTTTTA
*
15478435 TTTTATTATTTATTATTTATTATTTA
1 -TTTATT-TTTAAT-TTTATT-TTTA
15478461 -TTATTT
1 TTTATTT
15478467 ATTACTTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
21 6 0.12
22 14 0.29
23 7 0.15
24 11 0.23
25 6 0.12
26 4 0.08
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTTTAATTTTATTTTTA
Found at i:15478418 original size:27 final size:25
Alignment explanation
Indices: 15478388--15478521 Score: 84
Period size: 28 Copynumber: 5.2 Consensus size: 25
15478378 GCCCAATTTG
15478388 TATTTTATTTTTCAATTTTATTTTATT
1 TATTTTATTTTT-AATTTTATTTTA-T
*
15478415 TATTTTTATTTTTATTTTTATTTTAT
1 TA-TTTTATTTTTAATTTTATTTTAT
15478441 TA-TTTATTATTT-A--TTA-TTTAT
1 TATTTTATT-TTTAATTTTATTTTAT
*
15478462 TA-TTTATTACTTTATTACTTTATTTTAAT
1 TATTTTATT--TTTA--ATTTTATTTT-AT
*
15478491 TA-TTTATTACTTAATTATTTATTTTAT
1 TATTTTATT-TTTAA-T-TTTATTTTAT
15478518 TATT
1 TATT
15478522 AATAAAAAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 25
0.74 0.05 0.21
Matches are distributed among these distances:
21 13 0.15
22 6 0.07
24 6 0.07
25 4 0.05
26 4 0.05
27 20 0.23
28 25 0.28
29 10 0.11
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (25 bp):
TATTTTATTTTTAATTTTATTTTAT
Found at i:15478427 original size:21 final size:22
Alignment explanation
Indices: 15478403--15478469 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 22
15478393 TATTTTTCAA
15478403 TTTTATTTTATTTATT-TTTAT
1 TTTTATTTTATTTATTATTTAT
15478424 TTTTATTTTTATTTTATTATTTAT
1 TTTTA-TTTTA-TTTATTATTTAT
15478448 TATTTA--TTATTTATTATTTAT
1 T-TTTATTTTATTTATTATTTAT
15478469 T
1 T
15478470 ACTTTATTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
21 18 0.43
22 8 0.19
23 6 0.14
24 6 0.14
25 4 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTATTTTATTTATTATTTAT
Found at i:15478433 original size:7 final size:7
Alignment explanation
Indices: 15478390--15478466 Score: 54
Period size: 7 Copynumber: 11.1 Consensus size: 7
15478380 CCAATTTGTA
15478390 TTTTATT
1 TTTTATT
* *
15478397 TTTCA-A
1 TTTTATT
15478403 TTTTATT
1 TTTTATT
15478410 TTATT-TAT
1 TT-TTAT-T
15478418 TTTTA-T
1 TTTTATT
15478424 TTTTA-T
1 TTTTATT
15478430 TTTTATT
1 TTTTATT
15478437 TTATTATT
1 TT-TTATT
*
15478445 TATTATT
1 TTTTATT
*
15478452 TATTATT
1 TTTTATT
*
15478459 TATTATT
1 TTTTATT
15478466 T
1 T
15478467 ATTACTTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
6 16 0.27
7 32 0.54
8 11 0.19
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:15478467 original size:7 final size:7
Alignment explanation
Indices: 15478410--15478521 Score: 123
Period size: 7 Copynumber: 16.7 Consensus size: 7
15478400 CAATTTTATT
15478410 TTATTTA
1 TTATTTA
15478417 TT-TTTA
1 TTATTTA
15478423 TT-TTTA
1 TTATTTA
15478429 TT-TTTA
1 TTATTTA
15478435 -T-TTTA
1 TTATTTA
15478440 TTATTTA
1 TTATTTA
15478447 TTATTTA
1 TTATTTA
15478454 TTATTTA
1 TTATTTA
15478461 TTATTTA
1 TTATTTA
15478468 TTACTTTA
1 TTA-TTTA
15478476 TTACTTTA
1 TTA-TTTA
*
15478484 TT-TTAA
1 TTATTTA
15478490 TTATTTA
1 TTATTTA
*
15478497 TTACTTAA
1 TTA-TTTA
15478505 TTATTTA
1 TTATTTA
15478512 -T-TTTA
1 TTATTTA
15478517 TTATT
1 TTATT
15478522 AATAAAAAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
5 9 0.10
6 24 0.26
7 41 0.44
8 20 0.21
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATTTA
Found at i:15480974 original size:10 final size:10
Alignment explanation
Indices: 15480961--15481000 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
15480951 ATTTATTTTC
15480961 AATTATCTTT
1 AATTATCTTT
15480971 AATTATCTTT
1 AATTATCTTT
* *
15480981 ATTTATCTGT
1 AATTATCTTT
15480991 AATTATCTTT
1 AATTATCTTT
15481001 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.60
Consensus pattern (10 bp):
AATTATCTTT
Found at i:15486895 original size:45 final size:44
Alignment explanation
Indices: 15486827--15486916 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
15486817 GAACTATGTG
15486827 ATCTAAACTCATGAGTTGTGGTCTGAGTTCATGATATATGCGAC
1 ATCTAAACTCATGAGTTGTGGTCTGAGTTCATGATATATGCGAC
* *
15486871 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCA-TGAGTTGTGGTCTGAGTTCATGATATATGCGAC
15486916 A
1 A
15486917 CATGTTTCGG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 10 0.23
45 33 0.77
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (44 bp):
ATCTAAACTCATGAGTTGTGGTCTGAGTTCATGATATATGCGAC
Found at i:15488413 original size:20 final size:20
Alignment explanation
Indices: 15488388--15488439 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
15488378 ACAGAGAGTT
*
15488388 ACACGGGTGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
15488408 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
15488428 ACACGGGCGTGT
1 ACACGGGCGTGT
15488440 GTGACCACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:15492423 original size:37 final size:37
Alignment explanation
Indices: 15492373--15492447 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
15492363 TAAATGGATC
15492373 AAGTATATTTTCGTCTACCAGAGATGTCTAGAGAGAG
1 AAGTATATTTTCGTCTACCAGAGATGTCTAGAGAGAG
15492410 AAGTATATTTTCGTCTACCAGAGATGTCTAGAGAGAG
1 AAGTATATTTTCGTCTACCAGAGATGTCTAGAGAGAG
15492447 A
1 A
15492448 TCGGAGAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (37 bp):
AAGTATATTTTCGTCTACCAGAGATGTCTAGAGAGAG
Found at i:15512002 original size:23 final size:23
Alignment explanation
Indices: 15511976--15512020 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15511966 TCTAAAACAA
*
15511976 TTTAAT-TTTTTTCTTTTTATTTC
1 TTTAATATTTTTTC-CTTTATTTC
*
15511999 TTTATTATTTTTTCCTTTATTT
1 TTTAATATTTTTTCCTTTATTT
15512021 TTCTCTCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTAATATTTTTTCCTTTATTTC
Found at i:15514568 original size:40 final size:40
Alignment explanation
Indices: 15514523--15515027 Score: 850
Period size: 40 Copynumber: 12.6 Consensus size: 40
15514513 CAAGCTCAAT
* * * * * *
15514523 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15514563 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
15514603 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
15514643 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15514683 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15514723 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15514763 TGCCTTCTGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15514803 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15514843 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
15514883 TGCCTTCGGGTCTTATCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15514923 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15514963 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15515003 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
15515028 CATTCAAATG
Statistics
Matches: 440, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 437 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:15522342 original size:40 final size:40
Alignment explanation
Indices: 15522297--15522716 Score: 724
Period size: 40 Copynumber: 10.6 Consensus size: 40
15522287 CAAGCTCAAT
* * * * *
15522297 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15522337 TGCCTTCGGGTCTTAGCCCGGATATATCAATT-GCAC-AA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15522375 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15522415 -GCC-TCGGGTCTTAGCCCGGATATATC-ATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15522452 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15522492 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15522532 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15522572 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
15522612 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15522652 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
15522692 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
15522717 CATTCAAATG
Statistics
Matches: 365, Mismatches: 10, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
37 11 0.03
38 60 0.16
39 33 0.09
40 261 0.72
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:15526146 original size:7 final size:7
Alignment explanation
Indices: 15526134--15526158 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15526124 AAATTTTAAT
15526134 TTTAACC
1 TTTAACC
15526141 TTTAACC
1 TTTAACC
15526148 TTTAACC
1 TTTAACC
15526155 TTTA
1 TTTA
15526159 GACACAATAT
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:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAACC
Found at i:15526351 original size:21 final size:20
Alignment explanation
Indices: 15526327--15526393 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
15526317 GCCCTCATGT
15526327 TTTTTGGTAATCCATTACATA
1 TTTTTGGTAATCC-TTACATA
* *
15526348 TTTTT-GTATTTCTT-CATA
1 TTTTTGGTAATCCTTACATA
*
15526366 TTTTATGGTAATCCCTCACA-A
1 TTTT-TGGTAAT-CCTTACATA
15526387 TTTTTGG
1 TTTTTGG
15526394 CATTTGCTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
18 8 0.22
19 3 0.08
20 12 0.32
21 12 0.32
22 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.52
Consensus pattern (20 bp):
TTTTTGGTAATCCTTACATA
Found at i:15526723 original size:20 final size:19
Alignment explanation
Indices: 15526673--15526724 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
15526663 AATTGGTATA
15526673 TCTCATGTTTTTCGGTACAC
1 TCTCATG-TTTTCGGTACAC
* *
15526693 TCTCTTATTTTCAGGTATC-C
1 TCTCATGTTTTC-GGTA-CAC
15526713 TCTCATGTTTTC
1 TCTCATGTTTTC
15526725 TAGTAATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.12, T:0.50
Consensus pattern (19 bp):
TCTCATGTTTTCGGTACAC
Found at i:15527406 original size:20 final size:20
Alignment explanation
Indices: 15527346--15527408 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
15527336 TCATCTTTTA
*
15527346 TTTGGTAATTCCTCATAATT
1 TTTGGTAATTCCTCATATTT
* * *
15527366 TTTGGTATTTTCTCATCTTT
1 TTTGGTAATTCCTCATATTT
* *
15527386 TTTGGTAATCCCTCATGTTT
1 TTTGGTAATTCCTCATATTT
15527406 TTT
1 TTT
15527409 TTTTTGGTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTGGTAATTCCTCATATTT
Found at i:15557923 original size:19 final size:19
Alignment explanation
Indices: 15557877--15557927 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
15557867 TAATTATCAA
* *
15557877 AATAGTTAATACATTTTAAT
1 AATATTTAATA-ATTTAAAT
*
15557897 TATATTTAATAATTTAAAT
1 AATATTTAATAATTTAAAT
*
15557916 AATTTTTAATAA
1 AATATTTAATAA
15557928 AATAAAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
AATATTTAATAATTTAAAT
Found at i:15557973 original size:21 final size:22
Alignment explanation
Indices: 15557921--15557975 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
15557911 TAAATAATTT
* *
15557921 TTAATAAAATAAAATATATTAG
1 TTAATAAATTAAAATATATAAG
*
15557943 TTAATGAATTAAAA-A-ATAAG
1 TTAATAAATTAAAATATATAAG
15557963 TATAATAAATTAA
1 T-TAATAAATTAA
15557976 GAACCAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAATAAATTAAAATATATAAG
Found at i:15567559 original size:30 final size:27
Alignment explanation
Indices: 15567525--15567591 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 27
15567515 TAATTGATTT
*
15567525 TTTTTAAATTTTAAAAATATATGTTTATAA
1 TTTTTAAATTTTAAAAAT-GAT-TTTAT-A
*
15567555 TTTTTACACTTTTTAAAAATGATTTTATA
1 TTTTTA-A-ATTTTAAAAATGATTTTATA
15567584 TTTTTAAA
1 TTTTTAAA
15567592 AAAATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 1 0.03
29 7 0.22
30 11 0.34
31 3 0.09
32 10 0.31
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTTTAAATTTTAAAAATGATTTTATA
Found at i:15573704 original size:28 final size:28
Alignment explanation
Indices: 15573664--15573742 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
15573654 GCAATCAAAT
* * *
15573664 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
15573692 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
15573720 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
15573743 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:15584266 original size:22 final size:20
Alignment explanation
Indices: 15584240--15584284 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
15584230 GATTTGTGTG
* *
15584240 TTTTATTATTGTTTTTATGATA
1 TTTTATAATAGTTTTT-T-ATA
15584262 TTTTATAATAGTTTTTTATA
1 TTTTATAATAGTTTTTTATA
15584282 TTT
1 TTT
15584285 AAAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTATAATAGTTTTTTATA
Found at i:15584601 original size:114 final size:113
Alignment explanation
Indices: 15584198--15584624 Score: 367
Period size: 110 Copynumber: 3.8 Consensus size: 113
15584188 TTTTTATATA
* ** * * *
15584198 TTTTATTAAGTTTAAGTTTATATTAGAA-GTATGATTTGTGTGTTTTATTATTGTTTTTAT-GAT
1 TTTTATT-AGTTTAAGTTTGTATTA-AATGTATGATTAATTTGTTTTATTAATGTTTTTGTAG-T
* * ** * *
15584261 ATTTTATAATAGTTTTTTATATTTAA---AATA-AATATTTTT-TTGTTATG
63 ATCTTATATTAGTTTTTCGTATTTAAGGGAA-AGGATATTTTTGTTGTTGTG
* * * * *
15584308 TTTTATTAGATTTAGGTTTGTATTAAATGTATGACTAGTTTGTTTTATTAATGTTATTGTTGTAT
1 TTTTATTAG-TTTAAGTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTAGTAT
*
15584373 CTTATATTAGTTTTTTTCGTATTTAAGGGGAAGGATATTTTTTGTTGTTGT-
65 CTTATATTAG--TTTTTCGTATTTAAGGGAAAGGATA-TTTTTGTTGTTGTG
*
15584424 TTTT-TT--TTT-AGTTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTAT
1 TTTTATTAGTTTAAG-TTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTAGTAT
*** * *
15584485 CTTATATTAGTTTTTCGTATTTACTTGAAATGTTATTTTCTGTTGTTGTG
65 CTTATATTAGTTTTTCGTATTTAAGGGAAAGGATATTTT-TGTTGTTGTG
* * * ** *
15584535 TTTTATTAGCTTTAAGTTTGTATT-TAGGTTTGATTAATTTGTTTTATTAATGTTTTTAAAGAAT
1 TTTTATTAG-TTTAAGTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTAGTAT
** *
15584599 CTTATATCGGTTTTTCATATTTAAGG
65 CTTATATTAGTTTTTCGTATTTAAGG
15584625 TATGAGCATA
Statistics
Matches: 259, Mismatches: 39, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
109 8 0.03
110 85 0.33
111 6 0.02
112 72 0.28
114 54 0.21
115 17 0.07
116 11 0.04
117 6 0.02
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (113 bp):
TTTTATTAGTTTAAGTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTAGTATC
TTATATTAGTTTTTCGTATTTAAGGGAAAGGATATTTTTGTTGTTGTG
Found at i:15584911 original size:18 final size:19
Alignment explanation
Indices: 15584883--15584918 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15584873 AAATTTGCGG
*
15584883 AATTATTTTTTAGTTGACC
1 AATTATTTTTTAATTGACC
15584902 AATT-TTTTTTAATTGAC
1 AATTATTTTTTAATTGAC
15584919 AGCATGAGTA
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (19 bp):
AATTATTTTTTAATTGACC
Found at i:15587175 original size:78 final size:78
Alignment explanation
Indices: 15587043--15587187 Score: 172
Period size: 78 Copynumber: 1.9 Consensus size: 78
15587033 GTAGTGGGAC
* * *
15587043 CAAAAAATTTAAAAACAAATACTGGTGCCGCCACATGTATAGTAGGGACTAGAGA-GAATTTTTT
1 CAAAAAATTTAAAAACAAATACTGGTGCCGCCACATCTATAGTAGGCACTAGAGATAAATTTTTT
15587107 TTAAACTGTTACA
66 TTAAACTGTTACA
* * *
15587120 CAAAAAATTTTCAAAAA-TAATACTGGTGCTGCCACATCTCA-AGTAGTCA-TCAGAGATAAATT
1 CAAAAAA-TTT-AAAAACAAATACTGGTGCCGCCACATCT-ATAGTAGGCACT-AGAGATAAATT
15587182 TTTTTT
62 TTTTTT
15587188 TTTAAGATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
77 8 0.14
78 33 0.58
79 16 0.28
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (78 bp):
CAAAAAATTTAAAAACAAATACTGGTGCCGCCACATCTATAGTAGGCACTAGAGATAAATTTTTT
TTAAACTGTTACA
Found at i:15588891 original size:5 final size:5
Alignment explanation
Indices: 15588881--15588922 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
15588871 AATAAGTCAT
15588881 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TGATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T-ATAA T
15588923 TATTATATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:15589382 original size:23 final size:23
Alignment explanation
Indices: 15589351--15589406 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
15589341 AGAGTTTTTT
*
15589351 TAAACATTTA-TACAAATTTTTAA
1 TAAAAATTTATTA-AAATTTTTAA
*
15589374 -AAAATATTTATTAATATTTTTAA
1 TAAAA-ATTTATTAAAATTTTTAA
15589397 TAAAAATTTA
1 TAAAAATTTA
15589407 AAGAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 3 0.11
23 19 0.68
24 6 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAAAATTTATTAAAATTTTTAA
Found at i:15594112 original size:25 final size:26
Alignment explanation
Indices: 15594045--15594112 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
15594035 TTGTTTCTAT
15594045 TATTATATATATATTTTAATACCATATG
1 TATTAT-TAT-TATTTTAATACCATATG
** *
15594073 TATTATTATCGTTTT-ATACTAT-TG
1 TATTATTATTATTTTAATACCATATG
15594097 CTATTATTATTATTTT
1 -TATTATTATTATTTT
15594113 CGTCATCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.06
25 19 0.56
26 4 0.12
27 3 0.09
28 6 0.18
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTATTATTATTTTAATACCATATG
Found at i:15597505 original size:26 final size:27
Alignment explanation
Indices: 15597476--15597535 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
15597466 ATCCTCTCTC
*
15597476 AAGCCATATAA-CAGGAAGGTCACAAA
1 AAGCCATATAATCAGGAAGCTCACAAA
*
15597502 AAGCCAT-TAATCGGGAAGCTCACAAA
1 AAGCCATATAATCAGGAAGCTCACAAA
*
15597528 GAG-CATAT
1 AAGCCATAT
15597536 TAGGAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (27 bp):
AAGCCATATAATCAGGAAGCTCACAAA
Found at i:15599630 original size:17 final size:17
Alignment explanation
Indices: 15599601--15599641 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15599591 AAACCTTCAA
*
15599601 TTTTCCTTTTTTCTTTC
1 TTTTCCTTTTTTCATTC
15599618 TTTT-CTTTCTTTCATTC
1 TTTTCCTTT-TTTCATTC
15599635 -TTTCCTT
1 TTTTCCTT
15599642 CCCCTGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCCTTTTTTCATTC
Found at i:15599904 original size:17 final size:18
Alignment explanation
Indices: 15599884--15599918 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15599874 ATAAATATCT
15599884 TTTATAAATAA-TAAATA
1 TTTATAAATAATTAAATA
*
15599901 TTTATTAATAATTAAATA
1 TTTATAAATAATTAAATA
15599919 CATGTATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTATAAATAATTAAATA
Found at i:15600422 original size:26 final size:25
Alignment explanation
Indices: 15600393--15600445 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
15600383 CATAGGAAGT
* *
15600393 TCACAAAGAACTTTTAATTAGGATGC
1 TCACAAAGAACCTTTAATCAGGA-GC
* *
15600419 TCACGAAGAGCCTTTAATCAGGAGC
1 TCACAAAGAACCTTTAATCAGGAGC
15600444 TC
1 TC
15600446 CGGATAGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
TCACAAAGAACCTTTAATCAGGAGC
Found at i:15607360 original size:19 final size:21
Alignment explanation
Indices: 15607317--15607361 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
15607307 AATTCAAAAA
*
15607317 AATAAAAAATTATTAATAATT
1 AATAAAAAATTATTAAAAATT
15607338 --TAAAAAA-TA-TAAAAATT
1 AATAAAAAATTATTAAAAATT
15607355 AATAAAA
1 AATAAAA
15607362 TGCACATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 7 0.33
18 2 0.10
19 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AATAAAAAATTATTAAAAATT
Found at i:15607802 original size:32 final size:32
Alignment explanation
Indices: 15607740--15607802 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
15607730 TAATAAAAAA
* *
15607740 TGAATCTAGACATACATTTGTTTCGATTCATC
1 TGAATCTAGACATACATTTGTTACAATTCATC
15607772 TGAATCTAGACA-ATCATTTG-TACAAGTTCAT
1 TGAATCTAGACATA-CATTTGTTACAA-TTCAT
15607803 TTTAGATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (32 bp):
TGAATCTAGACATACATTTGTTACAATTCATC
Found at i:15609270 original size:31 final size:30
Alignment explanation
Indices: 15609233--15609302 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
15609223 ATAAGAAATG
15609233 AATTTAAAATAAATAATGTAAAAAAAAAAGA
1 AATTTAAAATAAATAATGTAAAAAAAAAA-A
* * * *
15609264 AATTTAATATCAATAATGTACACAAAAAAA
1 AATTTAAAATAAATAATGTAAAAAAAAAAA
15609294 AATTTAAAA
1 AATTTAAAA
15609303 ATAGAGTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (30 bp):
AATTTAAAATAAATAATGTAAAAAAAAAAA
Found at i:15614489 original size:17 final size:17
Alignment explanation
Indices: 15614467--15614499 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15614457 GAGTGGCTTT
15614467 AATTTGACAA-TGACTTG
1 AATTTGA-AATTGACTTG
15614484 AATTTGAAATTGACTT
1 AATTTGAAATTGACTT
15614500 CAACATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
AATTTGAAATTGACTTG
Found at i:15617813 original size:12 final size:12
Alignment explanation
Indices: 15617796--15617829 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15617786 TTGGAGTAAC
15617796 AAAAAAAAATCA
1 AAAAAAAAATCA
* *
15617808 AAAAAAAATTCG
1 AAAAAAAAATCA
15617820 AAAAAAAAAT
1 AAAAAAAAAT
15617830 TGATTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATCA
Found at i:15617829 original size:13 final size:13
Alignment explanation
Indices: 15617796--15617880 Score: 67
Period size: 11 Copynumber: 6.7 Consensus size: 13
15617786 TTGGAGTAAC
15617796 AAAAAAAAA-TC-
1 AAAAAAAAATTCG
15617807 AAAAAAAAATTCG
1 AAAAAAAAATTCG
15617820 AAAAAAAAATT-G
1 AAAAAAAAATTCG
15617832 ATTGAAAAAAAATTC-
1 A---AAAAAAAATTCG
*
15617847 -AAAAAAAAGT-G
1 AAAAAAAAATTCG
15617858 AAAAAAAAA-TCG
1 AAAAAAAAATTCG
15617870 AGCAAAAAAAA
1 A--AAAAAAAA
15617881 AGAAAAGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 19
0.76 0.01 0.23
Matches are distributed among these distances:
11 19 0.31
12 14 0.23
13 11 0.18
14 8 0.13
15 10 0.16
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:15617851 original size:12 final size:12
Alignment explanation
Indices: 15617795--15617867 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 12
15617785 ATTGGAGTAA
15617795 CAAAAAAAAA-T
1 CAAAAAAAAATT
15617806 CAAAAAAAAATT
1 CAAAAAAAAATT
15617818 CGAAAAAAAAATT
1 C-AAAAAAAAATT
*
15617831 GATTGAAAAAAAATT
1 CA---AAAAAAAATT
*
15617846 C-AAAAAAAAGT
1 CAAAAAAAAATT
*
15617857 GAAAAAAAAAT
1 CAAAAAAAAAT
15617868 CGAGCAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
11 19 0.37
12 11 0.22
13 11 0.22
15 10 0.20
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.15
Consensus pattern (12 bp):
CAAAAAAAAATT
Found at i:15617878 original size:38 final size:39
Alignment explanation
Indices: 15617795--15617881 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 39
15617785 ATTGGAGTAA
* *
15617795 CAAAAAAAAATCAAAAAAAAATTCGAAAAAAAAATTGATTG
1 CAAAAAAAAATCAAAAAAAAAGTCGAAAAAAAAATCGA--G
*
15617836 -AAAAAAAATTC-AAAAAAAAGT-GAAAAAAAAATCGAG
1 CAAAAAAAAATCAAAAAAAAAGTCGAAAAAAAAATCGAG
15617872 CAAAAAAAAA
1 CAAAAAAAAA
15617882 GAAAAGAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.02
37 8 0.20
38 13 0.32
39 9 0.22
40 10 0.24
ACGTcount: A:0.72, C:0.07, G:0.08, T:0.13
Consensus pattern (39 bp):
CAAAAAAAAATCAAAAAAAAAGTCGAAAAAAAAATCGAG
Found at i:15618981 original size:6 final size:6
Alignment explanation
Indices: 15618948--15619055 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
15618938 AAAGAAATTG
* * * ** *
15618948 AAAG-A AAACAA AAAGAA AACGAA GAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** * * * *
15618995 AAAGAA ATCGAA AAAGTA AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
15619046 AAAGAA AAAG
1 AAAGAA AAAG
15619056 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 24, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
5 3 0.04
6 61 0.81
7 7 0.09
8 4 0.05
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:15618996 original size:57 final size:56
Alignment explanation
Indices: 15618935--15619055 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 56
15618925 GAAAGAGATT
* *
15618935 GAAAAAGAAATTG-AAAG-AAAACAAAAAGAAAACGAAGAAGAAAAAGAAATTGCAAAA
1 GAAAAAGAAATCGAAAAGTAAAACAAAAAGAAAACGAAG-A-AAAAA-AAATTGAAAAA
* * * *
15618992 GAAAAAGAAATCGAAAAAGTAAGAGAAAAAGAAAATGAAGAAAAGAAAATTGAAAAA
1 GAAAAAGAAATCG-AAAAGTAAAACAAAAAGAAAACGAAGAAAAAAAAATTGAAAAA
15619049 GAAAAAG
1 GAAAAAG
15619056 CGAAAAAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
57 29 0.53
58 4 0.07
59 5 0.09
60 17 0.31
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.07
Consensus pattern (56 bp):
GAAAAAGAAATCGAAAAGTAAAACAAAAAGAAAACGAAGAAAAAAAAATTGAAAAA
Found at i:15619037 original size:14 final size:13
Alignment explanation
Indices: 15619016--15619053 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
15619006 AAAAGTAAGA
15619016 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
15619028 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
15619043 GAAAAAGAAAA
1 GAAAAAGAAAA
15619054 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:15619067 original size:21 final size:21
Alignment explanation
Indices: 15619012--15619067 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
15619002 TCGAAAAAGT
*
15619012 AAGAGAAAAAGAAAATGAAGAA
1 AAGA-AAAAAGAAAAAGAAGAA
**
15619034 AAGAAAATTGAAAAAGAA-AA
1 AAGAAAAAAGAAAAAGAAGAA
*
15619054 AGCGAAAAAAGAAA
1 A-AGAAAAAAGAAA
15619068 TTGAAAGAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 3 0.11
21 20 0.74
22 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (21 bp):
AAGAAAAAAGAAAAAGAAGAA
Found at i:15619071 original size:27 final size:27
Alignment explanation
Indices: 15618975--15619073 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
15618965 AACGAAGAAG
*
15618975 AAAAAGAAATTGCAAAAGAAAAAGAAATCG-
1 AAAAAGAAATTGAAAAAGAAAAAG----CGA
* ** *
15619005 AAAAAGTAAGAGAAAAAG-AAAA-TGA
1 AAAAAGAAATTGAAAAAGAAAAAGCGA
15619030 AGAAAAGAAAATTGAAAAAGAAAAAGCGA
1 A-AAAAG-AAATTGAAAAAGAAAAAGCGA
15619059 AAAAAGAAATTGAAA
1 AAAAAGAAATTGAAA
15619074 GAGAGCTTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
24 1 0.02
25 1 0.02
26 5 0.09
27 18 0.33
28 9 0.16
29 7 0.13
30 14 0.25
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.09
Consensus pattern (27 bp):
AAAAAGAAATTGAAAAAGAAAAAGCGA
Found at i:15619215 original size:48 final size:47
Alignment explanation
Indices: 15619136--15619241 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
15619126 GAGTGTCATG
*
15619136 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
15619184 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
15619232 GAAAAAGAAA
1 GAAAAAGAAA
15619242 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:15621024 original size:33 final size:33
Alignment explanation
Indices: 15620986--15621048 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
15620976 GATTACTCAC
15620986 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
15621019 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
15621049 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:15621075 original size:21 final size:21
Alignment explanation
Indices: 15621046--15621101 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
15621036 CAAGCTCTCT
*
15621046 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
15621067 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
15621088 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
15621102 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:15621094 original size:14 final size:14
Alignment explanation
Indices: 15621045--15621101 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
15621035 TCAAGCTCTC
15621045 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
15621058 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
15621072 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
15621086 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
15621100 TT
1 TT
15621102 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:15621161 original size:18 final size:18
Alignment explanation
Indices: 15621063--15621166 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
15621053 TCTTTTTTCG
15621063 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
15621082 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
15621102 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
15621120 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
15621138 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
15621156 CTTTTTGTTTT
1 CTTTTTCTTTT
15621167 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 1 0.02
18 46 0.70
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:15621183 original size:6 final size:6
Alignment explanation
Indices: 15621063--15621170 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
15621053 TCTTTTTTCG
* * * **
15621063 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
15621114 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
15621162 -GTTTT CTTT
1 CTTTTT CTTT
15621171 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:15622261 original size:29 final size:27
Alignment explanation
Indices: 15622206--15622267 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
15622196 TTAAACTTGA
*
15622206 TTTTTTTTGCTCACCTTTTTTTTCTTTT
1 TTTTTTTTGCTCA-CTTTTTTTACTTTT
15622234 CTTTTTTTTGCTCGA-TTTTTTTCACTTTT
1 -TTTTTTTTGCTC-ACTTTTTTT-ACTTTT
15622263 TTTTT
1 TTTTT
15622268 AATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.40
29 17 0.57
30 1 0.03
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTTTTTTGCTCACTTTTTTTACTTTT
Found at i:15622263 original size:11 final size:11
Alignment explanation
Indices: 15622249--15622316 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 11
15622239 TTTTGCTCGA
*
15622249 TTTTTTTCACT
1 TTTTTTTCAAT
*
15622260 TTTTTTTTAATT
1 TTTTTTTCAA-T
15622272 TTTTTTCAATCAAT
1 TTTTTT---TCAAT
15622286 TTTTTTTCGAATT
1 TTTTTTTC-AA-T
*
15622299 TTTTTTTCGAT
1 TTTTTTTCAAT
15622310 TTTTTTT
1 TTTTTTT
15622317 GTTACTCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
11 18 0.38
12 10 0.21
13 9 0.19
14 7 0.15
15 3 0.06
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTTTTCAAT
Found at i:15622264 original size:12 final size:12
Alignment explanation
Indices: 15622249--15622316 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 12
15622239 TTTTGCTCGA
15622249 TTTTTTTC-ACTT
1 TTTTTTTCGA-TT
*
15622261 TTTTTTT-AATT
1 TTTTTTTCGATT
*
15622272 TTTTTTCAATCAATT
1 TTTTTT---TCGATT
15622287 -TTTTTTCGAATT
1 TTTTTTTCG-ATT
15622299 TTTTTTTCGATT
1 TTTTTTTCGATT
15622311 TTTTTT
1 TTTTTT
15622317 GTTACTCCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
11 10 0.21
12 20 0.42
13 8 0.17
14 6 0.12
15 4 0.08
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTTTCGATT
Found at i:15624342 original size:91 final size:91
Alignment explanation
Indices: 15624187--15624369 Score: 348
Period size: 91 Copynumber: 2.0 Consensus size: 91
15624177 GCTGAGATTG
* *
15624187 AGCTTCATCTTGCACTTGGGGCCCTTGTGTTTAGGCCAATCATGATAGCAACGAGTGGTGCCACA
1 AGCTTCATCTTGCACTTGGGGCCCTCGTATTTAGGCCAATCATGATAGCAACGAGTGGTGCCACA
15624252 ACATGATGCGATTGAGATCACATCAT
66 ACATGATGCGATTGAGATCACATCAT
15624278 AGCTTCATCTTGCACTTGGGGCCCTCGTATTTAGGCCAATCATGATAGCAACGAGTGGTGCCACA
1 AGCTTCATCTTGCACTTGGGGCCCTCGTATTTAGGCCAATCATGATAGCAACGAGTGGTGCCACA
15624343 ACATGATGCGATTGAGATCACATCAT
66 ACATGATGCGATTGAGATCACATCAT
15624369 A
1 A
15624370 CCCTCCCTCT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (91 bp):
AGCTTCATCTTGCACTTGGGGCCCTCGTATTTAGGCCAATCATGATAGCAACGAGTGGTGCCACA
ACATGATGCGATTGAGATCACATCAT
Found at i:15625777 original size:20 final size:20
Alignment explanation
Indices: 15625754--15625799 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15625744 GGGTTAAGAT
*
15625754 TGAGCTAAATTGAGCTTGAG
1 TGAGCTAAATTGAGCTCGAG
* * *
15625774 TGAGTTGACTTGAGCTCGAG
1 TGAGCTAAATTGAGCTCGAG
15625794 TGAGCT
1 TGAGCT
15625800 GGAAACGAGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (20 bp):
TGAGCTAAATTGAGCTCGAG
Found at i:15626719 original size:18 final size:18
Alignment explanation
Indices: 15626664--15626719 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
15626654 TGTGGACTAA
*
15626664 ATTTTTTAAATGATTATTA
1 ATTTTTTAAAT-ATTATTT
*
15626683 ATATTTTT-AATATTGTTT
1 AT-TTTTTAAATATTATTT
*
15626701 ATTTTTTAAATTTTATTT
1 ATTTTTTAAATATTATTT
15626719 A
1 A
15626720 ACATCTCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 5 0.16
18 16 0.52
19 5 0.16
20 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTTTTTAAATATTATTT
Found at i:15626766 original size:19 final size:18
Alignment explanation
Indices: 15626734--15626787 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
15626724 CTCTTCATTT
15626734 TTTAATAATGTTTTATAAA
1 TTTAATAAT-TTTTATAAA
*
15626753 TTTATATAATTTTTAAAAA
1 TTTA-ATAATTTTTATAAA
*
15626772 ATTAA-AATTTTT-TAAA
1 TTTAATAATTTTTATAAA
15626788 ATAATTTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 1 0.03
19 15 0.48
20 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAATAATTTTTATAAA
Found at i:15627485 original size:5 final size:5
Alignment explanation
Indices: 15627475--15627531 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
15627465 ACAATTACAC
15627475 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
15627525 ACAAT AC
1 ACAAT AC
15627532 TTGAAAGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (5 bp):
ACAAT
Found at i:15647702 original size:38 final size:38
Alignment explanation
Indices: 15647660--15647736 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
15647650 ATTTAAAATC
15647660 TTTAAAA-ATAATACAAAT-TATAGAAAATAAAAAAATTA
1 TTTAAAAGATAATA-AAATATATA-AAAATAAAAAAATTA
* * *
15647698 TTTAAAAGATTATAAAATATATAAAAGTGAAAAAATTA
1 TTTAAAAGATAATAAAATATATAAAAATAAAAAAATTA
15647736 T
1 T
15647737 AAAATTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 25 0.74
39 9 0.26
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (38 bp):
TTTAAAAGATAATAAAATATATAAAAATAAAAAAATTA
Found at i:15647724 original size:19 final size:18
Alignment explanation
Indices: 15647700--15647750 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
15647690 AAAAATTATT
15647700 TAAAAGATTATAAAATATA
1 TAAAAGATTATAAAAT-TA
* *
15647719 TAAAAG-TGAAAAAATTA
1 TAAAAGATTATAAAATTA
*
15647736 TAAAATTATTATAAA
1 TAAAA-GATTATAAA
15647751 TGGAAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 7 0.28
18 7 0.28
19 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
TAAAAGATTATAAAATTA
Found at i:15647737 original size:26 final size:25
Alignment explanation
Indices: 15647701--15647819 Score: 75
Period size: 26 Copynumber: 4.6 Consensus size: 25
15647691 AAAATTATTT
*
15647701 AAAAGATTATAAAATATATAAAAGTG
1 AAAAAATTATAAAATATATAAAA-TG
15647727 AAAAAATTATAAAAT-TATTATAAATG
1 AAAAAATTATAAAATATA-TA-AAATG
* * * *
15647753 GAAAAA-TATAAATTATTAAAAAATT
1 AAAAAATTATAAAATA-TATAAAATG
* *
15647778 AAAATAA-CAAAAAAGTATATAAATTATG
1 AAAA-AATTATAAAA-TATATAAA--ATG
15647806 AAAAAATT-TAAAAT
1 AAAAAATTATAAAAT
15647820 TTTTTATAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
25 16 0.23
26 36 0.51
27 13 0.18
28 6 0.08
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (25 bp):
AAAAAATTATAAAATATATAAAATG
Found at i:15647781 original size:24 final size:26
Alignment explanation
Indices: 15647701--15647774 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
15647691 AAAATTATTT
* *
15647701 AAAAGATTATAAAA-TATATAAAAGTGA
1 AAAA-ATTATAAAATTAT-TAAAAATGG
*
15647728 AAAAATTATAAAATTATTATAAATGG
1 AAAAATTATAAAATTATTAAAAATGG
15647754 AAAAA-TAT-AAATTATTAAAAA
1 AAAAATTATAAAATTATTAAAAA
15647775 ATTAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.29
25 3 0.07
26 20 0.48
27 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (26 bp):
AAAAATTATAAAATTATTAAAAATGG
Found at i:15648471 original size:19 final size:20
Alignment explanation
Indices: 15648449--15648498 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
15648439 TGTTTTTTTC
15648449 AATTTTTAATAATTTAT-AT
1 AATTTTTAATAATTTATAAT
** *
15648468 AATTTTTTGTCATTTATAAT
1 AATTTTTAATAATTTATAAT
15648488 AATTTTATAAT
1 AATTTT-TAAT
15648499 GTTTGCATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 14 0.58
20 8 0.33
21 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAATAATTTATAAT
Found at i:15648473 original size:28 final size:27
Alignment explanation
Indices: 15648441--15648528 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 27
15648431 ATTTTTTTTG
15648441 TTTTTTTCAATTTTTAATAATTTATATAA
1 TTTTTTTC-ATTTTTAATAATTT-TATAA
*
15648470 TTTTTTGTCATTTATAATAATTTTATAA
1 TTTTTT-TCATTTTTAATAATTTTATAA
* * * *
15648498 -TGTTTGCATTTTT-ATATATTTTCTAG
1 TTTTTTTCATTTTTAATA-ATTTTATAA
15648524 TTTTT
1 TTTTT
15648529 AAGCATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
25 3 0.06
26 13 0.27
27 7 0.14
28 5 0.10
29 19 0.39
30 2 0.04
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTTTTTCATTTTTAATAATTTTATAA
Found at i:15648473 original size:29 final size:28
Alignment explanation
Indices: 15648441--15648498 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
15648431 ATTTTTTTTG
*
15648441 TTTTTT-TCAATTTTTAATAATTTATATAA
1 TTTTTTGTC-ATTTATAATAATTT-TATAA
15648470 TTTTTTGTCATTTATAATAATTTTATAA
1 TTTTTTGTCATTTATAATAATTTTATAA
15648498 T
1 T
15648499 GTTTGCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.22
29 19 0.70
30 2 0.07
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTTTGTCATTTATAATAATTTTATAA
Found at i:15648474 original size:20 final size:21
Alignment explanation
Indices: 15648451--15648498 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
15648441 TTTTTTTCAA
15648451 TTTTTAATAATTTAT-ATAAT
1 TTTTTAATAATTTATAATAAT
* *
15648471 TTTTT-GTCATTTATAATAAT
1 TTTTTAATAATTTATAATAAT
*
15648491 TTTATAAT
1 TTTTTAAT
15648499 GTTTGCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 7 0.32
20 14 0.64
21 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTAATAATTTATAATAAT
Found at i:15648518 original size:26 final size:28
Alignment explanation
Indices: 15648450--15648519 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
15648440 GTTTTTTTCA
*
15648450 ATTTTTAATAATTTATATAATTTTTTGTC
1 ATTTTTAATAATTT-TATAATTGTTTGTC
*
15648479 ATTTATAATAATTTTATAA-TGTTTG-C
1 ATTTTTAATAATTTTATAATTGTTTGTC
15648505 ATTTTT-ATATATTTT
1 ATTTTTAATA-ATTTT
15648520 CTAGTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.08
26 11 0.30
27 5 0.14
28 5 0.14
29 13 0.35
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
ATTTTTAATAATTTTATAATTGTTTGTC
Found at i:15649050 original size:6 final size:6
Alignment explanation
Indices: 15649043--15649081 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15649033 TCTTTTTCCC
* * *
15649043 TCTCCC TCTTCT TCTCCT TCTCCT TCTCCT TCTTCT TCT
1 TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCT
15649082 TCATATTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
TCTCCT
Found at i:15649058 original size:12 final size:12
Alignment explanation
Indices: 15649043--15649081 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
15649033 TCTTTTTCCC
*
15649043 TCTCCCTCTTCT
1 TCTCCTTCTTCT
*
15649055 TCTCCTTCTCCT
1 TCTCCTTCTTCT
15649067 TCTCCTTCTTCT
1 TCTCCTTCTTCT
15649079 TCT
1 TCT
15649082 TCATATTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (12 bp):
TCTCCTTCTTCT
Found at i:15650545 original size:19 final size:19
Alignment explanation
Indices: 15650517--15650553 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15650507 AAACGAAACA
15650517 AAAAAAAAAAGAGAGAAAG
1 AAAAAAAAAAGAGAGAAAG
* *
15650536 AAAAAGAAAAGGGAGAAA
1 AAAAAAAAAAGAGAGAAA
15650554 CGAGAAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAGAGAAAG
Found at i:15656298 original size:24 final size:24
Alignment explanation
Indices: 15656262--15656313 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
15656252 TTTCTAGAAG
* * *
15656262 ATTTAGTACTTATTAGTATAATAT
1 ATTTAGCACTTATCAGCATAATAT
* *
15656286 ATTTAGCATTTATCAGCATAATTT
1 ATTTAGCACTTATCAGCATAATAT
15656310 ATTT
1 ATTT
15656314 GACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCACTTATCAGCATAATAT
Found at i:15659139 original size:4 final size:4
Alignment explanation
Indices: 15659130--15659154 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
15659120 ATACAATCTA
15659130 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
15659155 CTCCTCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:15665545 original size:22 final size:22
Alignment explanation
Indices: 15665520--15665561 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15665510 AATTTAGCCA
* *
15665520 TTTTTTATTTTTATTTTAATAT
1 TTTTTTATTTTAAATTTAATAT
*
15665542 TTTTTTGTTTTAAATTTAAT
1 TTTTTTATTTTAAATTTAAT
15665562 TGTTACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTATTTTAAATTTAATAT
Found at i:15669405 original size:3 final size:3
Alignment explanation
Indices: 15669385--15669529 Score: 95
Period size: 3 Copynumber: 48.7 Consensus size: 3
15669375 TATTACGTTG
*
15669385 TTA TTA -TA TTCA TT- TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
15669429 TTA TTA TTA TTA TTA GTA TTA GTA GTG TTG TTT TTA TT- TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * *
15669474 CTA TTA TTA TTA GTA TTG TGT- TTA TTA TGT- TTC TTA -TA TTTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA -TTA TTA
*
15669519 TTA TTA CTA TT
1 TTA TTA TTA TT
15669530 GTTAATCTTA
Statistics
Matches: 114, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
2 9 0.08
3 97 0.85
4 8 0.07
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15671111 original size:21 final size:20
Alignment explanation
Indices: 15671076--15671116 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
15671066 TCAACCACTG
15671076 ATTTATTTTAGTTTTCTATTT
1 ATTTATTTTAGTTTT-TATTT
15671097 ATTTATTTTTA-TTTTTATTT
1 ATTTA-TTTTAGTTTTTATTT
15671117 CCAATTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
ATTTATTTTAGTTTTTATTT
Found at i:15675943 original size:22 final size:23
Alignment explanation
Indices: 15675918--15675982 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
15675908 TATTGAAAAT
*
15675918 ACATGTTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
15675940 ACATATAT-ATAATATAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
15675964 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
15675983 CACATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
24 12 0.33
25 7 0.19
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:15675976 original size:25 final size:23
Alignment explanation
Indices: 15675925--15675980 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
15675915 AATACATGTT
15675925 CATAATAT-ATATAAAACATATA
1 CATAATATAATATAAAACATATA
* *
15675947 TATAATATAATATTAAAACATTTTA
1 CATAATATAATA-TAAAACA-TATA
15675972 CATAATATA
1 CATAATATA
15675981 TACACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 7 0.25
25 11 0.39
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
CATAATATAATATAAAACATATA
Found at i:15676576 original size:3 final size:3
Alignment explanation
Indices: 15676570--15676594 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15676560 ATAAAAGCAC
15676570 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
15676595 GGATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15682520 original size:25 final size:25
Alignment explanation
Indices: 15682457--15682514 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
15682447 TATGTGGTGG
15682457 CTTTGTGGAAAATTCTCTAAAAAGC
1 CTTTGTGGAAAATTCTCTAAAAAGC
* * *
15682482 TTTTATGGCAAATTCTCTAAAAAGC
1 CTTTGTGGAAAATTCTCTAAAAAGC
15682507 CTTTGTGG
1 CTTTGTGG
15682515 TGAATTATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (25 bp):
CTTTGTGGAAAATTCTCTAAAAAGC
Found at i:15684836 original size:25 final size:25
Alignment explanation
Indices: 15684798--15684881 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
15684788 TTTATGTGGT
15684798 GCCTTTGTGACAAATTCTCTAAAAA
1 GCCTTTGTGACAAATTCTCTAAAAA
* *
15684823 GCTTTTGTGGCAAATTCTCTAAAAA
1 GCCTTTGTGACAAATTCTCTAAAAA
*
15684848 GCCTTTGTGATAAACTT-TCTAAAAA
1 GCCTTTGTGACAAA-TTCTCTAAAAA
15684873 GCCTTTGTG
1 GCCTTTGTG
15684882 GTGAATTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
25 51 0.96
26 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (25 bp):
GCCTTTGTGACAAATTCTCTAAAAA
Found at i:15687771 original size:41 final size:41
Alignment explanation
Indices: 15687714--15687796 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
15687704 ACCCAAACTG
15687714 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
1 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
15687755 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
1 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
15687796 A
1 A
15687797 ATTAATATAA
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:0.35, C:0.22, G:0.05, T:0.39
Consensus pattern (41 bp):
ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
Found at i:15694351 original size:22 final size:22
Alignment explanation
Indices: 15694326--15694368 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15694316 TATCCTAACA
15694326 ATAATAACAAAATAGTAGCAAT
1 ATAATAACAAAATAGTAGCAAT
* * *
15694348 ATAATAGCGAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
15694369 AATAGTGGCA
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:0.53, C:0.09, G:0.16, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAT
Found at i:15694379 original size:11 final size:11
Alignment explanation
Indices: 15694333--15694381 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
15694323 ACAATAATAA
15694333 CAAAATAGTAG
1 CAAAATAGTAG
* *
15694344 CAATATAATAG
1 CAAAATAGTAG
* *
15694355 CGAAATGGTAG
1 CAAAATAGTAG
*
15694366 CAAAATAGTGG
1 CAAAATAGTAG
15694377 CAAAA
1 CAAAA
15694382 CAACTGATTC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.18
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:15696368 original size:48 final size:46
Alignment explanation
Indices: 15696261--15696392 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 46
15696251 AGTGATAATT
*
15696261 TTAAATTTCAATACTATTCGATATTTTTTAATTTATGAAAATTTAA
1 TTAAATTTCAATACTATTTGATATTTTTTAATTTATGAAAATTTAA
* *
15696307 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATG-CAATTATAA
1 TTAAATTT-CAATACTATTTGATATTTT-TTAATTTATGAAAATT-TAA
* *
15696355 TTAAAATTTCAATACTACTTGAT-TTTTTTTATTTATGA
1 TT-AAATTTCAATACTATTTGATATTTTTTAATTTATGA
15696393 TGTTTGCATT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
46 17 0.22
47 26 0.34
48 27 0.36
49 6 0.08
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (46 bp):
TTAAATTTCAATACTATTTGATATTTTTTAATTTATGAAAATTTAA
Found at i:15697384 original size:7 final size:7
Alignment explanation
Indices: 15697372--15697404 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
15697362 TAGTCGTTTC
15697372 GTATTTA
1 GTATTTA
15697379 GTATTTA
1 GTATTTA
15697386 GTATTTA
1 GTATTTA
15697393 GTATTTA
1 GTATTTA
15697400 GTATT
1 GTATT
15697405 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:15698041 original size:18 final size:18
Alignment explanation
Indices: 15698001--15698035 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15697991 CTAGGTGCGT
*
15698001 ATCCTAGCCCTTATATGC
1 ATCCTAACCCTTATATGC
15698019 ATCCTAACCCTTATATG
1 ATCCTAACCCTTATATG
15698036 TTTCCTTTTC
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:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
ATCCTAACCCTTATATGC
Found at i:15701354 original size:37 final size:37
Alignment explanation
Indices: 15701296--15701371 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
15701286 TTACGAAGTG
* * *
15701296 TTACCCGGACATAATCTCCACACGAAGTTATCGGGTC
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
*
15701333 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
15701370 TT
1 TT
15701372 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
Found at i:15701616 original size:47 final size:47
Alignment explanation
Indices: 15701490--15701617 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 47
15701480 CCCTTCGGGA
* * * * *
15701490 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
* * * *
15701537 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAGGC
15701586 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATTCATCA
15701618 TATATACACT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 29 0.43
49 38 0.57
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
Found at i:15701623 original size:25 final size:24
Alignment explanation
Indices: 15701589--15701757 Score: 97
Period size: 23 Copynumber: 7.2 Consensus size: 24
15701579 ATTAGGCCTT
15701589 ATCACATATATACACTTTCACATTC
1 ATCA-ATATATACACTTTCACATTC
15701614 ATC-ATATATACACTTTCACATTC
1 ATCAATATATACACTTTCACATTC
* *** * *
15701637 ATC-ACATCGGC-CATT-AGGCCTT-
1 ATCAATATATACACTTTCA--CATTC
15701659 ATCACATATATACACTTTCACATTC
1 ATCA-ATATATACACTTTCACATTC
* *** * *
15701684 ATC-ACATCGGC-CATT-AGGCCTT-
1 ATCAATATATACACTTTCA--CATTC
15701706 ATCACATATATACACTTTCACATTC
1 ATCA-ATATATACACTTTCACATTC
15701731 ATC-ATATATACACTTTCACATTC
1 ATCAATATATACACTTTCACATTC
15701754 ATCA
1 ATCA
15701758 CATCGGCCAT
Statistics
Matches: 105, Mismatches: 24, Indels: 31
0.66 0.15 0.19
Matches are distributed among these distances:
21 2 0.02
22 12 0.11
23 60 0.57
24 14 0.13
25 15 0.14
26 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (24 bp):
ATCAATATATACACTTTCACATTC
Found at i:15701628 original size:70 final size:70
Alignment explanation
Indices: 15701547--15701687 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
15701537 CCTGTCACAT
15701547 ATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
15701612 TCATC
66 TCATC
*
15701617 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
15701682 TCATC
66 TCATC
15701687 A
1 A
15701688 CATCGGCCAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (70 bp):
ATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATC
Found at i:15701669 original size:47 final size:47
Alignment explanation
Indices: 15701616--15701734 Score: 238
Period size: 47 Copynumber: 2.5 Consensus size: 47
15701606 TCACATTCAT
15701616 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
15701663 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
15701710 CATATATACACTTTCACATTCATCA
1 CATATATACACTTTCACATTCATCA
15701735 TATATACACT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (47 bp):
CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:15701709 original size:117 final size:118
Alignment explanation
Indices: 15701501--15701854 Score: 602
Period size: 117 Copynumber: 3.0 Consensus size: 118
15701491 TTATCACATT
* * * * * * * *
15701501 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATACACTTCCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATT
15701566 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCATA
65 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCATA
15701620 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTC
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
15701684 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCATA
66 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCATA
15701737 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACAC-TTTCACAT
15701802 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
15701855 CATCGGCCAT
Statistics
Matches: 224, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
117 116 0.52
119 47 0.21
120 61 0.27
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (118 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCATA
Found at i:15701737 original size:70 final size:72
Alignment explanation
Indices: 15701663--15701807 Score: 267
Period size: 70 Copynumber: 2.0 Consensus size: 72
15701653 GGCCTTATCA
15701663 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACAC-TTTCA
1 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTTCA
15701726 CATTCAT
66 CATTCAT
15701733 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTC
1 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTTC
15701798 ACATTCAT
65 ACATTCAT
15701806 CA
1 CA
15701808 CATCGGCCAT
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
70 48 0.67
72 10 0.14
73 14 0.19
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (72 bp):
CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTTCA
CATTCAT
Found at i:15701790 original size:49 final size:47
Alignment explanation
Indices: 15701733--15701969 Score: 420
Period size: 47 Copynumber: 4.9 Consensus size: 47
15701723 TCACATTCAT
15701733 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
15701780 CATATATATACACTTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 C--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCA
15701830 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
15701877 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCA
1 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
15701924 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 C--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
15701970 CTATCATTTC
Statistics
Matches: 183, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
47 84 0.46
48 10 0.05
49 52 0.28
50 37 0.20
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:15705010 original size:125 final size:126
Alignment explanation
Indices: 15704635--15705137 Score: 717
Period size: 126 Copynumber: 4.0 Consensus size: 126
15704625 TTATAGCCTA
* *
15704635 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * ** *
15704700 ATAGTG---CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * * *
15704758 ATTTTTCTAGGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* ** *
15704823 ACAGTGTATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * * *
15704884 ATTTTTCTACGAACTACTATAACAAAAGAGCATCTAC-TGGGAGCGTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * * * *
15704948 ATAATGCATCCTACTTGAAGCGTTTTTGACATTATTTGTTCAAAAACATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* *
15705009 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
15705074 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
15705135 ATT
1 ATT
15705138 CTTGCAGAAA
Statistics
Matches: 338, Mismatches: 38, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
123 66 0.20
125 108 0.32
126 164 0.49
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
Found at i:15705078 original size:251 final size:249
Alignment explanation
Indices: 15704635--15705137 Score: 765
Period size: 251 Copynumber: 2.0 Consensus size: 249
15704625 TTATAGCCTA
* * * *
15704635 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTATAACAAAAGAGCATCCACGTAGGAGCGTTTTTCAGAAATTTTGCTG
* * * ** *
15704700 ATAGTGCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATGTCTACTTAGAATTATTTTTC
66 ATAATGCCTACTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTACTCAGAATTATTTTTC
** * * *
15704765 TAGGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGTTGACAGTGT
131 TACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAGTGC
** * *
15704830 ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTTAGAATT
196 ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
* *
15704884 ATTTTTCTACGAACTACTATAACAAAAGAGCATCTAC-TGGGAGCGTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAACAAAAGAGCATCCACGTAGGAGCGTTTTTCAGAAATTTTGCTG
* *
15704948 ATAATGCATCCTACTTGAAGCGTTTTTGACATTATTTGTTCAAAAACATCTACTCAGAATTATTT
66 ATAATG---CCTACTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTACTCAGAATTATTT
15705013 TTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAG
128 TTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAG
15705078 TGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
193 TGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
15705135 ATT
1 ATT
15705138 CTTGCAGAAA
Statistics
Matches: 228, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
248 29 0.13
249 34 0.15
251 165 0.72
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (249 bp):
ATTTTTCTACGAACTACTATAACAAAAGAGCATCCACGTAGGAGCGTTTTTCAGAAATTTTGCTG
ATAATGCCTACTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTACTCAGAATTATTTTTC
TACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
Found at i:15705734 original size:16 final size:16
Alignment explanation
Indices: 15705713--15705744 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15705703 AATTAATTAA
15705713 CCCTAATTTAATCAAT
1 CCCTAATTTAATCAAT
15705729 CCCTAATTTAATCAAT
1 CCCTAATTTAATCAAT
15705745 TAACCCTAAT
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:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
CCCTAATTTAATCAAT
Found at i:15705737 original size:35 final size:38
Alignment explanation
Indices: 15705665--15705754 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 38
15705655 ACGATTATGT
*
15705665 ATCAATTAACCCTAAATTAATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAATTTAATCAATT-ACCCTAAATTTA
*
15705704 ATTAATTAACCCTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
15705739 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
15705755 ACCCTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 4 0.08
38 1 0.02
39 22 0.46
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (38 bp):
ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
Found at i:15705754 original size:19 final size:19
Alignment explanation
Indices: 15705665--15705754 Score: 132
Period size: 19 Copynumber: 4.8 Consensus size: 19
15705655 ACGATTATGT
*
15705665 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAATTTA
15705684 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCT-AATTTA
*
15705704 ATTAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
15705723 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
15705739 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
15705755 ACCCTAAACT
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
16 15 0.23
17 1 0.02
18 1 0.02
19 30 0.47
20 17 0.27
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:15705874 original size:17 final size:17
Alignment explanation
Indices: 15705852--15705890 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15705842 ATTCTAAACT
*
15705852 TTAAAAAAATCCTAACC
1 TTAAAAAAATCATAACC
15705869 TTAAAAAAATCATAACC
1 TTAAAAAAATCATAACC
*
15705886 CTAAA
1 TTAAA
15705891 TCAATTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (17 bp):
TTAAAAAAATCATAACC
Found at i:15706522 original size:20 final size:19
Alignment explanation
Indices: 15706497--15706550 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
15706487 AATATTTGAA
*
15706497 AATTTAACATAAATTTTGT
1 AATTTAACATAAATTTTAT
*
15706516 AATTTTAAC-TATATTTTAT
1 AA-TTTAACATAAATTTTAT
* *
15706535 TATTTAATATAAATTT
1 AATTTAACATAAATTT
15706551 ATTACTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 5 0.18
19 17 0.61
20 6 0.21
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTTAACATAAATTTTAT
Found at i:15706909 original size:3 final size:3
Alignment explanation
Indices: 15706901--15706975 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
15706891 ACCATGAAGG
15706901 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
15706949 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
15706976 ATGGGCTACC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15711859 original size:43 final size:43
Alignment explanation
Indices: 15711801--15712240 Score: 382
Period size: 43 Copynumber: 10.4 Consensus size: 43
15711791 AGTTTATCCA
*
15711801 ATGATGCACTGTGTGTGCTAGTATAGTTACTTCGATTTATTCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * *** *
15711844 ATGATGCGCTTTGTGTGCCAGTATAGTTGCTTTTCTTTCTTCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * * * * *
15711887 ATGATGCATTATGTGTGTCAGTATAGTTACTTGGGTTTATCCA
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * *
15711930 ATGAAGCACTGTGTGT--CAGTATAGTTATTTTGATTTATTTG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * *
15711971 TTGATGCACTGTGTGTGCCAGCATAGTTACTTCAAATT-TTCTG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTC-G
* *
15712014 ATGATGCAC--TGTGTGCCAGTATAATTACTTCGATTTATCCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * * * *
15712055 TTGATGCATTGTGTGTGCCAGTATAGTTACTTCGGTTTCTCCA
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* *
15712098 ATGGTGCA-TCGTGTGTGCCAGTATAATTACTTCGATTTA-TCTG
1 ATGATGCACT-GTGTGTGCCAGTATAGTTACTTCGATTTATTC-G
* *
15712141 ATGATGCACTGTGTGTGCCAGTATAGTTA--T-GGTTT-CTCTG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTC-G
* * * *
15712181 ATGATGCACTGTGTGTGTCAATATAGTTGCTTCGATATA-TCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* *
15712223 AATGATGCGCTGCGTGTG
1 -ATGATGCACTGTGTGTG
15712241 TTCTAAAAAT
Statistics
Matches: 317, Mismatches: 65, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
40 34 0.11
41 65 0.21
42 8 0.03
43 209 0.66
44 1 0.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (43 bp):
ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
Done.