Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 190 of 218
Found at i:56474484 original size:21 final size:21
Alignment explanation
Indices: 56474463--56474608 Score: 157
Period size: 21 Copynumber: 7.0 Consensus size: 21
56474453 CTTTCTCTTT
** *
56474463 AGCTCTTGTGAGCTTCTGTTT
1 AGCTCTTACGAGCTTCTGTTC
56474484 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* * * *
56474505 AACTCTTATGAGTTTCCGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
56474526 AGCTCTTACGAGCTTCTATTT
1 AGCTCTTACGAGCTTCTGTTC
* ** *
56474547 AACTCTTGTGAGTTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
*
56474568 AGCTCTTACGAGCTTTTGTTC
1 AGCTCTTACGAGCTTCTGTTC
*
56474589 AGCTCTTACAAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
56474609 AACGATGTAC
Statistics
Matches: 99, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 99 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:56474531 original size:42 final size:42
Alignment explanation
Indices: 56474465--56474596 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
56474455 TTCTCTTTAG
* * *
56474465 CTCTTGTGAGCTTCTGTTTAGCTCTTACGAGCTTCTGTTCAA
1 CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
* * *
56474507 CTCTTATGAGTTTCCGTTCAGCTCTTACGAGCTTCTATTTAA
1 CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
* * *
56474549 CTCTTGTGAGTTTCTGTTCAGCTCTTACGAGCTTTTGTTCAG
1 CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
56474591 CTCTTA
1 CTCTTA
56474597 CAAGCTTCTG
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
Found at i:56477598 original size:212 final size:212
Alignment explanation
Indices: 56477231--56477866 Score: 1157
Period size: 212 Copynumber: 3.0 Consensus size: 212
56477221 TAAAATAGGA
* *
56477231 AACAATATGAGTTGATGATCAATGAGGTGGCATAATAGTAGAGTTTTGGGGTATTATGGGCGGTA
1 AACAATAGGAGTTGATGATCAATGAGGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCGGTA
56477296 TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAATAAGGGAGGGGGACAACAATA
66 TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAATAAGGGAGGGGGACAACAATA
* *
56477361 GGGAAAGAAAAATGAAAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
131 GGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
*
56477426 TTAAGAGGGGCAACACT
196 TTAAGGGGGGCAACACT
*
56477443 AACAATAGGAGTTGATGATCAATGAGGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCAGTA
1 AACAATAGGAGTTGATGATCAATGAGGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCGGTA
*
56477508 TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAATAAGGGAGGGGGACAGCAATA
66 TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAATAAGGGAGGGGGACAACAATA
56477573 GGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
131 GGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
56477638 TTAAGGGGGGCAACACT
196 TTAAGGGGGGCAACACT
*
56477655 AACAATAGGAGTTGATGATCAATGAGGCGGCACAATAGTAGAGTTTTGGGGTATTATGGGCGGTA
1 AACAATAGGAGTTGATGATCAATGAGGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCGGTA
* * * *
56477720 TAGAGGGGAAGAAAATAGAGAAAATTGAGGGAAACGGAGAGGAAGAATGGAGGGGGACAACAATA
66 TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAATAAGGGAGGGGGACAACAATA
56477785 GGAAAAG-AAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
131 GGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
56477849 TTAAGGGGGGCAACACT
196 TTAAGGGGGGCAACACT
56477866 A
1 A
56477867 CTAGGGTTTC
Statistics
Matches: 410, Mismatches: 14, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
211 75 0.18
212 335 0.82
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (212 bp):
AACAATAGGAGTTGATGATCAATGAGGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCGGTA
TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAATAAGGGAGGGGGACAACAATA
GGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
TTAAGGGGGGCAACACT
Found at i:56482561 original size:33 final size:33
Alignment explanation
Indices: 56482524--56482586 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
56482514 TGACCCGAAT
*
56482524 TCTAAAAGATTGCTTGCATGTCAAGTTAAAAAA
1 TCTAAAAGATTGCTTGCAAGTCAAGTTAAAAAA
56482557 TCTAAAAGATTGCTTGCAAGTCAAGTTAAA
1 TCTAAAAGATTGCTTGCAAGTCAAGTTAAA
56482587 CAAAATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
TCTAAAAGATTGCTTGCAAGTCAAGTTAAAAAA
Found at i:56485012 original size:40 final size:40
Alignment explanation
Indices: 56484957--56485037 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
56484947 TTAATTTTAA
*
56484957 TAAACTCATTTTAGTTAATAATTGAGTTGTTGGACTATAT
1 TAAACTCATCTTAGTTAATAATTGAGTTGTTGGACTATAT
* *
56484997 TAAACTCATCTTAGTTAATAATTGAGTTGTTTGACTTTAT
1 TAAACTCATCTTAGTTAATAATTGAGTTGTTGGACTATAT
56485037 T
1 T
56485038 TTCATTAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (40 bp):
TAAACTCATCTTAGTTAATAATTGAGTTGTTGGACTATAT
Found at i:56485202 original size:20 final size:21
Alignment explanation
Indices: 56485164--56485208 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
56485154 AGCTTATTAA
56485164 GTTTAATATGTGGTTTAATGT
1 GTTTAATATGTGGTTTAATGT
*
56485185 GTTTAATATGT-TTTTAATGT
1 GTTTAATATGTGGTTTAATGT
56485205 GTTT
1 GTTT
56485209 TGATTGTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
GTTTAATATGTGGTTTAATGT
Found at i:56488411 original size:29 final size:28
Alignment explanation
Indices: 56488365--56488422 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
56488355 AATGTTTACA
56488365 TATTTTTTAGTCAATTTAGC-CTTTAATC
1 TATTTTTTAGTCAATTTAGCTC-TTAATC
56488393 TATTTTTTAG-CTAAGTTTAGCTCTTAATC
1 TATTTTTTAGTC-AA-TTTAGCTCTTAATC
56488422 T
1 T
56488423 TTTATAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 1 0.04
28 12 0.44
29 13 0.48
30 1 0.04
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (28 bp):
TATTTTTTAGTCAATTTAGCTCTTAATC
Found at i:56497274 original size:118 final size:118
Alignment explanation
Indices: 56497059--56497288 Score: 399
Period size: 118 Copynumber: 2.0 Consensus size: 118
56497049 CTTTTTAACC
*
56497059 AATAATATATTATTTATTAAAACATAAATGTATAAAATGGTTCTTCAATATCTACAACCATAAGT
1 AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAACCATAAGT
* * *
56497124 AGGGGTGTGTAAAATTTGGGTAAAACTGAAAAAATTCGATTAACCGACCGATT
66 AGGGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTCGATTAACCGACCGATT
*
56497177 AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAGCCATAAGT
1 AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAACCATAAGT
*
56497242 A-GGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTCGGTTAACCGAC
66 AGGGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTCGATTAACCGAC
56497289 TGAATTCGGT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
117 42 0.40
118 64 0.60
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (118 bp):
AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAACCATAAGT
AGGGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTCGATTAACCGACCGATT
Found at i:56497647 original size:9 final size:9
Alignment explanation
Indices: 56497627--56497675 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
56497617 GTAGTGATTC
*
56497627 AATTTGGTT
1 AATTCGGTT
*
56497636 AATTCGGGT
1 AATTCGGTT
*
56497645 AATCCGGTT
1 AATTCGGTT
*
56497654 AATTCGGAT
1 AATTCGGTT
56497663 AATTCGGTT
1 AATTCGGTT
56497672 AATT
1 AATT
56497676 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56497655 original size:18 final size:18
Alignment explanation
Indices: 56497632--56497675 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
56497622 GATTCAATTT
*
56497632 GGTTAATTCGGGTAATCC
1 GGTTAATTCGGATAATCC
*
56497650 GGTTAATTCGGATAATTC
1 GGTTAATTCGGATAATCC
56497668 GGTTAATT
1 GGTTAATT
56497676 TTTAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (18 bp):
GGTTAATTCGGATAATCC
Found at i:56498924 original size:68 final size:68
Alignment explanation
Indices: 56498778--56498910 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 68
56498768 ATTATTTTCA
*
56498778 TATATTTAATATTTAATATTTAATTTAATACTTATCTTAAAAATATTTTATTAATTTAATATTAA
1 TATA-TTAATATTTAATATTTAATTTAATACTTATCTTAAAAATATTCTATTAATTTAATA-TAA
56498843 AGTGAT
64 AGT-AT
*
56498849 TATATTAATATTT-A-ATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATA
1 TATATTAATATTTAATATTTAATTTAATACTTATC-T-TA-A-AAATATTCTATTAATTTAATA
56498911 AGATTTAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
68 18 0.32
69 2 0.04
70 11 0.20
71 5 0.09
72 20 0.36
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (68 bp):
TATATTAATATTTAATATTTAATTTAATACTTATCTTAAAAATATTCTATTAATTTAATATAAAG
TAT
Found at i:56500345 original size:21 final size:20
Alignment explanation
Indices: 56500304--56500347 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
56500294 ATGAAATTTA
* * *
56500304 CTCTCCTTTTTTGCTTCCCT
1 CTCTCCCTTTTAGATTCCCT
56500324 CTCTCCCTTTTAGATTCTCCT
1 CTCTCCCTTTTAGATTC-CCT
56500345 CTC
1 CTC
56500348 CTCAAACCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.05, C:0.41, G:0.05, T:0.50
Consensus pattern (20 bp):
CTCTCCCTTTTAGATTCCCT
Found at i:56500694 original size:2 final size:2
Alignment explanation
Indices: 56500687--56500725 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
56500677 TTCCAGTAAG
56500687 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
56500726 TCTGTTTGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:56501739 original size:89 final size:89
Alignment explanation
Indices: 56501588--56501770 Score: 366
Period size: 89 Copynumber: 2.1 Consensus size: 89
56501578 TGAAATCAAG
56501588 GCTTTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTT
1 GCTTTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTT
56501653 CCCACTTTTGTTCAAAAATACACA
66 CCCACTTTTGTTCAAAAATACACA
56501677 GCTTTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTT
1 GCTTTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTT
56501742 CCCACTTTTGTTCAAAAATACACA
66 CCCACTTTTGTTCAAAAATACACA
56501766 GCTTT
1 GCTTT
56501771 TGCTTCAGTT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (89 bp):
GCTTTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTT
CCCACTTTTGTTCAAAAATACACA
Found at i:56511892 original size:11 final size:11
Alignment explanation
Indices: 56511862--56511914 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
56511852 AAACTAATCA
56511862 TCTCTCAATTAT
1 TCTCTCAATT-T
*
56511874 TTTCTCAATTT
1 TCTCTCAATTT
56511885 TCTCTCAATTT
1 TCTCTCAATTT
* *
56511896 CCT-TCCAAATT
1 TCTCT-CAATTT
56511907 TCTCTCAA
1 TCTCTCAA
56511915 ATCCATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 1 0.03
11 23 0.68
12 10 0.29
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:56512017 original size:19 final size:19
Alignment explanation
Indices: 56511972--56512017 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56511962 TTAAATCCCT
56511972 ATTTTTAATTATTTTTAAA
1 ATTTTTAATTATTTTTAAA
***
56511991 AAAATTAATTATTTTTAAA
1 ATTTTTAATTATTTTTAAA
*
56512010 TTTTTTAA
1 ATTTTTAA
56512018 ATCGTAAAAA
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTAATTATTTTTAAA
Found at i:56520660 original size:24 final size:22
Alignment explanation
Indices: 56520605--56520660 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
56520595 CACCAATCAT
* *
56520605 AATTA-TAATTATAATTATAAA
1 AATTATTAAATATAATAATAAA
*
56520626 AATAATT-AATATAATAATAAATA
1 AATTATTAAATATAATAAT-AA-A
56520649 AATTATTAAATA
1 AATTATTAAATA
56520661 AAGTATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 13 0.48
22 3 0.11
23 7 0.26
24 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTATTAAATATAATAATAAA
Found at i:56521488 original size:18 final size:18
Alignment explanation
Indices: 56521454--56521487 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56521444 TCATTTGTTA
56521454 TTTGATATTATAAAAAAG
1 TTTGATATTATAAAAAAG
56521472 TTTGATATT-TAAAAAA
1 TTTGATATTATAAAAAA
56521488 AAATAACTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTTGATATTATAAAAAAG
Found at i:56521489 original size:19 final size:18
Alignment explanation
Indices: 56521454--56521489 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
56521444 TCATTTGTTA
*
56521454 TTTGATATTATAAAAAAG
1 TTTGATATTAAAAAAAAG
56521472 TTTGATATTTAAAAAAAA
1 TTTGATA-TTAAAAAAAA
56521490 ATAACTGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TTTGATATTAAAAAAAAG
Found at i:56521949 original size:23 final size:23
Alignment explanation
Indices: 56521908--56521968 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
56521898 ATATTGTAAA
* *
56521908 ATTCAAAATATTTATAAAATAT-T
1 ATTCAAAA-AATTATAAAACATAT
*
56521931 TTTCTAAAAAATTATAAAACATAT
1 ATTC-AAAAAATTATAAAACATAT
56521955 ATTCAAAAAATTAT
1 ATTCAAAAAATTAT
56521969 TTTTAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 24 0.75
24 8 0.25
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTCAAAAAATTATAAAACATAT
Found at i:56525090 original size:18 final size:19
Alignment explanation
Indices: 56525054--56525092 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
56525044 AGATTTGAAT
56525054 GAAGAGACTAAATTGTAGTAA
1 GAAGAGACTAAA-T-TAGTAA
56525075 GAAGAGACTAAA-TAGTAA
1 GAAGAGACTAAATTAGTAA
56525093 CACCCTTCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (19 bp):
GAAGAGACTAAATTAGTAA
Found at i:56526904 original size:80 final size:80
Alignment explanation
Indices: 56526771--56526932 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
56526761 TGAAATGACA
*
56526771 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACAGAAGGT
1 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
56526836 ATGATAGGTAAATGT
66 ATGATAGGTAAATGT
56526851 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
1 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
56526916 ATGATAGGTAAATGT
66 ATGATAGGTAAATGT
56526931 AA
1 AA
56526933 ATTATTACAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (80 bp):
AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
ATGATAGGTAAATGT
Found at i:56527867 original size:11 final size:11
Alignment explanation
Indices: 56527851--56527948 Score: 53
Period size: 11 Copynumber: 8.9 Consensus size: 11
56527841 AATTAATCAC
56527851 ATTAATATTAA
1 ATTAATATTAA
56527862 ATTAATA--AA
1 ATTAATATTAA
* *
56527871 A-TACTATCTAG
1 ATTAATAT-TAA
*
56527882 ATAAATATTAA
1 ATTAATATTAA
*
56527893 ATTAAATATATCAT
1 ATT-AATAT-T-AA
*
56527907 ATTAATATCTAG
1 ATTAATAT-TAA
*
56527919 ATAAATATTAA
1 ATTAATATTAA
56527930 ATT--TATTAA
1 ATTAATATTAA
*
56527939 AATAATATTA
1 ATTAATATTA
56527949 TTTTTGGAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
8 4 0.06
9 11 0.17
11 22 0.34
12 17 0.26
13 7 0.11
14 4 0.06
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:56527889 original size:31 final size:31
Alignment explanation
Indices: 56527854--56527946 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 31
56527844 TAATCACATT
*
56527854 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
56527885 AATATTAAATTAAATATATCATATTAATATCTAGATA
1 AATATTAAATT-AATA-A--A-A-TAATATCTAGATA
*
56527922 AATATTAAATTTATTAAAATAATAT
1 AATATTAAA-TTAATAAAATAATAT
56527947 TATTTTTGGA
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
31 11 0.21
32 10 0.19
33 2 0.04
34 1 0.02
35 1 0.02
36 2 0.04
37 24 0.45
38 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:56528269 original size:19 final size:19
Alignment explanation
Indices: 56528254--56528291 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
56528244 CGGTTTTGGT
*
56528254 TCTCTGGTTCAATTTTCAA
1 TCTCTGATTCAATTTTCAA
56528273 TCTCTGATTCAATTTTCAA
1 TCTCTGATTCAATTTTCAA
56528292 GTTTAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (19 bp):
TCTCTGATTCAATTTTCAA
Found at i:56535375 original size:13 final size:13
Alignment explanation
Indices: 56535357--56535382 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56535347 TAGTTTACTA
56535357 AAATTATTATAAT
1 AAATTATTATAAT
56535370 AAATTATTATAAT
1 AAATTATTATAAT
56535383 TATGATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:56540894 original size:6 final size:6
Alignment explanation
Indices: 56540883--56540917 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
56540873 ATCCAATTAT
56540883 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
56540918 TAAAAAAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:56540923 original size:18 final size:18
Alignment explanation
Indices: 56540884--56540923 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
56540874 TCCAATTATG
*
56540884 AAAAGGAAAAGGAAAAGG
1 AAAAGGAAAAGGAAAAGA
*
56540902 AAAAGGAAAAGGAAAATA
1 AAAAGGAAAAGGAAAAGA
56540920 AAAA
1 AAAA
56540924 AAGCATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (18 bp):
AAAAGGAAAAGGAAAAGA
Found at i:56545811 original size:25 final size:25
Alignment explanation
Indices: 56545740--56545849 Score: 87
Period size: 25 Copynumber: 4.4 Consensus size: 25
56545730 ATAACTCTTT
* * *
56545740 TGAGCTTCCTGATACTTAGCTTTCA
1 TGAGCTTCCCGATATTTAGCTCTCA
* * *
56545765 TGAGCTTTCCGAT-TAATAGCTCTCT
1 TGAGCTTCCCGATAT-TTAGCTCTCA
* *
56545790 TGAGCTTCCCGATATTTGGCTCGCA
1 TGAGCTTCCCGATATTTAGCTCTCA
* * ** *
56545815 AGAGCTTCCCAATATACAGCTCACA
1 TGAGCTTCCCGATATTTAGCTCTCA
56545840 TGAGCTTCCC
1 TGAGCTTCCC
56545850 ATTATATGGC
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
25 64 0.98
26 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
TGAGCTTCCCGATATTTAGCTCTCA
Found at i:56545861 original size:25 final size:25
Alignment explanation
Indices: 56545763--56545861 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 25
56545753 ACTTAGCTTT
* *
56545763 CATGAGCTTTCCGATTA-ATAGCTCT
1 CATGAGC-TTCCCATTATATAGCTCA
* * * *
56545788 CTTGAGCTTCCCGA-TATTTGGCTCG
1 CATGAGCTTCCC-ATTATATAGCTCA
* * *
56545813 CAAGAGCTTCCCAATATACAGCTCA
1 CATGAGCTTCCCATTATATAGCTCA
*
56545838 CATGAGCTTCCCATTATATGGCTC
1 CATGAGCTTCCCATTATATAGCTC
56545862 GGAAGAGCTT
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
24 7 0.12
25 49 0.88
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (25 bp):
CATGAGCTTCCCATTATATAGCTCA
Found at i:56545869 original size:25 final size:24
Alignment explanation
Indices: 56545791--56545874 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
56545781 TAGCTCTCTT
*
56545791 GAGCTTCCCGATATTTGGCTCGCAA
1 GAGCTTCCC-ATATATGGCTCGCAA
** * *
56545816 GAGCTTCCCAATATACAGCTCACAT
1 GAGCTTCCC-ATATATGGCTCGCAA
*
56545841 GAGCTTCCCATTATATGGCTCGGAA
1 GAGCTTCCCA-TATATGGCTCGCAA
56545866 GAGCTTCCC
1 GAGCTTCCC
56545875 GTTTACAGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 1 0.02
25 46 0.98
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (24 bp):
GAGCTTCCCATATATGGCTCGCAA
Found at i:56545872 original size:50 final size:49
Alignment explanation
Indices: 56545790--56545891 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 49
56545780 ATAGCTCTCT
*
56545790 TGAGCTTCCCGATATTTGGCTCGCAAGAGCTTCCCAATATACAGCTCACA
1 TGAGCTTCCCGATATATGGCTCGCAAGAGCTTCCC-ATATACAGCTCACA
* * * *
56545840 TGAGCTTCCC-ATTATATGGCTCGGAAGAGCTTCCCGTTTACAGCTCATA
1 TGAGCTTCCCGA-TATATGGCTCGCAAGAGCTTCCCATATACAGCTCACA
56545889 TGA
1 TGA
56545892 ACTTACATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 15 0.33
50 31 0.67
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
TGAGCTTCCCGATATATGGCTCGCAAGAGCTTCCCATATACAGCTCACA
Found at i:56545906 original size:49 final size:50
Alignment explanation
Indices: 56545806--56545906 Score: 116
Period size: 49 Copynumber: 2.0 Consensus size: 50
56545796 TCCCGATATT
* * *
56545806 TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAGCTTCCCATTATA
1 TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAACTTCACATCATA
* * * *
56545856 TGGCTCGGAAGAGCTTCCC-GTTTACAGCTCATATGAACTT-ACATGCATA
1 TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAACTTCACAT-CATA
56545905 TG
1 TG
56545907 AATTGACGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
48 3 0.07
49 22 0.51
50 18 0.42
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAACTTCACATCATA
Found at i:56548897 original size:17 final size:18
Alignment explanation
Indices: 56548875--56548909 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56548865 TAGAAACCGG
*
56548875 TCGG-TTAACTGAATTTT
1 TCGGTTTAACCGAATTTT
56548892 TCGGTTTAACCGAATTTT
1 TCGGTTTAACCGAATTTT
56548910 GTAGGGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (18 bp):
TCGGTTTAACCGAATTTT
Found at i:56550447 original size:9 final size:9
Alignment explanation
Indices: 56550433--56550459 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
56550423 CACCTAAAAA
56550433 CGGTTAATT
1 CGGTTAATT
56550442 CGGTTAATT
1 CGGTTAATT
56550451 CGGTTAATT
1 CGGTTAATT
56550460 TTTAACCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
CGGTTAATT
Found at i:56552848 original size:6 final size:6
Alignment explanation
Indices: 56552839--56552945 Score: 70
Period size: 6 Copynumber: 16.0 Consensus size: 6
56552829 GCTGGAGGTT
* * * *
56552839 GTGGGG GTGGGG GTGGAGG TTTGGGG GTGGGG GTGGAAGTT GTGGAG GTGGTG
1 GTGGGG GTGGGG GTGG-GG -GTGGGG GTGGGG GTGG--G-G GTGGGG GTGGGG
*
56552892 GTGGAG GTGGAGG TTGTGGGG GTGGGG GTGGAGG TTGTGGGG GTGGGG
1 GTGGGG GTGG-GG --GTGGGG GTGGGG GTGG-GG --GTGGGG GTGGGG
56552940 GTGGGG
1 GTGGGG
56552946 TGGAGGTTGT
Statistics
Matches: 82, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
6 55 0.67
7 7 0.09
8 8 0.10
9 12 0.15
ACGTcount: A:0.07, C:0.00, G:0.70, T:0.23
Consensus pattern (6 bp):
GTGGGG
Found at i:56552855 original size:21 final size:21
Alignment explanation
Indices: 56552831--56552943 Score: 156
Period size: 21 Copynumber: 5.1 Consensus size: 21
56552821 GAGGTGGAGC
56552831 TGGAGGTTGTGGGGGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
56552852 TGGAGGTT-TGGGGGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
*
56552872 TGGAAGTTGTGGAGGTGGTGGTGGAGG
1 TGGAGGTTGT-G-GG-GGT-G-GG-GG
56552899 TGGAGGTTGTGGGGGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
56552920 TGGAGGTTGTGGGGGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
56552941 TGG
1 TGG
56552944 GGTGGAGGTT
Statistics
Matches: 83, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
20 19 0.23
21 35 0.42
22 3 0.04
23 3 0.04
24 6 0.07
25 3 0.04
26 3 0.04
27 11 0.13
ACGTcount: A:0.07, C:0.00, G:0.68, T:0.25
Consensus pattern (21 bp):
TGGAGGTTGTGGGGGTGGGGG
Found at i:56552894 original size:27 final size:26
Alignment explanation
Indices: 56552862--56552960 Score: 102
Period size: 26 Copynumber: 4.0 Consensus size: 26
56552852 TGGAGGTTTG
*
56552862 GGGGTGGGGGTGGAAGTTGTGGAGGT
1 GGGGTGGGGGTGGAGGTTGTGGAGGT
*
56552888 GGTGGTGGAGGTGGAGGTTGT----G-
1 GG-GGTGGGGGTGGAGGTTGTGGAGGT
*
56552910 GGGGTGGGGGTGGAGGTTGTGGGGGT
1 GGGGTGGGGGTGGAGGTTGTGGAGGT
*
56552936 GGGG-GTGGGGTGGAGGTTGTTGAGG
1 GGGGTG-GGGGTGGAGGTTGTGGAGG
56552961 GTATCTTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
21 17 0.28
22 2 0.03
23 1 0.02
25 2 0.03
26 23 0.38
27 16 0.26
ACGTcount: A:0.08, C:0.00, G:0.68, T:0.24
Consensus pattern (26 bp):
GGGGTGGGGGTGGAGGTTGTGGAGGT
Found at i:56552931 original size:15 final size:15
Alignment explanation
Indices: 56552913--56552955 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
56552903 GGTTGTGGGG
56552913 GTGGGGGTGGAGGTT
1 GTGGGGGTGGAGGTT
56552928 GTGGGGGTGG-GG--
1 GTGGGGGTGGAGGTT
56552940 GT-GGGGTGGAGGTT
1 GTGGGGGTGGAGGTT
56552954 GT
1 GT
56552956 TGAGGGTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 7 0.28
12 4 0.16
14 4 0.16
15 10 0.40
ACGTcount: A:0.05, C:0.00, G:0.70, T:0.26
Consensus pattern (15 bp):
GTGGGGGTGGAGGTT
Found at i:56554430 original size:21 final size:21
Alignment explanation
Indices: 56554404--56554449 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
56554394 CCATAATTTA
*
56554404 TTTTTCTATTTCACCTTTTTC
1 TTTTTCTATTTCACCCTTTTC
* **
56554425 TTTTTCTTTTTTTCCCTTTTC
1 TTTTTCTATTTCACCCTTTTC
56554446 TTTT
1 TTTT
56554450 ATTCTTTCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTCTATTTCACCCTTTTC
Found at i:56555093 original size:30 final size:32
Alignment explanation
Indices: 56555051--56555114 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 32
56555041 TTATAGATTG
**
56555051 ATGGATTTTTGTTTGTTCTGTTAATTTT-TTA
1 ATGGATTTTTGTTTGTGATGTTAATTTTCTTA
56555082 ATGGA-TTTTGTTTGTGATGTTAATTTTCTTA
1 ATGGATTTTTGTTTGTGATGTTAATTTTCTTA
56555113 AT
1 AT
56555115 TTTTTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.19, C:0.03, G:0.17, T:0.61
Consensus pattern (32 bp):
ATGGATTTTTGTTTGTGATGTTAATTTTCTTA
Found at i:56565360 original size:18 final size:18
Alignment explanation
Indices: 56565337--56565371 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56565327 AACCACTGCC
56565337 GCCGACCATTTTTAGGCT
1 GCCGACCATTTTTAGGCT
*
56565355 GCCGACTATTTTTAGGC
1 GCCGACCATTTTTAGGC
56565372 CATCGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (18 bp):
GCCGACCATTTTTAGGCT
Found at i:56572966 original size:20 final size:19
Alignment explanation
Indices: 56572916--56572966 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
56572906 AATAGTTCTT
*
56572916 TCTCTTGATGAACAGTTGTA
1 TCTCTTG-TGAACAATTGTA
56572936 TCT-TT-TGAACAATTGTA
1 TCTCTTGTGAACAATTGTA
56572953 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
56572967 GATTCATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (19 bp):
TCTCTTGTGAACAATTGTA
Found at i:56578271 original size:14 final size:14
Alignment explanation
Indices: 56578240--56578307 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
56578230 AAGAATTAAA
** *
56578240 AAAATTGAGGATTA
1 AAAATTGAAAATTT
* *
56578254 AAAATTTAAAATTG
1 AAAATTGAAAATTT
56578268 AAAATT-AAAATTT
1 AAAATTGAAAATTT
*
56578281 GAAGATTGAAAATTT
1 -AAAATTGAAAATTT
*
56578296 -AAATTGGAAATT
1 AAAATTGAAAATT
56578308 GGGGATTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 16 0.36
14 21 0.48
15 7 0.16
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (14 bp):
AAAATTGAAAATTT
Found at i:56578288 original size:21 final size:20
Alignment explanation
Indices: 56578254--56578308 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
56578244 TTGAGGATTA
*
56578254 AAAATTTAAAATTGAAAATT
1 AAAATTTGAAATTGAAAATT
56578274 AAAATTTGAAGATTGAAAATT
1 AAAATTTGAA-ATTGAAAATT
* *
56578295 TAAATTGGAAATTG
1 AAAATTTGAAATTG
56578309 GGGATTGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.35
Consensus pattern (20 bp):
AAAATTTGAAATTGAAAATT
Found at i:56578347 original size:28 final size:29
Alignment explanation
Indices: 56578316--56578380 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
56578306 TTGGGGATTG
*
56578316 AAGAATGAAG-ATTGAGAATTTAGGAAGA
1 AAGAATGAAGTATGGAGAATTTAGGAAGA
* *
56578344 AAGAATG-AGTATGGAGTATTTAGGAGGA
1 AAGAATGAAGTATGGAGAATTTAGGAAGA
56578372 AAGAATGAA
1 AAGAATGAA
56578381 TGTTTGAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 29 0.91
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.22
Consensus pattern (29 bp):
AAGAATGAAGTATGGAGAATTTAGGAAGA
Found at i:56581165 original size:21 final size:21
Alignment explanation
Indices: 56581141--56581193 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
56581131 CATTGTTTCT
56581141 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
56581162 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
56581183 AATCTCACCGC
1 AATCTCACCGC
56581194 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.43, G:0.09, T:0.19
Consensus pattern (21 bp):
AATCTCACCGCTACAGTACCC
Found at i:56587794 original size:9 final size:9
Alignment explanation
Indices: 56587736--56587793 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
56587726 TTAGTGATTC
*
56587736 AATTCGTTT
1 AATTCGGTT
56587745 AATTCGGTT
1 AATTCGGTT
*
56587754 AATTCGGGT
1 AATTCGGTT
*
56587763 AATTCGGGT
1 AATTCGGTT
*
56587772 AATTTGGTT
1 AATTCGGTT
*
56587781 AATTTGGTT
1 AATTCGGTT
56587790 AATT
1 AATT
56587794 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56588189 original size:30 final size:30
Alignment explanation
Indices: 56588153--56588212 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
56588143 AATCCCACAA
56588153 TTCTGACATATATCCCTTCGTTAGGCTGTC
1 TTCTGACATATATCCCTTCGTTAGGCTGTC
56588183 TTCTGACATATATCCCTTCGTTAGGCTGTC
1 TTCTGACATATATCCCTTCGTTAGGCTGTC
56588213 ACCCTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.40
Consensus pattern (30 bp):
TTCTGACATATATCCCTTCGTTAGGCTGTC
Found at i:56590195 original size:3 final size:3
Alignment explanation
Indices: 56590187--56590215 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56590177 CTTAATAAAT
56590187 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56590216 TTCATTAATA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:56590328 original size:13 final size:15
Alignment explanation
Indices: 56590295--56590328 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
56590285 TATACCTGAC
56590295 ATATAATTTATTTAAT
1 ATATAATTTATTT-AT
*
56590311 ATATAATTTTTTTAT
1 ATATAATTTATTTAT
56590326 ATA
1 ATA
56590329 CGCATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATAATTTATTTAT
Found at i:56590672 original size:19 final size:18
Alignment explanation
Indices: 56590648--56590691 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
56590638 CATGAATATC
56590648 ATATTTTAAAAAAAGGAAA
1 ATATTTTAAAAAAAGG-AA
* * *
56590667 ATATTTCAAAATAAGGTA
1 ATATTTTAAAAAAAGGAA
56590685 ATATTTT
1 ATATTTT
56590692 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (18 bp):
ATATTTTAAAAAAAGGAA
Found at i:56590948 original size:108 final size:108
Alignment explanation
Indices: 56590664--56591069 Score: 636
Period size: 108 Copynumber: 3.7 Consensus size: 108
56590654 TAAAAAAAGG
*
56590664 AAAATATTTCAAAATAAGGTAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
56590729 GGTTTTGATTTCTCGTTCGACCAAAT-AGCTAAATATCCTTTTAA
65 GGTTTCGATTTCTCGTTCGACCAAATGA-CTTAATATCCTTTTAA
* * *
56590773 AAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCATAAGGTACTG
1 AAAATTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
*
56590838 GGTTTCGAATTT-TCGTTCCACCAAATGACTTAATATCCTTTTAA
65 GGTTTCG-ATTTCTCGTTCGACCAAATGACTTAATATCCTTTTAA
*
56590882 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTATTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
* * *
56590947 GTTTTGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTCA
66 GTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTAA
* * *
56590990 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGCTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
56591055 GTTTCGATTTCTCGT
66 GTTTCGATTTCTCGT
56591070 CTAACCAAAT
Statistics
Matches: 273, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
107 4 0.01
108 166 0.61
109 98 0.36
110 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (108 bp):
AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTAA
Found at i:56595140 original size:8 final size:9
Alignment explanation
Indices: 56595126--56595166 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
56595116 GTTCAAACTC
56595126 AAAAAAAAT
1 AAAAAAAAT
56595135 AAAAAAAAT
1 AAAAAAAAT
*
56595144 -CAAAAAAT
1 AAAAAAAAT
56595152 CAAAAAAAA-
1 -AAAAAAAAT
56595161 AAAAAA
1 AAAAAA
56595167 TCAAAGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 13 0.46
9 9 0.32
10 6 0.21
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:56595140 original size:9 final size:9
Alignment explanation
Indices: 56595126--56595166 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
56595116 GTTCAAACTC
56595126 AAAAAAAAT
1 AAAAAAAAT
56595135 AAAAAAAAT
1 AAAAAAAAT
*
56595144 -CAAAAAAT
1 AAAAAAAAT
*
56595152 CAAAAAAA-
1 AAAAAAAAT
56595160 AAAAAAA
1 AAAAAAA
56595167 TCAAAGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 13 0.46
9 15 0.54
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:56595178 original size:16 final size:16
Alignment explanation
Indices: 56595126--56595171 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
56595116 GTTCAAACTC
56595126 AAAAAAAAT-AAAAAA
1 AAAAAAAATCAAAAAA
56595141 AATCAAAAAATCAAAAAA
1 AA--AAAAAATCAAAAAA
56595159 AAAAAAAATCAAA
1 AAAAAAAATCAAA
56595172 GTCAAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 7 0.25
18 8 0.29
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAAAAATCAAAAAA
Found at i:56595199 original size:21 final size:20
Alignment explanation
Indices: 56595175--56595226 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
56595165 AATCAAAGTC
56595175 AAAATAGGA-AAAAAGAAAAAG
1 AAAA-AGGAGAAAAAG-AAAAG
*
56595196 AAAAAAGAAGAAAAAGAAAAG
1 -AAAAAGGAGAAAAAGAAAAG
56595217 AAAAAGGAGA
1 AAAAAGGAGA
56595227 GGTCAAGGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.33
21 8 0.30
22 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAAAGGAGAAAAAGAAAAG
Found at i:56595206 original size:16 final size:15
Alignment explanation
Indices: 56595183--56595220 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
56595173 TCAAAATAGG
56595183 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
56595198 AAAAGAAGAAAAAGAA
1 AAAA-AAGAAAAAGAA
56595214 AAGAAAA
1 AA-AAAA
56595221 AGGAGAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:56595210 original size:11 final size:11
Alignment explanation
Indices: 56595184--56595222 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
56595174 CAAAATAGGA
56595184 AAAAAGAAAAAG
1 AAAAAG-AAAAG
*
56595196 AAAAA-AGAAG
1 AAAAAGAAAAG
56595206 AAAAAGAAAAG
1 AAAAAGAAAAG
56595217 AAAAAG
1 AAAAAG
56595223 GAGAGGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.38
11 10 0.42
12 5 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:56596043 original size:9 final size:9
Alignment explanation
Indices: 56596031--56596063 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
56596021 CAAAAAAATG
56596031 ATGAAAAAA
1 ATGAAAAAA
56596040 ATG--AAAA
1 ATGAAAAAA
56596047 ATGAAAAAA
1 ATGAAAAAA
56596056 ATGAAAAA
1 ATGAAAAA
56596064 GTAAAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:56596070 original size:16 final size:16
Alignment explanation
Indices: 56596031--56596063 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56596021 CAAAAAAATG
56596031 ATGAAAAAAATGAAAA
1 ATGAAAAAAATGAAAA
56596047 ATGAAAAAAATGAAAA
1 ATGAAAAAAATGAAAA
56596063 A
1 A
56596064 GTAAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAAAAATGAAAA
Found at i:56597463 original size:86 final size:87
Alignment explanation
Indices: 56597284--56598348 Score: 1135
Period size: 87 Copynumber: 12.2 Consensus size: 87
56597274 AGTGAACATT
*
56597284 GAAAACCAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAA-AGGATCTTGCCTTC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACA-GATCTTGCCTTC
56597348 CTGCATTAACAGCGAAGCAGATC
65 CTGCATTAACAGCGAAGCAGATC
* *
56597371 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGA-AGCAGATCTTGCTTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCC
*
56597435 TGCATTAACAGCAAAGCAGATC
66 TGCATTAACAGCGAAGCAGATC
* * * * *
56597457 GAAAACAAAGCCTTACCTTCATTGGTTGCAATGGGGCTAGTTAAAGACAAAAGATCTTGCCTTCT
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCC
**
56597522 TGCATTAACAATGAAGCAGATC
66 TGCATTAACAGCGAAGCAGATC
* * * *
56597544 GAAAACAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCT
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCC
*
56597608 TGCATTAACATCGAAGCAGATC
66 TGCATTAACAGCGAAGCAGATC
* * * *
56597630 GAAAATAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCC
*
56597694 TGCATTAACAGCAAAGCAGATC
66 TGCATTAACAGCGAAGCAGATC
*
56597716 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCC
*
56597781 TGCATTAACAACGAAGCAGATC
66 TGCATTAACAGCGAAGCAGATC
* * *
56597803 GAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTGTCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCC
* * *
56597868 TGCATTGACAGTGAAGCAGGTC
66 TGCATTAACAGCGAAGCAGATC
* ** * * * *
56597890 GAAGACACAAA-CCTTGCCTTTC-TCGGTTGTGATAGAGCTGGTTGAAGACAACAGATTTTTCCT
1 GAA-A-ACAAAGCCTTGCC-TTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCT
* * *
56597953 TCCTGCATTGACAGCGAAGCGGGTC
63 TCCTGCATTAACAGCGAAGCAGATC
* ** * *
56597978 GAAGACACAAA-CCTTGCCTCTC-TCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCT
1 GAA-A-ACAAAGCCTTGCCT-TCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCT
* *
56598041 TCCTACATTAACAGCGAAGCAGGTC
63 TCCTGCATTAACAGCGAAGCAGATC
* * *
56598066 -AAAGACACAAACCTTGCATCTCTCAGTT-GTAGC-A-GGAGCTGGTTGAAGACAACAGATCTTG
1 GAAA-ACA-AAGCCTTGC--CT-TCA-TTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTG
* * * *
56598127 CCTTCCTACATTGATAGCGAAGCAGGTC
60 CCTTCCTGCATTAACAGCGAAGCAGATC
* * *
56598155 -AAAGACACAAACCTTGCCTCTCTCAGTT-GTAGC-A-GGAGCTGGTTGAAGACAACAGATCTTG
1 GAAA-ACA-AAGCCTTG-C-CT-TCA-TTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTG
* * * *
56598216 CCTTCCTGTATTGACAGTGAAGCAGGTC
60 CCTTCCTGCATTAACAGCGAAGCAGATC
* * ** * **
56598244 GAAGACACGAA-CCTTGCCTCTC-TCGGTTGTGATGGAGCTAGTTGAAA-ACATTAGATCTTGCC
1 GAA-A-ACAAAGCCTTGCCT-TCATTGGTTGCAATGGAGCTGGTT-AAAGACAACAGATCTTGCC
* * *
56598306 TTCTTGCATTGACAACGAAGCAGATC
62 TTCCTGCATTAACAGCGAAGCAGATC
56598332 GAAGATAC-AAGCCTTGC
1 GAA-A-ACAAAGCCTTGC
56598349 ATCCCTAAGC
Statistics
Matches: 872, Mismatches: 85, Indels: 41
0.87 0.09 0.04
Matches are distributed among these distances:
85 1 0.00
86 246 0.28
87 253 0.29
88 204 0.23
89 150 0.17
90 11 0.01
91 6 0.01
92 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (87 bp):
GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCC
TGCATTAACAGCGAAGCAGATC
Found at i:56597581 original size:173 final size:174
Alignment explanation
Indices: 56597284--56598348 Score: 1142
Period size: 173 Copynumber: 6.1 Consensus size: 174
56597274 AGTGAACATT
* *
56597284 GAAAACCAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAGGATCTTGCCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
* *
56597349 TGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTA
66 TGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTA
* * *
56597414 AAGA-AGCAGATCTTGCTTTCCTGCATTAACAGCAAAGCAGATC
131 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* * * *
56597457 GAAAACAAAGCCTTACCTTCATTGGTTGCAATGGGGCTAGTTAAAGACAAAAGATCTTGCCTTCT
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
**
56597522 TGCATTAACAATGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTA
66 TGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTA
* * *
56597587 AAGA-AGCAGATCTTGCCTTCTTGCATTAACATCGAAGCAGATC
131 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* * * **
56597630 GAAAATAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
* * *
56597694 TGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTA
66 TGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTA
* *
56597759 AAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATC
131 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* *
56597803 GAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTGTCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
* * * * *
56597868 TGCATTGACAGTGAAGCAGGTCGAAGACACAAA-CCTTGCCTTTC-TCGGTTGT-GATAGAGCTG
66 TGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCC-TTCATTGGTTGTAG-TGGAGCTG
* * * * * *
56597930 GTTGAAGACAACAGATTTTTCCTTCCTGCATTGACAGCGAAGCGGGTC
127 GTTAAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* ** *
56597978 GAAGACACAAA-CCTTGCCTCTC-TCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCT
1 GAA-A-ACAAAGCCTTGCCT-TCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCT
* * * * ** *
56598041 TCCTACATTAACAGCGAAGCAGGTC-AAAGACACAAACCTTGCATCTC-TCAGTTGTAGCAGGAG
63 TCCTGCATTAACAGCGAAGCAGATCGAAA-ACA-AAGCCTTGCCT-TCATTGGTTGTAG-TGGAG
* * * * *
56598104 CTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGATAGCGAAGCAGGTC
124 CTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* * * *
56598155 -AAAGACACAAACCTTGCCTCTCTCAGTT-GTAGC-A-GGAGCTGGTTGAAGACAACAGATCTTG
1 GAAA-ACA-AAGCCTTG-C-CT-TCA-TTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTG
* * * * * *
56598216 CCTTCCTGTATTGACAGTGAAGCAGGTCGAAGACACGAA-CCTTGCCTCTC-TCGGTTGT-GATG
60 CCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCT-TCATTGGTTGTAG-TG
* ** * * *
56598278 GAGCTAGTTGAAA-ACATTAGATCTTGCCTTCTTGCATTGACAACGAAGCAGATC
121 GAGCTGGTT-AAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
56598332 GAAGATAC-AAGCCTTGC
1 GAA-A-ACAAAGCCTTGC
56598349 ATCCCTAAGC
Statistics
Matches: 769, Mismatches: 99, Indels: 45
0.84 0.11 0.05
Matches are distributed among these distances:
172 78 0.10
173 280 0.36
174 39 0.05
175 73 0.09
176 94 0.12
177 113 0.15
178 72 0.09
179 13 0.02
180 6 0.01
181 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (174 bp):
GAAAACAAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
TGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTA
AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
Found at i:56597602 original size:43 final size:43
Alignment explanation
Indices: 56597555--56597692 Score: 115
Period size: 43 Copynumber: 3.2 Consensus size: 43
56597545 AAAACAAAGC
56597555 CTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGAAGCAGAT
* * * * * * * * *
56597598 CTTGCCTTC-TTGCATT-AACATCGAAGCAGATCGAAA-ATA-AAG-C
1 CTTGCCTTCATTG-GTTGTA-GT-GGAGCTGGT-TAAAGA-AGCAGAT
56597641 CTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGAAGCAGAT
56597684 CTTGCCTTC
1 CTTGCCTTC
56597693 CTGCATTAAC
Statistics
Matches: 67, Mismatches: 18, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
41 4 0.06
42 13 0.19
43 33 0.49
44 13 0.19
45 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGAAGCAGAT
Found at i:56597731 original size:43 final size:43
Alignment explanation
Indices: 56597684--56597822 Score: 108
Period size: 43 Copynumber: 3.2 Consensus size: 43
56597674 AGAAGCAGAT
56597684 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGC
* * * * * * *
56597727 CTTGCCTTCATTG-GTT----GCAATGGAGCTGGTTAAAGACAAAAGAT
1 CTTGCCTTC-CTGCATTAACAGCAAAGCAGATCG--AAA-AC-AAAG-C
* *
56597771 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGC
56597814 CTTGCCTTC
1 CTTGCCTTC
56597823 ATTGGTTGCA
Statistics
Matches: 69, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
39 9 0.13
41 3 0.04
42 2 0.03
43 26 0.38
44 17 0.25
45 2 0.03
46 3 0.04
48 7 0.10
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGC
Found at i:56597761 original size:259 final size:263
Alignment explanation
Indices: 56597284--56598348 Score: 1213
Period size: 259 Copynumber: 4.1 Consensus size: 263
56597274 AGTGAACATT
* * *
56597284 GAAAACCAAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAGGATCTTGCCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
* *
56597349 TGCATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCCTTCATTGGTTGCA-ATGGAGCTGGT
66 TGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTTC-TCGGTTGTAGATGGAGCTGGT
* * *
56597412 TAAAGA-AGCAGATCTTGCTTTCCTGCATTAACAGCAAAGCAGATCGAA-A-ACAAAGCCTTACC
130 TAAAGACAACAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAGACACAAA-CCTTGCC
* * * *
56597474 T-TCATTGGTTGCAATGGGGCTAGTTAAAGACAAAAGATCTTGCCTTCTTGCATTAACAATGAAG
194 TCTC-TCGGTTGCAATGGAGCTAGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAG
56597538 CAGATC
258 CAGATC
* ** *
56597544 GAAAACAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCT
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
* * *
56597608 TGCATTAACATCGAAGCAGATCGAAA-ATAAAGCCTTGCCTTCATTGGTTGTAG-TGGAGCTGGT
66 TGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTTC-TCGGTTGTAGATGGAGCTGGT
*
56597671 TAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAA-A-ACAAAGCCTTGCC
130 TAAAGACAACAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAGACACAAA-CCTTGCC
* *
56597733 T-TCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAG
194 TCTC-TCGGTTGCAATGGAGCTAGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAG
56597797 CAGATC
258 CAGATC
*
56597803 GAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTGTCTTCC
1 GAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
* * * *
56597868 TGCATTGACAGTGAAGCAGGTCGAAGACACAAA-CCTTGCCTTTCTCGGTTGT-GATAGAGCTGG
66 TGCATTAACAGCGAAGCAGATCGAA-ACACAAAGCCTTGCC-TTCTCGGTTGTAGATGGAGCTGG
* * * * * * *
56597931 TTGAAGACAACAGATTTTTCCTTCCTGCATTGACAGCGAAGCGGGTCGAAGACACAAACCTTGCC
129 TTAAAGACAACAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAGACACAAACCTTGCC
** * * * *
56597996 TCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGC
194 TCTCTCGGTTGCAATGGAGCTAGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAGC
*
56598061 AGGTC
259 AGATC
* * * *
56598066 -AAAGACACAAACCTTGCATCTCTCAGTT-GTAGCA--GGAGCTGGTTGAAGACAACAGATCTTG
1 GAAA-ACA-AAGCCTTGC--CT-TCA-TTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTG
* * * * * *
56598127 CCTTCCTACATTGATAGCGAAGCAGGTCAAAGACACAAA-CCTTGCCTCTCTCAGTTGTAGCA-G
60 CCTTCCTGCATTAACAGCGAAGCAGATCGAA-ACACAAAGCCTTGCCT-TCTCGGTTGTAG-ATG
* * * ** * *
56598190 GAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGGTCGAAGACACGAA
122 GAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAGACACAAA
** ** * *
56598255 CCTTGCCTCTCTCGGTTGTGATGGAGCTAGTTGAAA-ACATTAGATCTTGCCTTCTTGCATTGAC
187 CCTTGCCTCTCTCGGTTGCAATGGAGCTAGTT-AAAGACAAAAGATCTTGCCTTCCTGCATTAAC
56598319 AACGAAGCAGATC
251 AACGAAGCAGATC
56598332 GAAGATAC-AAGCCTTGC
1 GAA-A-ACAAAGCCTTGC
56598349 ATCCCTAAGC
Statistics
Matches: 712, Mismatches: 71, Indels: 38
0.87 0.09 0.05
Matches are distributed among these distances:
259 244 0.34
260 79 0.11
261 29 0.04
262 45 0.06
263 71 0.10
264 16 0.02
265 75 0.11
266 135 0.19
267 13 0.02
268 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (263 bp):
GAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCC
TGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTTCTCGGTTGTAGATGGAGCTGGTT
AAAGACAACAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAGACACAAACCTTGCCTC
TCTCGGTTGCAATGGAGCTAGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAG
ATC
Found at i:56597938 original size:43 final size:43
Alignment explanation
Indices: 56597890--56598041 Score: 119
Period size: 44 Copynumber: 3.5 Consensus size: 43
56597880 GAAGCAGGTC
56597890 GAAGACACAAACCTTGCCTTTCTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTTTCTCGGTTGTGATAGAGCTGGTT
* ** * * ** * * *
56597933 GAAGACAACAGATTTTTCCTTCCT-GCAT-TGACAGCGAAGCGGGTC
1 GAAGAC-ACAAACCTTGCCTTTCTCGGTTGTGATA--G-AGCTGGTT
* *
56597978 GAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACACAAACCTTGCCTTTCTCGGTTGTGATAGAGCTGGTT
* *
56598021 GAAGACAAAAGATCTTGCCTT
1 GAAGACACAA-ACCTTGCCTT
56598042 CCTACATTAA
Statistics
Matches: 77, Mismatches: 25, Indels: 13
0.67 0.22 0.11
Matches are distributed among these distances:
42 4 0.05
43 23 0.30
44 33 0.43
45 14 0.18
46 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTTTCTCGGTTGTGATAGAGCTGGTT
Found at i:56598040 original size:44 final size:43
Alignment explanation
Indices: 56597834--56598042 Score: 113
Period size: 45 Copynumber: 4.8 Consensus size: 43
56597824 TTGGTTGCAG
* * * **
56597834 TGGAGCTGGTTAAAGACAAAAGATCTTGTCTTC-CTGCATTGACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCTC-G-GTTGTGA
* * * * *
56597878 GTGAAGCAGGTCGAAGACACAA-ACCTTGCCTTTCTCGGTTGTGA
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCC-TTCTCGGTTGTGA
* * * * **
56597922 TAGAGCTGGTTGAAGACAACAGATTTTTCCTTC-CTGCAT-TGA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCTC-GGTTGTGA
* * * * *
56597964 CAGCGAAGCGGGTCGAAGACACAA-ACCTTGCCTCTCTCGGTTGTGA
1 -TG-G-AGCTGGTTGAAGACAAAAGATCTTGCCT-TCTCGGTTGTGA
56598010 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTC
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTC
56598043 CTACATTAAC
Statistics
Matches: 116, Mismatches: 37, Indels: 24
0.66 0.21 0.14
Matches are distributed among these distances:
42 4 0.03
43 37 0.32
44 31 0.27
45 39 0.34
46 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (43 bp):
TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCTCGGTTGTGA
Found at i:56598204 original size:44 final size:44
Alignment explanation
Indices: 56597978--56598289 Score: 177
Period size: 44 Copynumber: 7.1 Consensus size: 44
56597968 GAAGCGGGTC
*
56597978 GAAGACACAAACCTTGCCTCTCTCGGTTGT-G-ATGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCAGTTGTAGCA-GGAGCTGGTT
* * * * *
56598021 GAAGACAAAAGATCTTGCCT-TCCTACA--T-TAACAGCGAAGCAGGTC
1 GAAGACACAA-ACCTTGCCTCT-CT-CAGTTGTAGCAG-G-AGCTGGTT
* *
56598066 AAAGACACAAACCTTGCATCTCTCAGTTGTAGCAGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCAGTTGTAGCAGGAGCTGGTT
* * * * *
56598110 GAAGACAACAGATCTTGCCT-TCCTACA-TTGATAGC-GAAGCAGGTC
1 GAAGAC-ACAAACCTTGCCTCT-CT-CAGTTG-TAGCAGGAGCTGGTT
*
56598155 AAAGACACAAACCTTGCCTCTCTCAGTTGTAGCAGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCAGTTGTAGCAGGAGCTGGTT
* * * * *
56598199 GAAGACAACAGATCTTGCCT-TC-CTGTAT-T-GACAGTGAAGCAGGTC
1 GAAGAC-ACAAACCTTGCCTCTCTCAGT-TGTAG-CAG-G-AGCTGGTT
* * *
56598244 GAAGACACGAACCTTGCCTCTCTCGGTTGT-G-ATGGAGCTAGTT
1 GAAGACACAAACCTTGCCTCTCTCAGTTGTAGCA-GGAGCTGGTT
56598287 GAA
1 GAA
56598290 AACATTAGAT
Statistics
Matches: 203, Mismatches: 39, Indels: 54
0.69 0.13 0.18
Matches are distributed among these distances:
42 2 0.01
43 35 0.17
44 77 0.38
45 73 0.36
46 16 0.08
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (44 bp):
GAAGACACAAACCTTGCCTCTCTCAGTTGTAGCAGGAGCTGGTT
Found at i:56599967 original size:3 final size:3
Alignment explanation
Indices: 56599959--56599987 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56599949 CTTAATAAAT
56599959 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56599988 TTCATTAATA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:56600100 original size:13 final size:15
Alignment explanation
Indices: 56600067--56600100 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
56600057 TATACCTGAC
56600067 ATATAATTTATTTAAT
1 ATATAATTTATTT-AT
*
56600083 ATATAATTTTTTTAT
1 ATATAATTTATTTAT
56600098 ATA
1 ATA
56600101 CGCATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATAATTTATTTAT
Found at i:56600436 original size:19 final size:18
Alignment explanation
Indices: 56600412--56600455 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
56600402 CATGAATATC
56600412 ATATTTTAAAAAAAGGAAA
1 ATATTTTAAAAAAAGG-AA
* * *
56600431 ATATTTCAAAATAAGGTA
1 ATATTTTAAAAAAAGGAA
56600449 ATATTTT
1 ATATTTT
56600456 GTGTTTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (18 bp):
ATATTTTAAAAAAAGGAA
Found at i:56600843 original size:108 final size:108
Alignment explanation
Indices: 56600428--56600833 Score: 677
Period size: 108 Copynumber: 3.7 Consensus size: 108
56600418 TAAAAAAAGG
* *
56600428 AAAATATTTCAAAATAAGGTAATATTTTGTGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
56600493 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
65 GGTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTAA
* * *
56600537 AAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAAATTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
56600602 GGTTTCGATTTCTCGTTCCACCAAATGACTTAATATCCTTTTAA
65 GGTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTAA
*
56600646 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTATTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
56600711 GTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTAA
66 GTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTAA
* * *
56600754 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGCTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
56600819 GTTTCGATTTCTCGT
66 GTTTCGATTTCTCGT
56600834 CTAACCAAAT
Statistics
Matches: 277, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
108 174 0.63
109 103 0.37
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (108 bp):
AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTAA
Found at i:56604571 original size:15 final size:15
Alignment explanation
Indices: 56604553--56604582 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56604543 AAAAAAGAAA
*
56604553 AAGAGAAAATTATAT
1 AAGAGAAAATAATAT
56604568 AAGAGAAAATAATAT
1 AAGAGAAAATAATAT
56604583 TTTTTGTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
AAGAGAAAATAATAT
Found at i:56614758 original size:17 final size:18
Alignment explanation
Indices: 56614687--56614758 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 18
56614677 TCTTTAACGT
* *
56614687 TTTCTTTCCCTTTTCTTC
1 TTTCTTTTCTTTTTCTTC
56614705 TTAT-TTTTC-TTTTCTTC
1 TT-TCTTTTCTTTTTCTTC
* **
56614722 TTTC-TTTCTTCTTCACC
1 TTTCTTTTCTTTTTCTTC
56614739 TTTCTTTTCTTTTTC-TC
1 TTTCTTTTCTTTTTCTTC
56614756 TTT
1 TTT
56614759 GCTTATTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.11
17 23 0.52
18 15 0.34
19 1 0.02
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCTTC
Found at i:56615372 original size:63 final size:63
Alignment explanation
Indices: 56615264--56615460 Score: 209
Period size: 63 Copynumber: 3.1 Consensus size: 63
56615254 TGAGCCATAT
* * * * * * **
56615264 GGCCGTATAACTCACTGTTATGGATTTAAGGTCACATGAAG-TAGGGACACGAGCGTGTTTTTA
1 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACG-GGCTAGGGACACGAGCGTGTGTCCA
* *
56615327 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGATAC-AGGCGTCTGTCCA
1 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACACGA-GCGTGTGTCCA
* * * * * * *
56615390 GGCTGTGTAACTTATTGTTTTGGATTTAGGGTCACACAGGCCAGGAACACGGGCGTGTGTCCA
1 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACACGAGCGTGTGTCCA
56615453 GGCCGTGT
1 GGCCGTGT
56615461 GATGGGTTGC
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
62 2 0.02
63 109 0.98
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (63 bp):
GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACACGAGCGTGTGTCCA
Found at i:56619498 original size:33 final size:33
Alignment explanation
Indices: 56619456--56619554 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
56619446 GTAAAAAATG
* *
56619456 AGGAATCATATTTATAGGTTTCTATAATATAAA
1 AGGAATCATATTTATAGGATTCAATAATATAAA
*
56619489 AGGAATCATATTTATAGGATTCAATAGTATAAA
1 AGGAATCATATTTATAGGATTCAATAATATAAA
56619522 AGGAATCATATTTATAGGATTCAATAATATAAA
1 AGGAATCATATTTATAGGATTCAATAATATAAA
56619555 TAGTACAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (33 bp):
AGGAATCATATTTATAGGATTCAATAATATAAA
Found at i:56619537 original size:18 final size:18
Alignment explanation
Indices: 56619483--56619537 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
56619473 GTTTCTATAA
56619483 TATAAAAGGAATCATATT
1 TATAAAAGGAATCATATT
* *
56619501 TAT---AGGATTCA-ATAG
1 TATAAAAGGAATCATAT-T
56619516 TATAAAAGGAATCATATT
1 TATAAAAGGAATCATATT
56619534 TATA
1 TATA
56619538 GGATTCAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
18 14 0.50
19 2 0.07
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (18 bp):
TATAAAAGGAATCATATT
Found at i:56619557 original size:19 final size:19
Alignment explanation
Indices: 56619502--56619557 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 19
56619492 AATCATATTT
*
56619502 ATAGGATTCAATAGTATAA
1 ATAGGATTCAATAATATAA
* *
56619521 A-AGGAATC-AT-AT-T-T
1 ATAGGATTCAATAATATAA
56619535 ATAGGATTCAATAATATAA
1 ATAGGATTCAATAATATAA
56619554 ATAG
1 ATAG
56619558 TACAAATTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 10
0.64 0.12 0.24
Matches are distributed among these distances:
14 1 0.04
15 7 0.26
16 3 0.11
17 4 0.15
18 7 0.26
19 5 0.19
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.32
Consensus pattern (19 bp):
ATAGGATTCAATAATATAA
Found at i:56620935 original size:12 final size:12
Alignment explanation
Indices: 56620912--56620943 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56620902 TACTTATTTA
56620912 TTATTA-TTATT
1 TTATTATTTATT
56620923 TTATTATTTATT
1 TTATTATTTATT
56620935 TTATTATTT
1 TTATTATTT
56620944 CCTGCACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:56627583 original size:16 final size:17
Alignment explanation
Indices: 56627562--56627593 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56627552 TTTATTCCTT
56627562 TATTATT-TATTTATAA
1 TATTATTGTATTTATAA
56627578 TATTATTGTATTTATA
1 TATTATTGTATTTATA
56627594 CTTATGTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTATTGTATTTATAA
Found at i:56627942 original size:3 final size:3
Alignment explanation
Indices: 56627934--56628037 Score: 208
Period size: 3 Copynumber: 34.7 Consensus size: 3
56627924 TTCTTAAAAG
56627934 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
56627982 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
56628030 GAA GAA GA
1 GAA GAA GA
56628038 GTACTATAGC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:56637151 original size:19 final size:18
Alignment explanation
Indices: 56637123--56637172 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
56637113 GGATTTTTTT
56637123 AATATTAATATAATTACA
1 AATATTAATATAATTACA
* * *
56637141 ATTATTTAATATTATTATA
1 AATA-TTAATATAATTACA
56637160 AATATTAATATAA
1 AATATTAATATAA
56637173 AATTTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTAATATAATTACA
Found at i:56637562 original size:26 final size:26
Alignment explanation
Indices: 56637528--56637591 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
56637518 ATATTAGAAA
* * *
56637528 AATAATTTAATTATTAAAATAATTGT
1 AATATTTTAATTACTAAAATAATTAT
* *
56637554 AATATTTTAATTACTGAAATAGTTAT
1 AATATTTTAATTACTAAAATAATTAT
*
56637580 CATATTTTAATT
1 AATATTTTAATT
56637592 GTATTCAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (26 bp):
AATATTTTAATTACTAAAATAATTAT
Found at i:56639519 original size:33 final size:33
Alignment explanation
Indices: 56639482--56639547 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
56639472 GTAAAAAATG
* *
56639482 AGGAATCATATTTATAGGATTCAATAATATAAA
1 AGGAATCATATTTATAAGATTAAATAATATAAA
56639515 AGGAATCATATTTATAAGATTAAATAATATAAA
1 AGGAATCATATTTATAAGATTAAATAATATAAA
56639548 TAGTACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.33
Consensus pattern (33 bp):
AGGAATCATATTTATAAGATTAAATAATATAAA
Found at i:56640115 original size:3 final size:3
Alignment explanation
Indices: 56640107--56640137 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
56640097 AATGATACCA
56640107 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
56640138 ATAAATATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:56640222 original size:16 final size:16
Alignment explanation
Indices: 56640196--56640236 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
56640186 CCAAACTAAT
*
56640196 AAAACAAAAACCAAAAC
1 AAAA-AAAAACAAAAAC
56640213 AAAAAAAAACAAAAAC
1 AAAAAAAAACAAAAAC
56640229 AAATAAAA
1 AAA-AAAA
56640237 GTCCATTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAAAACAAAAAC
Found at i:56641425 original size:20 final size:20
Alignment explanation
Indices: 56641383--56641425 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
56641373 CTACTTATTT
*
56641383 TTTTATTTTTATTATCATTA
1 TTTTATTTTTATTATCATAA
*
56641403 TTTTATTATTTATT-TTATAA
1 TTTTATT-TTTATTATCATAA
56641423 TTT
1 TTT
56641426 CCGGCACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATTATCATAA
Found at i:56649621 original size:27 final size:27
Alignment explanation
Indices: 56649591--56649651 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
56649581 AGCATACGAT
* *
56649591 CATTTTACAACATAGGGGCATAACAAC
1 CATTTTACAACATAAGGGCACAACAAC
* * *
56649618 CATTTTACCACGTAAGGGCACAACAAT
1 CATTTTACAACATAAGGGCACAACAAC
56649645 CATTTTA
1 CATTTTA
56649652 TATCAGTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (27 bp):
CATTTTACAACATAAGGGCACAACAAC
Found at i:56650916 original size:44 final size:44
Alignment explanation
Indices: 56650853--56650940 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
56650843 CCACCAAATT
*
56650853 GGGATAACCTCTCCAATCCCATAATCTTCTCCTAAAATCACTCC
1 GGGATAACCTCTCAAATCCCATAATCTTCTCCTAAAATCACTCC
* *
56650897 GGGATAACCTTTCAAATCCCATGATCTTCTCCTAAAATCACTCC
1 GGGATAACCTCTCAAATCCCATAATCTTCTCCTAAAATCACTCC
56650941 AACCTTTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.34, G:0.08, T:0.28
Consensus pattern (44 bp):
GGGATAACCTCTCAAATCCCATAATCTTCTCCTAAAATCACTCC
Found at i:56654319 original size:25 final size:25
Alignment explanation
Indices: 56654291--56654340 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
56654281 GTAAAGAGTT
56654291 AGTGAAATTGTTCTTGAGACCCATA
1 AGTGAAATTGTTCTTGAGACCCATA
56654316 AGTGAAATTGTTCTTGAGACCCATA
1 AGTGAAATTGTTCTTGAGACCCATA
56654341 TTCAATTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (25 bp):
AGTGAAATTGTTCTTGAGACCCATA
Found at i:56658373 original size:3 final size:3
Alignment explanation
Indices: 56658365--56658392 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
56658355 TTAAGGTTGA
56658365 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
56658393 AGGTTGGTTT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:56661835 original size:12 final size:13
Alignment explanation
Indices: 56661816--56661848 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
56661806 TTACATGATG
56661816 TTTATTTATTTAT
1 TTTATTTATTTAT
56661829 TTT-TTTATTT-T
1 TTTATTTATTTAT
56661840 TTTATTTAT
1 TTTATTTAT
56661849 ATGTCCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 12 0.63
13 3 0.16
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:56661837 original size:16 final size:16
Alignment explanation
Indices: 56661816--56661846 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56661806 TTACATGATG
56661816 TTTATTTATTTATTTT
1 TTTATTTATTTATTTT
*
56661832 TTTATTTTTTTATTT
1 TTTATTTATTTATTT
56661847 ATATGTCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTATTTATTTATTTT
Found at i:56661859 original size:64 final size:59
Alignment explanation
Indices: 56661757--56661897 Score: 138
Period size: 64 Copynumber: 2.3 Consensus size: 59
56661747 CATACATACA
** * ** * *
56661757 TTTTTATATTTTTTATAATTTTATTCATTTGTTTATTATCATTATTGTTTTACATGATGTTTAT
1 TTTTTAT-TTTTTTATTTTTTTATTCATATGTCCATTATCATTA-T-TTTTAAATG-T-TTTAG
* *
56661821 TTATTTATTTTTTTATTTTTTTATTTATATGTCCATTATTATTATTTTTAAATGTTTTAG
1 TT-TTTATTTTTTTATTTTTTTATTCATATGTCCATTATCATTATTTTTAAATGTTTTAG
*
56661881 TTTTTATTTGTTTATTT
1 TTTTTATTTTTTTATTT
56661898 ACTCGGTATT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 14 0.21
60 6 0.09
61 1 0.02
62 8 0.12
63 1 0.02
64 31 0.47
65 5 0.08
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (59 bp):
TTTTTATTTTTTTATTTTTTTATTCATATGTCCATTATCATTATTTTTAAATGTTTTAG
Found at i:56663890 original size:4 final size:4
Alignment explanation
Indices: 56663881--56663911 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
56663871 AATGAAAATG
*
56663881 TAAA TAAA TAAA TAAA TAAA TAAA TGAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
56663912 GATTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:56671651 original size:42 final size:42
Alignment explanation
Indices: 56671545--56671661 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
56671535 GACGCTAAAT
* *
56671545 CTAAAGAACATGATATTTAGCAGCGCTTTTCTTACAAACGCCA
1 CTAAAGAACATGATCTTTAGCGGCGCTTTT-TTACAAACGCCA
* *
56671588 CTAAA-AATCAT-ATTCTATAGCGGCGCTTTTTTACAAACGCGA
1 CTAAAGAA-CATGA-TCTTTAGCGGCGCTTTTTTACAAACGCCA
*
56671630 CTAAAGAACATGATCTTTAGCGGC-ATTTTTTA
1 CTAAAGAACATGATCTTTAGCGGCGCTTTTTTA
56671662 TGAGAAGTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 7 0.11
42 32 0.50
43 25 0.39
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
CTAAAGAACATGATCTTTAGCGGCGCTTTTTTACAAACGCCA
Found at i:56671719 original size:43 final size:44
Alignment explanation
Indices: 56671630--56671723 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
56671620 ACAAACGCGA
* * *
56671630 CTAAAGAACATGATCTTTAGCGGCATTTTTTATGAGAAGTGTCG
1 CTAAAGAACATGATCTTTAGCGGCAGTTTTTATGAGAAGAGCCG
* *
56671674 CTAAAGATCATGTTCTTTAGCGGC-GTTTTTA-GTAGAAGAGCCG
1 CTAAAGAACATGATCTTTAGCGGCAGTTTTTATG-AGAAGAGCCG
56671717 CTAAAGA
1 CTAAAGA
56671724 CCATATCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 21 0.48
44 22 0.50
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (44 bp):
CTAAAGAACATGATCTTTAGCGGCAGTTTTTATGAGAAGAGCCG
Found at i:56675958 original size:28 final size:28
Alignment explanation
Indices: 56675883--56675984 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
56675873 CTACAACATG
* * * *
56675883 CAGTAACAATCTGGGCCTGAGCCCTATG
1 CAGTAACAATGTGGGCCTTAGCCCAATA
*
56675911 CAGTAACAGTACAGTGTGGGCCTTAGCCCGATA
1 CAGTAAC---A-A-TGTGGGCCTTAGCCCAATA
56675944 CAGTAACAATGTGGGCCTTTA-CCCAATA
1 CAGTAACAATGTGGGCC-TTAGCCCAATA
* *
56675972 CAATAACAGTGTG
1 CAGTAACAATGTG
56675985 ATAATACAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
28 32 0.52
29 4 0.07
30 1 0.02
31 1 0.02
32 1 0.02
33 22 0.36
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (28 bp):
CAGTAACAATGTGGGCCTTAGCCCAATA
Found at i:56676108 original size:26 final size:26
Alignment explanation
Indices: 56676079--56676133 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
56676069 AATACACCAA
56676079 TATCGCAGCAAAACTGCCAGTAAAAG
1 TATCGCAGCAAAACTGCCAGTAAAAG
* * *
56676105 TATCGCAGCGAAGCTGCCAGTAATAG
1 TATCGCAGCAAAACTGCCAGTAAAAG
56676131 TAT
1 TAT
56676134 ATACGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAACTGCCAGTAAAAG
Found at i:56676356 original size:27 final size:27
Alignment explanation
Indices: 56676322--56676445 Score: 176
Period size: 27 Copynumber: 4.6 Consensus size: 27
56676312 GGTATAACAG
* *
56676322 TCATTTTACCCTATGGGGATATTTCGA
1 TCATTTTACCCTTTGGGGGTATTTCGA
* *
56676349 TCAGTTTACCCTTTGGGGGTATTTCGG
1 TCATTTTACCCTTTGGGGGTATTTCGA
* *
56676376 TCATTTTTCCCTTTGGGGGTAGTTCGA
1 TCATTTTACCCTTTGGGGGTATTTCGA
* *
56676403 TCATTTTACCCTTCGGGGGTCTTTCGA
1 TCATTTTACCCTTTGGGGGTATTTCGA
56676430 TCATTTTACCCTTTGG
1 TCATTTTACCCTTTGG
56676446 AGGCAAGTTG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTTGGGGGTATTTCGA
Found at i:56677903 original size:45 final size:44
Alignment explanation
Indices: 56677808--56677904 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
56677798 ATAAGATTTG
*
56677808 TAATTTGTAACTTTAATCTGTTCCACTACAACTTCAGGGAAATA
1 TAATTTGTAACTTTAATCTGCTCCACTACAACTTCAGGGAAATA
* * * *
56677852 -AGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 TA-ATTTG-TAACTTTAATCTGCTCCACTACAACTTCAGGGAAATA
56677897 TAATTTGT
1 TAATTTGT
56677905 CATGATGACT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 6 0.13
45 37 0.82
46 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (44 bp):
TAATTTGTAACTTTAATCTGCTCCACTACAACTTCAGGGAAATA
Found at i:56685941 original size:19 final size:20
Alignment explanation
Indices: 56685919--56685956 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
56685909 TTATGAAACT
*
56685919 TAATGCATATG-ATGAAATA
1 TAATGCAGATGAATGAAATA
*
56685938 TAATGTAGATGAATGAAAT
1 TAATGCAGATGAATGAAAT
56685957 GAATGCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATA
Found at i:56690970 original size:17 final size:17
Alignment explanation
Indices: 56690944--56690976 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56690934 ACTTTTGATA
56690944 TTTGGACTTATTTATTT
1 TTTGGACTTATTTATTT
*
56690961 TTTGGTCTTATTTATT
1 TTTGGACTTATTTATT
56690977 ATTATTGGGC
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:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTGGACTTATTTATTT
Found at i:56691782 original size:98 final size:97
Alignment explanation
Indices: 56691657--56691852 Score: 347
Period size: 98 Copynumber: 2.0 Consensus size: 97
56691647 GTACAATAAA
*
56691657 ACTTTAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 ACTTTAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
*
56691722 CTCTAGAATCCCAAACTCGAAATATTTCCTTT
66 CTCTAAAATCCCAAACTCGAAATATTTCCTTT
56691754 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTT-AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
56691819 CCTTTAAAATCCCAAACTCGAAATATTTCTTTT
65 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
56691852 A
1 A
56691853 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 5 0.05
98 89 0.95
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (97 bp):
ACTTTAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTCTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:56692142 original size:9 final size:9
Alignment explanation
Indices: 56692128--56692152 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
56692118 TGCAGATGCT
56692128 ATAATAACA
1 ATAATAACA
56692137 ATAATAACA
1 ATAATAACA
56692146 ATAATAA
1 ATAATAA
56692153 ATACATCATC
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:56696401 original size:34 final size:33
Alignment explanation
Indices: 56696358--56696433 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 33
56696348 AAGCAACAAT
*
56696358 GCAC-AAAAATGTTAGCATTGGCAGCAATCGCA
1 GCACAAAAAATGTTAGCATTGACAGCAATCGCA
*
56696390 GCACCAAAAAATGTTAGCATTGACAGCAATCGTA
1 GCA-CAAAAAATGTTAGCATTGACAGCAATCGCA
56696424 GCACAAAAAA
1 GCACAAAAAA
56696434 CCTTGGGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 3 0.08
33 8 0.20
34 29 0.73
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.17
Consensus pattern (33 bp):
GCACAAAAAATGTTAGCATTGACAGCAATCGCA
Found at i:56696928 original size:23 final size:23
Alignment explanation
Indices: 56696902--56696995 Score: 143
Period size: 23 Copynumber: 4.1 Consensus size: 23
56696892 AAGTTAGAAG
56696902 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
56696925 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
56696948 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
*
56696971 AGTTAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
56696994 AG
1 AG
56696996 ATACACACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:56701428 original size:23 final size:23
Alignment explanation
Indices: 56701402--56701495 Score: 143
Period size: 23 Copynumber: 4.1 Consensus size: 23
56701392 AAGTTAGAAG
56701402 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
56701425 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
56701448 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
*
56701471 AGTTAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
56701494 AG
1 AG
56701496 ATACACACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:56702613 original size:21 final size:21
Alignment explanation
Indices: 56702561--56702685 Score: 67
Period size: 22 Copynumber: 5.7 Consensus size: 21
56702551 ATACACAAAT
*
56702561 ATATAGGGTTCACATAAATAATC
1 ATATAGGGTTCGCAT-AATAA-C
*
56702584 ATGTAGGGTTCGCAT-ATACAC
1 ATATAGGGTTCGCATAATA-AC
*
56702605 ATATAGGGTTCGCATCATAAAC
1 ATATAGGGTTCGCATAAT-AAC
* ** *
56702627 ATGTTTGGTTTGCATATATAAGC
1 ATATAGGGTTCGCATA-ATAA-C
* * *
56702650 ACATA-GGTTCACATATTTAAC
1 ATATAGGGTTCGCATA-ATAAC
56702671 A-ATTAGGGTTCGCAT
1 ATA-TAGGGTTCGCAT
56702686 GTATATTCCT
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.01
21 22 0.28
22 38 0.47
23 19 0.24
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (21 bp):
ATATAGGGTTCGCATAATAAC
Found at i:56702643 original size:43 final size:44
Alignment explanation
Indices: 56702561--56702644 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
56702551 ATACACAAAT
*
56702561 ATATAGGGTTCACATAAATAATCATGTAGGGTTCGCATATACAC
1 ATATAGGGTTCACATAAATAAACATGTAGGGTTCGCATATACAC
* * ** *
56702605 ATATAGGGTTCGCAT-CATAAACATGTTTGGTTTGCATATA
1 ATATAGGGTTCACATAAATAAACATGTAGGGTTCGCATATA
56702645 TAAGCACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 20 0.59
44 14 0.41
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (44 bp):
ATATAGGGTTCACATAAATAAACATGTAGGGTTCGCATATACAC
Found at i:56709452 original size:40 final size:40
Alignment explanation
Indices: 56709402--56709509 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
56709392 AAAAATGCCA
* **
56709402 CTAAAAATCGAGCATTAGCGGCGCTTTATGGAAA-ACGGCG
1 CTAAAAATCGAGCATTAGCGGCGCTTT-TCGAAACACACCG
* * *
56709442 CTAAAGATCGAGCATTTGCGGTGCTTTTCGAAACACACCG
1 CTAAAAATCGAGCATTAGCGGCGCTTTTCGAAACACACCG
* *
56709482 TTAAAAAT-GAGCATTAGCGGCGTTTTTC
1 CTAAAAATCGAGCATTAGCGGCGCTTTTC
56709510 CTAAAAACGC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 22 0.39
40 34 0.61
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (40 bp):
CTAAAAATCGAGCATTAGCGGCGCTTTTCGAAACACACCG
Found at i:56709622 original size:41 final size:41
Alignment explanation
Indices: 56709565--56709717 Score: 227
Period size: 41 Copynumber: 3.7 Consensus size: 41
56709555 ACCTTTCTGG
56709565 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCGG-
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-CGGT
*** *
56709606 GCTTTAGCGATATTTTTGAAAAATCGCCGCTAATGCTCGGT
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * *
56709647 GCTTTAACGTCGTTTTTGAAAAAGTGCCGCTAATGCTCGGT
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
56709688 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
56709718 AAAAAACATT
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
40 3 0.03
41 95 0.97
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
Found at i:56710050 original size:21 final size:21
Alignment explanation
Indices: 56710026--56710142 Score: 60
Period size: 21 Copynumber: 5.5 Consensus size: 21
56710016 TCATTATAGT
56710026 TTAGGGTTTAAGGTTTAGGAG
1 TTAGGGTTTAAGGTTTAGGAG
**
56710047 TTAGTATCTTAAGGTTTATGGA-
1 TTAGGGT-TTAAGGTTTA-GGAG
* * * *
56710069 TTATGGGTTTAGGGATTATGAT
1 TTA-GGGTTTAAGGTTTAGGAG
* * *
56710091 TTATGGTTTAAGGATT-GGGG
1 TTAGGGTTTAAGGTTTAGGAG
* * *
56710111 TTTAAGGTTTAGGGGTTAAGG-G
1 -TTAGGGTTTA-AGGTTTAGGAG
56710133 TTAGGGTTTA
1 TTAGGGTTTA
56710143 TGATTTATGG
Statistics
Matches: 72, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
20 1 0.01
21 36 0.50
22 28 0.39
23 7 0.10
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (21 bp):
TTAGGGTTTAAGGTTTAGGAG
Found at i:56710079 original size:15 final size:15
Alignment explanation
Indices: 56710059--56710088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56710049 AGTATCTTAA
*
56710059 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
56710074 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
56710089 ATTTATGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:56710119 original size:7 final size:7
Alignment explanation
Indices: 56710059--56710172 Score: 68
Period size: 7 Copynumber: 16.0 Consensus size: 7
56710049 AGTATCTTAA
*
56710059 GGTTTAT
1 GGTTTAG
*
56710066 GGATTATG
1 GGTTTA-G
56710074 GGTTTAG
1 GGTTTAG
* *
56710081 GGATTAT
1 GGTTTAG
* *
56710088 GATTTAT
1 GGTTTAG
*
56710095 GGTTTAA
1 GGTTTAG
* *
56710102 GGATTGG
1 GGTTTAG
*
56710109 GGTTTAA
1 GGTTTAG
56710116 GGTTTAGG
1 GGTTTA-G
*
56710124 GGTTAAG
1 GGTTTAG
56710131 GG-TTAG
1 GGTTTAG
*
56710137 GGTTTAT
1 GGTTTAG
* *
56710144 GATTTAT
1 GGTTTAG
56710151 GGTTTAGG
1 GGTTTA-G
56710159 GGTTTAG
1 GGTTTAG
56710166 GGTTTAG
1 GGTTTAG
56710173 ATTAATTACT
Statistics
Matches: 81, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
6 5 0.06
7 60 0.74
8 16 0.20
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:56710149 original size:28 final size:28
Alignment explanation
Indices: 56710061--56710175 Score: 115
Period size: 28 Copynumber: 4.1 Consensus size: 28
56710051 TATCTTAAGG
* * *
56710061 TTTATGGATTATGGGTTTAGGGATTATGA
1 TTTATGGTTTAAGGG-TTAGGGTTTATGA
* * * *
56710090 TTTATGGTTTAAGGATTGGGGTTTAAGG
1 TTTATGGTTTAAGGGTTAGGGTTTATGA
* *
56710118 TTTAGGGGTTAAGGGTTAGGGTTTATGA
1 TTTATGGTTTAAGGGTTAGGGTTTATGA
*
56710146 TTTATGGTTTAGGGGTTTAGGGTTTA-GA
1 TTTATGGTTTAAGGG-TTAGGGTTTATGA
56710174 TT
1 TT
56710176 AATTACTGTT
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
28 47 0.68
29 22 0.32
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (28 bp):
TTTATGGTTTAAGGGTTAGGGTTTATGA
Found at i:56710409 original size:22 final size:22
Alignment explanation
Indices: 56710335--56710412 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
56710325 TAGGGATTAT
* *
56710335 GGTTTATGGTTTAAGGG-TTGG
1 GGTTTAAGGTTTAAGGGATAGG
*
56710356 GGTTTAAGGTTT-AGGGATTTA-T
1 GGTTTAAGGTTTAAGGGA--TAGG
*
56710378 GATTTAAGGTTTAAGGGATAGG
1 GGTTTAAGGTTTAAGGGATAGG
*
56710400 GGTTTGAGGTTTA
1 GGTTTAAGGTTTA
56710413 GGGTTTAGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.29
22 22 0.49
23 6 0.13
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (22 bp):
GGTTTAAGGTTTAAGGGATAGG
Found at i:56710418 original size:14 final size:14
Alignment explanation
Indices: 56710323--56710419 Score: 77
Period size: 14 Copynumber: 6.8 Consensus size: 14
56710313 AGATTATGAA
* *
56710323 TTTAGGGATTATGG
1 TTTAGGGTTTAAGG
*
56710337 TTTATGGTTTAAGG
1 TTTAGGGTTTAAGG
* *
56710351 GTTGGGGTTTAAGG
1 TTTAGGGTTTAAGG
* *
56710365 TTTAGGGATTTATGA
1 TTTAGGG-TTTAAGG
*
56710380 TTTAAGGTTTAAGG
1 TTTAGGGTTTAAGG
** *
56710394 GATAGGGGTTTGAGG
1 TTTA-GGGTTTAAGG
56710409 TTTAGGGTTTA
1 TTTAGGGTTTA
56710420 GATTAATTAG
Statistics
Matches: 61, Mismatches: 20, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
14 40 0.66
15 21 0.34
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:56711254 original size:72 final size:73
Alignment explanation
Indices: 56711155--56711304 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 73
56711145 TTTTTCCCCA
56711155 TTTTATTTTTCCCAACCATTTCTCCCCTACCCCGATTCCCTTTA-T-CCCCAATTTCCCCAAATC
1 TTTTATTTTTCCCAACCATTTCTCCCCTACCCCGATTCCCTTTATTCCCCCAATTTCCCCAAATC
56711218 GGCAGCCC
66 GGCAGCCC
56711226 TTTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCCCTTTATTTTTCCCCCCAATTTCCCC
1 TTTTATTTTTCCC-AACCATTTCTCCCCTACCCCGATTCCCTTTA---TT-CCCCCAATTTCCCC
56711291 AAATCGGCAGCCC
61 AAATCGGCAGCCC
56711304 T
1 T
56711305 CTGCATCTCC
Statistics
Matches: 72, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
71 13 0.18
72 31 0.43
76 1 0.01
78 27 0.38
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.35
Consensus pattern (73 bp):
TTTTATTTTTCCCAACCATTTCTCCCCTACCCCGATTCCCTTTATTCCCCCAATTTCCCCAAATC
GGCAGCCC
Done.