Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 80 of 145
Found at i:27109139 original size:28 final size:29
Alignment explanation
Indices: 27109108--27109164 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
27109098 TTAATAATTT
* **
27109108 TTAATAAAAATGTGTATT-AAGGACTAAA
1 TTAAGAAAAATGTAAATTGAAGGACTAAA
*
27109136 TTAAGAAAAGTGTAAATTGAAGGACTAAA
1 TTAAGAAAAATGTAAATTGAAGGACTAAA
27109165 ATGTGAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.28
Consensus pattern (29 bp):
TTAAGAAAAATGTAAATTGAAGGACTAAA
Found at i:27110615 original size:82 final size:82
Alignment explanation
Indices: 27110337--27110652 Score: 506
Period size: 82 Copynumber: 3.8 Consensus size: 82
27110327 CAGGCTAAGC
**
27110337 ACCTAGCAGGCTACGTGCCGGTGATTTGAATTGGGTTATAAACCTAGCAGGCTACGTGCCGGTGA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGA
*
27110402 TTTGAATCGGGTTATAA
66 TCTGAATCGGGTTATAA
*
27110419 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTACGTGCCGGTGA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGA
*
27110484 TTTGAATCGGGTTATAA
66 TCTGAATCGGGTTATAA
27110501 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGA
27110566 TCTGAATCGGGTTATAA
66 TCTGAATCGGGTTATAA
* * * ** * * *
27110583 ACCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAGTCTAGCAGTCTATGTGCCGTTGA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTG-
27110648 ATCTG
65 ATCTG
27110653 TTTTAATTAA
Statistics
Matches: 222, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
82 217 0.98
83 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (82 bp):
ACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGA
TCTGAATCGGGTTATAA
Found at i:27110643 original size:41 final size:41
Alignment explanation
Indices: 27110337--27110614 Score: 520
Period size: 41 Copynumber: 6.8 Consensus size: 41
27110327 CAGGCTAAGC
*
27110337 ACCTAGCAGGCTACGTGCCGGTGATTTGAATTGGGTTATAA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
27110378 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
27110419 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
27110460 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
*
27110501 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
*
27110542 ACCTAGCAGGCTACGTGCCGGTGATCTGAATCGGGTTATAA
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
*
27110583 ACCTAGCAGGCTACGTGCCGGTGATCTGAATC
1 ACCTAGCAGGCTACGTGCCGGTGATTTGAATC
27110615 AAGCTATAAG
Statistics
Matches: 233, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 233 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
ACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAA
Found at i:27112611 original size:27 final size:27
Alignment explanation
Indices: 27112573--27112669 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
27112563 GGGTGTTACA
27112573 CCTATAGGGTAAAATGGCCGAAATACC
1 CCTATAGGGTAAAATGGCCGAAATACC
27112600 CCTATAGGGTAAAATGGCCGAAATACC
1 CCTATAGGGTAAAATGGCCGAAATACC
*
27112627 CCTATAGGGTAAAATGACCGAAATACC
1 CCTATAGGGTAAAATGGCCGAAATACC
*
27112654 CCCATAGGGTAAAATG
1 CCTATAGGGTAAAATG
27112670 ATTGTTATAC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCTATAGGGTAAAATGGCCGAAATACC
Found at i:27116391 original size:27 final size:27
Alignment explanation
Indices: 27116352--27116422 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
27116342 TGAATCAAAA
27116352 TGCTCACACGAGTTGTGAAAATGGGCC
1 TGCTCACACGAGTTGTGAAAATGGGCC
*
27116379 TGCTCACATGAGTTGTGAAAATGGGCC
1 TGCTCACACGAGTTGTGAAAATGGGCC
*
27116406 TGCTCACGCGAGTTGTG
1 TGCTCACACGAGTTGTG
27116423 GGTCAGAACG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (27 bp):
TGCTCACACGAGTTGTGAAAATGGGCC
Found at i:27124919 original size:30 final size:30
Alignment explanation
Indices: 27124862--27124919 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
27124852 ATAAGTGATT
* **
27124862 TGAGCTGAAATTGAGCTGGTTCGAGCTCAC
1 TGAGCTGAAATGGAGCTAATTCGAGCTCAC
27124892 TGAGCTGAAATGGAGCTTAATTC-AGCTC
1 TGAGCTGAAATGGAGC-TAATTCGAGCTC
27124920 GCAACAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTGAAATGGAGCTAATTCGAGCTCAC
Found at i:27130610 original size:44 final size:45
Alignment explanation
Indices: 27130542--27130755 Score: 134
Period size: 44 Copynumber: 4.6 Consensus size: 45
27130532 GATGCGATCT
* * *
27130542 ACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCC
1 ACTCCACTGTAATC-TCAGGGAGATAAGATCCTGTTATTTCAATCC
* ** * *
27130586 ACTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCCTGTTA-TTTCAATCC
* * * * *
27130630 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCCGGTGCGATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATC-CT-G-TT--AT----TTCAATCC
* * *
27130684 ACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCC
1 ACTCCACTGTAATC-TCAGGGAGATAAGATCCTGTTATTTCAATCC
27130728 ACTCCACTGTAATCTCAGGGAGATAAGA
1 ACTCCACTGTAATCTCAGGGAGATAAGA
27130756 CTTGTAATTT
Statistics
Matches: 129, Mismatches: 25, Indels: 32
0.69 0.13 0.17
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 84 0.65
45 2 0.02
47 1 0.01
48 2 0.02
49 1 0.01
50 2 0.02
51 1 0.01
53 3 0.02
54 30 0.23
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
ACTCCACTGTAATCTCAGGGAGATAAGATCCTGTTATTTCAATCC
Found at i:27130716 original size:142 final size:141
Alignment explanation
Indices: 27130381--27130752 Score: 654
Period size: 142 Copynumber: 2.6 Consensus size: 141
27130371 TGCTGTTGTA
* *
27130381 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
* *
27130446 CTCCACAGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCGCTGAAATCTCAGGGAGA
66 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCGCTGAAATCTCAGGGAGA
*
27130511 TAAGATTTCTG
131 TAAGATCTCTG
*
27130522 GATTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
*
27130587 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
66 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCT-CGCTGAAATCTCAGGGAG
27130652 ATAAGATCTCTG
130 ATAAGATCTCTG
* *
27130664 GCTTCAATCCGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
27130729 CTCCACTGTAATCTCAGGGAGATA
66 CTCCACTGTAATCTCAGGGAGATA
27130753 AGACTTGTAA
Statistics
Matches: 220, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
141 106 0.48
142 114 0.52
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (141 bp):
GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCGCTGAAATCTCAGGGAGA
TAAGATCTCTG
Found at i:27144807 original size:14 final size:14
Alignment explanation
Indices: 27144790--27144817 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27144780 TAAGATTTTA
27144790 GGTTTATTTTATTT
1 GGTTTATTTTATTT
27144804 GGTTTATTTTATTT
1 GGTTTATTTTATTT
27144818 ATTTATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (14 bp):
GGTTTATTTTATTT
Found at i:27147058 original size:20 final size:20
Alignment explanation
Indices: 27147021--27147068 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
27147011 ACTTCGTACT
27147021 CTTTTTTTATTCTCAATTTTA
1 CTTTTTTTATTCTCAA-TTTA
*
27147042 CTTTTTTT-TTCGT-AATTTC
1 CTTTTTTTATTC-TCAATTTA
27147061 CTTTTTTT
1 CTTTTTTT
27147069 CAATTACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 11 0.44
20 5 0.20
21 9 0.36
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (20 bp):
CTTTTTTTATTCTCAATTTA
Found at i:27148713 original size:30 final size:30
Alignment explanation
Indices: 27148655--27148713 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27148645 CATAAGTGAT
* **
27148655 TTGAGCTGAAATTGAGCTGGTTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
27148685 TTGAGCTGAAATGGAGCTTAATTC-AGCTC
1 TTGAGCTGAAATGGAGC-TAATTCGAGCTC
27148714 GCAACAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:27155888 original size:22 final size:22
Alignment explanation
Indices: 27155862--27155905 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27155852 ATAAGTCTTT
27155862 CTTATTTACATTTTAAATAAAG
1 CTTATTTACATTTTAAATAAAG
* *
27155884 CTTATTTGCATTTTTAATAAAG
1 CTTATTTACATTTTAAATAAAG
27155906 AACTTGTAGT
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:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (22 bp):
CTTATTTACATTTTAAATAAAG
Found at i:27157021 original size:17 final size:17
Alignment explanation
Indices: 27156984--27157022 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
27156974 TTCTCAATTT
*
27156984 AAAAAAATTGAAAGAAC
1 AAAAAAATTGAAAAAAC
* *
27157001 AAAAATATTGAAAAAAG
1 AAAAAAATTGAAAAAAC
27157018 AAAAA
1 AAAAA
27157023 CCATTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (17 bp):
AAAAAAATTGAAAAAAC
Found at i:27169655 original size:22 final size:22
Alignment explanation
Indices: 27169603--27169667 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
27169593 TATTTGGGAA
* *
27169603 TTGGTACGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
**
27169625 TTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
27169647 TTGGTACGAAAATGGAAATGG
1 TTGGTACG-AAATGGTAATGG
27169668 TTCAAAAAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
22 24 0.69
23 11 0.31
ACGTcount: A:0.37, C:0.06, G:0.32, T:0.25
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:27170974 original size:35 final size:35
Alignment explanation
Indices: 27170935--27171128 Score: 122
Period size: 35 Copynumber: 5.3 Consensus size: 35
27170925 GAGCCCAACT
*
27170935 CTAGTTGGATATACCAACGATATTTGCGCCGAGCG
1 CTAGTTGGATATACCAACGATATTTGCGCCCAGCG
* * *
27170970 CTAGTCT-GATAAACCGAA-GAATAAATTGTGAGCCCAGCT
1 CTAGT-TGGATATACC-AACG-AT--ATT-TGCGCCCAGCG
*
27171009 CTAGTTGGATATACCAACGATATTTGCGCCCAGTG
1 CTAGTTGGATATACCAACGATATTTGCGCCCAGCG
** * * * * * *
27171044 CTAGCCGGATAAACTAAAGAATAAATAGTGAGCCCAGCT
1 CTAGTTGGATATACCAACG-AT--AT-TTGCGCCCAGCG
* * * *
27171083 CTAGTTGGATTTACCAACAATATTTGAGCTCAGCG
1 CTAGTTGGATATACCAACGATATTTGCGCCCAGCG
*
27171118 CTAGTCGGATA
1 CTAGTTGGATA
27171129 AACCGGTAAA
Statistics
Matches: 118, Mismatches: 29, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
35 53 0.45
36 12 0.10
38 12 0.10
39 41 0.35
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (35 bp):
CTAGTTGGATATACCAACGATATTTGCGCCCAGCG
Found at i:27171141 original size:74 final size:73
Alignment explanation
Indices: 27170884--27171146 Score: 330
Period size: 74 Copynumber: 3.5 Consensus size: 73
27170874 CTGACGGAAG
* ** * * *
27170884 TTGCGCCGAGCACTAGTAAGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTTGGATATAC
1 TTGCGCC-AGCGCTAGTCGGATAAACCGAAGAATAAATAGTGAGCCCAGCTCTAGTTGGATATAC
27170949 CAACGATAT
65 CAACGATAT
* *
27170958 TTGCGCCGAGCGCTAGTCTGATAAACCGAAGAATAAATTGTGAGCCCAGCTCTAGTTGGATATAC
1 TTGCGCC-AGCGCTAGTCGGATAAACCGAAGAATAAATAGTGAGCCCAGCTCTAGTTGGATATAC
27171023 CAACGATAT
65 CAACGATAT
* * ** *
27171032 TTGCGCCCAGTGCTAGCCGGATAAACTAAAGAATAAATAGTGAGCCCAGCTCTAGTTGGATTTAC
1 TTGCG-CCAGCGCTAGTCGGATAAACCGAAGAATAAATAGTGAGCCCAGCTCTAGTTGGATATAC
*
27171097 CAACAATAT
65 CAACGATAT
* *
27171106 TTGAGCTCAGCGCTAGTCGGATAAACCGGTA-AATAAATAGT
1 TTGCGC-CAGCGCTAGTCGGATAAACC-GAAGAATAAATAGT
27171147 TATTTATTTT
Statistics
Matches: 165, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
73 1 0.01
74 161 0.98
75 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (73 bp):
TTGCGCCAGCGCTAGTCGGATAAACCGAAGAATAAATAGTGAGCCCAGCTCTAGTTGGATATACC
AACGATAT
Found at i:27171594 original size:19 final size:19
Alignment explanation
Indices: 27171570--27171610 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27171560 AAAGAGTTGC
27171570 GAACTTACTTAGCATTAAA
1 GAACTTACTTAGCATTAAA
27171589 GAACTTACTTAGCATTAAA
1 GAACTTACTTAGCATTAAA
27171608 GAA
1 GAA
27171611 AATATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (19 bp):
GAACTTACTTAGCATTAAA
Found at i:27177623 original size:28 final size:28
Alignment explanation
Indices: 27177588--27177720 Score: 167
Period size: 28 Copynumber: 4.8 Consensus size: 28
27177578 ACATGTCAGA
27177588 AAAGAATAAGCCTTTGTGGTGAACTATG
1 AAAGAATAAGCCTTTGTGGTGAACTATG
* *
27177616 AAAGAATAAGCCTTTATGGAGAACTATG
1 AAAGAATAAGCCTTTGTGGTGAACTATG
** * * *
27177644 ACTGATTAAACCTTTGTGATGAACTATG
1 AAAGAATAAGCCTTTGTGGTGAACTATG
** **
27177672 AAAGAATAAGCCTTTGTGCCGAACTACA
1 AAAGAATAAGCCTTTGTGGTGAACTATG
27177700 AAAGAATAAGCCTTTGTGGTG
1 AAAGAATAAGCCTTTGTGGTG
27177721 GACTCCTTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (28 bp):
AAAGAATAAGCCTTTGTGGTGAACTATG
Found at i:27179442 original size:9 final size:9
Alignment explanation
Indices: 27179428--27179464 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27179418 TATAGTTTGA
27179428 TATTCGAAT
1 TATTCGAAT
27179437 TATTCGAAT
1 TATTCGAAT
*
27179446 TATTCGAGT
1 TATTCGAAT
27179455 TATTCGAAT
1 TATTCGAAT
27179464 T
1 T
27179465 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27179558 original size:14 final size:14
Alignment explanation
Indices: 27179515--27179562 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
27179505 ATTTTGAGTT
27179515 GATTCGAATAACTC
1 GATTCGAATAACTC
27179529 GATTAACTCGAATAACTC
1 GA-T---TCGAATAACTC
*
27179547 GATTCGATTAACTC
1 GATTCGAATAACTC
27179561 GA
1 GA
27179563 AATTCAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 14 0.48
15 1 0.03
17 1 0.03
18 13 0.45
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (14 bp):
GATTCGAATAACTC
Found at i:27179562 original size:9 final size:9
Alignment explanation
Indices: 27179518--27179548 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27179508 TTGAGTTGAT
27179518 TCGAATAAC
1 TCGAATAAC
*
27179527 TCGATTAAC
1 TCGAATAAC
27179536 TCGAATAAC
1 TCGAATAAC
27179545 TCGA
1 TCGA
27179549 TTCGATTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27185189 original size:26 final size:26
Alignment explanation
Indices: 27185159--27185279 Score: 161
Period size: 26 Copynumber: 4.7 Consensus size: 26
27185149 AACGCACTAA
*
27185159 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
27185185 TATCGCAGTAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
27185211 TATCGCAGTAAAGCTGTCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
27185237 TATTGCAGCAAAGCTGCCAATAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
**
27185263 TATCATAGCAAAGCTGC
1 TATCGCAGCAAAGCTGC
27185280 TTATAACACC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 85 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:27185195 original size:14 final size:14
Alignment explanation
Indices: 27185176--27185221 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27185166 GCAAAGCTGC
27185176 CAGTAATAGTATCG
1 CAGTAATAGTATCG
*
27185190 CAGTAA-AG-CT-G
1 CAGTAATAGTATCG
27185201 CCAGTAATAGTATCG
1 -CAGTAATAGTATCG
27185216 CAGTAA
1 CAGTAA
27185222 AGCTGTCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 1 0.04
12 7 0.27
13 4 0.15
14 13 0.50
15 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (14 bp):
CAGTAATAGTATCG
Found at i:27185440 original size:19 final size:18
Alignment explanation
Indices: 27185416--27185451 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27185406 ACGTATTAAA
27185416 CCGAATTACAAAATTTCAT
1 CCGAATTA-AAAATTTCAT
*
27185435 CCGAATTAAAACTTTCA
1 CCGAATTAAAAATTTCA
27185452 AATTTTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.31
Consensus pattern (18 bp):
CCGAATTAAAAATTTCAT
Found at i:27187963 original size:27 final size:27
Alignment explanation
Indices: 27187931--27188056 Score: 171
Period size: 27 Copynumber: 4.7 Consensus size: 27
27187921 TCATCTCCTA
**
27187931 GGGGTATAATAGTCATTTTACCCTATG
1 GGGGTATTTTAGTCATTTTACCCTATG
* **
27187958 GAGGTATTTTAGTCATTTTATTCTATG
1 GGGGTATTTTAGTCATTTTACCCTATG
27187985 GGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTTAGTCATTTTACCCTATG
* *
27188012 GGGGTATTTTGGTCATTTTACCCTATA
1 GGGGTATTTTAGTCATTTTACCCTATG
**
27188039 GGGGTATTTCGGTCATTT
1 GGGGTATTTTAGTCATTT
27188057 ATTGACCTCT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (27 bp):
GGGGTATTTTAGTCATTTTACCCTATG
Found at i:27194543 original size:16 final size:17
Alignment explanation
Indices: 27194510--27194543 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27194500 AATCAAAGTC
*
27194510 TCCCTACAGTTTTCAGT
1 TCCCTACAGTTCTCAGT
27194527 TCCCTACAG-TCTCAGT
1 TCCCTACAGTTCTCAGT
27194543 T
1 T
27194544 TACTCTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.32, G:0.12, T:0.38
Consensus pattern (17 bp):
TCCCTACAGTTCTCAGT
Found at i:27195299 original size:33 final size:33
Alignment explanation
Indices: 27195256--27195321 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
27195246 ACAAGCAATG
* *
27195256 ACAGTCTAGGCCTAAGCCCTATTCAGTAACAGT
1 ACAGTCTAGGCCTAAGCCCAATACAGTAACAGT
* *
27195289 ACAGTGTAGGCCTTAGCCCAATACAGTAACAGT
1 ACAGTCTAGGCCTAAGCCCAATACAGTAACAGT
27195322 GTGGGCCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (33 bp):
ACAGTCTAGGCCTAAGCCCAATACAGTAACAGT
Found at i:27196817 original size:20 final size:19
Alignment explanation
Indices: 27196794--27196858 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
27196784 AAGCTCAAAC
27196794 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
27196814 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
27196834 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
27196854 GAGCT
1 GAGCT
27196859 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:27197145 original size:26 final size:26
Alignment explanation
Indices: 27197114--27197215 Score: 107
Period size: 26 Copynumber: 3.9 Consensus size: 26
27197104 ACTAATATTA
*
27197114 CAGCAAAACTGCCAGTAATAGTATCG
1 CAGCAAAACTGCCAGTAACAGTATCG
* ***
27197140 TAGCAAATA-TTTAAGTAACAGTATCG
1 CAGCAAA-ACTGCCAGTAACAGTATCG
* * *
27197166 CAGTAAAGCTGCCAATAACAGTATCG
1 CAGCAAAACTGCCAGTAACAGTATCG
*
27197192 CAGCAAAGCTGCCAGTAACAGTAT
1 CAGCAAAACTGCCAGTAACAGTAT
27197216 ACTACCTCCA
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 59 0.98
27 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.22
Consensus pattern (26 bp):
CAGCAAAACTGCCAGTAACAGTATCG
Found at i:27197339 original size:25 final size:26
Alignment explanation
Indices: 27197303--27197352 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
27197293 AATCATAGTC
27197303 ATACATATCAT-AGAGCAA-ATCAGTT
1 ATACATATCATAAG-GCAATATCAGTT
27197328 ATACATCA-CATAAGGCAATATCAGT
1 ATACAT-ATCATAAGGCAATATCAGT
27197353 CATTTCATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (26 bp):
ATACATATCATAAGGCAATATCAGTT
Found at i:27197489 original size:53 final size:54
Alignment explanation
Indices: 27197408--27197518 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 54
27197398 TATTTCAAAT
* * * *
27197408 ATTTTACCTTATGGGGGTATTTCTATCATTTTACCCTAT-GGGGTATGTCGGTC
1 ATTTTACCCTATAGGGGTATTTCAATCATTTTAACCTATGGGGGTATGTCGGTC
* * * *
27197461 ATTTTACCCTATAGGGTTATTTGAATCATTTTAACCTATGGGGGTATTTCGGTT
1 ATTTTACCCTATAGGGGTATTTCAATCATTTTAACCTATGGGGGTATGTCGGTC
27197515 ATTT
1 ATTT
27197519 ATTGACCTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 33 0.67
54 16 0.33
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (54 bp):
ATTTTACCCTATAGGGGTATTTCAATCATTTTAACCTATGGGGGTATGTCGGTC
Found at i:27197518 original size:27 final size:27
Alignment explanation
Indices: 27197367--27197511 Score: 152
Period size: 27 Copynumber: 5.4 Consensus size: 27
27197357 TCATCTCTTA
*
27197367 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCGATCATTTTACCCTATG
* * * *
27197394 GTGATATTTCAAAT-ATTTTACCTTATG
1 GGGGTATTTC-GATCATTTTACCCTATG
*
27197421 GGGGTATTTCTATCATTTTACCCTAT-
1 GGGGTATTTCGATCATTTTACCCTATG
* * *
27197447 GGGGTATGTCGGTCATTTTACCCTATA
1 GGGGTATTTCGATCATTTTACCCTATG
* *
27197474 GGGTTATTT-GAATCATTTTAACCTATG
1 GGGGTATTTCG-ATCATTTTACCCTATG
27197501 GGGGTATTTCG
1 GGGGTATTTCG
27197512 GTTATTTATT
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
26 26 0.27
27 67 0.71
28 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCGATCATTTTACCCTATG
Found at i:27198465 original size:30 final size:34
Alignment explanation
Indices: 27198431--27198494 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
27198421 AAGGTAGAAA
*
27198431 TCAAAAAAAA-A-GA-AAGAG-AAGGATATTCGG
1 TCAAAAAAAAGAGGAGAAGAGAAAGGAGATTCGG
27198461 TCAAAAAAAAGAGGAGAAGAGAAAGGAGATTCGG
1 TCAAAAAAAAGAGGAGAAGAGAAAGGAGATTCGG
27198495 CCAACAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 10 0.34
31 1 0.03
32 2 0.07
33 5 0.17
34 11 0.38
ACGTcount: A:0.55, C:0.06, G:0.28, T:0.11
Consensus pattern (34 bp):
TCAAAAAAAAGAGGAGAAGAGAAAGGAGATTCGG
Found at i:27206852 original size:17 final size:17
Alignment explanation
Indices: 27206826--27206858 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27206816 TCTTCCTCTT
*
27206826 TCACTTACTATAAATCC
1 TCACTCACTATAAATCC
27206843 TCACTCACTATAAATC
1 TCACTCACTATAAATC
27206859 ATTTCCCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (17 bp):
TCACTCACTATAAATCC
Found at i:27208444 original size:24 final size:25
Alignment explanation
Indices: 27208391--27208444 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
27208381 AAAATTAAAA
* *
27208391 ATAAAAAGGTTCTAATGCACGATTT
1 ATAATAAGGTTCTAATGCAAGATTT
*
27208416 CTAATAAGGTT-TAAT-CAAGATTAT
1 ATAATAAGGTTCTAATGCAAGATT-T
27208440 ATAAT
1 ATAAT
27208445 TGTGTTGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 9 0.38
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (25 bp):
ATAATAAGGTTCTAATGCAAGATTT
Found at i:27209535 original size:864 final size:864
Alignment explanation
Indices: 27207867--27209596 Score: 3228
Period size: 864 Copynumber: 2.0 Consensus size: 864
27207857 CCAACAAGAC
27207867 AAGAAAGGTCAAAGCCAAAGCCGATAGTAGAGGAACAAACCTAAATGCAAATATATCATTATGGC
1 AAGAAAGGTCAAAGCCAAAGCCGATAGTAGAGGAACAAACCTAAATGCAAATATATCATTATGGC
27207932 ACAACCTGAAGGATGTCAAAAAAATGGTAAATTTCATCAACAACAGGCAGATCAAGATTGTCGAT
66 ACAACCTGAAGGATGTCAAAAAAATGGTAAATTTCATCAACAACAGGCAGATCAAGATTGTCGAT
27207997 ACAGTAGAAAGTATGGAGAAACCCCAGAATTTGTTTACTTATACTAGAGCCTGGAACAGTTCTAT
131 ACAGTAGAAAGTATGGAGAAACCCCAGAATTTGTTTACTTATACTAGAGCCTGGAACAGTTCTAT
*
27208062 TGTAGCCACATTAGGCCAACTGAGCCCATCCCTACTACTGGAATTCCAAGTGTTTCCACCAATCA
196 TGTAGCCACATTAGGCCAACTGAGCCCATCCCTACTACTGGAATTCCAAATGTTTCCACCAATCA
* *
27208127 CTCAAAATTATGACCTTTCTTCCTCAGATGAGGATTTAGAAGGCCGAGATAGATCAATGACATCC
261 CTCAAAATTATGACCTTTCTTCCTCAGATGACGACTTAGAAGGCCGAGATAGATCAATGACATCC
*
27208192 TGGAACGACAAAAATTTGCAAGCGTACATAATCGCAACAAGTAATAAAATGACGAGTAAATGTCG
326 TGGAACGACAAAAATTTGCAAGCGTACACAATCGCAACAAGTAATAAAATGACGAGTAAATGTCG
27208257 AGTTATCGTACCCACAGGGACTATAAAAAGGAATATTTATGAAATTAATGTTAAAACACTTTGGT
391 AGTTATCGTACCCACAGGGACTATAAAAAGGAATATTTATGAAATTAATGTTAAAACACTTTGGT
*
27208322 GATGGAAAATATTTTGGTTTAAAGATGATTAAAAACTAAGGGTTAAAAACTAAGTAAAAAAAATT
456 GATGGAAAATATTTTGGTTTAAAGATGATTAAAAACTAAAGGTTAAAAACTAAGTAAAAAAAATT
* * *
27208387 AAAAATAAAAAGGTTCTAATGCACGATTTCTAATAAGGTTTAATCAAGATTATATAATTGTGTTG
521 AAAAATAAAAAGGTTCTAATGCACGATTTCAAATAAGGTTTAATCAAGATGAAATAATTGTGTTG
* * *
27208452 GATTAATTGCATTCTTTTAACTTAGAATTATTAAACTTATGTTTATACTGCTACGAATAAATTCA
586 GATTAATTACATTCCTTTAACTTAGAATTATTAAACTTATGTTTATACTGCTACGAACAAATTCA
* * *
27208517 CGGCAACTCCATAATTTGCTAACTACTGCTCATACATATTTTTTAGATTAATCAATCTCTTGAAC
651 CGGCAACTCCATAATTTGCTAACTACTGCTCATACATACTTATTAAATTAATCAATCTCTTGAAC
27208582 ATTTTTCAATGTCAATCCAAGCGATTAATCAATCTTCACAAGCATATAAAAGATCAAGTGAGGTA
716 ATTTTTCAATGTCAATCCAAGCGATTAATCAATCTTCACAAGCATATAAAAGATCAAGTGAGGTA
27208647 ACAGAGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGT
781 ACAGAGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGT
27208712 ATCGCCAAATACAATGCTA
846 ATCGCCAAATACAATGCTA
*
27208731 AAGAAAGGTCAAAGCCAAAGCCGATAGTAGAGGAACAAACCTAAATGCAAATCTATCATTATGGC
1 AAGAAAGGTCAAAGCCAAAGCCGATAGTAGAGGAACAAACCTAAATGCAAATATATCATTATGGC
27208796 ACAACCTGAAGGATGTCAAAAAAATGGTAAATTTCATCAACAACAGGCAGATCAAGATTGTCGAT
66 ACAACCTGAAGGATGTCAAAAAAATGGTAAATTTCATCAACAACAGGCAGATCAAGATTGTCGAT
*
27208861 ACAGTAGAAAGTATGGAGAAATCCCAGAATTTGTTTACTTATACTAGAGCCTGGAACAGTTCTAT
131 ACAGTAGAAAGTATGGAGAAACCCCAGAATTTGTTTACTTATACTAGAGCCTGGAACAGTTCTAT
27208926 TGTAGCCACATTAGGCCAACTGAGCCCATCCCTACTACTGGAATTCCAAATGTTTCCACCAATCA
196 TGTAGCCACATTAGGCCAACTGAGCCCATCCCTACTACTGGAATTCCAAATGTTTCCACCAATCA
*
27208991 CTCAAAATTATGACCTTTCTTCCTCAGATGACGACTTAGAAGGCCGAGATAGATCGATGACATCC
261 CTCAAAATTATGACCTTTCTTCCTCAGATGACGACTTAGAAGGCCGAGATAGATCAATGACATCC
27209056 TGGAACGACAAAAATTTGCAAGCGTACACAATCGCAACAAGTAATAAAATGACGAGTAAATGTCG
326 TGGAACGACAAAAATTTGCAAGCGTACACAATCGCAACAAGTAATAAAATGACGAGTAAATGTCG
27209121 AGTTATCGTACCCACAGGGACTATAAAAAGGAATATTTATGAAATTAATGTTAAAACACTTTGGT
391 AGTTATCGTACCCACAGGGACTATAAAAAGGAATATTTATGAAATTAATGTTAAAACACTTTGGT
*
27209186 GATGGAAAATATTTTGGTTTAAAGATGATTAAAAACTAAAGGTTAAAAACTAAGTAAAAAACATT
456 GATGGAAAATATTTTGGTTTAAAGATGATTAAAAACTAAAGGTTAAAAACTAAGTAAAAAAAATT
27209251 AAAAATAAAAAGGTTCTAATGCACGATTTCAAATAAGGTTTAATCAAGATGAAATAATTGTGTTG
521 AAAAATAAAAAGGTTCTAATGCACGATTTCAAATAAGGTTTAATCAAGATGAAATAATTGTGTTG
* *
27209316 GATTAATTACATTCCTTTAACTTTGAATTATTAAACTTATGTTTATACTGCTACGACCAAATTCA
586 GATTAATTACATTCCTTTAACTTAGAATTATTAAACTTATGTTTATACTGCTACGAACAAATTCA
* *
27209381 CGGTAACT-TAGTAATTTGCTAACTACTGCTCATACATACTTATTAAATTAATCAATCTCTTGAA
651 CGGCAACTCCA-TAATTTGCTAACTACTGCTCATACATACTTATTAAATTAATCAATCTCTTGAA
* *
27209445 CATTTTTCAATGTCAATCCAAGGGATTAATCAATCTTTACAAGCATATAAAAGATCAAGTGAGGT
715 CATTTTTCAATGTCAATCCAAGCGATTAATCAATCTTCACAAGCATATAAAAGATCAAGTGAGGT
27209510 AACAGAGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATG
780 AACAGAGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATG
27209575 TATCGCCAAATACAATGCTA
845 TATCGCCAAATACAATGCTA
27209595 AA
1 AA
27209597 TTAATTCCAG
Statistics
Matches: 841, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
863 1 0.00
864 840 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (864 bp):
AAGAAAGGTCAAAGCCAAAGCCGATAGTAGAGGAACAAACCTAAATGCAAATATATCATTATGGC
ACAACCTGAAGGATGTCAAAAAAATGGTAAATTTCATCAACAACAGGCAGATCAAGATTGTCGAT
ACAGTAGAAAGTATGGAGAAACCCCAGAATTTGTTTACTTATACTAGAGCCTGGAACAGTTCTAT
TGTAGCCACATTAGGCCAACTGAGCCCATCCCTACTACTGGAATTCCAAATGTTTCCACCAATCA
CTCAAAATTATGACCTTTCTTCCTCAGATGACGACTTAGAAGGCCGAGATAGATCAATGACATCC
TGGAACGACAAAAATTTGCAAGCGTACACAATCGCAACAAGTAATAAAATGACGAGTAAATGTCG
AGTTATCGTACCCACAGGGACTATAAAAAGGAATATTTATGAAATTAATGTTAAAACACTTTGGT
GATGGAAAATATTTTGGTTTAAAGATGATTAAAAACTAAAGGTTAAAAACTAAGTAAAAAAAATT
AAAAATAAAAAGGTTCTAATGCACGATTTCAAATAAGGTTTAATCAAGATGAAATAATTGTGTTG
GATTAATTACATTCCTTTAACTTAGAATTATTAAACTTATGTTTATACTGCTACGAACAAATTCA
CGGCAACTCCATAATTTGCTAACTACTGCTCATACATACTTATTAAATTAATCAATCTCTTGAAC
ATTTTTCAATGTCAATCCAAGCGATTAATCAATCTTCACAAGCATATAAAAGATCAAGTGAGGTA
ACAGAGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGT
ATCGCCAAATACAATGCTA
Found at i:27210797 original size:19 final size:20
Alignment explanation
Indices: 27210753--27210802 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
27210743 ATCATGTTCA
27210753 TATTTTTAACATAATTTAAT
1 TATTTTTAACATAATTTAAT
*
27210773 T-GTTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
27210791 TATTTTTCAACA
1 TATTTTT-AACA
27210803 AGAAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
18 8 0.33
19 12 0.50
20 4 0.17
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:27219124 original size:11 final size:11
Alignment explanation
Indices: 27219105--27219138 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27219095 GGAGTAAGTC
*
27219105 ATTGTAAAAAA
1 ATTGAAAAAAA
27219116 ATTGAAAAAAA
1 ATTGAAAAAAA
*
27219127 TTTGAAAAAAA
1 ATTGAAAAAAA
27219138 A
1 A
27219139 ATTCAAGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (11 bp):
ATTGAAAAAAA
Found at i:27224229 original size:34 final size:34
Alignment explanation
Indices: 27224191--27224266 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
27224181 GTCCAGAAAC
27224191 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
27224225 AAATTAATTACTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
27224259 AAGTTAAT
1 AAATTAAT
27224267 AAACTAACTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:27226209 original size:36 final size:36
Alignment explanation
Indices: 27226169--27226247 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
27226159 TTTTCTCCCA
27226169 CTTTTTCGATTTCT-TTT-TTGCTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTATTTCTT--TTGCAATTTCTTTTT
* * *
27226205 CTTTTTCGTTTTCTATTTCTTTTTCACTTTCTTTTT
1 CTTTTTCGATTTCTATTTCTTTTGCAATTTCTTTTT
27226241 CTTTTTC
1 CTTTTTC
27226248 TTCCTCTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 33 0.87
37 3 0.08
38 2 0.05
ACGTcount: A:0.06, C:0.19, G:0.05, T:0.70
Consensus pattern (36 bp):
CTTTTTCGATTTCTATTTCTTTTGCAATTTCTTTTT
Found at i:27226216 original size:7 final size:6
Alignment explanation
Indices: 27226196--27226249 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
27226186 TTGCTTGCAA
* * **
27226196 TTTCTT TTTCTT TTTCGT TTTCTA TTTCTT TTTCAC TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
27226244 TTTCTT
1 TTTCTT
27226250 CCTCTTTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:27227633 original size:20 final size:21
Alignment explanation
Indices: 27227608--27227663 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
27227598 TGAACTAATT
27227608 TGAGCTAG-GAAATTCGGTCA
1 TGAGCTAGTGAAATTCGGTCA
27227628 TGAGCT-GTGAAATTCGGTCA
1 TGAGCTAGTGAAATTCGGTCA
*
27227648 TGAGCTATATGAAATT
1 TGAGCTA-GTGAAATT
27227664 GAATAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 24 0.75
22 7 0.22
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.30
Consensus pattern (21 bp):
TGAGCTAGTGAAATTCGGTCA
Found at i:27227755 original size:10 final size:10
Alignment explanation
Indices: 27227711--27227766 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
27227701 TAAAAGAAAC
27227711 GAGCTGAAAAT
1 GAGCT-AAAAT
* * *
27227722 AAGGTAAATT
1 GAGCTAAAAT
* *
27227732 GAGCTCAAAC
1 GAGCTAAAAT
27227742 GAGCTAAAAT
1 GAGCTAAAAT
27227752 GAGCTAAAAT
1 GAGCTAAAAT
27227762 GAGCT
1 GAGCT
27227767 TATTTGAGCT
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 32 0.91
11 3 0.09
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (10 bp):
GAGCTAAAAT
Found at i:27227765 original size:30 final size:31
Alignment explanation
Indices: 27227707--27227766 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
27227697 ATGATAAAAG
* *
27227707 AAACGAGCTGAAAATAAGGTAAATTGAGCTC
1 AAACGAGCTGAAAATAAGCTAAAATGAGCTC
*
27227738 AAACGAGCT-AAAATGAGCTAAAATGAGCT
1 AAACGAGCTGAAAATAAGCTAAAATGAGCT
27227767 TATTTGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.18
Consensus pattern (31 bp):
AAACGAGCTGAAAATAAGCTAAAATGAGCTC
Found at i:27228749 original size:17 final size:18
Alignment explanation
Indices: 27228712--27228752 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
27228702 CTTTTCACTT
*
27228712 TTTTC-TTTTTTTTATAC
1 TTTTCGTTTTTTTTATAA
27228729 TTTTCGTTTTTTTT-TAA
1 TTTTCGTTTTTTTTATAA
27228746 TTTTCGT
1 TTTTCGT
27228753 AACTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTCGTTTTTTTTATAA
Found at i:27230304 original size:34 final size:34
Alignment explanation
Indices: 27230266--27230341 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
27230256 AGATTTAAAC
*
27230266 AAATTAATTACTAACACTTTTTTAAGCTAAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
* *
27230300 AAATTAATTACTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
*
27230334 AAGTTAAT
1 AAATTAAT
27230342 AAACTAACTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTAAACTA
Found at i:27234345 original size:25 final size:25
Alignment explanation
Indices: 27234315--27234385 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
27234305 CAGCTTGAAT
27234315 GAGCTTACCGTTATTCAACTCGGAG
1 GAGCTTACCGTTATTCAACTCGGAG
* *
27234340 GAGCTTACCATTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAACTCGGAG
* *
27234365 GACCTTACCGTT-TACAACTCG
1 GAGCTTACCGTTATTCAACTCG
27234386 TATGAGCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAACTCGGAG
Found at i:27234502 original size:9 final size:9
Alignment explanation
Indices: 27234488--27234512 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27234478 GTACAGGTAT
27234488 TTACATGAA
1 TTACATGAA
27234497 TTACATGAA
1 TTACATGAA
27234506 TTACATG
1 TTACATG
27234513 GAAATGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (9 bp):
TTACATGAA
Found at i:27237188 original size:11 final size:11
Alignment explanation
Indices: 27237172--27237197 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27237162 AAAAATTAGG
27237172 AATAAAATAAT
1 AATAAAATAAT
27237183 AATAAAATAAT
1 AATAAAATAAT
27237194 AATA
1 AATA
27237198 GCTGATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:27239415 original size:13 final size:13
Alignment explanation
Indices: 27239397--27239425 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27239387 CATCGAACAC
27239397 TGTGTGCTCTTCG
1 TGTGTGCTCTTCG
27239410 TGTGTGCTCTTCG
1 TGTGTGCTCTTCG
27239423 TGT
1 TGT
27239426 CTCCTCATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.31, T:0.48
Consensus pattern (13 bp):
TGTGTGCTCTTCG
Found at i:27253885 original size:11 final size:12
Alignment explanation
Indices: 27253859--27253890 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
27253849 TGTGATATAT
*
27253859 AAAACAAGTTCA
1 AAAAAAAGTTCA
27253871 AAAAAAAGTTCA
1 AAAAAAAGTTCA
27253883 AAAAAAAG
1 AAAAAAAG
27253891 GTTGTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.12
Consensus pattern (12 bp):
AAAAAAAGTTCA
Found at i:27253993 original size:11 final size:10
Alignment explanation
Indices: 27253959--27253992 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
27253949 GAAGAAGAGG
27253959 AAATTCGAAAA
1 AAATTC-AAAA
27253970 AAATTCAAAA
1 AAATTCAAAA
27253980 AAATTCAAAA
1 AAATTCAAAA
27253990 AAA
1 AAA
27253993 AAGAGTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (10 bp):
AAATTCAAAA
Found at i:27255078 original size:11 final size:12
Alignment explanation
Indices: 27255052--27255083 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
27255042 TGTGATATAT
*
27255052 AAAACAAGTTCA
1 AAAAAAAGTTCA
27255064 AAAAAAAGTTCA
1 AAAAAAAGTTCA
27255076 AAAAAAAG
1 AAAAAAAG
27255084 GTTGTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.12
Consensus pattern (12 bp):
AAAAAAAGTTCA
Found at i:27255186 original size:11 final size:10
Alignment explanation
Indices: 27255152--27255185 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
27255142 GAAGAAGAGG
27255152 AAATTCGAAAA
1 AAATTC-AAAA
27255163 AAATTCAAAA
1 AAATTCAAAA
27255173 AAATTCAAAA
1 AAATTCAAAA
27255183 AAA
1 AAA
27255186 AAGAGTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (10 bp):
AAATTCAAAA
Found at i:27259685 original size:14 final size:15
Alignment explanation
Indices: 27259661--27259689 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27259651 TATTTTAATC
27259661 TTAATATTGATTTTT
1 TTAATATTGATTTTT
27259676 TTAATA-TGATTTTT
1 TTAATATTGATTTTT
27259690 AATAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATATTGATTTTT
Found at i:27259972 original size:34 final size:34
Alignment explanation
Indices: 27259934--27260172 Score: 246
Period size: 34 Copynumber: 7.0 Consensus size: 34
27259924 TGTTATGAAA
*
27259934 TATTGGCATTGTGGCAGGATGTTAAATGAATGAG
1 TATTGGCATTGTGGCAGGATATTAAATGAATGAG
** *
27259968 TATTGGCATTGTGGTGGGATATTATATGAATGAG
1 TATTGGCATTGTGGCAGGATATTAAATGAATGAG
* * *
27260002 TATTGGCTTTGTGGTAGGATGTTAAATGAATGAG
1 TATTGGCATTGTGGCAGGATATTAAATGAATGAG
** * *
27260036 TATTGGCATTGTCACGGGATGTTAAATGAATGAG
1 TATTGGCATTGTGGCAGGATATTAAATGAATGAG
* *
27260070 TATTGGCATTGTGGCAGGATATCAAATGGATGAG
1 TATTGGCATTGTGGCAGGATATTAAATGAATGAG
* ** * * *
27260104 TATTAGTGTTATGGCAAGATATTAAGTGAATGAGG
1 TATTGGCATTGTGGCAGGATATTAAATGAATGA-G
* * * *
27260139 TATTGTCGTCGTGGC-GAGATATTAATTGAATGAG
1 TATTGGCATTGTGGCAG-GATATTAAATGAATGAG
27260173 GTAAACGAAT
Statistics
Matches: 169, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
34 143 0.85
35 26 0.15
ACGTcount: A:0.29, C:0.06, G:0.31, T:0.34
Consensus pattern (34 bp):
TATTGGCATTGTGGCAGGATATTAAATGAATGAG
Found at i:27260134 original size:102 final size:103
Alignment explanation
Indices: 27259934--27260143 Score: 271
Period size: 102 Copynumber: 2.0 Consensus size: 103
27259924 TGTTATGAAA
** ** * *
27259934 TATTGGCATTGTGGCAGGATGTTAAATGAATGAGTATTGGCATTGTGGTGGGATATTATATGAAT
1 TATTGGCATTGTCACAGGATGTTAAATGAATGAGTATTGGCATTGTGGCAGGATATCAAATGAAT
* * * * *
27259999 GAGTATTGGCTTTGTGGTAGGATGTTAAATGAATGA-G
66 GAGTATTAGCTTTATGGCAAGATATTAAATGAATGAGG
* *
27260036 TATTGGCATTGTCACGGGATGTTAAATGAATGAGTATTGGCATTGTGGCAGGATATCAAATGGAT
1 TATTGGCATTGTCACAGGATGTTAAATGAATGAGTATTGGCATTGTGGCAGGATATCAAATGAAT
*
27260101 GAGTATTAG-TGTTATGGCAAGATATTAAGTGAATGAGG
66 GAGTATTAGCT-TTATGGCAAGATATTAAATGAATGAGG
27260139 TATTG
1 TATTG
27260144 TCGTCGTGGC
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 1 0.01
102 85 0.92
103 6 0.07
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.35
Consensus pattern (103 bp):
TATTGGCATTGTCACAGGATGTTAAATGAATGAGTATTGGCATTGTGGCAGGATATCAAATGAAT
GAGTATTAGCTTTATGGCAAGATATTAAATGAATGAGG
Found at i:27261286 original size:25 final size:27
Alignment explanation
Indices: 27261233--27261287 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
27261223 TCGGTTTGAG
* *
27261233 TTAATAATATTCTCTTTAAGTTTTTTT
1 TTAAGAATATTCTCTTTAAGTTTTCTT
*
27261260 TTAAGAAT-TTCTC-TTGAGTTTTCTT
1 TTAAGAATATTCTCTTTAAGTTTTCTT
27261285 TTA
1 TTA
27261288 GAAGAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.52
26 5 0.20
27 7 0.28
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (27 bp):
TTAAGAATATTCTCTTTAAGTTTTCTT
Found at i:27263498 original size:17 final size:17
Alignment explanation
Indices: 27263476--27263509 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27263466 CCAAAGACAT
27263476 GTCATTTGTATCCTAAG
1 GTCATTTGTATCCTAAG
27263493 GTCATTTGTATCCTAAG
1 GTCATTTGTATCCTAAG
27263510 TATTCACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (17 bp):
GTCATTTGTATCCTAAG
Found at i:27278714 original size:175 final size:175
Alignment explanation
Indices: 27278504--27278853 Score: 700
Period size: 175 Copynumber: 2.0 Consensus size: 175
27278494 TTTTATTTAA
27278504 CTCATTTTAGTTATTTAATTGCTGGAATAAATGTTTATCTTAGTTTATTTAATTGCTGGAATAAG
1 CTCATTTTAGTTATTTAATTGCTGGAATAAATGTTTATCTTAGTTTATTTAATTGCTGGAATAAG
27278569 TTAAGTGTTCAATGTCTTTTGTGTTTAATATGAGTTTAAATGTGATTAATGTGTTTGTTTTAATG
66 TTAAGTGTTCAATGTCTTTTGTGTTTAATATGAGTTTAAATGTGATTAATGTGTTTGTTTTAATG
27278634 TGTTTGATTGTAGATGTCTTTTCAGCTGGAAACTGTTACATTCAG
131 TGTTTGATTGTAGATGTCTTTTCAGCTGGAAACTGTTACATTCAG
27278679 CTCATTTTAGTTATTTAATTGCTGGAATAAATGTTTATCTTAGTTTATTTAATTGCTGGAATAAG
1 CTCATTTTAGTTATTTAATTGCTGGAATAAATGTTTATCTTAGTTTATTTAATTGCTGGAATAAG
27278744 TTAAGTGTTCAATGTCTTTTGTGTTTAATATGAGTTTAAATGTGATTAATGTGTTTGTTTTAATG
66 TTAAGTGTTCAATGTCTTTTGTGTTTAATATGAGTTTAAATGTGATTAATGTGTTTGTTTTAATG
27278809 TGTTTGATTGTAGATGTCTTTTCAGCTGGAAACTGTTACATTCAG
131 TGTTTGATTGTAGATGTCTTTTCAGCTGGAAACTGTTACATTCAG
27278854 GGGCTGTTAC
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 175 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (175 bp):
CTCATTTTAGTTATTTAATTGCTGGAATAAATGTTTATCTTAGTTTATTTAATTGCTGGAATAAG
TTAAGTGTTCAATGTCTTTTGTGTTTAATATGAGTTTAAATGTGATTAATGTGTTTGTTTTAATG
TGTTTGATTGTAGATGTCTTTTCAGCTGGAAACTGTTACATTCAG
Found at i:27282010 original size:23 final size:24
Alignment explanation
Indices: 27281984--27282045 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
27281974 AGTTACATAC
*
27281984 AAAGGAAGCATTATATATC-ATTT
1 AAAGGAAGCATTATATATCAATTA
27282007 AAAGG-AG--TTATTATATCAATTA
1 AAAGGAAGCATTA-TATATCAATTA
27282029 AATAGGAGAGCATTATA
1 AA-AGGA-AGCATTATA
27282046 CCTCCTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
20 3 0.10
21 6 0.19
22 7 0.23
23 8 0.26
25 2 0.06
26 2 0.06
27 3 0.10
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (24 bp):
AAAGGAAGCATTATATATCAATTA
Found at i:27289499 original size:51 final size:49
Alignment explanation
Indices: 27289444--27289586 Score: 162
Period size: 51 Copynumber: 2.9 Consensus size: 49
27289434 CAAAACACCA
* * *
27289444 TTTGTGGACAAACCACCACTGATTTGCAGATAAATCGCCACTTATAACACT
1 TTTGTGGACAAGCCACCACTGATTTGCAGATATATCGCCACTGATAA-A-T
* ** *
27289495 TTTGTGGACAAGCCACCACTAAGATGTAGATATA-CTGCCACTGATAAAT
1 TTTGTGGACAAGCCACCACTGATTTGCAGATATATC-GCCACTGATAAAT
* * *
27289544 TTTGTGGACAAGCCACCATTGATTTGCAAATATATTGCCACTG
1 TTTGTGGACAAGCCACCACTGATTTGCAGATATATCGCCACTG
27289587 CTTTCACATT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
49 36 0.47
50 2 0.03
51 38 0.50
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTGATTTGCAGATATATCGCCACTGATAAAT
Found at i:27289577 original size:49 final size:51
Alignment explanation
Indices: 27289444--27289586 Score: 166
Period size: 49 Copynumber: 2.8 Consensus size: 51
27289434 CAAAACACCA
* *
27289444 TTTGTGGACAAACCACCACTGATTTGCAGATA-AATCGCCACTTATAACACT
1 TTTGTGGACAAGCCACCACTGATTTGCAGATATAAT-GCCACTGATAACACT
* ** * *
27289495 TTTGTGGACAAGCCACCACTAAGATGTAGATATACTGCCACTGATAA-A-T
1 TTTGTGGACAAGCCACCACTGATTTGCAGATATAATGCCACTGATAACACT
* * *
27289544 TTTGTGGACAAGCCACCATTGATTTGCAAATATATTGCCACTG
1 TTTGTGGACAAGCCACCACTGATTTGCAGATATAATGCCACTG
27289587 CTTTCACATT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 37 0.48
50 1 0.01
51 37 0.48
52 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (51 bp):
TTTGTGGACAAGCCACCACTGATTTGCAGATATAATGCCACTGATAACACT
Found at i:27293316 original size:25 final size:25
Alignment explanation
Indices: 27293288--27293351 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
27293278 TATTGTATAA
*
27293288 TTTTATTCCTAGTTTTAGTCTTTAG
1 TTTTATTCCTAGTTTTAGGCTTTAG
*
27293313 TTTT-TTCTCT-TTTTTAGGCTTTAG
1 TTTTATTC-CTAGTTTTAGGCTTTAG
* *
27293337 GTTTATTTC-AGTTTT
1 TTTTATTCCTAGTTTT
27293352 GTTCTTTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.12, C:0.11, G:0.12, T:0.64
Consensus pattern (25 bp):
TTTTATTCCTAGTTTTAGGCTTTAG
Found at i:27300702 original size:23 final size:24
Alignment explanation
Indices: 27300660--27300707 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27300650 TGGCGGGTAC
27300660 TGAAATCATTAAAAAGCCATCTAT
1 TGAAATCATTAAAAAGCCATCTAT
27300684 TGAAATCATTAAAAA-CCATCTAT
1 TGAAATCATTAAAAAGCCATCTAT
27300707 T
1 T
27300708 AATTTGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (24 bp):
TGAAATCATTAAAAAGCCATCTAT
Found at i:27304040 original size:32 final size:31
Alignment explanation
Indices: 27303984--27304044 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
27303974 AATGTGTATG
27303984 AAAAAGTTTATCAAAAAGATACTTGTTTATC
1 AAAAAGTTTATCAAAAAGATACTTGTTTATC
* *
27304015 AAAAATTTTATTAAATAAGATACTTGTTTA
1 AAAAAGTTTATCAAA-AAGATACTTGTTTA
27304045 ACCAAGGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (31 bp):
AAAAAGTTTATCAAAAAGATACTTGTTTATC
Found at i:27304605 original size:23 final size:24
Alignment explanation
Indices: 27304579--27304623 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
27304569 GATAAGTATA
*
27304579 TTTTCTAT-TCTGTT-TTTTTAGG
1 TTTTTTATGTCTGTTGTTTTTAGG
*
27304601 TTTTTTATGTCTTTTGTTTTTAG
1 TTTTTTATGTCTGTTGTTTTTAG
27304624 AATACGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 5 0.26
24 7 0.37
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.71
Consensus pattern (24 bp):
TTTTTTATGTCTGTTGTTTTTAGG
Found at i:27316510 original size:106 final size:106
Alignment explanation
Indices: 27316340--27316548 Score: 375
Period size: 106 Copynumber: 2.0 Consensus size: 106
27316330 GTAAAGTAAG
*
27316340 AGAAAGATAACCACATAAGCAATAAATGCTTAGTAAGCTCATATAAACCATAAGCATAATATTAC
1 AGAAAGATAACCACATAAACAATAAATGCTTAGTAAGCTCATATAAACCATAAGCATAATATTAC
*
27316405 ATTTCAATAATGAAATTTATAGGTTAAATATAAACCTATAT
66 ATTTCAATAATGAAATTTAAAGGTTAAATATAAACCTATAT
*
27316446 AGAAAGATAACCACATAAACAGTAAATGCTTAGTAAGCT-AGTATAAACCATAAGCATAATATTA
1 AGAAAGATAACCACATAAACAATAAATGCTTAGTAAGCTCA-TATAAACCATAAGCATAATATTA
27316510 CATTTCAATAATGAAATTTAAAGGTTAAATATAAACCTA
65 CATTTCAATAATGAAATTTAAAGGTTAAATATAAACCTA
27316549 CACCAATGTC
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 1 0.01
106 98 0.99
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (106 bp):
AGAAAGATAACCACATAAACAATAAATGCTTAGTAAGCTCATATAAACCATAAGCATAATATTAC
ATTTCAATAATGAAATTTAAAGGTTAAATATAAACCTATAT
Found at i:27316546 original size:52 final size:52
Alignment explanation
Indices: 27316380--27316546 Score: 146
Period size: 52 Copynumber: 3.2 Consensus size: 52
27316370 TAGTAAGCTC
*
27316380 ATATAAACCATAAGCATAATATTACATTTCAATAATGAAATTTATAGGTTAA
1 ATATAAACCATAAGCATAATATTACATTTCAATAATGAAATTTAAAGGTTAA
* * ** * * * *
27316432 ATATAAACCTATATAG-A-AAGATAACCACATAAACAGT-AAATGCTTAGTAA-GCT-A
1 ATATAAACC-ATA-AGCATAATATTA-CATTTCAATAATGAAAT--TTA--AAGGTTAA
*
27316486 GTATAAACCATAAGCATAATATTACATTTCAATAATGAAATTTAAAGGTTAA
1 ATATAAACCATAAGCATAATATTACATTTCAATAATGAAATTTAAAGGTTAA
27316538 ATATAAACC
1 ATATAAACC
27316547 TACACCAATG
Statistics
Matches: 84, Mismatches: 19, Indels: 24
0.66 0.15 0.19
Matches are distributed among these distances:
50 2 0.02
51 2 0.02
52 32 0.38
53 22 0.26
54 23 0.27
55 2 0.02
56 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (52 bp):
ATATAAACCATAAGCATAATATTACATTTCAATAATGAAATTTAAAGGTTAA
Found at i:27317257 original size:26 final size:26
Alignment explanation
Indices: 27317188--27317257 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
27317178 CGGTACATAT
* *
27317188 ATGCTCACACGAGCTATGAAATGAGT
1 ATGCTCACACGAGCTGTGAAATGAGC
* * * *
27317214 ATTCTTACACAAGCTGTGAAATGGGC
1 ATGCTCACACGAGCTGTGAAATGAGC
*
27317240 ATGCTCACACGAGTTGTG
1 ATGCTCACACGAGCTGTG
27317258 GGTCGAAACG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (26 bp):
ATGCTCACACGAGCTGTGAAATGAGC
Found at i:27319684 original size:18 final size:19
Alignment explanation
Indices: 27319639--27319687 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
27319629 GAATATTTAC
*
27319639 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
27319659 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
27319677 ATAAAAATAAA
1 ATAAAAATAAA
27319688 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:27321292 original size:17 final size:18
Alignment explanation
Indices: 27321270--27321304 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27321260 CTCTCATTCC
27321270 GTGTTT-GGCGAGCTCTT
1 GTGTTTCGGCGAGCTCTT
*
27321287 GTGTTTCGGTGAGCTCTT
1 GTGTTTCGGCGAGCTCTT
27321305 CCGTGCGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.06, C:0.17, G:0.34, T:0.43
Consensus pattern (18 bp):
GTGTTTCGGCGAGCTCTT
Found at i:27322364 original size:11 final size:11
Alignment explanation
Indices: 27322331--27322394 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
27322321 TGTATCGCAA
27322331 ACCAAATCACC
1 ACCAAATCACC
*
27322342 ACCCAA-CAACC
1 ACCAAATC-ACC
27322353 ACCAAATCACC
1 ACCAAATCACC
**
27322364 ACCCTATCACC
1 ACCAAATCACC
*
27322375 ACCAAACCACC
1 ACCAAATCACC
*
27322386 ACCACATCA
1 ACCAAATCA
27322395 AAACCGTACC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
10 1 0.02
11 40 0.95
12 1 0.02
ACGTcount: A:0.42, C:0.50, G:0.00, T:0.08
Consensus pattern (11 bp):
ACCAAATCACC
Found at i:27322394 original size:22 final size:21
Alignment explanation
Indices: 27322331--27322394 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 21
27322321 TGTATCGCAA
*
27322331 ACCAAATCACCACCCAACAACC
1 ACCAAATCACCACCCATC-ACC
27322353 ACCAAATCACCACCCTATCACC
1 ACCAAATCACCACCC-ATCACC
*
27322375 ACCAAACCACCACCACATCA
1 ACCAAATCACCACC-CATCA
27322395 AAACCGTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 35 0.92
23 3 0.08
ACGTcount: A:0.42, C:0.50, G:0.00, T:0.08
Consensus pattern (21 bp):
ACCAAATCACCACCCATCACC
Found at i:27323059 original size:19 final size:19
Alignment explanation
Indices: 27323035--27323076 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
27323025 ACTTGATTTT
27323035 TATTA-TATGATGTGACAAA
1 TATTATTATGAT-TGACAAA
*
27323054 TATTATTATGATTGATAAA
1 TATTATTATGATTGACAAA
27323073 TATT
1 TATT
27323077 TTCTAATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (19 bp):
TATTATTATGATTGACAAA
Found at i:27326732 original size:27 final size:27
Alignment explanation
Indices: 27326679--27326763 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
27326669 AATAGGCCAC
* *
27326679 AAATTACCGAAATACCTTCAAAGGGTA
1 AAATTACCAAAATACCCTCAAAGGGTA
*
27326706 AAATTACCAAAATACCCCTGAAA-GGTA
1 AAATTACCAAAATA-CCCTCAAAGGGTA
* * * * *
27326733 AAATAATCGAATTACCCCCAAAGGGTA
1 AAATTACCAAAATACCCTCAAAGGGTA
27326760 AAAT
1 AAAT
27326764 GACTGAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 6 0.13
27 35 0.74
28 6 0.13
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAAAGGGTA
Found at i:27326778 original size:27 final size:25
Alignment explanation
Indices: 27326687--27326794 Score: 74
Period size: 27 Copynumber: 4.0 Consensus size: 25
27326677 ACAAATTACC
* * *
27326687 GAAATACCTTCAAAGGGTAAAATTACC
1 GAAATACC-CCAAA-GGTAAAATGACT
* *
27326714 AAAATACCCCTGAAAGGTAAAAT-AAT
1 GAAATACCCC--AAAGGTAAAATGACT
*
27326740 CGAATTACCCCCAAAGGGTAAAATGACT
1 -GAAATA-CCCCAAA-GGTAAAATGACT
27326768 GAAATATCCCCATAAGGTAAAATGACT
1 GAAATA-CCCCA-AAGGTAAAATGACT
27326795 ATTATACCCC
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
26 5 0.08
27 49 0.75
28 11 0.17
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.20
Consensus pattern (25 bp):
GAAATACCCCAAAGGTAAAATGACT
Found at i:27328925 original size:28 final size:28
Alignment explanation
Indices: 27328882--27329077 Score: 221
Period size: 28 Copynumber: 7.0 Consensus size: 28
27328872 GTACAGTGTA
* * *
27328882 GGCCTTAGCCCGATACGGTAACAATGTG
1 GGCCTTAGCCCAATACAGAAACAATGTG
*
27328910 GGCCTTAGCCCAATACAGAAACAATATG
1 GGCCTTAGCCCAATACAGAAACAATGTG
* * * * *
27328938 GGCCTTATCCCATTATAGTAACAGTGTG
1 GGCCTTAGCCCAATACAGAAACAATGTG
*
27328966 GGCCTTAGCCCAAAACAGAAACAATGTG
1 GGCCTTAGCCCAATACAGAAACAATGTG
* * *
27328994 GGCCTTAGCCCAATATAGAAATAGTGTG
1 GGCCTTAGCCCAATACAGAAACAATGTG
* * *
27329022 GGCCTTAGCCCATTACAGTAACAGTGTG
1 GGCCTTAGCCCAATACAGAAACAATGTG
* * *
27329050 GGCCTTAGCCTAAAACAGAAACAGTGTG
1 GGCCTTAGCCCAATACAGAAACAATGTG
27329078 ATAATGCAAC
Statistics
Matches: 140, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 140 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAGAAACAATGTG
Found at i:27329024 original size:84 final size:84
Alignment explanation
Indices: 27328869--27329077 Score: 294
Period size: 84 Copynumber: 2.5 Consensus size: 84
27328859 CAACGCGGTA
* * * * *
27328869 ATAGT-ACAGTGTAGGCCTTAGCCCGATACGGTAACAATGTGGGCCTTAGCCCAATACAGAAACA
1 ATAGTAACAGTGTGGGCCTTAGCCCAAAACAGAAACAATGTGGGCCTTAGCCCAATACAGAAACA
*
27328933 ATATGGGCCTTATCCCATT
66 ATATGGGCCTTAGCCCATT
* *
27328952 ATAGTAACAGTGTGGGCCTTAGCCCAAAACAGAAACAATGTGGGCCTTAGCCCAATATAGAAATA
1 ATAGTAACAGTGTGGGCCTTAGCCCAAAACAGAAACAATGTGGGCCTTAGCCCAATACAGAAACA
* *
27329017 GTGTGGGCCTTAGCCCATT
66 ATATGGGCCTTAGCCCATT
* * *
27329036 ACAGTAACAGTGTGGGCCTTAGCCTAAAACAGAAACAGTGTG
1 ATAGTAACAGTGTGGGCCTTAGCCCAAAACAGAAACAATGTG
27329078 ATAATGCAAC
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 5 0.04
84 107 0.96
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (84 bp):
ATAGTAACAGTGTGGGCCTTAGCCCAAAACAGAAACAATGTGGGCCTTAGCCCAATACAGAAACA
ATATGGGCCTTAGCCCATT
Found at i:27329430 original size:27 final size:27
Alignment explanation
Indices: 27329397--27329511 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
27329387 GGGGTGTAAT
*
27329397 GGTCATTTTACCCTTTGAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * * * *
27329424 AGCCATTTTATCC-TCTGGGGGTATTTT
1 GGTCATTTTACCCTTC-GAGGGTATTTC
*
27329451 GGTCATTTTACCCTTCGGGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
27329478 GGTCATTTTACCCTTCGAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
27329505 GGTCATT
1 GGTCATT
27329512 AGCCCACGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 72 0.96
28 2 0.03
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (27 bp):
GGTCATTTTACCCTTCGAGGGTATTTC
Found at i:27330601 original size:49 final size:49
Alignment explanation
Indices: 27330529--27330627 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
27330519 AGATACAGTC
*
27330529 CTACAGCTCAGTGCGTCAGCTACCATGTTAGCCTTACCAGGATGGTATT
1 CTACAGCTCAGTGCGTCAGCTACCACGTTAGCCTTACCAGGATGGTATT
* *
27330578 CTACAGCTTAGTGCGTCAGCTACCACGTTAGCCTTACTAGGATGGTATT
1 CTACAGCTCAGTGCGTCAGCTACCACGTTAGCCTTACCAGGATGGTATT
27330627 C
1 C
27330628 AATCAAGCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (49 bp):
CTACAGCTCAGTGCGTCAGCTACCACGTTAGCCTTACCAGGATGGTATT
Found at i:27334658 original size:28 final size:28
Alignment explanation
Indices: 27334475--27334648 Score: 159
Period size: 28 Copynumber: 6.0 Consensus size: 28
27334465 AGCATACAAC
* *
27334475 ATACAGTAACAGTCTGGGCCTGAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
** *
27334503 ACGCAGTAATAGTACAGTGTGGGCCTTAGCCCG
1 ATACAG---TA--ACAGTGTGGGCCTTAGCCCA
*
27334536 ATACAGTAACAATGTGGGCCTTAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
* * *
27334564 ATACAGAAATAGTGTGGGCTTTAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
* * * * **
27334592 TTTCAGTAACATTGTGGGCTTTAGCTTA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
*
27334620 TTACAGTAACAGTGTGGGCCTTAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
27334648 A
1 A
27334649 AATAGAAACA
Statistics
Matches: 115, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
28 90 0.78
30 2 0.02
31 2 0.02
33 21 0.18
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (28 bp):
ATACAGTAACAGTGTGGGCCTTAGCCCA
Found at i:27334663 original size:28 final size:28
Alignment explanation
Indices: 27334520--27334663 Score: 144
Period size: 28 Copynumber: 5.1 Consensus size: 28
27334510 AATAGTACAG
*
27334520 TGTGGGCCTTAGCCCGATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* * *
27334548 TGTGGGCCTTAGCCCAATACAGAAATAG
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* * * *
27334576 TGTGGGCTTTAGCCCATTTCAGTAACAT
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* ** * *
27334604 TGTGGGCTTTAGCTTATTACAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* * *
27334632 TGTGGGCCTTAGCCCAAAATAGAAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
27334660 TGTG
1 TGTG
27334664 ATAATGCAAC
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 94 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:27334811 original size:26 final size:26
Alignment explanation
Indices: 27334782--27334839 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
27334772 TGCCGATAAT
**
27334782 AGTAT-TGCAGCGAAGCTGCCAGTAAC
1 AGTATATGCAGCGAAGCCACCAGT-AC
**
27334808 AGTATATGTGGCGAAGCCACCAGTAC
1 AGTATATGCAGCGAAGCCACCAGTAC
27334834 AGTATA
1 AGTATA
27334840 CTTCCCCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (26 bp):
AGTATATGCAGCGAAGCCACCAGTAC
Found at i:27335016 original size:27 final size:27
Alignment explanation
Indices: 27334984--27335125 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
27334974 GGGGTGTAAT
** *
27334984 GGTCATTTTACCCTAAGAAGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
* *
27335011 GATCATTTTACCCTGT-GGGGGTATTTC
1 GGTCATTTTACCCT-TCGAGGGTATTTC
* ** * *
27335038 GATCACCTTACCCTTCGGGGGTATTTA
1 GGTCATTTTACCCTTCGAGGGTATTTC
*
27335065 GGTCATTTTACCCTTCGAGGGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
27335092 GGTCATTTTACCCTTCGAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
27335119 GGTCATT
1 GGTCATT
27335126 AGCCCACGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 99 0.99
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (27 bp):
GGTCATTTTACCCTTCGAGGGTATTTC
Found at i:27336172 original size:11 final size:11
Alignment explanation
Indices: 27336156--27336183 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27336146 CTCCCCCAAC
27336156 AACTCCATTCA
1 AACTCCATTCA
27336167 AACTCCATTCA
1 AACTCCATTCA
27336178 AACTCC
1 AACTCC
27336184 TCACAACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (11 bp):
AACTCCATTCA
Found at i:27339783 original size:69 final size:69
Alignment explanation
Indices: 27339697--27339835 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 69
27339687 GGAACAGCCA
* * * *
27339697 CCATGATGATCTTTGAAGGCTTGAAAAATATAAAAACTTGAAGAGTCAATTAGCCATATGAATAG
1 CCATAATGATCTTTGAAGGCCTGAAAAACATAAAAACTTGAAAAGTCAATTAGCCATATGAATAG
27339762 TCAC
66 TCAC
** * *
27339766 CCATAATGATCTTTGAAGGCCTGAAAAACATCCAAACTTGAAAATTCAATTAGTCATATGAATAG
1 CCATAATGATCTTTGAAGGCCTGAAAAACATAAAAACTTGAAAAGTCAATTAGCCATATGAATAG
27339831 TCAC
66 TCAC
27339835 C
1 C
27339836 TACAAGATAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (69 bp):
CCATAATGATCTTTGAAGGCCTGAAAAACATAAAAACTTGAAAAGTCAATTAGCCATATGAATAG
TCAC
Found at i:27340136 original size:50 final size:50
Alignment explanation
Indices: 27340084--27340214 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
27340074 ATGAACAAAT
* *
27340084 GAGTTACTTAATCCATGACTTAATTTAATAATGCAAACTTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATAATGCAAAC-TTAACTAACAT-A
* * * * *
27340136 GAGTTACAAAAAGCATGTCCTAATTT-ATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATAATGCAAACTTAACTAACAT-A
*
27340186 GAGTTACATAATGCATGACTTTATTTAAT
1 GAGTTACATAATGCATGACTTAATTTAAT
27340215 GCAAAACACA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 34 0.52
51 12 0.18
52 20 0.30
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTTAATAATGCAAACTTAACTAACATA
Found at i:27340280 original size:33 final size:33
Alignment explanation
Indices: 27340224--27340323 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 33
27340214 TGCAAAACAC
* *
27340224 ATAATGCATGTCATAATTAAAAGATGTAGATTA
1 ATAATGCAAGACATAATTAAAAGATGTAGATTA
* *
27340257 ATAATGCAAGACATTAATT-AAAGATGCATA-TA
1 ATAATGCAAGACA-TAATTAAAAGATGTAGATTA
*
27340289 ATAA-GCAAGACATAATTAAAAGCTGTAGAATTA
1 ATAATGCAAGACATAATTAAAAGATGTAG-ATTA
27340322 AT
1 AT
27340324 TAAACTAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
30 5 0.09
31 15 0.27
32 7 0.12
33 24 0.43
34 5 0.09
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (33 bp):
ATAATGCAAGACATAATTAAAAGATGTAGATTA
Found at i:27350827 original size:50 final size:50
Alignment explanation
Indices: 27350698--27350990 Score: 277
Period size: 50 Copynumber: 5.8 Consensus size: 50
27350688 TTATAATAAC
* * * *
27350698 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGA-TGTTTCATGT--
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCG
* * * *
27350746 ACTGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCG
1 A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* ** **
27350797 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACTTCTCATCCCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* * * * * *
27350847 GTGCCAACGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCGTCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* * *
27350897 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGCACCTCTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---G
* *
27350953 ATGCCAATTCCATGTCCAAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
27350991 TCTCTTTACC
Statistics
Matches: 201, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 124 0.62
51 1 0.00
53 2 0.01
56 35 0.17
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
Found at i:27356513 original size:50 final size:50
Alignment explanation
Indices: 27356384--27356676 Score: 277
Period size: 50 Copynumber: 5.8 Consensus size: 50
27356374 TTATAATAAC
* * * *
27356384 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGA-TGTTTCATGT--
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCG
* * * *
27356432 ACTGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCG
1 A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* ** **
27356483 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACTTCTCATCCCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* * * * * *
27356533 GTGCCAACGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCGTCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* * *
27356583 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGCACCTCTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---G
* *
27356639 ATGCCAATTCCATGTCCAAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
27356677 TCTCTTTACC
Statistics
Matches: 201, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 124 0.62
51 1 0.00
53 2 0.01
56 35 0.17
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
Found at i:27362141 original size:50 final size:50
Alignment explanation
Indices: 27362017--27362307 Score: 230
Period size: 50 Copynumber: 5.7 Consensus size: 50
27362007 GATAATAACA
* * *
27362017 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATG-TTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATCT-CGG
* * * * * * * * *
27362066 TGCCGATGCCATCTCGCAGATATGGTATTATATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGG
* * * ** * *
27362116 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCACATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGG
* * * *
27362166 TGCCAACGCCATGTCCCAGACATGGTCTCAGATGGGAGCTCTCGTCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGG
* * *
27362216 TGCCAACACCATGTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTC---ATCTC--GG
* *
27362271 ATGCCAATGCCATGTCCCAGACATGGT-TTAGATGGGA
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
27362308 CCCAAATGTT
Statistics
Matches: 189, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
48 2 0.01
49 36 0.19
50 114 0.60
53 4 0.02
55 9 0.05
56 24 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGG
Found at i:27376930 original size:50 final size:50
Alignment explanation
Indices: 27376745--27377029 Score: 234
Period size: 50 Copynumber: 5.6 Consensus size: 50
27376735 NNNNNNNNNN
* * * *
27376745 GTCCCAGACATGGTTTTACATGGGATG-TTTCATGTAC--TGCCGATGCCAT
1 GTCCCAGACATGGTCTTACATGGGA-GCTCTCATCT-CGGTGCCAATGCCAT
* * * * * * * * *
27376794 CTCGCAGATATGGTATTACATGGGAGTTCTCATATCAGTGCCCATGCTAT
1 GTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGGTGCCAATGCCAT
* ** * *
27376844 GTCCTAGACATGGTCTTACGGGGGATCTCACATCTCGGTGCCAATGCCAT
1 GTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGGTGCCAATGCCAT
* * * * **
27376894 GTCCCAGACATGGTCTCAGATGGGAGCTCTCGTCTCGATGCCAACACCAT
1 GTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGGTGCCAATGCCAT
* *
27376944 GTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGGATGCCAATGCCAT
1 GTCCCAGACATGGTCTTACATGGGAGCTCTC---ATCTC--GG-TGCCAATGCCAT
*
27377000 GTCCCAGACATGGTCTTACATGGGATCTCT
1 GTCCCAGACATGGTCTTACATGGGAGCTCT
27377030 TTACCCAAAT
Statistics
Matches: 184, Mismatches: 43, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
48 2 0.01
49 27 0.15
50 112 0.61
53 4 0.02
55 1 0.01
56 38 0.21
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
GTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGGTGCCAATGCCAT
Found at i:27385270 original size:51 final size:51
Alignment explanation
Indices: 27385181--27385282 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
27385171 ATAAAAAGAA
27385181 AGGAATCATAAAATAAAATCCTAGCGTGCAGAACAGTGTTTAACCAACATT
1 AGGAATCATAAAATAAAATCCTAGCGTGCAGAACAGTGTTTAACCAACATT
* * *
27385232 AGGAATCATAAAATAAAA-CTCTAGGGTGTAGAAGAGTGTTTAACCAACATT
1 AGGAATCATAAAATAAAATC-CTAGCGTGCAGAACAGTGTTTAACCAACATT
27385283 CACCACAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 46 0.98
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.25
Consensus pattern (51 bp):
AGGAATCATAAAATAAAATCCTAGCGTGCAGAACAGTGTTTAACCAACATT
Found at i:27391857 original size:27 final size:27
Alignment explanation
Indices: 27391818--27392050 Score: 238
Period size: 27 Copynumber: 8.6 Consensus size: 27
27391808 ATTCATGAGT
*
27391818 AAATTACTGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * * *
27391845 AAATTACCAAAATACCCTTGATGGATA
1 AAATTACCGAAATACCCTCGAAGGGTA
*
27391872 AAATTACTGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
** *
27391899 AAATTATTGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * *
27391926 AAATTATCAAAATACCC-CTGATGGGTA
1 AAATTACCGAAATACCCTC-GAAGGGTA
*
27391953 AAATTACTGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
** * * *
27391980 ATTTTACCAAAATACCC-CCAATAGGTA
1 AAATTACCGAAATACCCTCGAA-GGGTA
*
27392007 AAATTACCGAAATACCC-CTATAGGGTA
1 AAATTACCGAAATACCCTCGA-AGGGTA
*
27392034 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
27392051 CTATAGGATA
Statistics
Matches: 172, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.02
27 166 0.97
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGAAGGGTA
Found at i:27391955 original size:81 final size:81
Alignment explanation
Indices: 27391818--27392050 Score: 317
Period size: 81 Copynumber: 2.9 Consensus size: 81
27391808 ATTCATGAGT
* * *
27391818 AAATTACTGAAATACCCTCGAAGGGTAAAATTACCAAAATACCCTTGATGGATAAAATTACTGAA
1 AAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCCTGATGGGTAAAATTACTGAA
27391883 ATACCCTCGAAGGGTA
66 ATACCCTCGAAGGGTA
* *
27391899 AAATTATTGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCTGATGGGTAAAATTACTGAA
1 AAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCCTGATGGGTAAAATTACTGAA
27391964 ATACCCTCGAAGGGTA
66 ATACCCTCGAAGGGTA
** ** * * * *
27391980 ATTTTACCAAAATACCCCCAATAGGTAAAATTACCGAAATACCCCT-ATAGGGTAAAATTA-TCG
1 AAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCCTGAT-GGGTAAAATTACT-G
27392043 AAATACCC
64 AAATACCC
27392051 CTATAGGATA
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
80 3 0.02
81 132 0.98
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCCTGATGGGTAAAATTACTGAA
ATACCCTCGAAGGGTA
Found at i:27394009 original size:54 final size:53
Alignment explanation
Indices: 27393931--27394032 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
27393921 AAATAGGGGT
* *
27393931 CACACAACCGTGTGGCCAGGCCATGTGCTAGGCCATGTAACTCTCTGAGTTGC
1 CACACAACCGTGTGGCCAGGCCATGTGCTAAGCCATGTAACTCGCTGAGTTGC
*
27393984 CACACACACC-TGTGTGCCAGGCCATGTGCTAAGCCGTGTAACTCGCTGA
1 CACACA-ACCGTGTG-GCCAGGCCATGTGCTAAGCCATGTAACTCGCTGA
27394033 CTTTAAACAC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
53 10 0.23
54 34 0.77
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.22
Consensus pattern (53 bp):
CACACAACCGTGTGGCCAGGCCATGTGCTAAGCCATGTAACTCGCTGAGTTGC
Found at i:27394860 original size:40 final size:40
Alignment explanation
Indices: 27394781--27394919 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
27394771 AAGTATAAAT
* * * * **
27394781 AGGGGCATGCATGTGCATTCAGGGATACC-AAAGGGCAATC
1 AGGGGCACGTATGTGCATTTAGGGGTACCGAAA-TACAATC
* * *
27394821 AAGGGCACGTATGTGCATTTAGGTGTACTGAAATACAATC
1 AGGGGCACGTATGTGCATTTAGGGGTACCGAAATACAATC
*
27394861 AGGGGCACGTATGTGCATTTAGGGGTACCGAAGTACAAAT-
1 AGGGGCACGTATGTGCATTTAGGGGTACCGAAATAC-AATC
*
27394901 AGGGGTACGTATGTGCATT
1 AGGGGCACGTATGTGCATT
27394920 CAGATAATAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 77 0.93
41 6 0.07
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (40 bp):
AGGGGCACGTATGTGCATTTAGGGGTACCGAAATACAATC
Found at i:27401759 original size:16 final size:16
Alignment explanation
Indices: 27401738--27401772 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
27401728 CTTATTTCGA
27401738 AATATTATATTATTGT
1 AATATTATATTATTGT
27401754 AATATTATATTATTGT
1 AATATTATATTATTGT
27401770 AAT
1 AAT
27401773 CCTATTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
AATATTATATTATTGT
Found at i:27401914 original size:95 final size:95
Alignment explanation
Indices: 27401751--27401922 Score: 317
Period size: 95 Copynumber: 1.8 Consensus size: 95
27401741 ATTATATTAT
27401751 TGTAATATTATATTATTGTAATCCTATTTCGAAATATAATCTTATACTTGTTGAACTAAACCCCT
1 TGTAATATTATATTATTGTAATCCTATTTCGAAATATAATCTTATACTTGTTGAACTAAACCCCT
27401816 TTTAAGAATAATATAAGATAAGATATCGCA
66 TTTAAGAATAATATAAGATAAGATATCGCA
* * *
27401846 TGTAATATTATATTATTGTAATCCTATTTCGAAATATAATTTTATATTTGTTGAACTAAACCCTT
1 TGTAATATTATATTATTGTAATCCTATTTCGAAATATAATCTTATACTTGTTGAACTAAACCCCT
27401911 TTTAAGAATAAT
66 TTTAAGAATAAT
27401923 TTGATTTGAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (95 bp):
TGTAATATTATATTATTGTAATCCTATTTCGAAATATAATCTTATACTTGTTGAACTAAACCCCT
TTTAAGAATAATATAAGATAAGATATCGCA
Found at i:27403693 original size:24 final size:24
Alignment explanation
Indices: 27403666--27403716 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
27403656 AAAAGTTTAA
27403666 TTTACAAAATGGTATTTAAACTTT
1 TTTACAAAATGGTATTTAAACTTT
27403690 TTTACAAAATGGTATTTAAACTTT
1 TTTACAAAATGGTATTTAAACTTT
27403714 TTT
1 TTT
27403717 TACTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (24 bp):
TTTACAAAATGGTATTTAAACTTT
Found at i:27405210 original size:9 final size:9
Alignment explanation
Indices: 27405198--27405257 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
27405188 CTATGCAAAA
*
27405198 CATGCATTT
1 CATGCATTC
*
27405207 CATGCATCC
1 CATGCATTC
*
27405216 CATGCAATC
1 CATGCATTC
*
27405225 CATGCATTT
1 CATGCATTC
**
27405234 CATGCAAAC
1 CATGCATTC
*
27405243 CATGCACTC
1 CATGCATTC
27405252 CATGCA
1 CATGCA
27405258 ATGTGCTGCA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (9 bp):
CATGCATTC
Found at i:27405210 original size:27 final size:27
Alignment explanation
Indices: 27405190--27405248 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
27405180 CATGCGTTCT
27405190 ATGCAAAACATGCATTTCATGCATCCC
1 ATGCAAAACATGCATTTCATGCATCCC
** **
27405217 ATGCAATCCATGCATTTCATGCAAACC
1 ATGCAAAACATGCATTTCATGCATCCC
27405244 ATGCA
1 ATGCA
27405249 CTCCATGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (27 bp):
ATGCAAAACATGCATTTCATGCATCCC
Found at i:27405237 original size:18 final size:18
Alignment explanation
Indices: 27405215--27405259 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
27405205 TTCATGCATC
*
27405215 CCATGCAATCCATGCATT
1 CCATGCAATCCATGCACT
* *
27405233 TCATGCAAACCATGCACT
1 CCATGCAATCCATGCACT
27405251 CCATGCAAT
1 CCATGCAAT
27405260 GTGCTGCATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.24
Consensus pattern (18 bp):
CCATGCAATCCATGCACT
Found at i:27405253 original size:27 final size:27
Alignment explanation
Indices: 27405198--27405257 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
27405188 CTATGCAAAA
**
27405198 CATGCATTTCATGCATCCCATGCAATC
1 CATGCATTTCATGCAAACCATGCAATC
*
27405225 CATGCATTTCATGCAAACCATGCACTC
1 CATGCATTTCATGCAAACCATGCAATC
27405252 CATGCA
1 CATGCA
27405258 ATGTGCTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (27 bp):
CATGCATTTCATGCAAACCATGCAATC
Found at i:27406576 original size:11 final size:11
Alignment explanation
Indices: 27406555--27406589 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
27406545 TGGGATTGGT
*
27406555 ATTTCAAAAAA
1 ATTTAAAAAAA
*
27406566 ATTTAATAAAA
1 ATTTAAAAAAA
27406577 ATTTAAAAAAA
1 ATTTAAAAAAA
27406588 AT
1 AT
27406590 GAGAATACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
ATTTAAAAAAA
Found at i:27407109 original size:36 final size:36
Alignment explanation
Indices: 27407026--27407111 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
27407016 AGTACCGCTA
* *
27407026 GTGGTGGTGGTGTGCGTCCCGAAAGGAATATTGTTG
1 GTGGTGGTGGTGTGCATCCCGAAAGGAATATTATTG
* * * *
27407062 GTAGAGATGGTGTGCATCCCGAAAGGAATGTTATTG
1 GTGGTGGTGGTGTGCATCCCGAAAGGAATATTATTG
27407098 GTGGTGGTGGTGTG
1 GTGGTGGTGGTGTG
27407112 TGCTCGATCT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.19, C:0.09, G:0.42, T:0.30
Consensus pattern (36 bp):
GTGGTGGTGGTGTGCATCCCGAAAGGAATATTATTG
Found at i:27411828 original size:18 final size:18
Alignment explanation
Indices: 27411805--27411893 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
27411795 CGAGTTTGGG
**
27411805 CATGCACTCCATGCGTTC
1 CATGCACTCCATGCAATC
*** * *
27411823 CATGCAAAACATGCATTT
1 CATGCACTCCATGCAATC
27411841 CATGCA-TCCCATGCAATC
1 CATGCACT-CCATGCAATC
* *
27411859 CATGCATTTCATGCGAA-C
1 CATGCACTCCATGC-AATC
27411877 CATGCACTCCATGCAAT
1 CATGCACTCCATGCAAT
27411894 GTGCTGCATG
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
17 2 0.04
18 50 0.91
19 3 0.05
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (18 bp):
CATGCACTCCATGCAATC
Found at i:27411844 original size:9 final size:9
Alignment explanation
Indices: 27411805--27411891 Score: 59
Period size: 9 Copynumber: 9.7 Consensus size: 9
27411795 CGAGTTTGGG
*
27411805 CATGCACTC
1 CATGCATTC
*
27411814 CATGCGTTC
1 CATGCATTC
***
27411823 CATGCAAAA
1 CATGCATTC
*
27411832 CATGCATTT
1 CATGCATTC
*
27411841 CATGCATCC
1 CATGCATTC
*
27411850 CATGCAATC
1 CATGCATTC
*
27411859 CATGCATTT
1 CATGCATTC
*
27411868 CATGCGA-AC
1 CATGC-ATTC
*
27411877 CATGCACTC
1 CATGCATTC
27411886 CATGCA
1 CATGCA
27411892 ATGTGCTGCA
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
8 1 0.02
9 56 0.97
10 1 0.02
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (9 bp):
CATGCATTC
Found at i:27411844 original size:27 final size:27
Alignment explanation
Indices: 27411805--27411882 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
27411795 CGAGTTTGGG
* * *
27411805 CATGCACTCCATGCGTTCCATGCAAAA
1 CATGCATTTCATGCGTACCATGCAAAA
* * **
27411832 CATGCATTTCATGCATCCCATGCAATC
1 CATGCATTTCATGCGTACCATGCAAAA
*
27411859 CATGCATTTCATGCGAACCATGCA
1 CATGCATTTCATGCGTACCATGCA
27411883 CTCCATGCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (27 bp):
CATGCATTTCATGCGTACCATGCAAAA
Found at i:27411887 original size:27 final size:27
Alignment explanation
Indices: 27411822--27411891 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
27411812 TCCATGCGTT
** *
27411822 CCATGCAAAACATGCATTTCATGCATC
1 CCATGCAATCCATGCATTTCATGCATA
27411849 CCATGCAATCCATGCATTTCATGCGA-A
1 CCATGCAATCCATGCATTTCATGC-ATA
*
27411876 CCATGCACTCCATGCA
1 CCATGCAATCCATGCA
27411892 ATGTGCTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (27 bp):
CCATGCAATCCATGCATTTCATGCATA
Found at i:27413798 original size:16 final size:15
Alignment explanation
Indices: 27413767--27413813 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
27413757 CCTTCTCCAT
27413767 TTTTTTTCTATTTCT-
1 TTTTTTTCT-TTTCTC
*
27413782 TTATTTTT-TTTCCTC
1 TT-TTTTTCTTTTCTC
27413797 TTTTTTTCTTTTCTC
1 TTTTTTTCTTTTCTC
27413812 TT
1 TT
27413814 CCTTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.33
15 13 0.48
16 5 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTCTTTTCTC
Found at i:27415004 original size:20 final size:20
Alignment explanation
Indices: 27414963--27415011 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
27414953 TCATTTTTCG
*
27414963 ATAAAAATACATAAAAGTTT
1 ATAAAAATACATAAAAGATT
27414983 ATAAAAATACATACAAA-ATT
1 ATAAAAATACATA-AAAGATT
*
27415003 ATGAAAATA
1 ATAAAAATA
27415012 TTTATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (20 bp):
ATAAAAATACATAAAAGATT
Found at i:27416323 original size:20 final size:20
Alignment explanation
Indices: 27416280--27416324 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
27416270 TGTTTGTGCG
27416280 ATTTTATTTTAAAAAATATT
1 ATTTTATTTTAAAAAATATT
*
27416300 -TTTTA-TTTATAAAAGTATT
1 ATTTTATTTTA-AAAAATATT
27416319 ATTTTA
1 ATTTTA
27416325 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTATTTTAAAAAATATT
Found at i:27416449 original size:7 final size:7
Alignment explanation
Indices: 27416437--27416464 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27416427 TAAAGTTTTT
27416437 TTTTTAA
1 TTTTTAA
27416444 TTTTTAA
1 TTTTTAA
27416451 TTTTTAA
1 TTTTTAA
27416458 TTTTTAA
1 TTTTTAA
27416465 GAAGTAAAAC
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:27416461 original size:20 final size:21
Alignment explanation
Indices: 27416415--27416461 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
27416405 TTTTTTTAAA
*
27416415 TAATTTTAGTTTTAAAGTTTT
1 TAATTTTAATTTTAAAGTTTT
* *
27416436 T-TTTTTAATTTTTAA-TTTT
1 TAATTTTAATTTTAAAGTTTT
27416455 TAATTTT
1 TAATTTT
27416462 TAAGAAGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
TAATTTTAATTTTAAAGTTTT
Found at i:27416886 original size:120 final size:121
Alignment explanation
Indices: 27416736--27416975 Score: 385
Period size: 120 Copynumber: 2.0 Consensus size: 121
27416726 TAATTTACCC
* * * *
27416736 TTTTTTAAAATAGATTTAACTGTTTGACTAACGGAGGTGCCAACTACG-GCAAAAAGGGTATCAC
1 TTTTTAAAAAAAGATTTAACTGTTTAACTAACGGAGGTACCAACTA-GAGCAAAAAGGGTATCAC
* *
27416800 TTGTGAC-AAAAAACAATTAAGTACCTAGATGAGAAAAATGGTATAGTTAATACATA
65 TTGTGACAAAAAAACAATTAAGTACCAAGATCAGAAAAATGGTATAGTTAATACATA
* *
27416856 TTTTTAAAAAAAGATTTAATTGTTTAACTAACGGAGGTACTAACTAGAGCAAAAAGGGTATCACT
1 TTTTTAAAAAAAGATTTAACTGTTTAACTAACGGAGGTACCAACTAGAGCAAAAAGGGTATCACT
27416921 TGTGACAAAAAAACAATTAAGTACCAAGATCAGAAAAATGGTATAGTTAATACAT
66 TGTGACAAAAAAACAATTAAGTACCAAGATCAGAAAAATGGTATAGTTAATACAT
27416976 GTAGTACGAA
Statistics
Matches: 110, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 1 0.01
120 63 0.57
121 46 0.42
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (121 bp):
TTTTTAAAAAAAGATTTAACTGTTTAACTAACGGAGGTACCAACTAGAGCAAAAAGGGTATCACT
TGTGACAAAAAAACAATTAAGTACCAAGATCAGAAAAATGGTATAGTTAATACATA
Found at i:27432438 original size:8 final size:8
Alignment explanation
Indices: 27432425--27432449 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27432415 TGCGTGTTGT
27432425 AGGTGAGC
1 AGGTGAGC
27432433 AGGTGAGC
1 AGGTGAGC
27432441 AGGTGAGC
1 AGGTGAGC
27432449 A
1 A
27432450 CTTGGTGTTT
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:0.28, C:0.12, G:0.48, T:0.12
Consensus pattern (8 bp):
AGGTGAGC
Found at i:27433011 original size:43 final size:42
Alignment explanation
Indices: 27432922--27433023 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
27432912 TGCCCCGATC
* *
27432922 TGATCAAAATTTGAGCTGCTCTGATCGCCTCATCCCCCAATT
1 TGATCAAAATTTGAGCTGCTCTGATCACCTAATCCCCCAATT
* **
27432964 TGATCCAAAATTTGAG-TCGCTCTGATCACTTAATGTCCC-ATT
1 TGAT-CAAAATTTGAGCT-GCTCTGATCACCTAATCCCCCAATT
27433006 ATGATCAAAAGTTTGAGC
1 -TGATCAAAA-TTTGAGC
27433024 CGCCATTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
42 13 0.26
43 37 0.74
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
TGATCAAAATTTGAGCTGCTCTGATCACCTAATCCCCCAATT
Found at i:27434303 original size:22 final size:22
Alignment explanation
Indices: 27434275--27434324 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
27434265 TTTTCTCTTT
27434275 TTTTTTTCTATTTTGACTTTGA
1 TTTTTTTCTATTTTGACTTTGA
* ***
27434297 TTTTTTTTTATTTTTTTTTTGA
1 TTTTTTTCTATTTTGACTTTGA
27434319 TTTTTT
1 TTTTTT
27434325 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTATTTTGACTTTGA
Done.