Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 37 of 213
Found at i:9742421 original size:53 final size:53
Alignment explanation
Indices: 9742374--9742587 Score: 161
Period size: 53 Copynumber: 4.0 Consensus size: 53
9742364 CATAACTTAG
*
9742374 TTAATTAATATACATAAGTTACATAACTTAATTAATTAACATCCATAAATTACA
1 TTAA-TAATATACATAAATTACATAACTTAATTAATTAACATCCATAAATTACA
* * * * *
9742428 TTAATATTATACATAAATTACATAACTTAATTAATTAATATACTTAAGTTACA
1 TTAATAATATACATAAATTACATAACTTAATTAATTAACATCCATAAATTACA
* * * * * *
9742481 -T-A-ACT-TAC--AACTTACATAACTTACAACTTAAATAACTTACATAACTTACA
1 TTAATAATATACATAAATTACATAACTT--AA-TTAATTAACATCCATAAATTACA
** * * * *
9742531 TTTTTTTAATTATTCATAAATTACATAACTTAATTAGTTAATATACATAAATTACA
1 --TTAATAA-TATACATAAATTACATAACTTAATTAATTAACATCCATAAATTACA
9742587 T
1 T
9742588 AACTTAATTA
Statistics
Matches: 126, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
47 13 0.10
49 5 0.04
50 20 0.16
51 1 0.01
52 1 0.01
53 44 0.35
54 5 0.04
55 1 0.01
56 19 0.15
57 4 0.03
59 13 0.10
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (53 bp):
TTAATAATATACATAAATTACATAACTTAATTAATTAACATCCATAAATTACA
Found at i:9742497 original size:16 final size:16
Alignment explanation
Indices: 9742476--9742531 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
9742466 TATACTTAAG
9742476 TTACATAACTTACAAC
1 TTACATAACTTACAAC
9742492 TTACATAACTTACAAC
1 TTACATAACTTACAAC
*
9742508 TTAAATAACTTACATAAC
1 TTACATAACTTAC--AAC
9742526 TTACAT
1 TTACAT
9742532 TTTTTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 28 0.78
18 8 0.22
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (16 bp):
TTACATAACTTACAAC
Found at i:9742580 original size:31 final size:31
Alignment explanation
Indices: 9742512--9742601 Score: 108
Period size: 31 Copynumber: 2.8 Consensus size: 31
9742502 TACAACTTAA
* ** *
9742512 ATAACTTACATAACTTACATTTTTTTAATTATTC
1 ATAAATTACATAACTTA-A-TTAATTAA-TATAC
*
9742546 ATAAATTACATAACTTAATTAGTTAATATAC
1 ATAAATTACATAACTTAATTAATTAATATAC
9742577 ATAAATTACATAACTTAATTAATTA
1 ATAAATTACATAACTTAATTAATTA
9742602 CTCAGTATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
31 28 0.55
32 6 0.12
33 1 0.02
34 16 0.31
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAAATTACATAACTTAATTAATTAATATAC
Found at i:9742667 original size:16 final size:16
Alignment explanation
Indices: 9742646--9742772 Score: 98
Period size: 16 Copynumber: 7.7 Consensus size: 16
9742636 ATAAATGTTA
9742646 TACATAACTTACAACT
1 TACATAACTTACAACT
9742662 TACATAACTTACAACT
1 TACATAACTTACAACT
9742678 TACATAACTTACAA-T
1 TACATAACTTACAACT
*** *
9742693 TTTTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
9742712 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
9742730 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
9742746 TACATAACTTACAACT
1 TACATAACTTACAACT
9742762 TACATAACTTA
1 TACATAACTTA
9742773 TACGATATAC
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
14 3 0.03
15 5 0.06
16 56 0.64
17 2 0.02
18 14 0.16
19 5 0.06
20 3 0.03
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.39
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:9748392 original size:66 final size:65
Alignment explanation
Indices: 9748284--9748454 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
9748274 GAGCAAATCA
* * * * *
9748284 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAAAG-AAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCA
9748348 G
65 G
*
9748349 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
9748414 G
65 G
* * * * *
9748415 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
9748455 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 87 0.95
67 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAG
Found at i:9748452 original size:21 final size:21
Alignment explanation
Indices: 9748426--9748469 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9748416 AGCAGCTTAG
*
9748426 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
*
9748447 AGCAGAGGCGGCAGCGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
9748468 AG
1 AG
9748470 TACAGGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.43, T:0.02
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:9748476 original size:21 final size:21
Alignment explanation
Indices: 9748436--9748534 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 21
9748426 AGCAGATGCG
* * * *
9748436 GCAGCAAGAGAAGCAGAGGCG
1 GCAGCGAGGGAAGCAAAGGCT
* * *
9748457 GCAGCGAGAGAAGTACAGGCT
1 GCAGCGAGGGAAGCAAAGGCT
*
9748478 ACAGCGAGGGAAGCAAAGGCT
1 GCAGCGAGGGAAGCAAAGGCT
** *
9748499 AAAGCGAGGGAAGTAAAGGCT
1 GCAGCGAGGGAAGCAAAGGCT
9748520 GCAGCGAGGGAAGCA
1 GCAGCGAGGGAAGCA
9748535 GAGCAGCGTC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.37, C:0.17, G:0.40, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAAAGGCT
Found at i:9748491 original size:42 final size:42
Alignment explanation
Indices: 9748445--9748537 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
9748435 GGCAGCAAGA
** *
9748445 GAAGCAGAGGCGGCAGCGAGAGAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCGAAAGCGAGAGAAGTAAAGGCTACAGCGAGG
* * * *
9748487 GAAGCAAAGGCTAAAGCGAGGGAAGTAAAGGCTGCAGCGAGG
1 GAAGCAGAGGCGAAAGCGAGAGAAGTAAAGGCTACAGCGAGG
9748529 GAAGCAGAG
1 GAAGCAGAG
9748538 CAGCGTCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.37, C:0.16, G:0.42, T:0.05
Consensus pattern (42 bp):
GAAGCAGAGGCGAAAGCGAGAGAAGTAAAGGCTACAGCGAGG
Found at i:9748720 original size:10 final size:9
Alignment explanation
Indices: 9748701--9748730 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9748691 TAATACGAAT
9748701 TTTATTATA
1 TTTATTATA
9748710 TTTATTGATA
1 TTTATT-ATA
9748720 TTTATTATA
1 TTTATTATA
9748729 TT
1 TT
9748731 ATTTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTATTATA
Found at i:9748935 original size:44 final size:43
Alignment explanation
Indices: 9748885--9749012 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 43
9748875 TAAAGGTGTT
*
9748885 GGTCTTTAGCGGCGTTTTTGGTAAAAAGCGCCGCTATAGACCAG
1 GGTCTTTAGAGGCGTTTTT-GTAAAAAGCGCCGCTATAGACCAG
* * ** * *
9748929 GGTCTTTAGTGGCGTTTGTG-ACCGAAGCGCCGCTATAGATCAT
1 GGTCTTTAGAGGCGTTTTTGTA-AAAAGCGCCGCTATAGACCAG
* *
9748972 GGTCTATT-GAGGCGTTTTTAGT-AAAAGCGCCGATAAAGACC
1 GGTCT-TTAGAGGCGTTTTT-GTAAAAAGCGCCGCTATAGACC
9749013 CTGATCTATA
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 46 0.69
44 20 0.30
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
GGTCTTTAGAGGCGTTTTTGTAAAAAGCGCCGCTATAGACCAG
Found at i:9749021 original size:43 final size:43
Alignment explanation
Indices: 9748982--9749266 Score: 337
Period size: 43 Copynumber: 6.6 Consensus size: 43
9748972 GGTCTATTGA
* * *
9748982 GGCGTTTTTAGTAAAAGCGCCGATAAAGACCCTGATCTATAGC
1 GGCGCTTTTAGCAAAAACGCCGATAAAGACCCTGATCTATAGC
** *
9749025 GGCGCTTTGCGCAAAAATGCC-ACTAAAGACCCTGATCTATAGC
1 GGCGCTTTTAGCAAAAACGCCGA-TAAAGACCCTGATCTATAGC
* *
9749068 GGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTATAGC
1 GGCGCTTTTAGCAAAAACGCCGATAAAGACCCTGATCTATAGC
*
9749111 GGCGC--TTAGCACAAAAACGCC-ACTAAAGACCTTGATCTATAGC
1 GGCGCTTTTAG--CAAAAACGCCGA-TAAAGACCCTGATCTATAGC
* *
9749154 GGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTATAGC
1 GGCGCTTTTAGCAAAAACGCCGATAAAGACCCTGATCTATAGC
*** *
9749197 GGCGCTTAGCGCAAAAACGCC-ACTAAAGACCTTGATCTATAGC
1 GGCGCTTTTAGCAAAAACGCCGA-TAAAGACCCTGATCTATAGC
* *
9749240 GGCGCTTTTACCAAAAACGCCGCTAAA
1 GGCGCTTTTAGCAAAAACGCCGATAAA
9749267 TGTATTAGTC
Statistics
Matches: 204, Mismatches: 28, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.01
42 1 0.00
43 197 0.97
45 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (43 bp):
GGCGCTTTTAGCAAAAACGCCGATAAAGACCCTGATCTATAGC
Found at i:9749064 original size:86 final size:86
Alignment explanation
Indices: 9748994--9749266 Score: 492
Period size: 86 Copynumber: 3.2 Consensus size: 86
9748984 CGTTTTTAGT
* * * * *
9748994 AAAAGCGCCGATAAAGACCCTGATCTATAGCGGCGCTTTGCGCAAAAATGCCACTAAAGACCCTG
1 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTG
9749059 ATCTATAGCGGCGCTTTTACC
66 ATCTATAGCGGCGCTTTTACC
*
9749080 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCACAAAAACGCCACTAAAGACCTTG
1 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTG
9749145 ATCTATAGCGGCGCTTTTACC
66 ATCTATAGCGGCGCTTTTACC
9749166 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTG
1 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTG
9749231 ATCTATAGCGGCGCTTTTACC
66 ATCTATAGCGGCGCTTTTACC
9749252 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
9749267 TGTATTAGTC
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 180 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTG
ATCTATAGCGGCGCTTTTACC
Found at i:9749266 original size:129 final size:128
Alignment explanation
Indices: 9748994--9749266 Score: 383
Period size: 129 Copynumber: 2.1 Consensus size: 128
9748984 CGTTTTTAGT
* * * *
9748994 AAAAGCGCCGATAAAGACCCTGATCTATAGCGGCGCTTTGCGCAAAAATGCCACTAAAGACCCTG
1 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTACGCAAAAACGCCACTAAAGACCCTG
*
9749059 ATCTATAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCAC
66 ATCTATAGCGGCGC-TTTACCAAAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTAGCAC
* * *
9749123 AAAAACGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTAC-CAAAAACGCCGCTAAAGACCCT
1 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGC-TTTACGCAAAAACGCCACTAAAGACCCT
*
9749187 GATCTATAGCGGCGC-TTAGCGCAAAAACGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTA-
65 GATCTATAGCGGCGCTTTA-C-CAAAAACGCCACTAAAGACCCTGATCTATAGCGGCGC--TTAG
9749250 C-C
126 CAC
9749252 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
9749267 TGTATTAGTC
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
127 3 0.02
128 1 0.01
129 117 0.91
130 5 0.04
131 3 0.02
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (128 bp):
AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTACGCAAAAACGCCACTAAAGACCCTG
ATCTATAGCGGCGCTTTACCAAAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTAGCAC
Found at i:9749462 original size:22 final size:22
Alignment explanation
Indices: 9749434--9749477 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9749424 CTGCGGCGCT
* *
9749434 AAAAAGCGCGGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
9749456 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
9749478 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.23, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:9755103 original size:7 final size:7
Alignment explanation
Indices: 9755091--9755118 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9755081 TTTTTAGGCC
9755091 TTTAGGG
1 TTTAGGG
9755098 TTTAGGG
1 TTTAGGG
9755105 TTTAGGG
1 TTTAGGG
9755112 TTTAGGG
1 TTTAGGG
9755119 ACGCTTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:9755288 original size:43 final size:42
Alignment explanation
Indices: 9755231--9755405 Score: 242
Period size: 43 Copynumber: 4.1 Consensus size: 42
9755221 AAAAATAAAT
* *
9755231 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTACTCACAAAC
1 GCCGCTAAAAACCATGACCTTTAGCGACGCTTTAC-CACAAAC
*
9755274 GCCGCTAAAAACCATGACCTTTAGCGACGCTTTTCTCACAAAC
1 GCCGCTAAAAACCATGACCTTTAGCGACGCTTTAC-CACAAAC
*
9755317 GCCGCTAAAAATCATGACCTTTAGCGACGCTTTTACCACAAAC
1 GCCGCTAAAAACCATGACCTTTAGCGACGC-TTTACCACAAAC
* * * *
9755360 GCCGCTAAAGACCAAGACCTTTAGCGGCACTTCTACCACAAAC
1 GCCGCTAAAAACCATGACCTTTAGCGACGCTT-TACCACAAAC
9755403 GCC
1 GCC
9755406 ACTATAAGTC
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 2 0.02
43 114 0.95
44 4 0.03
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (42 bp):
GCCGCTAAAAACCATGACCTTTAGCGACGCTTTACCACAAAC
Found at i:9755526 original size:22 final size:24
Alignment explanation
Indices: 9755501--9755544 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
9755491 AAAAATTAAT
9755501 TAAATAATAT-TTAT-TTTTATGA
1 TAAATAATATATTATGTTTTATGA
*
9755523 TAAATATTATATTATGTTTTAT
1 TAAATAATATATTATGTTTTAT
9755545 TTTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATAATATATTATGTTTTATGA
Found at i:9756542 original size:14 final size:14
Alignment explanation
Indices: 9756523--9756551 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9756513 ATCAAGAAAA
9756523 AAATTATGTATAAG
1 AAATTATGTATAAG
9756537 AAATTATGTATAAG
1 AAATTATGTATAAG
9756551 A
1 A
9756552 CTTGCAAAAA
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:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
AAATTATGTATAAG
Found at i:9759876 original size:18 final size:18
Alignment explanation
Indices: 9759842--9759876 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9759832 TTAAAATCTT
* *
9759842 TTTTAAATTTTTTAAAAA
1 TTTTAAATCTTTGAAAAA
9759860 TTTTAAATCTTTGAAAA
1 TTTTAAATCTTTGAAAA
9759877 TTCATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTAAATCTTTGAAAAA
Found at i:9759993 original size:55 final size:55
Alignment explanation
Indices: 9759929--9760040 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
9759919 AAATTTTAGA
9759929 AAAATATATGTTATTTACTCTTTAAATGATAATTAGAAATGTTCACTACCCATAC
1 AAAATATATGTTATTTACTCTTTAAATGATAATTAGAAATGTTCACTACCCATAC
9759984 AAAATATATGTTATTTACTCTTTAAATGATAATTAGAAATGTTCACTACCCATAC
1 AAAATATATGTTATTTACTCTTTAAATGATAATTAGAAATGTTCACTACCCATAC
9760039 AA
1 AA
9760041 CTCACCTAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (55 bp):
AAAATATATGTTATTTACTCTTTAAATGATAATTAGAAATGTTCACTACCCATAC
Found at i:9760748 original size:28 final size:27
Alignment explanation
Indices: 9760669--9760753 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
9760659 ACTAATTATC
*
9760669 CTAAACCT-TAAACCCTAACTC-AACT
1 CTAAACCTCTAAACCCAAACTCTAACT
* *
9760694 CCAAATCTCTAAACCCTAAA-TCTTAACT
1 CTAAACCTCTAAACCC-AAACTC-TAACT
* *
9760722 CTAAACCTCTAATCCCAAACTCATAACC
1 CTAAACCTCTAAACCCAAACTC-TAACT
9760750 CTAA
1 CTAA
9760754 TTACCCCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
25 6 0.13
26 9 0.19
27 5 0.11
28 27 0.57
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (27 bp):
CTAAACCTCTAAACCCAAACTCTAACT
Found at i:9761600 original size:41 final size:41
Alignment explanation
Indices: 9761564--9761785 Score: 295
Period size: 41 Copynumber: 5.4 Consensus size: 41
9761554 GGCGCTTTAC
* *
9761564 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCAGCGCTTCATG
1 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTC-TT
* * *
9761606 AAAAAACGCCTCTAAAGGTCAGTGCATTAGCGGCGCTT-TCT
1 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCT-T
*
9761647 GAAAAACG-CGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
1 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
9761687 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
1 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
* * * ** *
9761728 GAAAAATGCTGCTAAAGGTCCACGCATTAGCGACGCTTCTT
1 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
*
9761769 GAAAAACGCCGCTAAAG
1 AAAAAACGCCGCTAAAG
9761786 ACCCACAAGG
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 35 0.22
41 90 0.57
42 34 0.21
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
Found at i:9761782 original size:123 final size:123
Alignment explanation
Indices: 9761564--9761785 Score: 335
Period size: 123 Copynumber: 1.8 Consensus size: 123
9761554 GGCGCTTTAC
*
9761564 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCAGCGCTTCATGAAAAAACGCCTCTAAAGGTCAGT
1 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCAGCGCTTCATGAAAAAACGCCTCTAAAGGTCAGC
*
9761629 GCATTAGCGGCGCTTTCTGAAAAACGCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
66 GCATTAGCGACGCTTTCTGAAAAACGCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
* * *
9761687 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG-AAAAATG-CTGCTAAAGGTCCA
1 AAAAAACGCCGCTAAAGGTCTGCGCATTAGCAGCGCTTCATGAAAAAACGCCT-CTAAAGGT-CA
9761750 -CGCATTAGCGACGC-TTCTTGAAAAACGCCGCTAAAG
64 GCGCATTAGCGACGCTTTC-TGAAAAACG-CGCTAAAG
9761786 ACCCACAAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
121 5 0.06
122 35 0.39
123 50 0.56
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (123 bp):
AAAAAACGCCGCTAAAGGTCTGCGCATTAGCAGCGCTTCATGAAAAAACGCCTCTAAAGGTCAGC
GCATTAGCGACGCTTTCTGAAAAACGCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTT
Found at i:9772810 original size:5 final size:5
Alignment explanation
Indices: 9772800--9772824 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9772790 AAGTACTCTA
9772800 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
9772825 TACAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:9772915 original size:9 final size:9
Alignment explanation
Indices: 9772901--9772929 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
9772891 TTTCCAATCA
9772901 CAACCAATT
1 CAACCAATT
9772910 CAACCAATT
1 CAACCAATT
9772919 CAACCAATT
1 CAACCAATT
9772928 CA
1 CA
9772930 TTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
CAACCAATT
Found at i:9773553 original size:6 final size:6
Alignment explanation
Indices: 9773524--9773572 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
9773514 CCAAACACAC
*
9773524 CAGTAAA CAGTAA TCAGTAA CAGTAG CAGTAA CAGTAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
9773573 TTCAACACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
6 29 0.74
7 10 0.26
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:9773603 original size:45 final size:44
Alignment explanation
Indices: 9773552--9773701 Score: 192
Period size: 45 Copynumber: 3.3 Consensus size: 44
9773542 AACAGTAGCA
* * *
9773552 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAACC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATC
* * * *
9773596 TGTAACAGTAACGGTAACAGTATTTGACACACAAAGTGCCGAGTC
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATC
*
9773641 GATAACAGTAACAATAACAGTATTCGACACACAAAGTGTCGAATC
1 G-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATC
*
9773686 AGTAATAGTAACAGTA
1 -GTAACAGTAACAGTA
9773702 GTCGGCACAT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.01
45 87 0.98
46 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (44 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATC
Found at i:9775091 original size:9 final size:9
Alignment explanation
Indices: 9775077--9775135 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
9775067 CATTTGAATA
9775077 AATAATTAT
1 AATAATTAT
9775086 AATAATTAT
1 AATAATTAT
9775095 AATAATTAT
1 AATAATTAT
9775104 -ATACA-TAT
1 AATA-ATTAT
*
9775112 AATATTTAT
1 AATAATTAT
9775121 ATATAACTTA-
1 A-ATAA-TTAT
9775131 AATAA
1 AATAA
9775136 AATCTTGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
8 6 0.14
9 30 0.70
10 4 0.09
11 3 0.07
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
AATAATTAT
Found at i:9777126 original size:3 final size:3
Alignment explanation
Indices: 9777118--9777146 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9777108 ACCATAAATA
9777118 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
9777147 AAATGGGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9779042 original size:46 final size:46
Alignment explanation
Indices: 9778938--9779201 Score: 216
Period size: 46 Copynumber: 5.5 Consensus size: 46
9778928 TACGTATGAT
* *
9778938 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
9778981 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*** *
9779027 CACTTATCACTTTGTCACCACTT-ATCACTTG-TTCCTGATCAGATAAGTGTAGCTA-
1 CACTTATCACTTTGT---CACTTGATCA---GATAAGTG-T-AGCTAA----AGCTAC
* * * *
9779082 AAGCTACCACTTATAACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CA-CT--TA----TCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
9779135 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
9779181 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
9779202 TCACTGATCA
Statistics
Matches: 176, Mismatches: 20, Indels: 47
0.72 0.08 0.19
Matches are distributed among these distances:
43 10 0.06
44 5 0.03
45 20 0.11
46 79 0.45
48 4 0.02
49 5 0.03
50 4 0.02
51 2 0.01
52 11 0.06
53 1 0.01
55 1 0.01
56 11 0.06
57 2 0.01
58 4 0.02
59 5 0.03
60 4 0.02
62 8 0.05
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:9779078 original size:62 final size:64
Alignment explanation
Indices: 9778979--9779106 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 64
9778969 TAGCTAGGCT
*
9778979 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATAACTTTGTC
*
9779043 ACCACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTACCACTTATAACTTTGTC
1 ACCACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATAACTTTGTC
9779105 AC
1 AC
9779107 TTGATCAGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
62 43 0.70
63 4 0.07
64 14 0.23
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (64 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATAACTTTGTC
Found at i:9779126 original size:108 final size:107
Alignment explanation
Indices: 9778938--9779152 Score: 376
Period size: 108 Copynumber: 2.0 Consensus size: 107
9778928 TACGTATGAT
* *
9778938 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATAACTTTGTCACTTGA
9779003 TCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
66 TCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
*
9779045 CACTTATCACTTGTTCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATAACTTTGTCACTTG
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATAACTTTGTCACTTG
**
9779110 ATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
65 ATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
9779153 TTGATCAGAT
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 35 0.34
108 67 0.66
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.33
Consensus pattern (107 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATAACTTTGTCACTTGA
TCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
Found at i:9792822 original size:22 final size:22
Alignment explanation
Indices: 9792797--9792857 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
9792787 TGTTTTTTGT
* *
9792797 TGTTTTCTTGCTGTTTTTTTAC
1 TGTTTTCTTGCTATTTTCTTAC
* * *
9792819 TGTTTTGTTGTTATTTTCTTAT
1 TGTTTTCTTGCTATTTTCTTAC
**
9792841 TGTTTTCTCACTATTTT
1 TGTTTTCTTGCTATTTT
9792858 GCTACCATTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.08, C:0.11, G:0.11, T:0.69
Consensus pattern (22 bp):
TGTTTTCTTGCTATTTTCTTAC
Found at i:9792845 original size:33 final size:32
Alignment explanation
Indices: 9792785--9792846 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
9792775 TAAAACAAAA
* *
9792785 ACTGTTTTTTGTTGTTTTCTTGCTGTTTTTTT
1 ACTGTTTTTTGTTATTTTCTTACTGTTTTTTT
*
9792817 ACTGTTTTGTTGTTATTTTCTTATTGTTTT
1 ACTGTTTT-TTGTTATTTTCTTACTGTTTT
9792847 CTCACTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.06, C:0.08, G:0.15, T:0.71
Consensus pattern (32 bp):
ACTGTTTTTTGTTATTTTCTTACTGTTTTTTT
Found at i:9792858 original size:33 final size:33
Alignment explanation
Indices: 9792789--9792858 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
9792779 ACAAAAACTG
* * * * *
9792789 TTTT-TTGTTGTTTTCTTGCTGTTTTTTTACTG
1 TTTTGTTGTTATTTTCTTACTGTTTTCTCACTA
*
9792821 TTTTGTTGTTATTTTCTTATTGTTTTCTCACTA
1 TTTTGTTGTTATTTTCTTACTGTTTTCTCACTA
9792854 TTTTG
1 TTTTG
9792859 CTACCATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.07, C:0.10, G:0.13, T:0.70
Consensus pattern (33 bp):
TTTTGTTGTTATTTTCTTACTGTTTTCTCACTA
Found at i:9793982 original size:19 final size:19
Alignment explanation
Indices: 9793958--9794051 Score: 116
Period size: 19 Copynumber: 4.8 Consensus size: 19
9793948 AATTTTTGAG
9793958 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
9793977 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
9793996 GATATATGCAATCTTAGAGAT
1 G--ATATGCAATCTTAGATAT
** *
9794017 GATATATAATCTTGGATAT
1 GATATGCAATCTTAGATAT
9794036 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
9794052 ATATATGATT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 45 0.74
21 16 0.26
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9794003 original size:40 final size:37
Alignment explanation
Indices: 9793958--9794058 Score: 114
Period size: 40 Copynumber: 2.6 Consensus size: 37
9793948 AATTTTTGAG
9793958 GATATGCAATCTTAGATATGATATGCAATCCAAGATAT
1 GATATGCAATCTTAGA-ATGATATGCAATCCAAGATAT
** ***
9793996 GATATATGCAATCTTAGAGATGATATATAATCTTGGATAT
1 G--ATATGCAATCTTAGA-ATGATATGCAATCCAAGATAT
9794036 GATATGCAATCTTAGAAT-ATATG
1 GATATGCAATCTTAGAATGATATG
9794059 ATTTTGTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 4 0.07
37 2 0.04
38 16 0.30
40 32 0.59
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (37 bp):
GATATGCAATCTTAGAATGATATGCAATCCAAGATAT
Found at i:9795499 original size:98 final size:98
Alignment explanation
Indices: 9795359--9795553 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
9795349 TTAAAAATAA
* *
9795359 TAAAAGAAATATTCCGAGTTTAGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAAGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
9795424 TTAAATCTTGGATAAGTGGATGTTTTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
9795457 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAAGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9795522 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
9795554 ATTTTATTGT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAAGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:9799647 original size:13 final size:14
Alignment explanation
Indices: 9799631--9799681 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 14
9799621 AAAATATTTC
9799631 AAAA-AAAAAGAGA
1 AAAAGAAAAAGAGA
9799644 AAAA-AGAAAAG-GA
1 AAAAGA-AAAAGAGA
9799657 AAAAGGAAAAA-AGA
1 AAAA-GAAAAAGAGA
9799671 AAAAGAAAAAG
1 AAAAGAAAAAG
9799682 TAAAAGGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 17 0.52
14 15 0.45
15 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAGA
Found at i:9799651 original size:7 final size:7
Alignment explanation
Indices: 9799631--9799680 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
9799621 AAAATATTTC
9799631 AAAAA-A
1 AAAAAGA
*
9799637 AAAGAGA
1 AAAAAGA
9799644 AAAAAG-
1 AAAAAGA
*
9799650 AAAAGGA
1 AAAAAGA
*
9799657 AAAAGGA
1 AAAAAGA
9799664 AAAAAG-
1 AAAAAGA
9799670 AAAAAGA
1 AAAAAGA
9799677 AAAA
1 AAAA
9799681 GTAAAAGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 15 0.41
7 22 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:9799665 original size:20 final size:20
Alignment explanation
Indices: 9799631--9799686 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
9799621 AAAATATTTC
9799631 AAAA-AAAAAGAGAAAAAAGA
1 AAAAGAAAAAG-GAAAAAAGA
*
9799651 AAAGGAAAAAGGAAAAAAGA
1 AAAAGAAAAAGGAAAAAAGA
*
9799671 AAAAGAAAAAGTAAAA
1 AAAAGAAAAAGGAAAA
9799687 GGAAAATCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAGGAAAAAAGA
Found at i:9799686 original size:7 final size:6
Alignment explanation
Indices: 9799631--9799692 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
9799621 AAAATATTTC
*
9799631 AAAAA- AAAAGAG AAAAAAG AAAAGG AAAAAGG AAAAAAG AAAAAG AAAAAG
1 AAAAAG AAAA-AG -AAAAAG AAAAAG AAAAA-G -AAAAAG AAAAAG AAAAAG
* *
9799682 TAAAAG GAAAA
1 AAAAAG AAAAA
9799693 TCTGCAAAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
5 4 0.08
6 31 0.65
7 4 0.08
8 9 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:9801062 original size:44 final size:44
Alignment explanation
Indices: 9800987--9801194 Score: 111
Period size: 44 Copynumber: 4.7 Consensus size: 44
9800977 CCAAGCCTTG
* * * * * * *
9800987 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGTAGATCTTA
* *
9801031 TCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACAGT-GAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGTAG-ATCTTA
* * ** * ** *
9801075 TCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAGCTACCA-AGTCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGATAGTAGA-TCTTA
* * * * * * * *
9801119 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGTAGATCTTA
9801163 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
9801195 CGGCGAATCT
Statistics
Matches: 114, Mismatches: 40, Indels: 20
0.66 0.23 0.11
Matches are distributed among these distances:
42 4 0.04
43 8 0.07
44 94 0.82
45 6 0.05
46 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGTAGATCTTA
Found at i:9801123 original size:132 final size:132
Alignment explanation
Indices: 9800883--9801503 Score: 940
Period size: 132 Copynumber: 4.7 Consensus size: 132
9800873 CAGATCAGTA
* * * * *
9800883 AAAATTGTAGATCTTATTTCCCTAAACAGTAGTGAAGCAGATCGAAGACGGTGAATCTTATCTTT
1 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTT
*
9800948 TCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT
9801013 TG
131 TG
* * *
9801015 AAGATTGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTT
1 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTT
* * *
9801080 CCAAGATAGTGGGAAGCAAATTTAAGCTACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT
9801145 TG
131 TG
* *
9801147 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATATTT
1 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTT
9801212 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT
9801277 TG
131 TG
* * * *
9801279 AAAATTGTAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCGAAGACAACAAATCTTATCTTT
1 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTT
* * * *
9801344 CCAAGATAGTGGAAAGCAGATTTAAGCCACCAAGCCTTGTTTCCCTGAGCAGTAGTGGA-ATAGG
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGA-AGG
9801408 TTG
130 TTG
* * * * *
9801411 AAGATTGTAGATGTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGAC-GACAAATCATATCTT
1 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-CGAATCTTATCTT
* * *
9801475 TCTAAGATAGTGAGAAGCAGATTAAAGCC
65 TCCAAGATAGTGGGAAGCAGATTTAAGCC
9801504 GACAATCCTA
Statistics
Matches: 448, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 1 0.00
132 447 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (132 bp):
AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT
TG
Found at i:9801473 original size:44 final size:42
Alignment explanation
Indices: 9801425--9801520 Score: 95
Period size: 44 Copynumber: 2.2 Consensus size: 42
9801415 TTGTAGATGT
*
9801425 TATCTCCCTAAGCAGTAGT-GAAGCAGATCGAAGACGACAAATCA
1 TATCTCCCTAAG-A-TAGTAGAAGCAGATCAAAGACGAC-AATCA
** * * *
9801469 TATCTTTCTAAGATAGTGAGAAGCAGATTAAAGCCGACAATCC
1 TATCTCCCTAAGATAGT-AGAAGCAGATCAAAGACGACAATCA
9801512 TATCTCCCT
1 TATCTCCCT
9801521 GAAGTTGCAG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
42 4 0.10
43 12 0.29
44 26 0.62
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (42 bp):
TATCTCCCTAAGATAGTAGAAGCAGATCAAAGACGACAATCA
Found at i:9801560 original size:44 final size:44
Alignment explanation
Indices: 9801490--9802365 Score: 336
Period size: 44 Copynumber: 20.2 Consensus size: 44
9801480 GATAGTGAGA
** *
9801490 AGCAGATTAAAGCCGACA-ATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAA-ATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * *
9801534 AGCGGATTAAAATTACAGATCTTATCTCTCTAAAGTTACAG-AG
1 AGCAGATTAAAATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
*** * *
9801577 AGCAGA-TCGCAT--CTAG-TTTTATCTCCCTGAAGTTGCGGTGG
1 AGCAGATTAAAATGAC-AGATCTTATCTCCCTGAAGTTGCAGTGG
* *
9801618 A-CAAGACTAAGTAA-G-CA-AGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAA--AATGACAGA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * * * *
9801661 AGGCAGACTGAAGATGATAAATCTTATCTTCCTGAAGTTGTAGTGG
1 A-GCAGA-TTAAAATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
** * *
9801707 AGCAGATTAAAGCCGACA-ATCCTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTAAA-ATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
9801751 AGCGGATTAAAATTACAGATCTTATCTCTCTGAAGTTACAG-AG
1 AGCAGATTAAAATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
*** **
9801794 AGCAGA-TCGCAT--CTAG-TCTTATCTCCCTGAAGTTGTGGTGG
1 AGCAGATTAAAATGAC-AGATCTTATCTCCCTGAAGTTGCAGTGG
* *
9801835 A-CAAGACTAAGTAA-G-CA-AGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAA--AATGACAGA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * * *
9801878 AGGCAGACTGAAGATGGCAAATCTTATCTTCCTGAAGTTGCAGTGG
1 A-GCAGA-TTAAAATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
9801924 AGCAGATTAAAGTCGATA-ATCCTATCTCCCTAAAGTTGCAGTAG
1 AGCAGATTAAAAT-GACAGATCTTATCTCCCTGAAGTTGCAGTGG
* * *
9801968 AGCAGATTAAAATCACAGATCTTATCTCTCC-GAAGTTACAG-AG
1 AGCAGATTAAAATGACAGATCTTATCTC-CCTGAAGTTGCAGTGG
*** *
9802011 AGCAGA-TCGCAT--CTAG-TCTTATCTCCCTGAAGTTGCGGTGG
1 AGCAGATTAAAATGAC-AGATCTTATCTCCCTGAAGTTGCAGTGG
** * *
9802052 ATAAGACTAAGTAA-G-CA-AGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGCAGATTAA--AATGACAGA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * * *
9802095 AGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGG
1 A-GCAGA-TTAAAATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
** * * *
9802141 AGCAGATTAAAGCCGATA-ATCCTATCTCCCTGAAGTTGCAGTAG
1 AGCAGATTAAA-ATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
9802185 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAG-AG
1 AGCAGATTAAAATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
***
9802228 AGCAGA-TCGCAT--CTAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAATGAC-AGATCTTATCTCCCTGAAGTTGCAGTGG
* *
9802269 AGCAGACTAAGGAA-G-CA-AGTCTTATC-CTCCTGAAGTTTCAGT-G
1 AGCAGATTAA--AATGACAGA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
9802312 AGGCAGACTGAAGATGGCA-AGTCTTATCTCCCTGAAGTTGTAGTGG
1 A-GCAGA-TTAAAATGACAGA-TCTTATCTCCCTGAAGTTGCAGTGG
*
9802358 AGTAGATT
1 AGCAGATT
9802366 GAAGCACTAA
Statistics
Matches: 616, Mismatches: 140, Indels: 152
0.68 0.15 0.17
Matches are distributed among these distances:
39 2 0.00
40 78 0.13
41 30 0.05
42 16 0.03
43 57 0.09
44 296 0.48
45 124 0.20
46 13 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AGCAGATTAAAATGACAGATCTTATCTCCCTGAAGTTGCAGTGG
Found at i:9801748 original size:217 final size:217
Alignment explanation
Indices: 9801490--9802370 Score: 1494
Period size: 217 Copynumber: 4.1 Consensus size: 217
9801480 GATAGTGAGA
* * *
9801490 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
* *
9801555 TTATCTCTCTAAAGTTACAGAGAGCAGATCGCATCTAGTTTTATCTCCCTGAAGTTGCGGTGGAC
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
**
9801620 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGATAAATCT
131 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
* *
9801685 TATCTTCCTGAAGTTGTAGTGG
196 TATCTCCCTGAAGTTGCAGTGG
* *
9801707 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATTACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
*
9801772 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTGGTGGAC
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
9801837 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
131 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
*
9801902 TATCTTCCTGAAGTTGCAGTGG
196 TATCTCCCTGAAGTTGCAGTGG
* * *
9801924 AGCAGATTAAAGTCGATAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAATCACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
* *
9801989 TTATCTCTCCGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAT
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
9802054 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
131 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
*
9802119 TATCTCCCTAAAGTTGCAGTGG
196 TATCTCCCTGAAGTTGCAGTGG
* *
9802141 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
*
9802206 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGA-
* * *
9802271 C-AGACTAAGGAAGCAAGTCTTATCCTCCTGAAGTTTCAGTGAGGCAGACTGAAGATGGCAAGTC
130 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
*
9802335 TTATCTCCCTGAAGTTGTAGTGG
195 TTATCTCCCTGAAGTTGCAGTGG
* *
9802358 AGTAGATTGAAGC
1 AGCAGATTAAAGC
9802371 ACTAATTCCT
Statistics
Matches: 633, Mismatches: 30, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
217 633 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (217 bp):
AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
TATCTCCCTGAAGTTGCAGTGG
Found at i:9802597 original size:19 final size:19
Alignment explanation
Indices: 9802573--9802645 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
9802563 AATTTTTAAG
9802573 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
9802592 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
** *
9802611 GATATATAATCTTGGATAT
1 GATATGCAATCTTAGATAT
9802630 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
9802646 ATATATGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9804070 original size:98 final size:98
Alignment explanation
Indices: 9803950--9804144 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
9803940 TTAAAAATAA
* *
9803950 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9804015 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
9804048 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9804113 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
9804145 ATTTTATTGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:9807103 original size:58 final size:61
Alignment explanation
Indices: 9807033--9807149 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 61
9807023 TTAGGATTTA
9807033 TAATCTTTGACTTTCC-T-TT-GTATATCTGATTATTAGCATAAATAGGTTGTGTAATGTG
1 TAATCTTTGACTTTCCTTCTTAGTATATCTGATTATTAGCATAAATAGGTTGTGTAATGTG
*
9807091 TAATCTTTGACTTTCCTTCTTAGTATATCTGATTATTAGTATAAATAGGTTGTGTAATG
1 TAATCTTTGACTTTCCTTCTTAGTATATCTGATTATTAGCATAAATAGGTTGTGTAATG
9807150 GAGTGTATAC
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
58 16 0.29
59 1 0.02
60 2 0.04
61 36 0.65
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.47
Consensus pattern (61 bp):
TAATCTTTGACTTTCCTTCTTAGTATATCTGATTATTAGCATAAATAGGTTGTGTAATGTG
Found at i:9808554 original size:25 final size:26
Alignment explanation
Indices: 9808522--9808576 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
9808512 TTATTAAATT
*
9808522 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
9808547 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
9808572 A-ATAT
1 ATATAT
9808577 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:9808763 original size:44 final size:45
Alignment explanation
Indices: 9808714--9808808 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
9808704 TTACACCTCT
* *
9808714 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
9808758 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
9808803 ATTACA
1 ATTACA
9808809 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:9808808 original size:16 final size:16
Alignment explanation
Indices: 9808789--9808856 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
9808779 GATTTGCTAT
* *
9808789 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
9808805 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9808821 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9808837 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9808853 TACA
1 TACA
9808857 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:9813185 original size:34 final size:31
Alignment explanation
Indices: 9813109--9813170 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9813099 TTCATCTCTA
* **
9813109 ATTTTGCAATAAACCGGAACTTTTAATTTAT
1 ATTTTTCAATAAACAAGAACTTTTAATTTAT
9813140 ATTTTTCAATAAACAAGAACTTTTAATTTAT
1 ATTTTTCAATAAACAAGAACTTTTAATTTAT
9813171 TTTATTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTTTTCAATAAACAAGAACTTTTAATTTAT
Found at i:9818173 original size:96 final size:96
Alignment explanation
Indices: 9818009--9818183 Score: 224
Period size: 96 Copynumber: 1.8 Consensus size: 96
9817999 ACTGCAGCTT
* * *
9818009 CAGAGACAGCGGCCTCAGCAGAACCATTAGCTAAACCATCTCCACTGCAATCACCATTAACAACT
1 CAGAGACAGCGGCCTCAGCACAACCATTAGCTAAACCATCTCCACCGCAATCACCATCAACAACT
9818074 ACAGCCACTTCAGATTCCTCAACATTGGCTC
66 ACAGCCACTTCAGATTCCTCAACATTGGCTC
* * * * * * * * *
9818105 CAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGCCGTAATCACCATCAGCAGCT
1 CAGAGACAGCGGCCTCAGCACAACCATTAGCTAAACCATCTCCACCGCAATCACCATCAACAACT
* *
9818170 ACAGTCATTTCAGA
66 ACAGCCACTTCAGA
9818184 GCCCTCTTTC
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 65 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.21
Consensus pattern (96 bp):
CAGAGACAGCGGCCTCAGCACAACCATTAGCTAAACCATCTCCACCGCAATCACCATCAACAACT
ACAGCCACTTCAGATTCCTCAACATTGGCTC
Found at i:9818309 original size:120 final size:120
Alignment explanation
Indices: 9818094--9819044 Score: 1035
Period size: 120 Copynumber: 7.9 Consensus size: 120
9818084 CAGATTCCTC
* * * * * *
9818094 AACATTGGCTCCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGCCGTAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * **
9818159 CATCAGCAGCTACAGTCATTTCAGAGCCCTCTTTCTCTTCTGACGAGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * *
9818214 AACATTAGTTTCAGAGACAGTGGCGTTTGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * * * *
9818279 CATCAGCAGCTACGGCCACTCCAGAACCCTCTTTCTCTTCTGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * *
9818334 AACATTGGCTTCAGAGACAGTGGCCTCAGCACTATCATTAGATAGACCATTTGCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* *
9818399 CACCATCAGCTACAGCCATTTCAGAGCCCGCATTCTCTTTTGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * * ** *
9818454 AACGCTGGCTTCAGAGACTGTGGTCTTAGCACTATCATTAGCTAAACTGTCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
** * **
9818519 CATCATCAGCTACAGTTATTTCGGAGCCCTCATTCTCTTTTGACCTGGAATTGAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * * *
9818574 AACGCTGGCTTCACAGACAGTGGCCTTAGCATTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * *
9818639 CATCATCGGCTACAGCCATTTCAGAGTCCTCATTATCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * * * * * *
9818694 AACAGTATCTTCAGAAACAGTTGCCTCAACACTGTCATT-GACAAAACCATCTCCATTGAAATCT
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAG-CTAAACCATCTCCACTGCAATCA
* * * * * *
9818758 CCATCACCAGCTACAGCCATTTCAGAGCCCCCGTCCTCTTTTGACCTGAAAT-AGAG
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCA-AT
* * * * * *
9818814 CACATTAGCTTCAGAAACAGGGGCCTCAACACTATCATTAACTAAACCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * * *
9818879 CATCATCAGCTACTGTCATTTCGGAGCCCTCACTCTCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * *
9818934 AACATCAGCTTCAGAAACAG-GGGCTTCAACACTATCATTAACTAAACCATCTCCACTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTT-AGCACTATCATTAGCTAAACCATCTCCACTGCAATCA
* *
9818998 CCATCATCAGCTACAGCTATTTCGGAGCCCTCATTCTCTTTTGACCT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCT
9819045 AAAATCAAGG
Statistics
Matches: 709, Mismatches: 117, Indels: 10
0.85 0.14 0.01
Matches are distributed among these distances:
119 6 0.01
120 702 0.99
121 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (120 bp):
AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
Found at i:9823126 original size:18 final size:18
Alignment explanation
Indices: 9823103--9823145 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9823093 GAATAGGTAT
9823103 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
9823121 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
9823139 TTAATTA
1 TTAATTA
9823146 CACTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:9826975 original size:21 final size:20
Alignment explanation
Indices: 9826949--9827012 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
9826939 ATGTCTGTTA
*
9826949 CTTTTTTTCTTTCTTGTTTTT
1 CTTTTTTTCTTTCTT-TTCTT
9826970 CTTTTTCTT-TTTCTTTTCTT
1 CTTTTT-TTCTTTCTTTTCTT
*
9826990 -TTATTTTCTTTCTTCTTCTT
1 CTTTTTTTCTTTCTT-TTCTT
9827010 CTT
1 CTT
9827013 CCTTACGCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 2 0.05
19 10 0.27
20 9 0.24
21 14 0.38
22 2 0.05
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (20 bp):
CTTTTTTTCTTTCTTTTCTT
Found at i:9826976 original size:6 final size:6
Alignment explanation
Indices: 9826952--9827012 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
9826942 TCTGTTACTT
* *
9826952 TTTTTC TTTCTTG TTTTTC TTTTTC TTTTTC -TTTTC -TTTT- ATTTTC
1 TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
9826998 TTTCTTC TTCTTC TT
1 TTT-TTC TTTTTC TT
9827013 CCTTACGCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
5 13 0.28
6 24 0.51
7 10 0.21
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:9826985 original size:25 final size:27
Alignment explanation
Indices: 9826952--9827012 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
9826942 TCTGTTACTT
9826952 TTTTTCTTTCTTGT-TTTTCTTT-TTC
1 TTTTTCTTTCTTGTATTTTCTTTCTTC
*
9826977 TTTTTCTTTTCTTTTATTTTCTTTCTTC
1 TTTTTC-TTTCTTGTATTTTCTTTCTTC
*
9827005 TTCTTCTT
1 TTTTTCTT
9827013 CCTTACGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 6 0.19
26 7 0.23
27 10 0.32
28 8 0.26
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTTCTTTCTTGTATTTTCTTTCTTC
Found at i:9828290 original size:490 final size:489
Alignment explanation
Indices: 9827337--9828317 Score: 1640
Period size: 490 Copynumber: 2.0 Consensus size: 489
9827327 TTAGGACTAT
* *
9827337 CGCTTGGCATATGTTGTTGATTTAACAGGTTAGTTTTAGAGAATCGTTATTAATTTGAGTGTGTT
1 CGCTTGGCATATGTTGTTGATTTAACAGGTTAGTTTTAGAGAATCATTATTAATTTGAGCGTGTT
**
9827402 AAATGTCGATTTTAGATTCTGATATTCACATTGTTGGTTTCGCATAAGAAAATATCTAGGTGTGT
66 AAATGTCGATTTTAGATTCTGATATTCACATTGTTGGTTTCGCATAAGAAAATATCTAGGCATGT
* * * *
9827467 GACTCGATCTCATAAAAACAATAAACATAAAAAAGCCAAAAACCCCATTGTCGATGTCACATGGT
131 GACTCGATCTCATAAAAACAATAAACAGAAAAAAGCCAAAAAACCCACTGTCGATGTCACATAGT
*
9827532 CGTGTGCCAAACTATATGGACCACACGGTTTGGGTTGTTTGGGGCATGTGTAAGCTGTGTGGGTC
196 CGTGTGCCAAACTATATGGACCACACGGTCTGGGTTGTTTGGGGCATGTGTAAGCTGTGTGGGTC
* *
9827597 ACATGCGCTAAGCTAGTTGGGTCGTGTGGGCTCATTTTCTAGAAATTCACATAGGGTCATTTTAA
261 ACATGCGCTAAGCTAGCTGGGTCATGTGGGCTCATTTTCTAGAAATTCACATAGGGTCATTTTAA
*
9827662 TCTACGATTCATATTTACACTATCCGTAGGGTCCATATTGCTTAAATGAGGCTTGAAAACATGAT
326 TCTACGATTCATATTTAAACTATCCGTAGGGTCCATATTGCTTAAATGAGGCTTGAAAACATGAT
*
9827727 ATCTGTTAATATGCGTCTGTAGGTGATATGATTAAGGTAGAGGTGATCATATGTCGAGCTGGGTC
391 ATCTGTTAATATGCGTCTGTAGGTGATATGATTAAGGTAGAGGTGATCATAGGTCGAGCTGGGTC
*
9827792 GGGTTCAGGTCAGACCCAGATAAAATTTTAGGCC
456 AGGTTCAGGTCAGACCCAGATAAAATTTTAGGCC
*
9827826 CGCTTGGCATATGTTGTTGATTTAACAGGTTAGTTTTTAGAGAATCATTATTGATTTGAGCGTGT
1 CGCTTGGCATATGTTGTTGATTTAACAGGTTAG-TTTTAGAGAATCATTATTAATTTGAGCGTGT
** *
9827891 TAAATGTCGATTTTAGATTCTGATATTCATGTTGTTGGTTTCGCATCAGAAAATATCTAGGCATG
65 TAAATGTCGATTTTAGATTCTGATATTCACATTGTTGGTTTCGCATAAGAAAATATCTAGGCATG
* * *
9827956 TGACTCGATCTCGTAAAAACAATAAACAGCAAAAAGCCAAAAAACTCACTGTCGATGTCACATAG
130 TGACTCGATCTCATAAAAACAATAAACAGAAAAAAGCCAAAAAACCCACTGTCGATGTCACATAG
*
9828021 TCGTGTGCCAAACTATATGGACCACACGGTCTGGGTTGTTTGGGGCATGTGTAGGCTGTGTGGGT
195 TCGTGTGCCAAACTATATGGACCACACGGTCTGGGTTGTTTGGGGCATGTGTAAGCTGTGTGGGT
* * *
9828086 CACATGCGCTAAGCTAGCTGGGTCATGTGGGC-CTATTTTTTGGAAATTCACGTAGGGTCATTTT
260 CACATGCGCTAAGCTAGCTGGGTCATGTGGGCTC-ATTTTCTAGAAATTCACATAGGGTCATTTT
* * * * *
9828150 GATCTGCGATTCATATTTAAACTATTCGTAGGGTCCATATTGCTTAAATGAGTCTTGAAAATATG
324 AATCTACGATTCATATTTAAACTATCCGTAGGGTCCATATTGCTTAAATGAGGCTTGAAAACATG
* *
9828215 ATATCTGTTAATATGCGTCTGTAGGTGATATTATTAAGGTAGAGGTGATCATGGGTCGAGCTGGG
389 ATATCTGTTAATATGCGTCTGTAGGTGATATGATTAAGGTAGAGGTGATCATAGGTCGAGCTGGG
*
9828280 TTAGGTTCAGGTCAGACCCAGATAAAATTTTAGGCC
454 TCAGGTTCAGGTCAGACCCAGATAAAATTTTAGGCC
9828316 CG
1 CG
9828318 TTTTCTAGGT
Statistics
Matches: 457, Mismatches: 33, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
489 34 0.07
490 423 0.93
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (489 bp):
CGCTTGGCATATGTTGTTGATTTAACAGGTTAGTTTTAGAGAATCATTATTAATTTGAGCGTGTT
AAATGTCGATTTTAGATTCTGATATTCACATTGTTGGTTTCGCATAAGAAAATATCTAGGCATGT
GACTCGATCTCATAAAAACAATAAACAGAAAAAAGCCAAAAAACCCACTGTCGATGTCACATAGT
CGTGTGCCAAACTATATGGACCACACGGTCTGGGTTGTTTGGGGCATGTGTAAGCTGTGTGGGTC
ACATGCGCTAAGCTAGCTGGGTCATGTGGGCTCATTTTCTAGAAATTCACATAGGGTCATTTTAA
TCTACGATTCATATTTAAACTATCCGTAGGGTCCATATTGCTTAAATGAGGCTTGAAAACATGAT
ATCTGTTAATATGCGTCTGTAGGTGATATGATTAAGGTAGAGGTGATCATAGGTCGAGCTGGGTC
AGGTTCAGGTCAGACCCAGATAAAATTTTAGGCC
Found at i:9832238 original size:29 final size:29
Alignment explanation
Indices: 9832206--9832284 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
9832196 AAATTTTAAA
* * *
9832206 TTAATAATGATAAAAATATATTTTAATTT
1 TTAAAAATAATAAAAATATATTTAAATTT
* *
9832235 TTAAAAATAATAAATATTTGATTTAAATTT
1 TTAAAAATAATAAAAATAT-ATTTAAATTT
* *
9832265 TTAAAAATTATAAAGATATA
1 TTAAAAATAATAAAAATATA
9832285 ACATATTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (29 bp):
TTAAAAATAATAAAAATATATTTAAATTT
Found at i:9832323 original size:22 final size:23
Alignment explanation
Indices: 9832295--9832337 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
9832285 ACATATTAAA
*
9832295 ATTATAAAATTATAT-TTTTACT
1 ATTATAAAAATATATATTTTACT
9832317 ATTATAAAAATATATATTTTA
1 ATTATAAAAATATATATTTTA
9832338 ATTTCGCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTATAAAAATATATATTTTACT
Found at i:9845013 original size:24 final size:24
Alignment explanation
Indices: 9844975--9845021 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9844965 CCTAAATTAT
9844975 ACCTTTTATTCATTTTGGTATTTA
1 ACCTTTTATTCATTTTGGTATTTA
* * *
9844999 ACCTTTTTTTTATTTTGTTATTT
1 ACCTTTTATTCATTTTGGTATTT
9845022 GAACTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (24 bp):
ACCTTTTATTCATTTTGGTATTTA
Found at i:9845591 original size:196 final size:196
Alignment explanation
Indices: 9845251--9845841 Score: 1049
Period size: 196 Copynumber: 3.0 Consensus size: 196
9845241 GTAGCTGACA
* *
9845251 AAACAATCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAGCAAAACAGTCACTAACG
1 AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
*
9845316 TTATTGAAAAGTGACAAATCAATCACTCATTAACATTTTCCGTCACAAGCTTAACGGGATAGCTA
66 TTATTGAAAAGTGACAAATCAGTCACTCATTAACATTTTCCGTCACAAGCTTAACGGGATAGCTA
9845381 ACGTGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAGGGT
131 ACGTGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAGGGT
9845446 C
196 C
*
9845447 AAGCAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
1 AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
* *
9845512 TTATTGAAAAGTGGCAAATTAGTCACTCATTAACATTTTCCGTCACAAGCTTAACGGGATAGCTA
66 TTATTGAAAAGTGACAAATCAGTCACTCATTAACATTTTCCGTCACAAGCTTAACGGGATAGCTA
* *
9845577 ACGTGGCCAATTAACTAGCTGCTGTGGCCAGTTAACTTGCCACGTGGGACGAGTAGTCAAAGGGT
131 ACGTGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAGGGT
9845642 C
196 C
*
9845643 AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAATG
1 AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
*
9845708 TTATTGAAAAGAT-ACAAATCAGTCACTCATTAACATTTTCCGTCACAAACTTAACGGGATAGCT
66 TTATTGAAAAG-TGACAAATCAGTCACTCATTAACATTTTCCGTCACAAGCTTAACGGGATAGCT
* * *
9845772 GACATGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAAGG
130 AACGTGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAGGG
9845837 TC
195 TC
9845839 AAA
1 AAA
9845842 GAAGAAAAGA
Statistics
Matches: 376, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
196 375 1.00
197 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (196 bp):
AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
TTATTGAAAAGTGACAAATCAGTCACTCATTAACATTTTCCGTCACAAGCTTAACGGGATAGCTA
ACGTGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAGGGT
C
Found at i:9845793 original size:21 final size:21
Alignment explanation
Indices: 9845767--9845809 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9845757 CTTAACGGGA
9845767 TAGCTGACATGGCCAATTAAC
1 TAGCTGACATGGCCAATTAAC
** *
9845788 TAGCTGATGTGGCCAGTTAAC
1 TAGCTGACATGGCCAATTAAC
9845809 T
1 T
9845810 TGCCACGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
TAGCTGACATGGCCAATTAAC
Found at i:9845989 original size:15 final size:14
Alignment explanation
Indices: 9845876--9845991 Score: 53
Period size: 14 Copynumber: 8.1 Consensus size: 14
9845866 CTTCTCTGTG
*
9845876 TCTT-TCTTCTTTT
1 TCTTCTCTTCTTTC
*
9845889 TCTTCTCATCTTTC
1 TCTTCTCTTCTTTC
9845903 TCTTCATCTTC-TTC
1 TCTTC-TCTTCTTTC
* * *
9845917 TCCCTCAACCTCTTTC
1 T-CTTC-TCTTCTTTC
*
9845933 TCTTTATGCTTCTTT-
1 TC-TTCT-CTTCTTTC
* *
9845948 TATT-TTTTCTTGT-
1 TCTTCTCTTCTT-TC
9845961 TCTTCTCTTCTTTC
1 TCTTCTCTTCTTTC
*
9845975 TCTTCATCTTTTTTC
1 TCTTC-TCTTCTTTC
9845990 TC
1 TC
9845992 CCTCAACCTC
Statistics
Matches: 78, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
12 5 0.06
13 10 0.13
14 29 0.37
15 23 0.29
16 11 0.14
ACGTcount: A:0.06, C:0.30, G:0.02, T:0.62
Consensus pattern (14 bp):
TCTTCTCTTCTTTC
Found at i:9846886 original size:3 final size:3
Alignment explanation
Indices: 9846873--9846969 Score: 87
Period size: 3 Copynumber: 33.7 Consensus size: 3
9846863 TTCCATTTTC
* * * * *
9846873 TCT TAT TCT TCT TC- TCC TCT TCT TGT T-T TCT TTT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
9846919 TCT TCT TCT TCT TCT TC- TCT TAT TCT TCT T-T T-T ATCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT
*
9846962 TCT ACT TC
1 TCT TCT TC
9846970 CCAGGGCTCT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
2 9 0.12
3 67 0.87
4 1 0.01
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:9846957 original size:46 final size:46
Alignment explanation
Indices: 9846868--9846969 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 46
9846858 GCTCCTTCCA
* * * *
9846868 TTTTC-TCTTATTCTTCTTCTCCTCTTCTTGTTTTCTTTTTCTTCT
1 TTTTCTTCTTCTTCTTCTTCTCCTCTTATTCTTTTCTTTATCTTCT
*
9846913 TTTTCTTCTTCTTCTTCTTCTTCTCTTATTCTTCTT-TTTATCTTCT
1 TTTTCTTCTTCTTCTTCTTCTCCTCTTATTCTT-TTCTTTATCTTCT
* *
9846959 TCTTCTACTTC
1 TTTTCTTCTTC
9846970 CCAGGGCTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 5 0.10
46 41 0.85
47 2 0.04
ACGTcount: A:0.04, C:0.27, G:0.01, T:0.68
Consensus pattern (46 bp):
TTTTCTTCTTCTTCTTCTTCTCCTCTTATTCTTTTCTTTATCTTCT
Found at i:9847369 original size:24 final size:21
Alignment explanation
Indices: 9847338--9847386 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 21
9847328 GGGCCTCAAT
9847338 TTTTTATTTTATTACTAATATATA
1 TTTTTATTTTATTA-T-AT-TATA
9847362 TTTTTATTTTATTATATTATA
1 TTTTTATTTTATTATATTATA
9847383 TTTT
1 TTTT
9847387 ATAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 2 0.08
23 1 0.04
24 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTATTTTATTATATTATA
Found at i:9849238 original size:16 final size:16
Alignment explanation
Indices: 9849212--9849256 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
9849202 CTGTGAAATT
9849212 TAATCATTTTATTGAAA
1 TAAT-ATTTTATTGAAA
*
9849229 TAATATTTTAATTGAGA
1 TAATATTTT-ATTGAAA
9849246 TAAT-TTTTATT
1 TAATATTTTATT
9849257 TAATAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 14 0.54
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (16 bp):
TAATATTTTATTGAAA
Found at i:9849276 original size:28 final size:26
Alignment explanation
Indices: 9849245--9849309 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 26
9849235 TTTAATTGAG
*
9849245 ATAATTTTTATTTA-ATAAATGATAATT
1 ATAATTTTTACTTATATAAA--ATAATT
*
9849272 AATAA-GTTTACTTATATAAAATAATT
1 -ATAATTTTTACTTATATAAAATAATT
9849298 ATAA-TTTTACTT
1 ATAATTTTTACTT
9849310 GAAAATTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 11 0.33
26 6 0.18
27 7 0.21
28 9 0.27
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (26 bp):
ATAATTTTTACTTATATAAAATAATT
Found at i:9850947 original size:3 final size:3
Alignment explanation
Indices: 9850939--9850974 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9850929 TTGCAGACAG
9850939 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
9850975 GTACAATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:9854130 original size:31 final size:31
Alignment explanation
Indices: 9854095--9854155 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
9854085 TATATTATCT
* *
9854095 GGTACTTGAATTTAGTTTTAATGTTTAATTC
1 GGTACTTGAATTTAATTTTAATGTTCAATTC
9854126 GGTACTTGAATTTAATTTTAATGTTCAATT
1 GGTACTTGAATTTAATTTTAATGTTCAATT
9854156 TGATACTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.51
Consensus pattern (31 bp):
GGTACTTGAATTTAATTTTAATGTTCAATTC
Found at i:9854163 original size:31 final size:31
Alignment explanation
Indices: 9854097--9854163 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
9854087 TATTATCTGG
* * *
9854097 TACTTGAATTTAGTTTTAATGTTTAATTCGG
1 TACTTGAATTTAATTTTAATGTTCAATTCGA
*
9854128 TACTTGAATTTAATTTTAATGTTCAATTTGA
1 TACTTGAATTTAATTTTAATGTTCAATTCGA
9854159 TACTT
1 TACTT
9854164 AAGTTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.52
Consensus pattern (31 bp):
TACTTGAATTTAATTTTAATGTTCAATTCGA
Found at i:9855312 original size:21 final size:20
Alignment explanation
Indices: 9855266--9855313 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
9855256 CCTTTACTCC
*
9855266 CAAATAAAAAATCAAAATAT
1 CAAATAAAAAATCAAAACAT
9855286 CCAAATAAAAAATCACTAAACAT
1 -CAAATAAAAAATCA--AAACAT
9855309 -AAATA
1 CAAATA
9855314 GTAATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 19 0.79
23 5 0.21
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (20 bp):
CAAATAAAAAATCAAAACAT
Found at i:9855870 original size:5 final size:5
Alignment explanation
Indices: 9855860--9855885 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9855850 CTCAAAAATT
9855860 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
9855886 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:9863949 original size:20 final size:20
Alignment explanation
Indices: 9863924--9863963 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9863914 CGTAAAATGA
*
9863924 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
9863944 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9863964 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9863953 original size:34 final size:35
Alignment explanation
Indices: 9863909--9863975 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
9863899 CAATAAAATG
*
9863909 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
9863943 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
9863976 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:9863979 original size:14 final size:15
Alignment explanation
Indices: 9863903--9863979 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
9863893 GTTTGCCAAT
* *
9863903 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
9863917 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
9863931 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
9863951 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
9863966 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
9863980 TGTTTGGATG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:9864040 original size:32 final size:32
Alignment explanation
Indices: 9863954--9864040 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
9863944 TTTCTGTAAA
* *
9863954 ATGATTTACTGGAAAATATTTTCTGGTGTTTGG
1 ATGATTTCCT-GAAAATATTTTCTGCTGTTTGG
* *
9863987 ATGA-ATCTATGTAAAATATTTTCTGCTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTCTGCTGTTTGG
9864020 CA-GATTTCCTGAAAATATTTT
1 -ATGATTTCCTGAAAATATTTT
9864041 TCGTAAAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
32 12 0.27
33 29 0.66
34 3 0.07
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTCTGCTGTTTGG
Found at i:9871659 original size:115 final size:117
Alignment explanation
Indices: 9871477--9871700 Score: 307
Period size: 115 Copynumber: 1.9 Consensus size: 117
9871467 TTTCACTTAT
* * *
9871477 TTTTGTTTTTGGTTTGCATGTTGTTATTTCATTAAGCACAAAAAATATTTAAAATAAAATTATTG
1 TTTTGTTTTTGGTATGCATGTTGTTATTTCATTAAGCACAAAAAAGATTTAAAAGAAAATTATTG
* *
9871542 ATTTTTTTTCTTTTCAAAATTAGAAACCAGAATT-GAAAAAATTGTATCTTTTACC
66 A---TTTTT-TTTTCAAAATTAGAAACCAAAATTAAAAAAAATTGTATCTTTTACC
*
9871597 TTTT-TTTTT-GTATGCATGTTGTTATTT-A-TAAGCAC-AAAAAGATTTAAAAGAAAATTCTTG
1 TTTTGTTTTTGGTATGCATGTTGTTATTTCATTAAGCACAAAAAAGATTTAAAAGAAAATTATTG
*
9871657 ATTTTTTTTTGAAAATTAGAAACCAAAATTAAAAAAAATTGTAT
66 ATTTTTTTTTCAAAATTAGAAACCAAAATTAAAAAAAATTGTAT
9871701 TTTCAGAAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
111 22 0.23
112 17 0.18
115 23 0.24
116 7 0.07
117 1 0.01
118 17 0.18
119 5 0.05
120 4 0.04
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (117 bp):
TTTTGTTTTTGGTATGCATGTTGTTATTTCATTAAGCACAAAAAAGATTTAAAAGAAAATTATTG
ATTTTTTTTTCAAAATTAGAAACCAAAATTAAAAAAAATTGTATCTTTTACC
Found at i:9886021 original size:3 final size:3
Alignment explanation
Indices: 9886013--9886055 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
9886003 ATAGTAATGG
9886013 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9886056 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9888132 original size:21 final size:21
Alignment explanation
Indices: 9888102--9888141 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9888092 CTTCTGAGAG
9888102 CTAAACTCCAAATTCCAAAAT
1 CTAAACTCCAAATTCCAAAAT
* *
9888123 CTAAATTCCAAATTTCAAA
1 CTAAACTCCAAATTCCAAA
9888142 GTGCCATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
CTAAACTCCAAATTCCAAAAT
Found at i:9889423 original size:20 final size:20
Alignment explanation
Indices: 9889382--9889426 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9889372 ATTTATACAG
* *
9889382 TTCATGATTTGACTCTATTA
1 TTCATGACTTGACTCTACTA
9889402 TTCATGACTTGAC-CTCACTA
1 TTCATGACTTGACTCT-ACTA
9889422 TTCAT
1 TTCAT
9889427 AGGATTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.44
Consensus pattern (20 bp):
TTCATGACTTGACTCTACTA
Found at i:9900156 original size:3 final size:3
Alignment explanation
Indices: 9900148--9900178 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
9900138 AAGCAAAAAT
9900148 GAA GAA GAA GAA GAA GAA GAA GCAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
9900179 AACTACGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9900994 original size:3 final size:3
Alignment explanation
Indices: 9900986--9901013 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9900976 AAATTAGTTA
9900986 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9901014 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9901209 original size:5 final size:5
Alignment explanation
Indices: 9901201--9901227 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9901191 CAAGAAATAA
9901201 AATTT AATTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AA
9901228 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:9905693 original size:32 final size:31
Alignment explanation
Indices: 9905623--9905698 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 31
9905613 TTATCGTTTC
*
9905623 TTCATA-AACATATATCATTCATTTCATTAT
1 TTCATATAACATATACCATTCATTTCATTAT
* *
9905653 ATCAATATATCATATACCA-TCATTTCCATGTAT
1 TTC-ATATAACATATACCATTCATTT-CAT-TAT
9905686 TTCATATAA-ATAT
1 TTCATATAACATAT
9905699 CAAGAAACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 2 0.05
31 13 0.35
32 17 0.46
33 5 0.14
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.43
Consensus pattern (31 bp):
TTCATATAACATATACCATTCATTTCATTAT
Found at i:9905759 original size:51 final size:51
Alignment explanation
Indices: 9905683--9905786 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
9905673 CATTTCCATG
9905683 TATTTCATATAAATATCAAGAAACATGTATGAACTCAATAATAATAAAATT
1 TATTTCATATAAATATCAAGAAACATGTATGAACTCAATAATAATAAAATT
9905734 TATTTCATATAAATATCAAGAAACATGTATGAACTCAATAATAATAAAATT
1 TATTTCATATAAATATCAAGAAACATGTATGAACTCAATAATAATAAAATT
9905785 TA
1 TA
9905787 CATATACATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.34
Consensus pattern (51 bp):
TATTTCATATAAATATCAAGAAACATGTATGAACTCAATAATAATAAAATT
Found at i:9905773 original size:25 final size:25
Alignment explanation
Indices: 9905694--9905773 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
9905684 ATTTCATATA
9905694 AATATCAAGAAACATGTATGAACTC
1 AATATCAAGAAACATGTATGAACTC
* * * *
9905719 AATAAT-AATAAA-ATTTATTTCATA-TA
1 AAT-ATCAAGAAACATGTA--TGA-ACTC
9905745 AATATCAAGAAACATGTATGAACTC
1 AATATCAAGAAACATGTATGAACTC
9905770 AATA
1 AATA
9905774 ATAATAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 5 0.12
25 17 0.43
26 13 0.32
27 5 0.12
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.30
Consensus pattern (25 bp):
AATATCAAGAAACATGTATGAACTC
Found at i:9909493 original size:7 final size:7
Alignment explanation
Indices: 9909481--9909510 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9909471 GGCAAAAACC
9909481 ATGAATG
1 ATGAATG
9909488 ATGAATG
1 ATGAATG
9909495 ATGAATG
1 ATGAATG
*
9909502 GTGAATG
1 ATGAATG
9909509 AT
1 AT
9909511 AATACATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
ATGAATG
Found at i:9914128 original size:44 final size:44
Alignment explanation
Indices: 9914073--9914514 Score: 265
Period size: 44 Copynumber: 9.4 Consensus size: 44
9914063 CTAGTGTTAT
* * *
9914073 AGTGGAGCAGATTGGAGCTTCAAATCTTATTTCCCTAAAGTTGC
1 AGTGGAACAGATTGAAGCTTCAAATCTTATTTCCCTGAAGTTGC
* * * * *
9914117 AATGGAACAGATTAAAACTACAAGTTACAAATCTTATCTCCCTGAAGTCGC
1 AGTGGAACAGATT-GAA--GC---TT-CAAATCTTATTTCCCTGAAGTTGC
* * *
9914168 AGTGGAGCAGATTGAAGCTTCAAATTTTATTTCCCTAAAGTTGC
1 AGTGGAACAGATTGAAGCTTCAAATCTTATTTCCCTGAAGTTGC
* * * * * *
9914212 AGTGGAACAAATTAAAACTACAAGTTACAAATTTTATTTTCCTGATGTTGC
1 AGTGGAACAGATT-GAA--GC---TT-CAAATCTTATTTCCCTGAAGTTGC
* * * *
9914263 AATGGAGCATATTGAAGTTTCAAATCTTATTTCCCTGAAGTTGC
1 AGTGGAACAGATTGAAGCTTCAAATCTTATTTCCCTGAAGTTGC
* * * *
9914307 AGTGGAACAGATTAAAGCTACAAGTTTTAAATCTTATCTCCCTCAAGTTGC
1 AGTGGAACAGATT---G----AAGCTTCAAATCTTATTTCCCTGAAGTTGC
* * * * *
9914358 AGT-GAAGCAGATTGAAACTACAAATCTTATTTTCTTGAGGTTGC
1 AGTGGAA-CAGATTGAAGCTTCAAATCTTATTTCCCTGAAGTTGC
* *
9914402 AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGC
1 AGTGGAACAGATTGAAG---C---TT-CAAATCTTATTTCCCTGAAGTTGC
** * * * *
9914453 AGTGGAGTAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGA
1 AGTGGAACAGATTGAAGCTTCAAATCTTATTTCCCTGAAGTTGC
*
9914497 AGTGGAGCAGATTGAAGC
1 AGTGGAACAGATTGAAGC
9914515 AACAAATCCT
Statistics
Matches: 307, Mismatches: 61, Indels: 60
0.72 0.14 0.14
Matches are distributed among these distances:
44 144 0.47
45 11 0.04
47 4 0.01
48 3 0.01
50 12 0.04
51 133 0.43
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
AGTGGAACAGATTGAAGCTTCAAATCTTATTTCCCTGAAGTTGC
Found at i:9914176 original size:95 final size:95
Alignment explanation
Indices: 9914048--9914509 Score: 602
Period size: 95 Copynumber: 4.9 Consensus size: 95
9914038 GATTAAAGCC
* ** * *
9914048 ACAAATCTTATCTCCCT-AGTGTTATAGTGGAGCAGATTGGAGCTTCAAATCTTATTTCCCTAAA
1 ACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAA
*
9914112 GTTGCAATGGAACAGATTAAAACTACAAGTT
65 GTTGCAGTGGAACAGATTAAAACTACAAGTT
* * *
9914143 ACAAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGCTTCAAATTTTATTTCCCTAAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
*
9914208 TTGCAGTGGAACAAATTAAAACTACAAGTT
66 TTGCAGTGGAACAGATTAAAACTACAAGTT
* * * * * * *
9914238 ACAAATTTTATTTTCCTGATGTTGCAATGGAGCATATTGAAGTTTCAAATCTTATTTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
*
9914303 TTGCAGTGGAACAGATTAAAGCTACAAGTT
66 TTGCAGTGGAACAGATTAAAACTACAAGTT
** * * * * * * *
9914333 TTAAATCTTATCTCCCTCAAGTTGCAGTGAAGCAGATTGAAACTACAAATCTTATTTTCTTGAGG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
*
9914398 TTGCAGTGGAACAGATTAAAGCTACAAGTT
66 TTGCAGTGGAACAGATTAAAACTACAAGTT
* * * *
9914428 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
* *
9914493 TTGAAGTGGAGCAGATT
66 TTGCAGTGGAACAGATT
9914510 GAAGCAACAA
Statistics
Matches: 317, Mismatches: 49, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
95 316 1.00
96 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (95 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
TTGCAGTGGAACAGATTAAAACTACAAGTT
Found at i:9914179 original size:51 final size:51
Alignment explanation
Indices: 9914093--9914477 Score: 310
Period size: 51 Copynumber: 8.0 Consensus size: 51
9914083 ATTGGAGCTT
* *
9914093 CAAATCTTATTTCCCTAAAGTTGCAATGGAACAGATTAAAACTACAAGTTA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * * * *
9914144 CAAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATT-GAA--GC---TT-
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * *
9914188 CAAATTTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAACTACAAGTTA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * * * * ** *
9914239 CAAATTTTATTTTCCTGATGTTGCAATGGAGC--A-T---A-TTGAAGTTT
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* *
9914283 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTT
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * * *
9914334 TAAATCTTATCTCCCTCAAGTTGCAGT-GAAGCAGATT-GAA--AC----TA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAA-CAGATTAAAACTACAAGTTA
* * * *
9914378 CAAATCTTATTTTCTTGAGGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* ** * *
9914429 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGT
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGT
9914478 CTTATCTCCC
Statistics
Matches: 259, Mismatches: 52, Indels: 46
0.73 0.15 0.13
Matches are distributed among these distances:
44 92 0.36
45 9 0.03
46 1 0.00
47 4 0.02
48 4 0.02
49 1 0.00
50 8 0.03
51 140 0.54
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (51 bp):
CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
Found at i:9914536 original size:44 final size:44
Alignment explanation
Indices: 9914428--9914545 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
9914418 GCTACAAGTT
* * * * * *
9914428 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
1 ACAAATCCTATATCCATGAAGTTGAAGTGGAGCAGATTGAAGCA
* * * *
9914472 ACAAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTGAAGCA
1 ACAAATCCTATATCCATGAAGTTGAAGTGGAGCAGATTGAAGCA
* *
9914516 ACAAATCCTATATCTATGAAGTTGTAGTGG
1 ACAAATCCTATATCCATGAAGTTGAAGTGG
9914546 GTTAAAATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
ACAAATCCTATATCCATGAAGTTGAAGTGGAGCAGATTGAAGCA
Found at i:9916066 original size:4 final size:4
Alignment explanation
Indices: 9916057--9916146 Score: 53
Period size: 4 Copynumber: 22.8 Consensus size: 4
9916047 ACTATTTCCT
* * * *
9916057 TTTA TTTA TTTA -TTA TTCCT- TTTA TTTTA TTCA TTTA CTTG CTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
9916106 CTTA TTTA TTTA TATA -TTA TTCA TTTA TTTA CTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
9916147 TAATTCCTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
3 8 0.12
4 50 0.77
5 6 0.09
6 1 0.02
ACGTcount: A:0.22, C:0.09, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:9916187 original size:15 final size:16
Alignment explanation
Indices: 9916154--9916192 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9916144 TTTTAATTCC
*
9916154 TTTATTCCTTTATTTT
1 TTTATTCCTTCATTTT
9916170 TTTATTCCTTCATTTT
1 TTTATTCCTTCATTTT
9916186 TTATATT
1 TT-TATT
9916193 TAATTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTCCTTCATTTT
Found at i:9923440 original size:31 final size:31
Alignment explanation
Indices: 9923405--9923467 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
9923395 ACATAACTTC
* * *
9923405 TTAACATTTTTCATTCACTCTCTATTAATAA
1 TTAACATGTTTCATCCACTCTCTATCAATAA
9923436 TTAACATGTTTCATCCACTCTCTATCAATAA
1 TTAACATGTTTCATCCACTCTCTATCAATAA
9923467 T
1 T
9923468 CATCAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (31 bp):
TTAACATGTTTCATCCACTCTCTATCAATAA
Found at i:9923500 original size:16 final size:17
Alignment explanation
Indices: 9923474--9923517 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
9923464 TAATCATCAA
*
9923474 ATTTTTATATTAAATAT
1 ATTTTTTTATTAAATAT
*
9923491 -TTTTTTTATTTAATAT
1 ATTTTTTTATTAAATAT
*
9923507 AATTTTTTATT
1 ATTTTTTTATT
9923518 CAAAAGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTTATTAAATAT
Found at i:9923503 original size:17 final size:20
Alignment explanation
Indices: 9923475--9923514 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
9923465 AATCATCAAA
9923475 TTTTTATATTAA-AT-ATTT
1 TTTTTATATTAATATAATTT
9923493 TTTTTAT-TTAATATAATTT
1 TTTTTATATTAATATAATTT
9923512 TTT
1 TTT
9923515 ATTCAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTATATTAATATAATTT
Found at i:9923515 original size:17 final size:17
Alignment explanation
Indices: 9923473--9923517 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
9923463 ATAATCATCA
9923473 AATTTTTATATTAAATAT
1 AATTTTT-TATTAAATAT
* *
9923491 -TTTTTTTATTTAATAT
1 AATTTTTTATTAAATAT
9923507 AATTTTTTATT
1 AATTTTTTATT
9923518 CAAAAGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTATTAAATAT
Found at i:9952605 original size:107 final size:109
Alignment explanation
Indices: 9952447--9952725 Score: 427
Period size: 115 Copynumber: 2.5 Consensus size: 109
9952437 GTCCAACGAG
*
9952447 AAATCGAAACCCAGTACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCC-TT-A
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTTAA
9952510 TTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
66 TTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
*
9952554 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCC----T
*
9952619 TTAAAATTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGA
62 TT--AATTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
* * * *
9952669 AAATCGAAACCTAGCACATTAGGGCATGGTTCCTCGAATTTCCAAACGCAAAACATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATT
9952726 TAAAACTGTG
Statistics
Matches: 156, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
107 58 0.37
112 2 0.01
115 96 0.62
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (109 bp):
AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTTAA
TTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
Found at i:9952629 original size:8 final size:8
Alignment explanation
Indices: 9952616--9952640 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9952606 ACATTGCCTT
9952616 ATTTTAAA
1 ATTTTAAA
9952624 ATTTTAAA
1 ATTTTAAA
9952632 ATTTTAAA
1 ATTTTAAA
9952640 A
1 A
9952641 GGATATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:9954584 original size:17 final size:17
Alignment explanation
Indices: 9954551--9954584 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9954541 TTGTGTTTTG
*
9954551 TGCAAAAAGGGCTAAAT
1 TGCAAAAAGGGCAAAAT
*
9954568 TGCAAAAAGTGCAAAAT
1 TGCAAAAAGGGCAAAAT
9954585 GTTAGGGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGGCAAAAT
Found at i:9955997 original size:20 final size:20
Alignment explanation
Indices: 9955972--9956043 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 20
9955962 ATATGATGAA
9955972 TATGTATATATATTCGAATG
1 TATGTATATATATTCGAATG
*
9955992 TATGTATTAGCTATGTATTCGAATA
1 TATGTA-TA--TA--TATTCGAATG
* *
9956017 TGTATATATATATTCGAATG
1 TATGTATATATATTCGAATG
9956037 TATGTAT
1 TATGTAT
9956044 TAGCTATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
20 20 0.49
21 2 0.05
22 2 0.05
23 2 0.05
24 2 0.05
25 13 0.32
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (20 bp):
TATGTATATATATTCGAATG
Found at i:9956025 original size:45 final size:43
Alignment explanation
Indices: 9955969--9956056 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 43
9955959 TGTATATGAT
9955969 GAATATGTATATATATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATGTATATATATTCGAATGTATGTATTAGCTATGTATTC
9956012 GAATATGTATATATATATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATG--TATATATATTCGAATGTATGTATTAGCTATGTATTC
9956057 AGGTATAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 7 0.16
45 36 0.84
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (43 bp):
GAATATGTATATATATTCGAATGTATGTATTAGCTATGTATTC
Found at i:9956502 original size:17 final size:18
Alignment explanation
Indices: 9956475--9956508 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9956465 ATTTTGATTG
*
9956475 TAAATTATTTATTATTTA
1 TAAATTATTTATCATTTA
9956493 TAAA-TATTTATCATTT
1 TAAATTATTTATCATTT
9956509 CAAAAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TAAATTATTTATCATTTA
Found at i:9964868 original size:100 final size:100
Alignment explanation
Indices: 9964549--9965255 Score: 949
Period size: 100 Copynumber: 7.1 Consensus size: 100
9964539 AAACCATAGT
* *
9964549 TTGCAATT-AAAAGATTGAGGCCACCATGGCGAATCTTACTT-CCAGGGCGGTGCAGTGGAACAG
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCA-GGCGGTGCAGTGGAACAG
** *
9964612 ATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACA
65 ATTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * * *
9964648 TTACAATTAAAAAGATTGAGGCCGCAATGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAG-
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
* * ** *
9964712 TTAAAGCTACAACAGTGAAAATTACTTCCCCAACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * *
9964747 TTGCAATTAAAAAGATTGAGGCCACAATGGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
*
9964812 TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * **
9964847 TTGCAATTAAAAAGATTGAGGCTACAACGGCGAATCTTACTTCCTAGGCGGTGCAACGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
*
9964912 TTGAAACTACAACAGCGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* *
9964947 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCGGAATAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
** *
9965012 TTGAAGCTACAATGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* **
9965047 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
* *
9965112 TTGAAGCTACGAC-GTCGAATCTTGC-TCCCTCGACA
66 TTGAAGCTACAACAG-CGAATCTTACTTCCC-CGACA
* * * * * * * * *
9965147 TTGTAATT-AAAAGATTGAGGCCACAACGACAAACCTTACCTCTCAGGCAGTGTAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
*
9965211 TTGAAGCTACAACAGTGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
*
9965246 TTGCAGTTAA
1 TTGCAATTAA
9965256 TTCGACTGAA
Statistics
Matches: 540, Mismatches: 60, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
99 176 0.33
100 361 0.67
101 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
Found at i:9965132 original size:50 final size:50
Alignment explanation
Indices: 9964557--9965240 Score: 353
Period size: 50 Copynumber: 13.7 Consensus size: 50
9964547 GTTTGCAATT
* * * * *
9964557 AAAAGATTGAGGCCACCATGGCGAATCTTACTT-CCAGGGCGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCA-GGCGGTGCAGTAG
* * * * * ** * *
9964607 AACAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTACAATTA-
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGC-AGTAG
* ** * * *
9964657 AAAAGATTGAGGCCGCAATGGTGAATCTTACTTCCCAGGCGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTAG
* * * * ** * ** *
9964707 AACAG-TTAAAGCTACAACAGTGAAAATTACTTCCCCA-ACATTGCAATTA-
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTT-CCCAGGCGGTGC-AGTAG
* * * * * *
9964756 AAAAGATTGAGGCCACAATGGTGAATCTTACTTCCCAGGCGGTGTAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTAG
* ** * * ** *
9964806 AACAGATTGAAGCTACAATAGCGAATCTTACTTCCCCGACATTGCAATTA-
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGC-AGTAG
* * ***
9964856 AAAAGATTGAGGCTACAACGGCGAATCTTACTTCCTAGGCGGTGCAACGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTAG
* * * * * ** *
9964906 AACAGATTGAAACTACAACAGCGAATCTTACTTCCCCGACATTGCAATTA-
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGC-AGTAG
* * **
9964956 AAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTAG
* * * * * ** *
9965006 AATAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTA-
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGC-AGTAG
* * * *
9965056 AAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTAG
* * * * * * ** * * *
9965106 AACAGATTGAAGCTACGACGTCGAATCTTGC-TCCCTCGACATTGTAAT-T
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-AGGCGGTGCAGTAG
* * * * * * * * * *
9965155 AAAAGATTGAGGCCACAACGACAAACCTTACCTCTCAGGCAGTGTAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTAG
* * *
9965205 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCC
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC
9965241 CGACATTGCA
Statistics
Matches: 453, Mismatches: 164, Indels: 34
0.70 0.25 0.05
Matches are distributed among these distances:
49 74 0.16
50 371 0.82
51 8 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTAG
Found at i:9965371 original size:89 final size:89
Alignment explanation
Indices: 9965259--9965495 Score: 368
Period size: 89 Copynumber: 2.7 Consensus size: 89
9965249 CAGTTAATTC
* * *
9965259 GACTGAAGATAGCAGATCTTGCCTTCGTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTTG
1 GACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTTA
* *
9965324 CCTTTCTGTACTGACAGTAGAGCA
66 CCTTCCTGTACTGACAGCAGAGCA
* * *
9965348 GACTGAAGATAGCAGATATTGCCTTCCTATACTGATGGCGAAGCAGATCGAAGACACAAGCCTTA
1 GACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTTA
*
9965413 CCTTCCTGTACTGACAGCGGAGCA
66 CCTTCCTGTACTGACAGCAGAGCA
*
9965437 GACTGAAGATAGCAGATTTTGCCTTCCTGTACTGACT-GCGAAGCAGATCAAAGACACCA
1 GACTGAAGATAGCAGATATTGCCTTCCTGTACTGA-TGGCGAAGCAGATCAAAGACACCA
9965496 TAGTTTACAG
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
89 133 0.99
90 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (89 bp):
GACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTTA
CCTTCCTGTACTGACAGCAGAGCA
Found at i:9965437 original size:44 final size:44
Alignment explanation
Indices: 9965271--9965493 Score: 168
Period size: 44 Copynumber: 5.0 Consensus size: 44
9965261 CTGAAGATAG
* * ** *
9965271 CAGATCTTGCCTTCGTGTACTGATGGCGAAGCAGATCAAAGACA
1 CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* * *
9965315 CCAG-CCTTGCCTTTCTGTACTGACAG-TAGAGCAGA-CTGAAGATA
1 -CAGACCTTGCCTTCCTGTACTGACAGCGA-AGCAGATC-GAAGACA
** * **
9965359 GCAGATATTGCCTTCCTATACTGATGGCGAAGCAGATCGAAGACA
1 -CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* * *
9965404 CA-AGCCTTACCTTCCTGTACTGACAGCGGAGCAGA-CTGAAGATA
1 CAGA-CCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACA
** * *
9965448 GCAGATTTTGCCTTCCTGTACTGACTGCGAAGCAGATCAAAGACA
1 -CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
9965493 C
1 C
9965494 CATAGTTTAC
Statistics
Matches: 136, Mismatches: 32, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
43 4 0.03
44 64 0.47
45 64 0.47
46 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (44 bp):
CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
Found at i:9965482 original size:45 final size:45
Alignment explanation
Indices: 9965259--9965483 Score: 196
Period size: 45 Copynumber: 5.0 Consensus size: 45
9965249 CAGTTAATTC
*
9965259 GACTGAAGATAGCAGATCTTGCCTTCGTGTACTGA-TGGCGAAGCA
1 GACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACT-GCGAAGCA
* * * * * * *
9965304 GA-TCAAAGACACCAG-CCTTGCCTTTCTGTACTGACAG-TAGAGCA
1 GACT-GAAGATAGCAGATCTTGCCTTCCTGTACTGACTGCGA-AGCA
* *
9965348 GACTGAAGATAGCAGATATTGCCTTCCTATACTGA-TGGCGAAGCA
1 GACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACT-GCGAAGCA
* * * * *
9965393 GA-TCGAAGACA-CA-AGCCTTACCTTCCTGTACTGACAGCGGAGCA
1 GACT-GAAGATAGCAGA-TCTTGCCTTCCTGTACTGACTGCGAAGCA
*
9965437 GACTGAAGATAGCAGATTTTGCCTTCCTGTACTGACTGCGAAGCA
1 GACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACTGCGAAGCA
9965482 GA
1 GA
9965484 TCAAAGACAC
Statistics
Matches: 137, Mismatches: 30, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
43 2 0.01
44 65 0.47
45 68 0.50
46 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (45 bp):
GACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACTGCGAAGCA
Found at i:9965779 original size:132 final size:132
Alignment explanation
Indices: 9965534--9965846 Score: 491
Period size: 132 Copynumber: 2.4 Consensus size: 132
9965524 GCAAATCTTA
** * * *
9965534 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGTGAATATTATATTCCCAATATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* *
9965599 GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGGAGTAGCGGAATAGGTTGAACATTGCAAATTC
66 GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGCAGCAGCGGAATAGGTTGAACATTGCAAATTC
9965664 TG
131 TG
9965666 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* * * * * *
9965731 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTT
66 GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGCAGCAGCGGAATAGGTTGAACATTGCAAATTC
9965796 TG
131 TG
* *
9965798 TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTC
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
9965847 TCAAAGTAGT
Statistics
Matches: 166, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 166 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGCAGCAGCGGAATAGGTTGAACATTGCAAATTC
TG
Found at i:9965916 original size:132 final size:132
Alignment explanation
Indices: 9965534--9965893 Score: 366
Period size: 132 Copynumber: 2.7 Consensus size: 132
9965524 GCAAATCTTA
* ** * * * * *
9965534 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGTGAATATTATATTCCCAATATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTCCAAAGATAGTGGAGAA
* * * * ** * * * * * * *
9965599 GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGGAGTAGCGGAATAGGTTGAACATTGCAAATTC
66 GCAAATTTAAACCATCAAACCTATCCCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGCAAATTC
9965664 TG
131 TG
* * *
9965666 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTCCAAAGATAGTGGAGAA
* * * ** * ** *
9965731 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTT
66 GCAAATTTAAACCATCAAACCTATCCCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGCAAATTC
9965796 TG
131 TG
9965798 TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTCTCAAAG-TAGTAGG-G
1 TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTC-CAAAGATAGT-GGAG
* *
9965861 AAGTAAATTTAAACCA-CAAACCTCTCCCCCTGA
64 AAGCAAATTTAAACCATCAAACCTATCCCCCTGA
9965894 AGTTACAGCA
Statistics
Matches: 202, Mismatches: 24, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
131 12 0.06
132 184 0.91
133 6 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTCCAAAGATAGTGGAGAA
GCAAATTTAAACCATCAAACCTATCCCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGCAAATTC
TG
Found at i:9967003 original size:12 final size:12
Alignment explanation
Indices: 9966986--9967016 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
9966976 CGTTTTATAG
9966986 CCGACCCGAGAA
1 CCGACCCGAGAA
9966998 CCGACCCGAGAA
1 CCGACCCGAGAA
9967010 CCGACCC
1 CCGACCC
9967017 AACCCGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.48, G:0.23, T:0.00
Consensus pattern (12 bp):
CCGACCCGAGAA
Found at i:9967708 original size:15 final size:15
Alignment explanation
Indices: 9967678--9967723 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
9967668 ACATAGATTT
9967678 TATTATTTTATGTTTTC
1 TATTATTTT-T-TTTTC
9967695 TATTATTTTTTTTTC
1 TATTATTTTTTTTTC
9967710 TATT-TTATTTTTTT
1 TATTATT-TTTTTTT
9967724 ACATTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.07
15 16 0.57
16 1 0.04
17 9 0.32
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (15 bp):
TATTATTTTTTTTTC
Found at i:9967748 original size:17 final size:18
Alignment explanation
Indices: 9967726--9967764 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
9967716 ATTTTTTTAC
9967726 ATTTTATTATTATTA-TT
1 ATTTTATTATTATTATTT
*
9967743 ATTTTATTATTTTTATTT
1 ATTTTATTATTATTATTT
9967761 ATTT
1 ATTT
9967765 ATTCTCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTATTATTATTATTT
Found at i:9967751 original size:14 final size:14
Alignment explanation
Indices: 9967674--9967760 Score: 58
Period size: 14 Copynumber: 6.3 Consensus size: 14
9967664 ATATACATAG
9967674 ATTTTATTATT-TT
1 ATTTTATTATTATT
9967687 ATGTTT-TCTATTATT
1 AT-TTTAT-TATTATT
* *
9967702 TTTTTTTCTATT-TT
1 ATTTTAT-TATTATT
* *
9967716 ATTTTTTTA-CATT
1 ATTTTATTATTATT
9967729 -TTATTATTATTATT
1 ATT-TTATTATTATT
*
9967743 ATTTTATTATTTTT
1 ATTTTATTATTATT
9967757 ATTT
1 ATTT
9967761 ATTTATTCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
12 2 0.03
13 12 0.20
14 35 0.58
15 11 0.18
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (14 bp):
ATTTTATTATTATT
Found at i:9967765 original size:17 final size:17
Alignment explanation
Indices: 9967676--9967767 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
9967666 ATACATAGAT
9967676 TTTATTA-TTTTATGTT-
1 TTTATTATTTTTAT-TTA
* *
9967692 TTCTATTATTTTTTTTTC
1 TT-TATTATTTTTATTTA
*
9967710 TATT-TTATTTTT-TTACA
1 T-TTATTATTTTTATT-TA
*
9967727 TTTTATTATTATTA-TTA
1 -TTTATTATTTTTATTTA
9967744 TTTTATTATTTTTATTTA
1 -TTTATTATTTTTATTTA
9967762 TTTATT
1 TTTATT
9967768 CTCATTATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
16 4 0.07
17 37 0.61
18 19 0.31
19 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTATTATTTTTATTTA
Done.