Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 126 of 410
Found at i:37954636 original size:43 final size:44
Alignment explanation
Indices: 37954580--37954748 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 44
37954570 ATATCGTACA
* *
37954580 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATTG
1 ATGCCAACTATCCCAGACGTGGTCTTACATGTAATCACATATCG
*
37954623 ATGCC-ACTATCCCAGACAG-GGTCTTACATG-AATCAAATA-CG
1 ATGCCAACTATCCCAGAC-GTGGTCTTACATGTAATCACATATCG
* * ** * * *
37954664 ATACCGA-TGCCCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACTATCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
37954707 ATGCCAAC-ATCCCAGACGTGGTCTTACATGAAAACACATATC
1 ATGCCAACTATCCCAGACGTGGTCTTACATGTAATCACATATC
37954749 AAAAATCCTA
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 22 0.22
42 19 0.19
43 58 0.58
44 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (44 bp):
ATGCCAACTATCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:37967318 original size:2 final size:2
Alignment explanation
Indices: 37967313--37967406 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
37967303 TATATATATA
37967313 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37967355 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37967397 TG TG TG TG TG
1 TG TG TG TG TG
37967407 AGTATGATTA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:37969249 original size:52 final size:52
Alignment explanation
Indices: 37969184--37969284 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
37969174 GAACCCAATT
* *
37969184 ACATGTATTGCATCCATTATGAACTCAGACTAACTCAACGAGCTCGAATGCC
1 ACATGTATCGCATCCATTATGAACTCAGACCAACTCAACGAGCTCGAATGCC
*
37969236 ACATGTATCGCATCCATTATGAACTCGGACCAACTCAACGAGCTCGAAT
1 ACATGTATCGCATCCATTATGAACTCAGACCAACTCAACGAGCTCGAAT
37969285 ACTGCATACA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (52 bp):
ACATGTATCGCATCCATTATGAACTCAGACCAACTCAACGAGCTCGAATGCC
Found at i:37969366 original size:14 final size:14
Alignment explanation
Indices: 37969347--37969375 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37969337 TTCCTAGTGA
37969347 CATGTCACTTGTAT
1 CATGTCACTTGTAT
37969361 CATGTCACTTGTAT
1 CATGTCACTTGTAT
37969375 C
1 C
37969376 CTAAACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (14 bp):
CATGTCACTTGTAT
Found at i:37972778 original size:9 final size:9
Alignment explanation
Indices: 37972764--37972898 Score: 62
Period size: 9 Copynumber: 14.6 Consensus size: 9
37972754 AAAACCTAAT
37972764 AAATTATAA
1 AAATTATAA
37972773 AAATTATAA
1 AAATTATAA
* *
37972782 AAGATTTTAT
1 AA-ATTATAA
37972792 AAATT-TGAA
1 AAATTAT-AA
**
37972801 AAACTTATTTC
1 AAA-TTA-TAA
37972812 AAATTA-AA
1 AAATTATAA
*
37972820 AAATGTATTA
1 AAAT-TATAA
* *
37972830 GAATTCTTAA
1 AAATT-ATAA
* *
37972840 AAGTAATAA
1 AAATTATAA
*
37972849 AAATTGTAA
1 AAATTATAA
37972858 AAATTAT-A
1 AAATTATAA
*
37972866 AAA-TATTA
1 AAATTATAA
37972874 AAATTAATATA
1 AAATT-ATA-A
*
37972885 AACTTATAA
1 AAATTATAA
37972894 AAATT
1 AAATT
37972899 CGTAAAAACT
Statistics
Matches: 92, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
7 3 0.03
8 13 0.14
9 42 0.46
10 25 0.27
11 8 0.09
12 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:37973023 original size:16 final size:17
Alignment explanation
Indices: 37973000--37973041 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
37972990 GATTGAATCG
37973000 ATTTTTTATTC-TA-CA
1 ATTTTTTATTCATACCA
37973015 ATATTTTTA-TCATACCA
1 AT-TTTTTATTCATACCA
37973032 ATTTTTTATT
1 ATTTTTTATT
37973042 ATTCAACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 14 0.61
17 5 0.22
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTTATTCATACCA
Found at i:37973404 original size:21 final size:21
Alignment explanation
Indices: 37973377--37973424 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
37973367 TTTTTATGAT
* *
37973377 TTTTATAGAAT-TTTAATATG
1 TTTTATAAAATGTTAAATATG
37973397 TTGTTATAAAATGTTAAATATG
1 TT-TTATAAAATGTTAAATATG
37973419 TTTTAT
1 TTTTAT
37973425 TAATCCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 12 0.50
22 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTTATAAAATGTTAAATATG
Found at i:37973540 original size:21 final size:20
Alignment explanation
Indices: 37973508--37973550 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
37973498 TATGTAACCA
*
37973508 TTTTTATATTTTTATAATTT
1 TTTTTATATTTTAATAATTT
*
37973528 TTTTTGATTTTTTAATAATTT
1 TTTTT-ATATTTTAATAATTT
37973549 TT
1 TT
37973551 ATGAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTATATTTTAATAATTT
Found at i:37977099 original size:20 final size:20
Alignment explanation
Indices: 37977076--37977113 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37977066 AAAACTGACG
*
37977076 AAAATAGAAGAAAATAAAGT
1 AAAATAAAAGAAAATAAAGT
*
37977096 AAAATAAAATAAAATAAA
1 AAAATAAAAGAAAATAAA
37977114 AACACTAAGC
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (20 bp):
AAAATAAAAGAAAATAAAGT
Found at i:37977103 original size:5 final size:5
Alignment explanation
Indices: 37977076--37977114 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
37977066 AAAACTGACG
* * *
37977076 AAAAT AGAAG AAAAT AAAGT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
37977115 ACACTAAGCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:37978526 original size:20 final size:20
Alignment explanation
Indices: 37978360--37978529 Score: 90
Period size: 20 Copynumber: 8.8 Consensus size: 20
37978350 AGAATTCAAT
* *
37978360 ATTACTGAAAATATTACGAA
1 ATTACTGAAAACATTACAAA
*
37978380 ATTATTGAAAACATTACAAA
1 ATTACTGAAAACATTACAAA
*
37978400 CTTA-T-AAGAA-ATT-CAATA
1 ATTACTGAA-AACATTACAA-A
* * * *
37978418 ACTAATGAAAATAATACAAA
1 ATTACTGAAAACATTACAAA
* *
37978438 ATTACTAAAAAAAATTA-AAA
1 ATTACT-GAAAACATTACAAA
*
37978458 ATTACT-AAAATATTACAAA
1 ATTACTGAAAACATTACAAA
* * * *
37978477 GTT-GT-AATAA-ATTCCATA
1 ATTACTGAA-AACATTACAAA
*
37978495 ATT-CTAAAAACATTACAAA
1 ATTACTGAAAACATTACAAA
37978514 ATTACTGAAAACATTA
1 ATTACTGAAAACATTA
37978530 TAAAGTTAAG
Statistics
Matches: 116, Mismatches: 22, Indels: 24
0.72 0.14 0.15
Matches are distributed among these distances:
17 3 0.03
18 30 0.26
19 24 0.21
20 49 0.42
21 10 0.09
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (20 bp):
ATTACTGAAAACATTACAAA
Found at i:37980056 original size:25 final size:25
Alignment explanation
Indices: 37980026--37980075 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
37980016 GTATATGTTA
37980026 GCCAAATAGGTAGAAGGTATTGTAT
1 GCCAAATAGGTAGAAGGTATTGTAT
37980051 GCCAAATAGGTAGAAGGTATTGTAT
1 GCCAAATAGGTAGAAGGTATTGTAT
37980076 CGACACATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (25 bp):
GCCAAATAGGTAGAAGGTATTGTAT
Found at i:37989830 original size:45 final size:44
Alignment explanation
Indices: 37989775--37989864 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
37989765 CCAAAACATG
* * *
37989775 TGTCACATATATCATGAACTCAGACCATAACTCAATGAGTTTAGA
1 TGTCACATATATCATAAACTCAGACCACAACTC-ATGAGTTCAGA
* *
37989820 TGTCGCATATATCATAAACTCAGATCACAACTCATGAGTTCAGA
1 TGTCACATATATCATAAACTCAGACCACAACTCATGAGTTCAGA
37989864 T
1 T
37989865 CGCATAGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 11 0.28
45 29 0.73
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (44 bp):
TGTCACATATATCATAAACTCAGACCACAACTCATGAGTTCAGA
Found at i:37991635 original size:114 final size:113
Alignment explanation
Indices: 37991433--37991659 Score: 285
Period size: 114 Copynumber: 2.0 Consensus size: 113
37991423 TTAAAGGTTG
* * *
37991433 AGCATTAGCGGCGCTTCCCCAAAAAGCCGCAATAGATCGAGCATTAGCGGCATTTTAAAGAAAGC
1 AGCATTAGCGGCGCTACCCCAAAAAGCCACAAAAGATCGAGCATTAGCGGCATTTTAAAGAAAGC
* * * * * *
37991498 GCCGCTAAAATATTCAGCAGAACGATGTCGTTTACATTGAGTTTCCGT
66 ACCGCTAAAATATTAAGCAGAACGACGTCATTTACATTAAGCTTCCGT
* * * *
37991546 AGCATTAGCGGCGC-ACCCGCAAAAACGCCACAAAAGATGGAGCATTAGCGGCGTTTTTAAGGAA
1 AGCATTAGCGGCGCTACCC-CAAAAA-GCCACAAAAGATCGAGCATTAGCGGCATTTTAAAGAAA
** *
37991610 GCACCGCTAAAATATTAAGGTGAACGACGTCATTTAGATTAAGCTTCCGT
64 GCACCGCTAAAATATTAAGCAGAACGACGTCATTTACATTAAGCTTCCGT
37991660 GGAATTAGTG
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
112 3 0.03
113 20 0.21
114 73 0.76
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (113 bp):
AGCATTAGCGGCGCTACCCCAAAAAGCCACAAAAGATCGAGCATTAGCGGCATTTTAAAGAAAGC
ACCGCTAAAATATTAAGCAGAACGACGTCATTTACATTAAGCTTCCGT
Found at i:37992463 original size:14 final size:14
Alignment explanation
Indices: 37992444--37992470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37992434 TATGGCTTAT
37992444 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
37992458 GGTTTAAGGGTTA
1 GGTTTAAGGGTTA
37992471 TAGGTTAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:37992497 original size:29 final size:28
Alignment explanation
Indices: 37992447--37992524 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
37992437 GGCTTATGGT
*
37992447 TTAAGGGTTAGGGTTTAAGGGTTATAGG
1 TTAATGGTTAGGGTTTAAGGGTTATAGG
* * *
37992475 TTAGTGGTTATGGTTTTATGGGTTATAGG
1 TTAATGGTTA-GGGTTTAAGGGTTATAGG
*
37992504 TTAATGGTTTAGGGGTTAAGG
1 TTAATGG-TTAGGGTTTAAGG
37992525 CTTAGGGGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 8 0.20
29 29 0.73
30 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (28 bp):
TTAATGGTTAGGGTTTAAGGGTTATAGG
Found at i:37992514 original size:22 final size:21
Alignment explanation
Indices: 37992433--37992521 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 21
37992423 GGGATTATGA
*
37992433 TTATGGCTT-ATGGTTTAAGGG
1 TTATGG-TTAATGGTTTATGGG
* * *
37992454 TTAGGGTTTAA-GGGTTATAGG
1 TTATGG-TTAATGGTTTATGGG
37992475 TTAGTGGTT-ATGGTTTTATGGG
1 TTA-TGGTTAATGG-TTTATGGG
*
37992497 TTATAGGTTAATGGTTTAGGGG
1 TTAT-GGTTAATGGTTTATGGG
37992519 TTA
1 TTA
37992522 AGGCTTAGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.02
21 22 0.42
22 26 0.49
23 4 0.08
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (21 bp):
TTATGGTTAATGGTTTATGGG
Found at i:37992529 original size:14 final size:15
Alignment explanation
Indices: 37992502--37992535 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
37992492 ATGGGTTATA
*
37992502 GGTTAATGGTTTAGG
1 GGTTAATGGCTTAGG
37992517 GGTTAA-GGCTTAGG
1 GGTTAATGGCTTAGG
37992531 GGTTA
1 GGTTA
37992536 TTATTTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.41, T:0.35
Consensus pattern (15 bp):
GGTTAATGGCTTAGG
Found at i:37992771 original size:21 final size:21
Alignment explanation
Indices: 37992734--37992786 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
37992724 TTATTTTGTG
* *
37992734 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGAGGATATA
37992754 GTTTAGGGTTTAGAGGATATA
1 GTTTAGGGTTTAGAGGATATA
*
37992775 GTTTAGAGTTTA
1 GTTTAGGGTTTA
37992787 AGGTTACGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGGATATA
Found at i:37994644 original size:13 final size:14
Alignment explanation
Indices: 37994628--37994656 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37994618 TTATAAATAT
37994628 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
37994641 TTATAATGGTTTAA
1 TTATAATGGTTTAA
37994655 TT
1 TT
37994657 TGTCATTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:37995394 original size:31 final size:31
Alignment explanation
Indices: 37995352--37995417 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
37995342 TGTATTTTTT
* * *
37995352 ATGCTACATTTGCTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTGTTTTTAGTTCGATTTA
* *
37995383 ATGCTATATTTGTTGTTTTTAGTTCGATTTA
1 ATGCTACATTTGCTGTTTTTAGTTCGATTTA
37995414 ATGC
1 ATGC
37995418 AGGAAGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.17, C:0.11, G:0.20, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTAGTTCGATTTA
Found at i:38000867 original size:17 final size:17
Alignment explanation
Indices: 38000845--38000879 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
38000835 GAAACTTTAT
38000845 GCTTGTTAATGGCGACA
1 GCTTGTTAATGGCGACA
*
38000862 GCTTGTTAATGGTGACA
1 GCTTGTTAATGGCGACA
38000879 G
1 G
38000880 TGCCGGGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.31
Consensus pattern (17 bp):
GCTTGTTAATGGCGACA
Found at i:38009757 original size:54 final size:54
Alignment explanation
Indices: 38009675--38009817 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 54
38009665 CTCGATTTAC
** * * * *
38009675 AAAATTATTGAAATACCCCTATAAGGTAGAATTACTAAAATACCCATGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCATATAGGGT
* * * * * *
38009729 AGAATTACCGAAATACCTTTGTAGGGTAGAAATAATGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCATATAGGGT
* *
38009783 AAAATTACCGAGATACCCTTGTGGGGTAGAATTAC
1 AAAATTACCGAAATACCCTTGTAGGGTAGAATTAC
38009818 CATTTTGCCC
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCATATAGGGT
Found at i:38009818 original size:27 final size:27
Alignment explanation
Indices: 38009684--38009818 Score: 135
Period size: 27 Copynumber: 5.0 Consensus size: 27
38009674 CAAAATTATT
* * * *
38009684 GAAATACCCCTATAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
38009711 AAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * **
38009738 GAAATACCTTTGTAGGGTAGAAATAAT
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
38009765 GAAATACCCCTATAGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
38009792 GAGATACCCTTGTGGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
38009819 ATTTTGCCCC
Statistics
Matches: 85, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:38010415 original size:27 final size:26
Alignment explanation
Indices: 38010385--38010468 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
38010375 ATTTTGTTAA
* *
38010385 GTGGCTTTGCCATATTATCTATTTCTG
1 GTGGCTTTGCCAAAATATCT-TTTCTG
* *
38010412 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCA-AAATATCTTTTCTG
* *
38010439 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCAAAATATCT-TTTCTG
38010466 GTG
1 GTG
38010469 ACTCTATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
26 7 0.15
27 34 0.72
28 6 0.13
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (26 bp):
GTGGCTTTGCCAAAATATCTTTTCTG
Found at i:38010443 original size:54 final size:53
Alignment explanation
Indices: 38010385--38010492 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
38010375 ATTTTGTTAA
* * * * *
38010385 GTGGCTTTGCCATATTATCTATTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCACAATATCTATATCTGGTGACTATACCAC-AATATCTGTTCTG
* * *
38010439 GTGGCTTTGCCACAATATCTGTATCTGGTGACTCTATCACAATATCTGTTCTG
1 GTGGCTTTGCCACAATATCTATATCTGGTGACTATACCACAATATCTGTTCTG
38010492 G
1 G
38010493 CAGTCATGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 14 0.30
54 32 0.70
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (53 bp):
GTGGCTTTGCCACAATATCTATATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:38010479 original size:27 final size:26
Alignment explanation
Indices: 38010407--38010492 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
38010397 TATTATCTAT
* * *
38010407 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGACTCTACCAC-AATATCTG
* * *
38010434 TTCTGGTGGCTTTGCCACAATATCTG
1 TTCTGGTGACTCTACCACAATATCTG
*
38010460 TATCTGGTGACTCTATCACAATATCTG
1 T-TCTGGTGACTCTACCACAATATCTG
38010487 TTCTGG
1 TTCTGG
38010493 CAGTCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
TTCTGGTGACTCTACCACAATATCTG
Found at i:38010623 original size:6 final size:6
Alignment explanation
Indices: 38010614--38010902 Score: 119
Period size: 6 Copynumber: 46.7 Consensus size: 6
38010604 ATTCACATTT
* * * * *
38010614 TGATTC TGATTC TGTTATC TGATAC CGATTC TGATTC TG-TCACC TAATTC
1 TGATTC TGATTC TGAT-TC TGATTC TGATTC TGATTC TGAT--TC TGATTC
* * * *
38010664 TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTC T-ATCACC TAATTT
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGAT--TC TGATTC
* * * * *
38010714 TGATTC TGATTT TG-TTACC TGATAC TGATTT TGGTTC TG-TCAC TTGATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGAT-TC -TGATTC
* * * * *
38010764 TAATTC TGATTC TGATTT TGATTT TG-TTACC TGATAC TAATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
* * * * *
38010813 TG-TCACC TAATTC TGATTC TAATTT TGATTC TGATTC TG-TCACC TGATTC
1 TGAT--TC TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC
* *
38010863 TGATTC TGATTC TGATTC TCATTT TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
38010903 AATGCTTCTT
Statistics
Matches: 208, Mismatches: 48, Indels: 54
0.67 0.15 0.17
Matches are distributed among these distances:
5 13 0.06
6 161 0.77
7 25 0.12
8 9 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:38010643 original size:25 final size:25
Alignment explanation
Indices: 38010614--38010777 Score: 175
Period size: 25 Copynumber: 6.6 Consensus size: 25
38010604 ATTCACATTT
*
38010614 TGATTCTGATTCTGTTATCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
* * * *
38010639 CGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTTACCTGATAC
38010664 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
* * * **
38010689 TGATTCTGATTCTATCACCTAATTT
1 TGATTCTGATTCTGTTACCTGATAC
*
38010714 TGATTCTGATTTTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
* * * * *
38010739 TGATTTTGGTTCTGTCACTTGATTC
1 TGATTCTGATTCTGTTACCTGATAC
*
38010764 TAATTCTGATTCTG
1 TGATTCTGATTCTG
38010778 ATTTTGATTT
Statistics
Matches: 110, Mismatches: 29, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 110 1.00
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTGATAC
Found at i:38010694 original size:50 final size:50
Alignment explanation
Indices: 38010614--38010832 Score: 249
Period size: 50 Copynumber: 4.1 Consensus size: 50
38010604 ATTCACATTT
* *
38010614 TGATTCTGATTCTGTTATCTGATACCGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTC
* *
38010664 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTT
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTC
* * *
38010714 TGATTCTGATTTTGTTACCTGATACTGATTTTGGTTCTGTCACTTGATTCTAATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCAC------CTAATTC
* *
38010770 TGATTCTGATTTTGATTTTGTTACCTGATACTAATTCTGATTCTGTCACCTAATTC
1 TGATTC------TGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTC
38010826 TGATTCT
1 TGATTCT
38010833 AATTTTGATT
Statistics
Matches: 145, Mismatches: 12, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
50 86 0.59
56 25 0.17
62 34 0.23
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (50 bp):
TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTC
Found at i:38010695 original size:31 final size:31
Alignment explanation
Indices: 38010660--38010881 Score: 111
Period size: 31 Copynumber: 7.5 Consensus size: 31
38010650 CTGTCACCTA
*
38010660 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* *
38010691 ATTCTGATTCT-A-TC----ACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
*
38010716 ATTCTGA---T--TT-TGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * * *
38010741 ATTTTGGTTCTG-TCACTTGATT--CTAATTCTG
1 ATTCTGATTCTGAT-TC-TG-TTACCTGATTCTG
* * * *
38010772 ATTCTGATTTTGATTTTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * *
38010803 ATTCTGATTCTG-TCACCTAATT--CTGATTCTA
1 ATTCTGATTCTGAT--TCT-GTTACCTGATTCTG
* *
38010834 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
38010865 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
38010882 CATTTTGATT
Statistics
Matches: 139, Mismatches: 30, Indels: 44
0.65 0.14 0.21
Matches are distributed among these distances:
22 2 0.01
25 28 0.20
28 1 0.01
29 6 0.04
30 6 0.04
31 87 0.63
32 5 0.04
33 4 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:38010789 original size:62 final size:62
Alignment explanation
Indices: 38010707--38010876 Score: 223
Period size: 62 Copynumber: 2.7 Consensus size: 62
38010697 ATTCTATCAC
* * * * *
38010707 CTAATTTTGATTCTGATTTTGTTACCTGATACTGATTTTGGTTCTGTCACTTGATTCTAATT
1 CTAATTCTGATTCTGATTTTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTAATT
* * * *
38010769 CTGATTCTGATTTTGATTTTGTTACCTGATACTAATTCTGATTCTGTCACCTAATTCTGATT
1 CTAATTCTGATTCTGATTTTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTAATT
* * * *
38010831 CTAATTTTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTG
1 CTAATTCTGATTCTGATTTTGTTACCTGATACTGATTCTGATTCTG
38010877 ATTCTCATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 92 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (62 bp):
CTAATTCTGATTCTGATTTTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTAATT
Found at i:38010797 original size:25 final size:25
Alignment explanation
Indices: 38010769--38010851 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
38010759 GATTCTAATT
*
38010769 CTGATTCTGATTTTGATTTTGTTAC
1 CTGATTCTGATTCTGATTTTGTTAC
* * * *
38010794 CTGATACTAATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTTTGTTAC
* *
38010819 CTAATTCTGATTCTAATTTTGATT--
1 CTGATTCTGATTCTGATTTTG-TTAC
38010843 CTGATTCTG
1 CTGATTCTG
38010852 TCACCTGATT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 8 0.18
25 36 0.80
26 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTTTGTTAC
Found at i:38010824 original size:19 final size:19
Alignment explanation
Indices: 38010800--38010870 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
38010790 TTACCTGATA
38010800 CTAATTCTGATTCTGTCAC
1 CTAATTCTGATTCTGTCAC
* *
38010819 CTAATTCTGATTC--TAATT
1 CTAATTCTGATTCTGTCA-C
* *
38010837 TTGATTCTGATTCTGTCAC
1 CTAATTCTGATTCTGTCAC
*
38010856 CTGATTCTGATTCTG
1 CTAATTCTGATTCTG
38010871 ATTCTGATTC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.05
18 11 0.26
19 27 0.64
20 2 0.05
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (19 bp):
CTAATTCTGATTCTGTCAC
Found at i:38010844 original size:37 final size:37
Alignment explanation
Indices: 38010803--38010881 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
38010793 CCTGATACTA
*
38010803 ATTCTGATTCTGTCACCTAATTCTGATTCTAATTTTG
1 ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTG
* *
38010840 ATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTG
38010877 ATTCT
1 ATTCT
38010882 CATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTG
Found at i:38014753 original size:27 final size:27
Alignment explanation
Indices: 38014695--38014779 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
38014685 GCGTACCTGA
**
38014695 ACCCTTATGTGATAAAATGA-CGATTTT
1 ACCCTTATGTGATAAAATGATCGA-AAT
*
38014722 GCCCTTATGTGATAAAATGATCGAAAT
1 ACCCTTATGTGATAAAATGATCGAAAT
* *
38014749 ACCCTCATAGGGA-AAAATGATCGAAAT
1 ACCCTTAT-GTGATAAAATGATCGAAAT
38014776 ACCC
1 ACCC
38014780 CCATAGGGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 44 0.88
28 6 0.12
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGATCGAAAT
Found at i:38014784 original size:27 final size:27
Alignment explanation
Indices: 38014735--38014807 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
38014725 CTTATGTGAT
*
38014735 AAAATGATCGAAATACCCTCATAGGGA
1 AAAATGATCGAAATACCCCCATAGGGA
*
38014762 AAAATGATCGAAATACCCCCATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGA
*
38014789 AGAATGA-CTGAAATACCCC
1 AAAATGATC-GAAATACCCC
38014808 TGTAGGGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
AAAATGATCGAAATACCCCCATAGGGA
Found at i:38015044 original size:2 final size:2
Alignment explanation
Indices: 38015037--38015071 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
38015027 ATATAATGCG
*
38015037 TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38015072 TTTCAGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38026001 original size:40 final size:40
Alignment explanation
Indices: 38025946--38026123 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
38025936 CGAATGGTAT
38025946 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
38025986 CCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
38026026 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * ** * * * *
38026066 CCGGGCTAATTTTCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
38026106 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
38026124 ACAATCGAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:38026136 original size:80 final size:80
Alignment explanation
Indices: 38025946--38026163 Score: 195
Period size: 80 Copynumber: 2.7 Consensus size: 80
38025936 CGAATGGTAT
* * * * * * * * ** *
38025946 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGACAATCGAGCGAGTTACTAAATCCGGGTTAAATTTCGAAGGCAATTG
*
38026011 TCCGAGTTACCAAAA
66 TCCGAATTACCAAAA
* * * * * * *
38026026 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAATTTTCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGACAATCGAGCGAGTTACTAAATCCGGGTTAAATTTCGAAGGCAATTG
* * *
38026091 TGCGAATTACTATAA
66 TCCGAATTACCAAAA
* ** *
38026106 CCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAAATTTCGAAGG
1 CCGGGCTAAGTCCCGAAGACAATCGAGCGAGTTACTAAATCCGGGTTAAATTTCGAAGG
38026164 TACGTGATTC
Statistics
Matches: 116, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
79 14 0.12
80 102 0.88
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGACAATCGAGCGAGTTACTAAATCCGGGTTAAATTTCGAAGGCAATTG
TCCGAATTACCAAAA
Found at i:38031278 original size:27 final size:27
Alignment explanation
Indices: 38031248--38031418 Score: 110
Period size: 27 Copynumber: 6.3 Consensus size: 27
38031238 GGCAAAATGC
* *
38031248 TAATTTTACCCCACAAGGGTGTCTCAG
1 TAATTTTACCCTACAAGGGTATCTCAG
* * * * *
38031275 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTTTACCCTACAAGGGTATCTCAG
* *
38031302 TATTTTTACCCTACAAGGGTATTTC-G
1 TAATTTTACCCTACAAGGGTATCTCAG
* * * * * *
38031328 ATAATTCTATCCTATAGGGGTATTTCAA
1 -TAATTTTACCCTACAAGGGTATCTCAG
* * * *
38031356 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTTTACCCTACAAGGGTATCTCAG
* * * * *
38031383 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTTTACCCTACAAGGGTATCTCAG
38031410 TAATTTTAC
1 TAATTTTAC
38031419 AACTTATCCA
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 118 0.99
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATCTCAG
Found at i:38031309 original size:54 final size:53
Alignment explanation
Indices: 38031248--38031418 Score: 216
Period size: 54 Copynumber: 3.2 Consensus size: 53
38031238 GGCAAAATGC
* * *
38031248 TAATTTTACCCCACAAGGGTGTCTCAGTAATTCTACCCTATAGGGGTATTTCGG
1 TAATTTTACCCTACAAGGGTATTTC-GTAATTCTACCCTATAGGGGTATTTCGG
* * **
38031302 TATTTTTACCCTACAAGGGTATTTCGATAATTCTATCCTATAGGGGTATTTCAA
1 TAATTTTACCCTACAAGGGTATTTCG-TAATTCTACCCTATAGGGGTATTTCGG
* * * *
38031356 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGG
1 TAATTTTACCCTACAAGGGTATTTC-GTAATTCTACCCTATAGGGGTATTTCGG
38031410 TAATTTTAC
1 TAATTTTAC
38031419 AACTTATCCA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 97 0.98
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (53 bp):
TAATTTTACCCTACAAGGGTATTTCGTAATTCTACCCTATAGGGGTATTTCGG
Found at i:38036842 original size:48 final size:48
Alignment explanation
Indices: 38036767--38036950 Score: 246
Period size: 48 Copynumber: 3.8 Consensus size: 48
38036757 TTAGATCCCA
*
38036767 TGTAAAACCATGTCTGGGACATTGCATCGGCATTGATATGTGTGCCAG
1 TGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* *
38036815 TGTAAAACCATATCTGGGACATGGCATCGGCATTAATATGTGTGCCAG
1 TGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* * *
38036863 TGTAAGACCATGTCTGGTACATGGCATC-G-ATGATGATATGTGTGCTAG
1 TGTAAAACCATGTCTGGGACATGGCATCGGCAT--TGATATGTGTGCCAG
* * * *
38036911 TGTAAGACCATGTCTAGGACATGGCATCGACACTGATATG
1 TGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATG
38036951 AGACTTGGTA
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 116 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
TGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
Found at i:38036965 original size:48 final size:47
Alignment explanation
Indices: 38036773--38036975 Score: 126
Period size: 48 Copynumber: 4.2 Consensus size: 47
38036763 CCCATGTAAA
* * * * * * *
38036773 ACCATGTCTGGGACATTGCATCG-GCATTGATATGTGTGCCAGTGTAAA
1 ACCATGTCT-GGACATGGCATCGATCA-TGATATGAGTACTAGTATAAG
* * * * * * *
38036821 ACCATATCTGGGACATGGCATCG-GCATTAATATGTGTGCCAGTGTAAG
1 ACCATGTCT-GGACATGGCATCGATCA-TGATATGAGTACTAGTATAAG
* * * *
38036869 ACCATGTCTGGTACATGGCATCGATGATGATATGTGTGCTAGTGTAAG
1 ACCATGTCTGG-ACATGGCATCGATCATGATATGAGTACTAGTATAAG
*
38036917 ACCATGTCTAGGACATGGCATCGA-CACTGATATGAG-ACTTGGTATAAG
1 ACCATGTCT-GGACATGGCATCGATCA-TGATATGAGTAC-TAGTATAAG
*
38036965 ACCATATCTGG
1 ACCATGTCTGG
38036976 GATATGGCGC
Statistics
Matches: 135, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
47 6 0.04
48 126 0.93
49 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (47 bp):
ACCATGTCTGGACATGGCATCGATCATGATATGAGTACTAGTATAAG
Found at i:38036965 original size:96 final size:96
Alignment explanation
Indices: 38036773--38036983 Score: 230
Period size: 96 Copynumber: 2.2 Consensus size: 96
38036763 CCCATGTAAA
* *
38036773 ACCATGTCTGGGACATTGCATCGGCATTGATATGTGTGCCAGTGTAAAACCATATCTGGGACATG
1 ACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAAACCATATCTAGGACATG
* * * * *
38036838 GCATCGGCATTAATATGTGTGCCAGTGTAAG
66 GCATCGACACTAATATGAGTACCAGTATAAG
* * * *
38036869 ACCATGTCTGGTACATGGCATC-G-ATGATGATATGTGTGCTAGTGTAAGACCATGTCTAGGACA
1 ACCATGTCTGGGACATGGCATCGGCAT--TGATATGTGTGCCAGTGTAAAACCATATCTAGGACA
* **
38036932 TGGCATCGACACTGATATGAG-ACTTGGTATAAG
64 TGGCATCGACACTAATATGAGTAC-CAGTATAAG
* *
38036965 ACCATATCTGGGATATGGC
1 ACCATGTCTGGGACATGGC
38036984 GCTGACATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
94 2 0.02
95 2 0.02
96 91 0.96
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (96 bp):
ACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAAACCATATCTAGGACATG
GCATCGACACTAATATGAGTACCAGTATAAG
Found at i:38040789 original size:42 final size:42
Alignment explanation
Indices: 38040689--38040860 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 42
38040679 AGCTCGTACA
* * *
38040689 ATGCCAATGTCCCAAACTTGGTCTTACATATAATCAGATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATATAATCAAATATCG
*
38040732 ATGCCACTGTCCCAGACAGGGTCTTACATGA-AATCAAATAT-G
1 ATGCCA-TGTCCCAGACATGGTCTTACAT-ATAATCAAATATCG
* * *
38040774 ATGCCGATGTCCCAGACATGATCTTACACATAAATCTCAA-ATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATAT-AATC-AAATATCG
* ** * * *
38040818 ATGCCAACGTCCCAGATGTGGTCTTACATGTAAACACATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATATAATCAAATATCG
38040861 GATCCTATGT
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.26
43 47 0.46
44 28 0.27
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATATAATCAAATATCG
Found at i:38040833 original size:44 final size:40
Alignment explanation
Indices: 38040710--38040833 Score: 99
Period size: 42 Copynumber: 2.9 Consensus size: 40
38040700 CCAAACTTGG
*
38040710 TCTTACAT-ATAATCAGATATCGATGCCACTGTCCCAGACAGGG
1 TCTTACATGA-AATCA-A-ATCGATGCCAC-GTCCCAGACAGGA
* * *
38040753 TCTTACATGAAATCAAATATGATGCCGATGTCCCAGACATGA
1 TCTTACATGAAATCAAAT-CGATGCC-ACGTCCCAGACAGGA
38040795 TCTTACACAT-AAATCTCAAATCGATGCCAACGTCCCAGA
1 TCTT--ACATGAAA--TCAAATCGATGCC-ACGTCCCAGA
38040834 TGTGGTCTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.03
42 22 0.33
43 17 0.25
44 20 0.30
45 6 0.09
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
TCTTACATGAAATCAAATCGATGCCACGTCCCAGACAGGA
Found at i:38043657 original size:28 final size:28
Alignment explanation
Indices: 38043617--38043675 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
38043607 ATGATCTAAT
*
38043617 TTTAGTTAGATTAAAAGCTAAAGCGATG
1 TTTAGCTAGATTAAAAGCTAAAGCGATG
38043645 TTTAGCTAGATTAAAAGCTAAAGCGATG
1 TTTAGCTAGATTAAAAGCTAAAGCGATG
38043673 TTT
1 TTT
38043676 TCATTGCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (28 bp):
TTTAGCTAGATTAAAAGCTAAAGCGATG
Found at i:38046210 original size:40 final size:40
Alignment explanation
Indices: 38046144--38046287 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 40
38046134 AAATTGAATG
* * *
38046144 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
38046183 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ** *
38046223 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAGAAACT
* *
38046263 CTAGCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
38046288 TTTGTGCACG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 16 0.18
40 71 0.82
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:38048660 original size:24 final size:24
Alignment explanation
Indices: 38048628--38048727 Score: 155
Period size: 24 Copynumber: 4.0 Consensus size: 24
38048618 CGACATTGTG
*
38048628 CTAAGTGAAATAAGACCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
38048652 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
38048679 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
38048704 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
38048728 TGGGCTAAGT
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
24 45 0.63
25 2 0.03
27 2 0.03
28 22 0.31
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:38048691 original size:52 final size:52
Alignment explanation
Indices: 38048624--38048739 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
38048614 GATACGACAT
38048624 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
38048676 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
*
38048728 TGGGCTAAGTGA
1 TGTGCTAAGTGA
38048740 GAAATTTCCT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:38048692 original size:28 final size:27
Alignment explanation
Indices: 38048624--38048739 Score: 154
Period size: 24 Copynumber: 4.4 Consensus size: 27
38048614 GATACGACAT
*
38048624 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
38048651 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
38048676 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
38048703 --T-CTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
38048727 TTGGGCTAAGTGA
1 -TGTGCTAAGTGA
38048740 GAAATTTCCT
Statistics
Matches: 79, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
24 44 0.56
25 3 0.04
27 2 0.03
28 30 0.38
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:38048829 original size:50 final size:51
Alignment explanation
Indices: 38048763--38048961 Score: 321
Period size: 51 Copynumber: 3.9 Consensus size: 51
38048753 TGAACCTTAG
* * *
38048763 GAATAAAAATAGCTTTGGACACAAGTGTGGTACTA-ATAAAGGCCACTTCGT
1 GAAT-AAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
38048814 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
38048865 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
38048916 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
38048962 CATGTATCCG
Statistics
Matches: 140, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
50 30 0.21
51 110 0.79
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:38051396 original size:80 final size:80
Alignment explanation
Indices: 38051312--38051460 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38051302 TATGGTAACC
* * * *
38051312 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38051376 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38051392 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38051457 CCGG
66 CCGG
38051461 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38051402 original size:40 final size:38
Alignment explanation
Indices: 38051353--38051460 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38051343 ATCACGATTT
*
38051353 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38051393 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38051433 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38051461 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38059833 original size:80 final size:80
Alignment explanation
Indices: 38059749--38059897 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38059739 TATGGTAACC
* * * *
38059749 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38059813 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38059829 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38059894 CCGG
66 CCGG
38059898 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38059839 original size:40 final size:38
Alignment explanation
Indices: 38059790--38059897 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38059780 ATCACGATTT
*
38059790 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38059830 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38059870 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38059898 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38067926 original size:80 final size:80
Alignment explanation
Indices: 38067842--38067990 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38067832 TATGGTAACC
* * * *
38067842 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38067906 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38067922 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38067987 CCGG
66 CCGG
38067991 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38067932 original size:40 final size:38
Alignment explanation
Indices: 38067883--38067990 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38067873 ATCACGATTT
*
38067883 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38067923 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38067963 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38067991 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38091230 original size:46 final size:46
Alignment explanation
Indices: 38091163--38091291 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
38091153 TGTAACCCGC
* * * * *
38091163 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
38091209 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38091255 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38091292 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38096108 original size:47 final size:45
Alignment explanation
Indices: 38095906--38096261 Score: 401
Period size: 47 Copynumber: 7.7 Consensus size: 45
38095896 TAACTTGCCA
** ** *
38095906 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATGTCGAGGCCG
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAAC-AAGCCG
* * ** *
38095954 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATACCG
1 ATGCCATGT-CC-AACATGGTCTTACACTGGCTCTCATAACAA-GCCG
** * * *
38096002 CGGCCATGTCCAACATGGTCTTACACTGGCTCACA-ATCAACGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACAA-GCCG
* *
38096047 ATGCCATGTCCAACATGGTCTTACATTGGTTCTCATAACCAACGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAA-CAA-GCCG
* *
38096094 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATCAGCAATGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCAT-AACAA-GCCG
*
38096141 ATGCCATGTCCAACATGGTCTTAGACTGGCTCTCATAACATAG-CG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACA-AGCCG
38096186 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACA-AGCCG
38096232 ATGCCATGTCCAACATGGTCTTACACTGGC
1 ATGCCATGTCCAACATGGTCTTACACTGGC
38096262 ATACGAAATG
Statistics
Matches: 269, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
45 79 0.29
46 58 0.22
47 86 0.32
48 45 0.17
49 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACAAGCCG
Found at i:38096116 original size:92 final size:91
Alignment explanation
Indices: 38095906--38096261 Score: 407
Period size: 92 Copynumber: 3.8 Consensus size: 91
38095896 TAACTTGCCA
* * *
38095906 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATGTCGAGGCCGATGCCATGTCCCAAACA
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATATC-AAGCCGATGCCATGT-CC-AACA
* * *
38095971 TGGTCTTACACTAGCTCTCGT--CTCAATACCG
61 TGGTCTTACACTGGCTCTCATAAC-CAA-GCCG
** *
38096002 CGGCCATGTCCAACATGGTCTTACACTGGCTCACA-ATCAACGCTGATGCCATGTCCAACATGGT
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAA-GCCGATGCCATGTCCAACATGGT
* *
38096066 CTTACATTGGTTCTCATAACCAACGCCG
65 CTTACACTGGCTCTCATAACCAA-GCCG
* * *
38096094 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATCAGCAATGCTGATGCCATGTCCAACATGG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACAT-ATCAA-GCCGATGCCATGTCCAACATGG
*
38096159 TCTTAGACTGGCTCTCATAA-CATAG-CG
64 TCTTACACTGGCTCTCATAACCA-AGCCG
* *
38096186 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCCGATGCCATGTCCAACATGGT
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCA-AGCCGATGCCATGTCCAACATGGT
38096251 CTTACACTGGC
65 CTTACACTGGC
38096262 ATACGAAATG
Statistics
Matches: 230, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
91 56 0.24
92 80 0.35
93 18 0.08
94 66 0.29
95 3 0.01
96 7 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (91 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAGCCGATGCCATGTCCAACATGGTC
TTACACTGGCTCTCATAACCAAGCCG
Found at i:38102168 original size:46 final size:46
Alignment explanation
Indices: 38102041--38102352 Score: 317
Period size: 46 Copynumber: 6.7 Consensus size: 46
38102031 GAGGATGAAT
* * * * *
38102041 TGCCAATGCCATGTCCCATACATGGTCTTACATTGGCTCACATGTCGA
1 TGCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATATCAA
* * * *
38102089 TGCCAATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA
1 TGCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATATCAA
*
38102137 TGCCGA-GACCATGTCCAACATGGTCTTACACTGGCTCACA-ATCAA
1 TGCCGATG-CCATGTCCAACATGGTCTTACACTGGCTCTCATATCAA
* * * * *
38102182 CGCTGATGCCATGTCCAACATGGTCTTACACCGGTTCTCATAACCAA
1 TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAT-ATCAA
** * *
38102229 CACCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAAC-G
1 TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCAA
*
38102274 TAGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAAC-A
1 T-GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCAA
* * *
38102320 TAGCTGATGCCATGGCCAACAAGGTCTTACACT
1 T-GCCGATGCCATGTCCAACATGGTCTTACACT
38102353 AGTATACAAA
Statistics
Matches: 229, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
45 37 0.16
46 96 0.42
47 45 0.20
48 51 0.22
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCAA
Found at i:38102260 original size:138 final size:141
Alignment explanation
Indices: 38102094--38102351 Score: 366
Period size: 138 Copynumber: 1.9 Consensus size: 141
38102084 GTCGATGCCA
* **
38102094 ATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA-ATGCCGA-GACCATGTCCAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATA-GCCGATG-CCATGTCCAACA
* * *
38102157 TGGTCTTACACTGGCTCACA-ATCA-ACGCTGATGCCATGTCCAACATGGTCTTACACCGGTTCT
64 TGGTCTTACACTGGCTCACATAACATA-GCTGATGCCATGGCCAACAAGGTCTTACACCGGTTCT
38102220 CATAACCAACACCG
128 CATAACCAACACCG
* *
38102234 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAACGTAGCCGATGCCATGTCCAACATG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCAACATG
*
38102297 GTCTTACACTGGCTCTCATAACATAGCTGATGCCATGGCCAACAAGGTCTTACAC
66 GTCTTACACTGGCTCACATAACATAGCTGATGCCATGGCCAACAAGGTCTTACAC
38102352 TAGTATACAA
Statistics
Matches: 105, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
138 60 0.57
139 36 0.34
140 9 0.09
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (141 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCAACATG
GTCTTACACTGGCTCACATAACATAGCTGATGCCATGGCCAACAAGGTCTTACACCGGTTCTCAT
AACCAACACCG
Found at i:38102372 original size:46 final size:46
Alignment explanation
Indices: 38102046--38102392 Score: 276
Period size: 46 Copynumber: 7.4 Consensus size: 46
38102036 TGAATTGCCA
* * ** **
38102046 ATGCCATGTCCCATACATGGTCTTACATTGGCTCACATGTCG-ATGCCA
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAACGTA-GCTG
* * ** * *
38102094 ATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-AATGCCG
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAACGTA-GCTG
*
38102142 A-GACCATGTCCAACATGGTCTTACACTGGCTCACAATCAAC---GCTG
1 ATG-CCATGTCCAACATGGTCTTACACTGGCTCTC-AT-AACGTAGCTG
* * ** * *
38102187 ATGCCATGTCCAACATGGTCTTACACCGGTTCTCATAACCAACACCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACGTA-GCTG
*
38102234 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACGTAGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACGTAGCTG
*
38102280 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACGTAGCTG
* * * * * * *
38102326 ATGCCATGGCCAACAAGGTCTTACACTAG-TATACAAAATGTCGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCT-CATAACGTAGCTG
38102372 ATGCCATGTCCCAGACATGGT
1 ATGCCATGT-CCA-ACATGGT
38102393 GTGACAGCCC
Statistics
Matches: 252, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
43 3 0.01
44 2 0.01
45 34 0.13
46 111 0.44
47 49 0.19
48 53 0.21
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACGTAGCTG
Found at i:38102375 original size:138 final size:140
Alignment explanation
Indices: 38102094--38102392 Score: 342
Period size: 138 Copynumber: 2.1 Consensus size: 140
38102084 GTCGATGCCA
* **
38102094 ATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGAGACCATGTCCAACATG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGAGACCATGTCCAACATG
* * * * *
38102159 GTCTTACACTGGCTCACAATCAACGCTGATGCCATGTCCAACATGGTCTTACACCGGTTCTCATA
66 GTCTTACACTGGCTCACAAACAACGCTGATGCCATGGCCAACAAGGTCTTACACCAGTTCACATA
*
38102224 ACCAACACCG
131 AACAACACCG
* *
38102234 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAAC-GTAGCCGATG-CCATGTCCAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAT-GCCGA-GACCATGTCCAACA
* *
38102295 TGGTCTTACACTGGCTCTCATAACATA-GCTGATGCCATGGCCAACAAGGTCTTACACTAGTAT-
64 TGGTCTTACACTGGCTCACA-AACA-ACGCTGATGCCATGGCCAACAAGGTCTTACACCAGT-TC
*** * *
38102358 ACA-AAATGTCGCTG
126 ACATAAACAACACCG
38102372 ATGCCATGTCCCAGACATGGT
1 ATGCCATGTCCCAGACATGGT
38102393 GTGACAGCCC
Statistics
Matches: 134, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
137 1 0.01
138 74 0.55
139 42 0.31
140 17 0.13
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (140 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGAGACCATGTCCAACATG
GTCTTACACTGGCTCACAAACAACGCTGATGCCATGGCCAACAAGGTCTTACACCAGTTCACATA
AACAACACCG
Found at i:38105215 original size:92 final size:92
Alignment explanation
Indices: 38105104--38105274 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
38105094 GCCCATAAGT
* *
38105104 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38105169 CGAGTTCGGATGCTAGTTACATCTCAC
66 CGAGTTCGGATGCTAGTTACATCTCAC
*
38105196 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38105261 CGAGTTCGGATGCT
66 CGAGTTCGGATGCT
38105275 CAACCATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCTAGTTACATCTCAC
Found at i:38105289 original size:46 final size:46
Alignment explanation
Indices: 38105096--38105275 Score: 240
Period size: 46 Copynumber: 3.9 Consensus size: 46
38105086 TGTAACCCGC
* * *
38105096 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
38105142 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCG---CAT
* *
38105191 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
38105234 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
38105276 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 104 0.90
47 2 0.02
48 1 0.01
49 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38106933 original size:39 final size:39
Alignment explanation
Indices: 38106890--38107002 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 39
38106880 GTGCGAATTG
38106890 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
38106929 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* **
38106968 TGATATCCGGGTTAAGTCCCGAAGGCGTTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
38107003 GGTTACCATA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 52 0.76
40 16 0.24
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:38107018 original size:79 final size:79
Alignment explanation
Indices: 38106879--38107032 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
38106869 TGTGAATGAA
** *
38106879 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
38106944 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * ** * *
38106957 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTA
*
38107022 TGTCCCGAAGG
65 AGTCCCGAAGG
38107033 TGTTTTGAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 25 0.39
79 31 0.48
80 8 0.12
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:38110655 original size:13 final size:13
Alignment explanation
Indices: 38110637--38110662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38110627 TATCCGATTT
38110637 GCCATAGCCTATC
1 GCCATAGCCTATC
38110650 GCCATAGCCTATC
1 GCCATAGCCTATC
38110663 TATGGTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
GCCATAGCCTATC
Found at i:38113088 original size:22 final size:22
Alignment explanation
Indices: 38113060--38113104 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38113050 CTTCAAGTAG
38113060 TTTGGAGAACCCATTGAAAGCA
1 TTTGGAGAACCCATTGAAAGCA
*
38113082 TTTGGAGAACCTATTGAAAGCA
1 TTTGGAGAACCCATTGAAAGCA
38113104 T
1 T
38113105 ATATGGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (22 bp):
TTTGGAGAACCCATTGAAAGCA
Found at i:38114313 original size:67 final size:68
Alignment explanation
Indices: 38114205--38114341 Score: 258
Period size: 67 Copynumber: 2.0 Consensus size: 68
38114195 CTCAACTTAG
*
38114205 AAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGACAAT
1 AAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGAAAATGTTGACAAT
38114270 -TA
66 CTA
38114272 AAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGAAAATGTTGACAAT
1 AAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGAAAATGTTGACAAT
38114337 CTA
66 CTA
38114340 AA
1 AA
38114342 TTTTTTGGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 64 0.94
68 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (68 bp):
AAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGAAAATGTTGACAAT
CTA
Found at i:38116573 original size:22 final size:22
Alignment explanation
Indices: 38116531--38116575 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
38116521 ACCTTAGAAG
*
38116531 AGATGGAGACCTAGAGATGTCC
1 AGATGGAGACCGAGAGATGTCC
*
38116553 AGATGGAGCCCGAGA-ACTGTCC
1 AGATGGAGACCGAGAGA-TGTCC
38116575 A
1 A
38116576 TTTACCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (22 bp):
AGATGGAGACCGAGAGATGTCC
Found at i:38123585 original size:14 final size:15
Alignment explanation
Indices: 38123563--38123592 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38123553 GAATATTAAA
38123563 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
38123578 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
38123592 A
1 A
38123593 AATAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:38131390 original size:14 final size:15
Alignment explanation
Indices: 38131368--38131397 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38131358 GAATATTAAA
38131368 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
38131383 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
38131397 A
1 A
38131398 ATAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:38134709 original size:50 final size:50
Alignment explanation
Indices: 38134636--38134868 Score: 256
Period size: 50 Copynumber: 4.7 Consensus size: 50
38134626 TAAGATGGTT
**
38134636 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * *
38134686 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* ** * *
38134737 TTCA-ATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
38134787 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAG
** *
38134837 TT-GGTCGTATGTGTAGTACTAAGTACAGGCTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTA
38134869 TTATGCGTAC
Statistics
Matches: 152, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 28 0.18
50 85 0.56
51 38 0.25
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:38134768 original size:101 final size:101
Alignment explanation
Indices: 38134641--38134822 Score: 328
Period size: 101 Copynumber: 1.8 Consensus size: 101
38134631 TGGTTTTAGG
*
38134641 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
38134706 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
* * *
38134742 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
38134807 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
38134823 CGTGTACCGA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
Found at i:38137926 original size:92 final size:93
Alignment explanation
Indices: 38137814--38137984 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
38137804 CGCCCATAAG
* *
38137814 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38137879 ACGAG-TCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
38137906 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38137971 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38137985 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.89
93 8 0.11
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38137981 original size:46 final size:46
Alignment explanation
Indices: 38137807--38137981 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
38137797 TGTAACCCGC
* * *
38137807 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
38137853 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
38137902 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38137945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38137982 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.05
46 82 0.75
47 7 0.06
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38145402 original size:46 final size:46
Alignment explanation
Indices: 38145335--38145463 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
38145325 TGTAACCCGC
* * * *
38145335 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
38145381 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
38145427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38145464 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38145482 original size:46 final size:45
Alignment explanation
Indices: 38145343--38145482 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
38145333 GCCCATAAGC
* ** * *
38145343 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
38145389 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
38145435 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
38145481 GA
1 GA
38145483 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:38177314 original size:23 final size:23
Alignment explanation
Indices: 38177280--38177381 Score: 82
Period size: 23 Copynumber: 4.3 Consensus size: 23
38177270 GAGCTGATGG
* *
38177280 ATAGTAACCTCTATTGAGCTAAA
1 ATAGTAAGCTCTATCGAGCTAAA
* *
38177303 ATAGTAAGCTCTAGCGAGCT-GA
1 ATAGTAAGCTCTATCGAGCTAAA
*
38177325 ATCAATAAGCTC-ATACGAGCTAAGA
1 AT-AGTAAGCTCTAT-CGAGCTAA-A
* *
38177350 ATAGTAAGCTCCAACGAGCTGAAA
1 ATAGTAAGCTCTATCGAGCT-AAA
*
38177374 ACAGTAAG
1 ATAGTAAG
38177382 GTTGTAACAG
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
22 4 0.06
23 31 0.49
24 22 0.35
25 6 0.10
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (23 bp):
ATAGTAAGCTCTATCGAGCTAAA
Found at i:38177379 original size:24 final size:23
Alignment explanation
Indices: 38177295--38177381 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 23
38177285 AACCTCTATT
* * *
38177295 GAGCTAAAATAGTAAGCTCTAGC
1 GAGCTAAAACAGTAAGCTCCAAC
* * *
38177318 GAGCTGAATCAATAAGCT-CATAC
1 GAGCTAAAACAGTAAGCTCCA-AC
*
38177341 GAGCTAAGAATAGTAAGCTCCAAC
1 GAGCTAA-AACAGTAAGCTCCAAC
38177365 GAGCTGAAAACAGTAAG
1 GAGCT-AAAACAGTAAG
38177382 GTTGTAACAG
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
22 1 0.02
23 21 0.43
24 23 0.47
25 4 0.08
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (23 bp):
GAGCTAAAACAGTAAGCTCCAAC
Found at i:38178893 original size:56 final size:56
Alignment explanation
Indices: 38178804--38179060 Score: 365
Period size: 56 Copynumber: 4.6 Consensus size: 56
38178794 TTCAACTTGT
* *
38178804 GATATGTAATTCTGATATATGTGTGCGAGTAAGAACACTTTTAATACGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGAACACGTTTAATACGTTGGCATC
* * * *
38178860 AATATGTGATTCTGATATATGTGTGTGAATAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGAACACGTTTAATACGTTGGCATC
*
38178916 GATATGTGATTC-GATATATGTATGCGAGTAA-AATCACGTTTAATACGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGAA-CACGTTTAATACGTTGGCATC
* * * *
38178971 GATATGTGATTCTGATATATGTGTGTGAATAAGACCAGGTTTAATACGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGAACACGTTTAATACGTTGGCATC
* * *
38179027 GATATGTGACTCCGGTATATGTGTGCGAGTAAGA
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGA
38179061 CCCTATCTGA
Statistics
Matches: 177, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
54 1 0.01
55 49 0.28
56 126 0.71
57 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.35
Consensus pattern (56 bp):
GATATGTGATTCTGATATATGTGTGCGAGTAAGAACACGTTTAATACGTTGGCATC
Found at i:38179013 original size:111 final size:111
Alignment explanation
Indices: 38178804--38179060 Score: 417
Period size: 111 Copynumber: 2.3 Consensus size: 111
38178794 TTCAACTTGT
* *
38178804 GATATGTAATTCTGATATATGTGTGCGAGTAAGAACACTTTTAATACGTTGGCATCAATATGTGA
1 GATATGTGATTC-GATATATGTGTGCGAGTAAGAACACGTTTAATACGTTGGCATCAATATGTGA
38178869 TTCTGATATATGTGTGTGAATAAGACCACGTTTAATACGTTGGCATC
65 TTCTGATATATGTGTGTGAATAAGACCACGTTTAATACGTTGGCATC
* *
38178916 GATATGTGATTCGATATATGTATGCGAGTAA-AATCACGTTTAATACGTTGGCATCGATATGTGA
1 GATATGTGATTCGATATATGTGTGCGAGTAAGAA-CACGTTTAATACGTTGGCATCAATATGTGA
*
38178980 TTCTGATATATGTGTGTGAATAAGACCAGGTTTAATACGTTGGCATC
65 TTCTGATATATGTGTGTGAATAAGACCACGTTTAATACGTTGGCATC
* *
38179027 GATATGTGACTCCGGTATATGTGTGCGAGTAAGA
1 GATATGTGA-TTCGATATATGTGTGCGAGTAAGA
38179061 CCCTATCTGA
Statistics
Matches: 134, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
110 2 0.01
111 101 0.75
112 30 0.22
113 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.35
Consensus pattern (111 bp):
GATATGTGATTCGATATATGTGTGCGAGTAAGAACACGTTTAATACGTTGGCATCAATATGTGAT
TCTGATATATGTGTGTGAATAAGACCACGTTTAATACGTTGGCATC
Found at i:38184462 original size:28 final size:27
Alignment explanation
Indices: 38184422--38184495 Score: 103
Period size: 28 Copynumber: 2.7 Consensus size: 27
38184412 ATTGCATGAC
38184422 TATGAATGTGATTGGGTCCGATGGGCCA
1 TATGAATGTGATTGGG-CCGATGGGCCA
**
38184450 TATGAATGTGATTGGAGCCGATGGTTCA
1 TATGAATGTGATTGG-GCCGATGGGCCA
*
38184478 TATGAATGAGATTGGGCC
1 TATGAATGTGATTGGGCC
38184496 TAAAGGGGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.07
28 38 0.90
29 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (27 bp):
TATGAATGTGATTGGGCCGATGGGCCA
Found at i:38186708 original size:59 final size:59
Alignment explanation
Indices: 38186636--38186753 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
38186626 TATTGATTCA
38186636 AAATTCAGAGTTGATGCTGAGGACTGTTTGAGGTTCAAAAATCGAGTATATGTCCTGAG
1 AAATTCAGAGTTGATGCTGAGGACTGTTTGAGGTTCAAAAATCGAGTATATGTCCTGAG
* *
38186695 AAATTCAGAGTTGATGCTGAGGATTGTTTGAGGTTCAAAAATCGAGTATATGTCTTGAG
1 AAATTCAGAGTTGATGCTGAGGACTGTTTGAGGTTCAAAAATCGAGTATATGTCCTGAG
38186754 GTTCAAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (59 bp):
AAATTCAGAGTTGATGCTGAGGACTGTTTGAGGTTCAAAAATCGAGTATATGTCCTGAG
Found at i:38188655 original size:110 final size:110
Alignment explanation
Indices: 38188518--38188773 Score: 363
Period size: 110 Copynumber: 2.3 Consensus size: 110
38188508 CTTCAACTTG
* *
38188518 CGATATGTGATTCCGATATATGTGTGCGAGTAATACCACGTTTAATACATTGGCATCGATATGTG
1 CGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCACCGATATGTG
* * *
38188583 ATTCTG-ATATATGTGTGAATAAGACCACATTTAATACGTTGGCAT
66 ATTCCGAATATATGTGTGAATAAAACCACATTTAATA-ATTGGCAT
* *
38188628 CGATATGTGATTCTGGA-ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCGATATGT
1 CGATATGTGATTC-CGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCACCGATATGT
* **
38188692 GATTCCGATATATATGTGTGAATAAAAGCATGTTTAATAATTGGCAT
65 GATTCCGA-ATATATGTGTGAATAAAACCACATTTAATAATTGGCAT
* *
38188739 CGATATGTGACTCCAATATATGTGTGCGAGTAAGA
1 CGATATGTGATTCCGATATATGTGTGCGAGTAAGA
38188774 TCCTGTCTGA
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
110 64 0.50
111 39 0.30
112 26 0.20
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (110 bp):
CGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCACCGATATGTG
ATTCCGAATATATGTGTGAATAAAACCACATTTAATAATTGGCAT
Found at i:38188688 original size:56 final size:56
Alignment explanation
Indices: 38188518--38188773 Score: 331
Period size: 56 Copynumber: 4.6 Consensus size: 56
38188508 CTTCAACTTG
*
38188518 CGATATGTGATTCCGATATATGTGTGCGAGTAATACCACGTTTAATACATTGGCAT
1 CGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAT
* * * *
38188574 CGATATGTGATTCTGATATATGTGT--GAATAAGACCACATTTAATACGTTGGCAT
1 CGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAT
* * *
38188628 CGATATGTGATTCTGGA-ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAC
1 CGATATGTGATTC-CGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAT
* * * * * *
38188684 CGATATGTGATTCCGATATATATGTGTGAATAAAAGCATGTTTAATA-ATTGGCAT
1 CGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAT
* *
38188739 CGATATGTGACTCCAATATATGTGTGCGAGTAAGA
1 CGATATGTGATTCCGATATATGTGTGCGAGTAAGA
38188774 TCCTGTCTGA
Statistics
Matches: 172, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
54 46 0.27
55 39 0.23
56 87 0.51
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (56 bp):
CGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAT
Found at i:38189186 original size:2 final size:2
Alignment explanation
Indices: 38189179--38189213 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
38189169 TTTGAGTATC
*
38189179 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38189214 TCGGTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38189632 original size:2 final size:2
Alignment explanation
Indices: 38189627--38189654 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38189617 TATGTGTGTG
38189627 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38189655 CGTGCAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38192456 original size:10 final size:10
Alignment explanation
Indices: 38192441--38192501 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
38192431 ATATTGTTAT
38192441 ACATGATATG
1 ACATGATATG
38192451 ACATGATATG
1 ACATGATATG
38192461 CACATGATATG
1 -ACATGATATG
** *
38192472 TTATGAGATG
1 ACATGATATG
38192482 CACATGATATG
1 -ACATGATATG
38192493 -CTATGATAT
1 AC-ATGATAT
38192502 ACTCACTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:38192466 original size:21 final size:20
Alignment explanation
Indices: 38192441--38192501 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
38192431 ATATTGTTAT
38192441 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
38192462 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
38192483 ACATGATATGCTATGATAT
1 ACATGATATGC-ATGATAT
38192502 ACTCACTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:38192467 original size:11 final size:11
Alignment explanation
Indices: 38192441--38192493 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
38192431 ATATTGTTAT
38192441 ACATGATATG-
1 ACATGATATGC
38192451 ACATGATATGC
1 ACATGATATGC
38192462 ACATGATATG-
1 ACATGATATGC
** *
38192472 TTATGAGATGC
1 ACATGATATGC
38192483 ACATGATATGC
1 ACATGATATGC
38192494 TATGATATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:38192606 original size:24 final size:25
Alignment explanation
Indices: 38192549--38192606 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
38192539 AGGAAGTGCG
38192549 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTACC
* *
38192573 AAAA-AGGGCTTTGCCCTAG-TTATC
1 AAAAGA-GGCTTTGCCCCAGTTTACC
38192597 AAAAGAGGCT
1 AAAAGAGGCT
38192607 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTACC
Found at i:38194217 original size:28 final size:29
Alignment explanation
Indices: 38194118--38194216 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
38194108 AATGAGATTG
38194118 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
38194146 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
38194175 GCACTAAGTGTGCGGGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
38194203 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38194217 GACTTACTGT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 34 0.50
29 33 0.49
30 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:38199116 original size:68 final size:68
Alignment explanation
Indices: 38198949--38199124 Score: 159
Period size: 68 Copynumber: 2.6 Consensus size: 68
38198939 TAGTACCACT
* * * *
38198949 CATGCGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
*
38199011 CACT
65 CACA
* * *
38199015 CATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
38199077 ATCACA
63 ATCACA
*
38199083 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
38199125 ACACATGATG
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
66 13 0.14
67 1 0.01
68 35 0.39
69 9 0.10
70 6 0.07
71 26 0.29
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:38206306 original size:42 final size:41
Alignment explanation
Indices: 38206247--38206376 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 41
38206237 TTAAAGTTAG
38206247 ATGAGATTTTGTGTAAGACCATATCTAGGATATGGCATCGGT
1 ATGAGATTTTGTGTAAGACCATATCT-GGATATGGCATCGGT
* * *
38206289 ATGAGATTTTGTATAAGACCATAGT-TGGGCTATTGGCATCGAT
1 ATGAGATTTTGTGTAAGACCATA-TCT-GGATA-TGGCATCGGT
*** * *
38206332 ATGAGATTCCATGTAAGACCATATCTGAGATATGCCATTGGT
1 ATGAGATTTTGTGTAAGACCATATCTG-GATATGGCATCGGT
38206374 ATG
1 ATG
38206377 GTACTATGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 39 0.54
43 33 0.46
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (41 bp):
ATGAGATTTTGTGTAAGACCATATCTGGATATGGCATCGGT
Found at i:38206349 original size:43 final size:42
Alignment explanation
Indices: 38206258--38206365 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 42
38206248 TGAGATTTTG
* ***
38206258 TGTAAGACCATATCTAGGATATGGCATCGGTATGAGATTTTG
1 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTCCA
* * *
38206300 TATAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATTCCA
1 TGTAAGACCATA-TCTAGGATA-TGGCATCGATATGAGATTCCA
38206343 TGTAAGACCATATCT-GAGATATG
1 TGTAAGACCATATCTAG-GATATG
38206366 CCATTGGTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
42 20 0.38
43 33 0.62
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTCCA
Found at i:38209143 original size:68 final size:66
Alignment explanation
Indices: 38209003--38209154 Score: 189
Period size: 68 Copynumber: 2.3 Consensus size: 66
38208993 TCATTGCTTA
* *
38209003 TTTTTTGTGACGTTTTTGTTCATTTCGTTACCTTTTAGTCAAAAAATAAAAGTAACTAAAAATAT
1 TTTTTTGTGACGTTTTTATTCATTTCGTTACCTTTTAGTAAAAAAATAAAAGTAACTAAAAATAT
38209068 C
66 C
** * * *
38209069 CCTTTTGTGATGTTTTTATTC-TTTCGTTGCCTTTTAGTTAAAAAAAAATAAAAGTAACTAAAAG
1 TTTTTTGTGACGTTTTTATTCATTTCGTTACCTTTTAG-T--AAAAAAATAAAAGTAACTAAAAA
*
38209133 TGTC
63 TATC
*
38209137 TTTTTTGTGACATTTTTA
1 TTTTTTGTGACGTTTTTA
38209155 AACTGATTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
65 15 0.21
66 18 0.25
68 38 0.54
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (66 bp):
TTTTTTGTGACGTTTTTATTCATTTCGTTACCTTTTAGTAAAAAAATAAAAGTAACTAAAAATAT
C
Found at i:38216687 original size:43 final size:43
Alignment explanation
Indices: 38216628--38216817 Score: 196
Period size: 43 Copynumber: 4.5 Consensus size: 43
38216618 CTAGTTGGTC
* *
38216628 AAACCGACAAATATTATATATGTGTGCCCAGTATTGGTCGGTG
1 AAACTGACAAATATTATATATGTGTGCCCAGCATTGGTCGGTG
* * * *
38216671 AAA-TCAACAATTATTATATATATGTGCCCAGCATTGGCCGGTG
1 AAACT-GACAAATATTATATATGTGTGCCCAGCATTGGTCGGTG
* *
38216714 AAACTGAC-AA-A-T-TA-ATGTGTGCCCAGCAATGGTCAGTG
1 AAACTGACAAATATTATATATGTGTGCCCAGCATTGGTCGGTG
* * *
38216752 AAACCT-ACAAATATTATATATATGTGTGCTCAGTATTGGTTGGTG
1 AAA-CTGACAAATA-T-TATATATGTGTGCCCAGCATTGGTCGGTG
38216797 AAACTGACAAATATTATATAT
1 AAACTGACAAATATTATATAT
38216818 ATATATATGT
Statistics
Matches: 119, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
38 25 0.21
39 6 0.05
40 2 0.02
41 1 0.01
42 1 0.01
43 49 0.41
44 6 0.05
45 29 0.24
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (43 bp):
AAACTGACAAATATTATATATGTGTGCCCAGCATTGGTCGGTG
Found at i:38219082 original size:16 final size:16
Alignment explanation
Indices: 38219061--38219094 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
38219051 GTGTAATGCC
*
38219061 CCAAAAATCTCGAAAT
1 CCAAAAATCCCGAAAT
38219077 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
38219093 CC
1 CC
38219095 CGAATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.32, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:38220202 original size:16 final size:16
Alignment explanation
Indices: 38220168--38220210 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
38220158 ATGAATCGGT
**
38220168 AAAAGCCGAAATGTGG
1 AAAAGCCGAAATGCCG
*
38220184 AAAAGTCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
38220200 AAAAGCTGAAA
1 AAAAGCCGAAA
38220211 GTTTGGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.26, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:38220469 original size:29 final size:28
Alignment explanation
Indices: 38220414--38220526 Score: 111
Period size: 29 Copynumber: 4.0 Consensus size: 28
38220404 GTGAGCATGA
* * *
38220414 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATAAATATGATTGGGCCTAATGGGCC
*
38220442 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATATGA-TTGGGCCTAATGGGCC
* *
38220471 ATATACAA-ATAATTTGGGCCTAATAGGCC
1 ATATA-AATATGA-TTGGGCCTAATGGGCC
* * *
38220500 ATATGAATATGAATGGGCTTAATGGGC
1 ATATAAATATGATTGGGCCTAATGGGC
38220527 TAGATACAGG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.35
29 45 0.62
30 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (28 bp):
ATATAAATATGATTGGGCCTAATGGGCC
Found at i:38223325 original size:46 final size:46
Alignment explanation
Indices: 38223258--38223435 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
38223248 TGTAACCCGC
*
38223258 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAA
* * **
38223304 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAA
*** * * ** *
38223351 -CATCTCTCGAACTCGGACTCAATTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAA
* *
38223397 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
38223436 CCCAAATATC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAA
Found at i:38223380 original size:93 final size:93
Alignment explanation
Indices: 38223266--38223437 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
38223256 GCCCATAAGT
*** *
38223266 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAACCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAACCATAAGTGAACTCAGACTCAACTCAA
38223331 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
38223359 GAACTCGGACTCAATTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAACCATAAGTGAACTCAGACTCAACTCAA
*
38223424 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
38223438 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAACCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:38228883 original size:93 final size:93
Alignment explanation
Indices: 38228771--38228942 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
38228761 GCCCATAAGT
* *
38228771 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38228836 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
38228864 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
38228929 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
38228943 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:38228938 original size:46 final size:46
Alignment explanation
Indices: 38228763--38228938 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
38228753 ATGTAACCGC
* *
38228763 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
38228809 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
38228855 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
38228902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
38228939 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:38234759 original size:27 final size:27
Alignment explanation
Indices: 38234667--38234753 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
38234657 TTACCTAAAC
*
38234667 CCCCTAATTGATAAAAAGACTGTTATG
1 CCCCTAATTGATAAAATGACTGTTATG
* *
38234694 CTCCTAATTGATAAAATGATTGTTATG
1 CCCCTAATTGATAAAATGACTGTTATG
38234721 CCCCT-ATGTGATAAAATGACTGTTATG
1 CCCCTAAT-TGATAAAATGACTGTTATG
38234748 CCCCTA
1 CCCCTA
38234754 TGTGATGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (27 bp):
CCCCTAATTGATAAAATGACTGTTATG
Found at i:38237156 original size:46 final size:46
Alignment explanation
Indices: 38236976--38237155 Score: 159
Period size: 46 Copynumber: 3.9 Consensus size: 46
38236966 TTTGTGCACT
* * * **
38236976 AGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
* ** * *
38237022 AGTGTAAGACCATGTTTGGGACATGGCATCGG-TATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGATGAGAGCC
* * * *
38237070 AGTGTAAGACGTGTCTTGGACATGCATCTGCCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACAAGATG-AGAGCC
*
38237116 AGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG
38237156 TGTTAGTGTA
Statistics
Matches: 108, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.03
46 54 0.50
47 28 0.26
48 23 0.21
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
Found at i:38237339 original size:49 final size:50
Alignment explanation
Indices: 38237205--38237339 Score: 132
Period size: 49 Copynumber: 2.7 Consensus size: 50
38237195 GTATAAAAGT
* * * ***
38237205 GTCAGTGTAAGACCATGTTTGGGACTTGGCATCGGCACGGATATGTGAGA
1 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACACCGATATCCAAGA
* ** * *
38237255 G-CTAGTGTAAGACCATGTCTGGGACATAACGTCGAC-CTCGAT-TCCAATA
1 GTC-AGTGTAAGACCATGTTTGGGACATGGCATCGACAC-CGATATCCAAGA
38237304 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGAC
1 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGAC
38237340 TTAATGGATG
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
49 35 0.52
50 32 0.48
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACACCGATATCCAAGA
Found at i:38240083 original size:58 final size:58
Alignment explanation
Indices: 38239993--38240111 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
38239983 GTGTCGAGGG
38239993 AATGAGAGGGGCTGCTTCAAATGTGGATCACTAGACCACTTCATCCGAAACTGTCCCA
1 AATGAGAGGGGCTGCTTCAAATGTGGATCACTAGACCACTTCATCCGAAACTGTCCCA
38240051 AATGAGAGGGGCTGCTTCAAATGTGGATCACTAGACCACTTCATCCGAAACTGTCCCA
1 AATGAGAGGGGCTGCTTCAAATGTGGATCACTAGACCACTTCATCCGAAACTGTCCCA
38240109 AAT
1 AAT
38240112 TACAAGATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (58 bp):
AATGAGAGGGGCTGCTTCAAATGTGGATCACTAGACCACTTCATCCGAAACTGTCCCA
Found at i:38245028 original size:48 final size:47
Alignment explanation
Indices: 38244927--38245340 Score: 302
Period size: 46 Copynumber: 8.8 Consensus size: 47
38244917 TCATTTGTGT
*
38244927 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGA-GATGAGA
* * *
38244973 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGAGA
*
38245021 GCTAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATG-AGA
* * *
38245067 GCTGGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTACGAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGAGA
* * * *
38245112 TC-AGAGTAAGACCATGTCTAGGACATGGCATCGG-TACG-TAT-AGAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGAG-A
* ** * *
38245157 GTGTCAGTGTAAGACCATGTCTGGGACATGATATCGGCACAGATATGTGAGA
1 G-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTC-GAGA--TGAGA
* ** **
38245209 GCTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGATTTCGTTA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGAT-GAGA
* * * *
38245258 G-TCAGTGTAAGACCATGTCTAGGACGTGGCATCGACT-TA-ATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGAT-GA-GA
* *
38245305 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
38245341 ATCACACCTT
Statistics
Matches: 296, Mismatches: 46, Indels: 51
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.00
44 9 0.03
45 19 0.06
46 70 0.24
47 64 0.22
48 57 0.19
49 34 0.11
50 34 0.11
51 3 0.01
52 3 0.01
53 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGA
Found at i:38245288 original size:49 final size:48
Alignment explanation
Indices: 38244930--38245340 Score: 223
Period size: 47 Copynumber: 8.7 Consensus size: 48
38244920 TTTGTGTGCT
* *
38244930 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CT-ACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTGA-ATCGAT--GAGCC
* * *
38244976 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-CGA-GAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTGA-ATCGATGAGCC
* * * *
38245024 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCTCGAGAT-G-TAAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-GA-ATCGATGAGCC
* *** * *
38245070 GGTGTAAGA-CATGTCT-GAGACAT-GCATCGG-CT-ACGAGATGTGTC
1 AGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTGAATCGATGAGCC
* * * * * * *
38245114 AGAGTAAGACCATGTCTAGGACATGGCATCGGTAC-GTATAGAAGTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CCTGAATCGATGAGCC
* ** * * *
38245162 AGTGTAAGACCATGTCTGGGACATGATATCGGCACAGATATGTGA-GAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTGA-AT-CGATGAGCC
* * * * *
38245212 AGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGATTTCG-TTAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-GA-ATCGATGAGCC
* * * *
38245261 AGTGTAAGACCATGTCTAGGACGTGGCATC-GACTTAATGGATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTGAATCGATGAGCC
38245308 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
38245341 ATCACACCTT
Statistics
Matches: 288, Mismatches: 51, Indels: 50
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 9 0.03
45 16 0.06
46 61 0.21
47 62 0.22
48 62 0.22
49 32 0.11
50 39 0.14
51 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTGAATCGATGAGCC
Found at i:38250276 original size:2 final size:2
Alignment explanation
Indices: 38250269--38250305 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
38250259 ACAATAAAGC
*
38250269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38250306 TTCTGTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:38255292 original size:18 final size:17
Alignment explanation
Indices: 38255269--38255302 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38255259 GATGGGCCGA
38255269 AATGGGCCGTGTGGGCCT
1 AATGGG-CGTGTGGGCCT
*
38255287 AATGGGCTTGTGGGCC
1 AATGGGCGTGTGGGCC
38255303 CACTTAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.24
Consensus pattern (17 bp):
AATGGGCGTGTGGGCCT
Found at i:38255551 original size:27 final size:27
Alignment explanation
Indices: 38255521--38255599 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
38255511 TACCCTCAAC
*
38255521 TTGTAAAATTACTGAAATACCTCTAGT-
1 TTGTAAAATTACTAAAATACC-CTAGTA
* *
38255548 TTGTAAAATTACCAAAATACCCTTGTA
1 TTGTAAAATTACTAAAATACCCTAGTA
*
38255575 GTGTAAAATTACTAAAATAACCCTA
1 TTGTAAAATTACTAAAAT-ACCCTA
38255600 TAAGGTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.09
27 35 0.80
28 5 0.11
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCTAGTA
Found at i:38255607 original size:27 final size:27
Alignment explanation
Indices: 38255522--38255615 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 27
38255512 ACCCTCAACT
* * **
38255522 TGTAAAATTACTGAAATACCTCTAG-TT
1 TGTAAAATTACTAAAATACC-CTTGAAG
* *
38255549 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGAAG
38255576 TGTAAAATTACTAAAATAACCCTAT-AAG
1 TGTAAAATTACTAAAAT-ACCCT-TGAAG
*
38255604 -GTAAAATAACTA
1 TGTAAAATTACTA
38255616 TTTTGCCCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.05
27 45 0.80
28 7 0.12
29 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTTGAAG
Found at i:38255963 original size:22 final size:22
Alignment explanation
Indices: 38255915--38255974 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
38255905 TTAATCTGAT
38255915 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * * *
38255937 AATGGCTCTGTGCCATCTTTAC
1 TATGGCTCTGTGCCAACCTAAA
*
38255959 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
38255975 ATGTATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Done.