Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 304 of 345
Found at i:91598608 original size:93 final size:92
Alignment explanation
Indices: 91598410--91598638 Score: 325
Period size: 93 Copynumber: 2.5 Consensus size: 92
91598400 TTTGACATGA
* * * * * *
91598410 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
*** * *
91598474 CCATGGTCTTGTTCATTTCATATCATGT
65 CCATGGTCTTACACATTTCATATCAGGC
91598502 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATC-TTTCAA
*
91598567 CTATGGTCTTACACATTTCATATCAGGC
65 CCATGGTCTTACACATTTCATATCAGGC
91598595 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
91598639 AGAGCACACT
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
91 4 0.03
92 47 0.38
93 72 0.59
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGC
Found at i:91598638 original size:46 final size:46
Alignment explanation
Indices: 91598410--91598638 Score: 325
Period size: 46 Copynumber: 5.0 Consensus size: 46
91598400 TTTGACATGA
* * * * * *
91598410 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
91598456 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
91598502 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
91598548 TGCCATGGTATCTTTTCAACTATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATC-TTTCAACCATGGTCTTACACATTTCATATCAGGT
91598595 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
91598639 AGAGCACACT
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.02
46 120 0.71
47 44 0.26
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:91603065 original size:28 final size:28
Alignment explanation
Indices: 91603020--91603074 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
91603010 TCCCTGGTGG
* *
91603020 ACATTCCACCTAAGATAGTCCTTGGCGT
1 ACATTCCACCTAACATAGTCCTCGGCGT
*
91603048 ACATTCCACTTAACATAGTCCTCGGCG
1 ACATTCCACCTAACATAGTCCTCGGCG
91603075 GACTTCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
ACATTCCACCTAACATAGTCCTCGGCGT
Found at i:91606047 original size:20 final size:22
Alignment explanation
Indices: 91606019--91606059 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
91606009 AGAGGCTTCC
91606019 ATGTATAT-AAAT-TTAAATTT
1 ATGTATATAAAATATTAAATTT
*
91606039 ATGTGTATAAAATATTAAATT
1 ATGTATATAAAATATTAAATT
91606060 CCAATTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
ATGTATATAAAATATTAAATTT
Found at i:91606237 original size:23 final size:23
Alignment explanation
Indices: 91606211--91606255 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91606201 GTTTATGGGT
* *
91606211 TGAGATTGAATTATAATTTTTTA
1 TGAGATTAAAGTATAATTTTTTA
*
91606234 TGAGGTTAAAGTATAATTTTTT
1 TGAGATTAAAGTATAATTTTTT
91606256 TATATTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (23 bp):
TGAGATTAAAGTATAATTTTTTA
Found at i:91611864 original size:2 final size:2
Alignment explanation
Indices: 91611857--91611892 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
91611847 ATTATTATTT
91611857 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91611893 ACAAAAGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91611925 original size:18 final size:18
Alignment explanation
Indices: 91611896--91611930 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
91611886 ATATATAACA
91611896 AAAGATAAACAAGCAAAAC
1 AAAGATAAACAAG-AAAAC
91611915 AAAGA-AAACAAGAAAA
1 AAAGATAAACAAGAAAA
91611931 TTATAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.74, C:0.11, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAGATAAACAAGAAAAC
Found at i:91622458 original size:16 final size:15
Alignment explanation
Indices: 91622433--91622480 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
91622423 CTATTTTAAG
91622433 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
91622448 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
91622465 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
91622480 T
1 T
91622481 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:91623401 original size:7 final size:7
Alignment explanation
Indices: 91623389--91623420 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
91623379 TTATTTCATC
91623389 TTTTACT
1 TTTTACT
91623396 TTTTACT
1 TTTTACT
91623403 TTTTACT
1 TTTTACT
91623410 TTTTACGT
1 TTTTAC-T
91623418 TTT
1 TTT
91623421 CTTGTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (7 bp):
TTTTACT
Found at i:91629770 original size:18 final size:18
Alignment explanation
Indices: 91629725--91629789 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
91629715 GGCAGAGAAC
* *
91629725 AATTTTGACAAGCATTAC
1 AATTTTGACCAGCATTAT
91629743 AATTTTGACCAGCATTAT
1 AATTTTGACCAGCATTAT
* *
91629761 AATTTTGACCAACAGTAT
1 AATTTTGACCAGCATTAT
*
91629779 AACTTTGACCA
1 AATTTTGACCA
91629790 TAGCCATGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (18 bp):
AATTTTGACCAGCATTAT
Found at i:91640546 original size:2 final size:2
Alignment explanation
Indices: 91640541--91640570 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91640531 TAAGAAAATG
91640541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91640571 GAAAGTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91644974 original size:21 final size:21
Alignment explanation
Indices: 91644948--91644988 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91644938 ATCTGCTCAA
* *
91644948 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
91644969 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
91644989 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:91652030 original size:26 final size:26
Alignment explanation
Indices: 91651991--91652046 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
91651981 TTCAAAATAC
**
91651991 AAATATATGTATATA-TAATATCTAAA
1 AAATATATAAATATATTAA-ATCTAAA
*
91652017 AAATATATAAATATATTAAATTTAAA
1 AAATATATAAATATATTAAATCTAAA
91652043 AAAT
1 AAAT
91652047 CAATTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
AAATATATAAATATATTAAATCTAAA
Found at i:91657637 original size:16 final size:18
Alignment explanation
Indices: 91657603--91657637 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
91657593 TGTCAGCAGA
91657603 ATTTGAACAGAAGTATAT
1 ATTTGAACAGAAGTATAT
91657621 ATTTGAAC-GAA-TATAT
1 ATTTGAACAGAAGTATAT
91657637 A
1 A
91657638 GATGTGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (18 bp):
ATTTGAACAGAAGTATAT
Found at i:91658289 original size:27 final size:27
Alignment explanation
Indices: 91658259--91658312 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
91658249 TAATTGGAAA
91658259 GCAACAAAAAAAAGTGATGTAATATAC
1 GCAACAAAAAAAAGTGATGTAATATAC
91658286 GCAACAAAAAAAAGTGATGTAATATAC
1 GCAACAAAAAAAAGTGATGTAATATAC
91658313 TTACATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.19
Consensus pattern (27 bp):
GCAACAAAAAAAAGTGATGTAATATAC
Found at i:91661614 original size:4 final size:4
Alignment explanation
Indices: 91661605--91661635 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
91661595 AGGGAGGTTA
91661605 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
91661636 TCCATTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:91664858 original size:14 final size:14
Alignment explanation
Indices: 91664815--91664858 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
91664805 AAAAGTAATG
91664815 AAATTAAATTACTAA
1 AAATTAAATTA-TAA
* *
91664830 AAATAAAAATATAA
1 AAATTAAATTATAA
*
91664844 AAATTAAATTTTAA
1 AAATTAAATTATAA
91664858 A
1 A
91664859 TTTACGAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATTAAATTATAA
Found at i:91667297 original size:29 final size:28
Alignment explanation
Indices: 91667264--91667365 Score: 99
Period size: 28 Copynumber: 3.7 Consensus size: 28
91667254 AAAAATTAAA
91667264 TATTAAAAATA-TTAAAATTGATATAAACT
1 TATTAAAAATAGTTAAAATT-A-ATAAACT
*
91667293 TATTAAAATTA--TAAAATTAA-AAA-T
1 TATTAAAAATAGTTAAAATTAATAAACT
*
91667317 TATTTAAAAA-ATTGTAAAATTAATAAACT
1 TA-TTAAAAATAGT-TAAAATTAATAAACT
*
91667346 TATTTAAAATAGTTAAAATT
1 TATTAAAAATAGTTAAAATT
91667366 TTTAAAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
24 4 0.06
25 9 0.15
26 1 0.02
27 10 0.16
28 23 0.37
29 15 0.24
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (28 bp):
TATTAAAAATAGTTAAAATTAATAAACT
Found at i:91667299 original size:9 final size:9
Alignment explanation
Indices: 91667264--91667386 Score: 67
Period size: 9 Copynumber: 13.1 Consensus size: 9
91667254 AAAAATTAAA
*
91667264 TATTAAAAA
1 TATTAAAAT
91667273 TATTAAAAT
1 TATTAAAAT
*
91667282 TGATATAAACT
1 T-AT-TAAAAT
91667293 TATTAAAAT
1 TATTAAAAT
91667302 TA-TAAAAT
1 TATTAAAAT
91667310 TA--AAAAT
1 TATTAAAAT
91667317 TATTTAAAAAAT
1 TA-TT--AAAAT
*
91667329 T-GTAAAAT
1 TATTAAAAT
* *
91667337 TAATAAACT
1 TATTAAAAT
91667346 TATTTAAAA-
1 TA-TTAAAAT
91667355 TAGTTAAAAT
1 TA-TTAAAAT
*
91667365 TTTTAAAAAAT
1 TATT--AAAAT
91667376 TCATTAAAAT
1 T-ATTAAAAT
91667386 T
1 T
91667387 CTTTTAAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
7 7 0.08
8 14 0.16
9 33 0.37
10 16 0.18
11 12 0.13
12 8 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (9 bp):
TATTAAAAT
Found at i:91667307 original size:17 final size:15
Alignment explanation
Indices: 91667255--91667319 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 15
91667245 AACAATAAAA
*
91667255 AAAATTAAATATTA-
1 AAAATTAAAAATTAT
*
91667269 AAAATATTAAAATTGAT
1 AAAAT-TAAAAATT-AT
91667286 ATAAACTTATTAAAATTAT
1 A-AAA-TTA--AAAATTAT
91667305 AAAATTAAAAATTAT
1 AAAATTAAAAATTAT
91667320 TTAAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
14 5 0.12
15 14 0.34
16 1 0.02
17 4 0.10
18 7 0.17
19 4 0.10
20 6 0.15
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAATTAAAAATTAT
Found at i:91667334 original size:27 final size:29
Alignment explanation
Indices: 91667268--91667354 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 29
91667258 ATTAAATATT
91667268 AAAAA-TATTAAAATTGATATAAACTTA-TT-
1 AAAAATTA-TAAAATT-A-ATAAACTTATTTA
91667297 -AAAATTATAAAATTAA-AAA-TTATTTA
1 AAAAATTATAAAATTAATAAACTTATTTA
*
91667323 AAAAATTGTAAAATTAATAAACTTATTTA
1 AAAAATTATAAAATTAATAAACTTATTTA
91667352 AAA
1 AAA
91667355 TAGTTAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
24 3 0.06
25 5 0.10
26 1 0.02
27 16 0.31
28 14 0.27
29 12 0.24
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAAATTATAAAATTAATAAACTTATTTA
Found at i:91667371 original size:28 final size:29
Alignment explanation
Indices: 91667304--91667365 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
91667294 ATTAAAATTA
*
91667304 TAAAATTAA-AAA-TTATTTAAAAAATTG
1 TAAAATTAATAAACTTATTTAAAAAAGTG
*
91667331 TAAAATTAATAAACTTATTTAAAATAGT-
1 TAAAATTAATAAACTTATTTAAAAAAGTG
91667359 TAAAATT
1 TAAAATT
91667366 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 9 0.29
28 10 0.32
29 12 0.39
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAAATTAATAAACTTATTTAAAAAAGTG
Found at i:91669811 original size:18 final size:18
Alignment explanation
Indices: 91669788--91669830 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
91669778 GCTCAAGATG
91669788 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
91669806 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
91669824 TAATTAA
1 TAATTAA
91669831 AATTTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:91679810 original size:17 final size:17
Alignment explanation
Indices: 91679788--91679831 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
91679778 TAAGCTGCTT
* *
91679788 AAAATTGATAAAAATAG
1 AAAATTGACAAAAATAA
91679805 AAAATTGAGACAAAAATAA
1 AAAATT--GACAAAAATAA
91679824 AAAATTGA
1 AAAATTGA
91679832 ATAGGTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.20
Consensus pattern (17 bp):
AAAATTGACAAAAATAA
Found at i:91680453 original size:14 final size:15
Alignment explanation
Indices: 91680427--91680457 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
91680417 AATAAAATCC
91680427 AAATATAAAATAAAT
1 AAATATAAAATAAAT
91680442 AAATAT-AAATAAAT
1 AAATATAAAATAAAT
91680456 AA
1 AA
91680458 TAATGGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATATAAAATAAAT
Found at i:91684503 original size:37 final size:37
Alignment explanation
Indices: 91684453--91684526 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
91684443 AAGCACGTTA
91684453 GTATTTTGTTTAATGATTAAATATATTTTTATGGTAG
1 GTATTTTGTTTAATGATTAAATATATTTTTATGGTAG
* *
91684490 GTATTTTGTTTAATGATTAGATGTATTTTTATGGTAG
1 GTATTTTGTTTAATGATTAAATATATTTTTATGGTAG
91684527 AGTGATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (37 bp):
GTATTTTGTTTAATGATTAAATATATTTTTATGGTAG
Found at i:91688619 original size:119 final size:118
Alignment explanation
Indices: 91688378--91688591 Score: 286
Period size: 119 Copynumber: 1.8 Consensus size: 118
91688368 CTAATAATTC
* * * *
91688378 TTCATCAACATTTAGATGTTTGTTCATTTAACAAGTTGAATAAACAAATTTTAATAATATTTTAA
1 TTCATCAACATTTAGATATTTGTTCATTTAACAAGTTGAATAAACAAATTTGAACAAAATTTTAA
* *
91688443 GATTCATTTATTAAACGAATCCAACATGAAATGAATAGAAAATTTAATTTTTAG
66 GATTCATTTATTAAACGAATCCAACATGAAA-GAATAGAAAATGTAATTTATAG
* * ** * *
91688497 TTCATCAACCTTTAGGTATTTGTTTGTTTATCAAGTTGAATAAACATATTTGAACAAAATTTTAC
1 TTCATCAACATTTAGATATTTGTTCATTTAACAAGTTGAATAAACAAATTTGAACAAAATTTTA-
*
91688562 A-ATTCATTTATTAAACGAATCTAACATGAA
65 AGATTCATTTATTAAACGAATCCAACATGAA
91688592 CAAAGCTTGT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
119 82 0.99
120 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (118 bp):
TTCATCAACATTTAGATATTTGTTCATTTAACAAGTTGAATAAACAAATTTGAACAAAATTTTAA
GATTCATTTATTAAACGAATCCAACATGAAAGAATAGAAAATGTAATTTATAG
Found at i:91689620 original size:17 final size:17
Alignment explanation
Indices: 91689598--91689630 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91689588 TTTTTACTAG
*
91689598 TTTTTTTTTTATTTTTA
1 TTTTTTGTTTATTTTTA
91689615 TTTTTTGTTTATTTTT
1 TTTTTTGTTTATTTTT
91689631 TAGTTTTATA
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:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTTGTTTATTTTTA
Found at i:91689629 original size:24 final size:25
Alignment explanation
Indices: 91689597--91689645 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
91689587 ATTTTTACTA
* *
91689597 GTTTTTTTTTTATTTTTAT-TTTTT
1 GTTTATTTTTTAGTTTTATATTTTT
91689621 GTTTATTTTTTAGTTTTATATTTTT
1 GTTTATTTTTTAGTTTTATATTTTT
91689646 AAATAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (25 bp):
GTTTATTTTTTAGTTTTATATTTTT
Found at i:91690018 original size:17 final size:18
Alignment explanation
Indices: 91689977--91690018 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
91689967 GTTAATTTTT
*
91689977 ATATTTTGGGCTTATATA
1 ATATATTGGGCTTATATA
* *
91689995 ATGTATTGGGC-TATGTA
1 ATATATTGGGCTTATATA
91690012 ATATATT
1 ATATATT
91690019 ATTAATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (18 bp):
ATATATTGGGCTTATATA
Found at i:91692247 original size:55 final size:55
Alignment explanation
Indices: 91692188--91692295 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
91692178 TGCAACAAAA
** *
91692188 AAAAAAAACTCAA-GTATC-AAATTAAACATTATAA-TTAAATTTAAGTACCAAATTG
1 AAAAAAAACT-AAGGT-TCAAAATTAAACATTA-AAGCCAAACTTAAGTACCAAATTG
*
91692243 AAAAAAAACTAAGGTTCAAAATTAAATATTAAAGCCAAACTTAAGTACCAAAT
1 AAAAAAAACTAAGGTTCAAAATTAAACATTAAAGCCAAACTTAAGTACCAAAT
91692296 AATATATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
54 6 0.13
55 40 0.87
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (55 bp):
AAAAAAAACTAAGGTTCAAAATTAAACATTAAAGCCAAACTTAAGTACCAAATTG
Found at i:91707819 original size:18 final size:18
Alignment explanation
Indices: 91707796--91707834 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
91707786 ATTGTTTGGC
*
91707796 ACTAAGTGGAGAGCCCCA
1 ACTAAGTGGAGAACCCCA
91707814 ACTAAGTGGAGAACCCCA
1 ACTAAGTGGAGAACCCCA
91707832 ACT
1 ACT
91707835 TTAATATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (18 bp):
ACTAAGTGGAGAACCCCA
Found at i:91707933 original size:5 final size:5
Alignment explanation
Indices: 91707923--91707955 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
91707913 CAAAAAAGAA
*
91707923 AAGTG AGGTG AAGTG AAGTG AAGTG AAGTG AAG
1 AAGTG AAGTG AAGTG AAGTG AAGTG AAGTG AAG
91707956 AAGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.18
Consensus pattern (5 bp):
AAGTG
Found at i:91712290 original size:93 final size:93
Alignment explanation
Indices: 91712131--91712319 Score: 378
Period size: 93 Copynumber: 2.0 Consensus size: 93
91712121 ATTTACATCT
91712131 GGTGCACTACAAAGATTCATACCAATAACATAATCAGTCAGAATAAAATAAGCATGAAGAAAGTA
1 GGTGCACTACAAAGATTCATACCAATAACATAATCAGTCAGAATAAAATAAGCATGAAGAAAGTA
91712196 CATTATCAAAGGTACATACATATGTATA
66 CATTATCAAAGGTACATACATATGTATA
91712224 GGTGCACTACAAAGATTCATACCAATAACATAATCAGTCAGAATAAAATAAGCATGAAGAAAGTA
1 GGTGCACTACAAAGATTCATACCAATAACATAATCAGTCAGAATAAAATAAGCATGAAGAAAGTA
91712289 CATTATCAAAGGTACATACATATGTATA
66 CATTATCAAAGGTACATACATATGTATA
91712317 GGT
1 GGT
91712320 TTTCTCCATT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (93 bp):
GGTGCACTACAAAGATTCATACCAATAACATAATCAGTCAGAATAAAATAAGCATGAAGAAAGTA
CATTATCAAAGGTACATACATATGTATA
Found at i:91720314 original size:42 final size:42
Alignment explanation
Indices: 91720252--91720333 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
91720242 CTAATTGGGA
* *
91720252 AAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAAGG
1 AAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAAGG
*
91720294 AAATAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 AAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
91720334 TAAAAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (42 bp):
AAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAAGG
Found at i:91720385 original size:19 final size:18
Alignment explanation
Indices: 91720363--91720402 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
91720353 TGAATAAAAC
91720363 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
91720382 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
91720400 TTA
1 TTA
91720403 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:91724246 original size:42 final size:42
Alignment explanation
Indices: 91724184--91724265 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
91724174 CTAATTGGGA
* *
91724184 AAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAAGG
1 AAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAAGG
*
91724226 AAATAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 AAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
91724266 TAAAAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (42 bp):
AAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAAGG
Found at i:91724317 original size:19 final size:18
Alignment explanation
Indices: 91724295--91724334 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
91724285 TGAATAAAAC
91724295 TTATATACCTAAATAAGAT
1 TTATATACCTAAATAA-AT
*
91724314 TTATCTACCTAAATAAAT
1 TTATATACCTAAATAAAT
91724332 TTA
1 TTA
91724335 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATATACCTAAATAAAT
Found at i:91726557 original size:42 final size:42
Alignment explanation
Indices: 91726511--91726591 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 42
91726501 CAGAATTAAA
*
91726511 TATTCTACAATA-TTTAGTAGTCATAAACTCGA-AATGATATAC
1 TATTCTACAATATTTTA-AAGTCATAAACTC-ATAATGATATAC
91726553 TATTCTACAATATTTTAAAGTCATAAACTCATAATGATA
1 TATTCTACAATATTTTAAAGTCATAAACTCATAATGATA
91726592 AAAGTCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 1 0.03
42 31 0.86
43 4 0.11
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (42 bp):
TATTCTACAATATTTTAAAGTCATAAACTCATAATGATATAC
Found at i:91731922 original size:156 final size:156
Alignment explanation
Indices: 91731629--91731915 Score: 466
Period size: 156 Copynumber: 1.8 Consensus size: 156
91731619 CAAAAAATAA
* * **
91731629 AAGAAATTAATGCATATTAGTCTAAGACACCCTCTATACTTAATGGTCACTTAAAACCAATATTA
1 AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTTAATGGTCACTAAAAACCAATACCA
* * * * *
91731694 TATCATTAAAATTTGACTAACACTTCCATCCACATTCAAAAATTAAGCAAGTAACACTATACCGA
66 TATCATTAAAATTTAACCAACACTTCCATCCACACTCAAAAATTAAGCAAGTAACACAATACCAA
91731759 TCAAAAAAATGACATTTGATTCAAAC
131 TCAAAAAAATGACATTTGATTCAAAC
*
91731785 AAGAAATTAATGCATACTAGTCTAAGACACCTTCTATACTTAATGGTCACTAAAAACCAATACCA
1 AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTTAATGGTCACTAAAAACCAATACCA
* *
91731850 TATGATTAAAATTTAACCAACACTTCCATCCAGACTCAAAAATTAAGCAAGTAACACAATACCAA
66 TATCATTAAAATTTAACCAACACTTCCATCCACACTCAAAAATTAAGCAAGTAACACAATACCAA
91731915 T
131 T
91731916 ATAAAAAGAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
156 119 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (156 bp):
AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTTAATGGTCACTAAAAACCAATACCA
TATCATTAAAATTTAACCAACACTTCCATCCACACTCAAAAATTAAGCAAGTAACACAATACCAA
TCAAAAAAATGACATTTGATTCAAAC
Found at i:91733357 original size:2 final size:2
Alignment explanation
Indices: 91733352--91733394 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
91733342 TTTGAGTCAT
91733352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91733393 TA
1 TA
91733395 ACCATGAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91737947 original size:66 final size:66
Alignment explanation
Indices: 91737841--91737974 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
91737831 GGTGCATAGA
91737841 TTGTTTTTATCGTATCTGTTATTTTTGATACAATGTCTGAAATTATTTATAATCTCTCCTCAACC
1 TTGTTTTTATCGTATCTGTTATTTTTGATACAATGTCTGAAATTATTTATAATCTCTCCTCAACC
91737906 T
66 T
*
91737907 TTGTTTTTATCGTATCTGTTATTTTTGATATAATGTCTGAAATTATTTATAATCTCTCCTCAACC
1 TTGTTTTTATCGTATCTGTTATTTTTGATACAATGTCTGAAATTATTTATAATCTCTCCTCAACC
91737972 T
66 T
91737973 TT
1 TT
91737975 AAATTGAAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (66 bp):
TTGTTTTTATCGTATCTGTTATTTTTGATACAATGTCTGAAATTATTTATAATCTCTCCTCAACC
T
Found at i:91738997 original size:12 final size:12
Alignment explanation
Indices: 91738980--91739004 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91738970 AAAGAATTTC
91738980 AATAATATTATT
1 AATAATATTATT
91738992 AATAATATTATT
1 AATAATATTATT
91739004 A
1 A
91739005 TTTTTTAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATAATATTATT
Found at i:91742817 original size:72 final size:72
Alignment explanation
Indices: 91742700--91742927 Score: 386
Period size: 72 Copynumber: 3.2 Consensus size: 72
91742690 TCCAAGAATT
*
91742700 AACGGTTGAGATTGCAACGAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
1 AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
91742765 AAATATA
66 AAATATA
* * *
91742772 AACGGTTGAGATTGCATCAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACAAATGGTG
1 AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
91742837 AAATATA
66 AAATATA
* * *
91742844 AACGGTTGAGATTGCAACAAGGATATTTGCCTTTAATGATCTGAAAATTAACATGATCGATGGTC
1 AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
91742909 AAATAT-
66 AAATATA
91742915 AACGGTTGAGATT
1 AACGGTTGAGATT
91742928 ACATCATGGG
Statistics
Matches: 146, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 13 0.09
72 133 0.91
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (72 bp):
AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
AAATATA
Found at i:91744102 original size:10 final size:10
Alignment explanation
Indices: 91744076--91744111 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
91744066 TTTTTATACT
91744076 ATTAAAATAA
1 ATTAAAATAA
91744086 A-TAAAATAA
1 ATTAAAATAA
91744095 ATTAAAATAA
1 ATTAAAATAA
91744105 ATTAAAA
1 ATTAAAA
91744112 ATATTTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATTAAAATAA
Found at i:91747606 original size:11 final size:11
Alignment explanation
Indices: 91747590--91747619 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
91747580 TCTAGTGTTT
91747590 CCTAAACTTGA
1 CCTAAACTTGA
91747601 CCTAAACTTGA
1 CCTAAACTTGA
*
91747612 CCCAAACT
1 CCTAAACT
91747620 ACAATTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.23
Consensus pattern (11 bp):
CCTAAACTTGA
Found at i:91755257 original size:137 final size:136
Alignment explanation
Indices: 91754987--91755272 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
91754977 CTATTGGCCT
**
91754987 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTT
91755052 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
91755117 ATATGC
131 ATATGC
*
91755123 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTT
91755188 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AG-CCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
91755253 CATATGC
130 CATATGC
91755260 AAGCCCATTTGGG
1 AAGCCCATTTGGG
91755273 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 64 0.44
137 82 0.56
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTT
AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:91757093 original size:26 final size:26
Alignment explanation
Indices: 91757055--91757190 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
91757045 CATGAAATTC
* *
91757055 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
91757081 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
91757107 TTATAATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
91757133 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
91757159 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
91757185 TTATCA
1 TTATCA
91757191 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:91757391 original size:18 final size:18
Alignment explanation
Indices: 91757368--91757404 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
91757358 TATTTTCACA
91757368 TAGGTTCTATTTCATAAT
1 TAGGTTCTATTTCATAAT
91757386 TAGGTTCTATTTCATAAT
1 TAGGTTCTATTTCATAAT
91757404 T
1 T
91757405 TCACCCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TAGGTTCTATTTCATAAT
Found at i:91765514 original size:24 final size:23
Alignment explanation
Indices: 91765482--91765543 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
91765472 AAAATCCAAT
* * *
91765482 GCACTATGTGTGCAGTTTACTATG
1 GCACTATGTGTGCAGTGTAAT-TA
91765506 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGC-AGTGTAATTA
91765530 GCACTATGTGTGCA
1 GCACTATGTGTGCA
91765544 AATACGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.79
25 6 0.18
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (23 bp):
GCACTATGTGTGCAGTGTAATTA
Found at i:91768871 original size:134 final size:134
Alignment explanation
Indices: 91768631--91768877 Score: 467
Period size: 134 Copynumber: 1.8 Consensus size: 134
91768621 TAAGTTATAT
91768631 TTATAACTATTTTATATTAAGAGCATGTTGATGAATGGTATAGTTGTTGCTATATATTTGCATAC
1 TTATAACTATTTTATATTAAGAGCATGTTGATGAATGGTATAGTTGTTGCTATATATTTGCATAC
*
91768696 TTCTTGCTAAGCTTTATGCTTACTCCCTCTCTTTTCTATTTTCTTATAGTGTCACCTAAATAGCT
66 TTCTTACTAAGCTTTATGCTTACTCCCTCTCTTTTCTATTTTCTTATAGTGTCACCTAAATAGCT
91768761 ATGC
131 ATGC
*
91768765 TTATAACTATTTTATATTAAGAGCATGTTGATGAATGGTTTAGTTGTTGCTATATATTTGCATAC
1 TTATAACTATTTTATATTAAGAGCATGTTGATGAATGGTATAGTTGTTGCTATATATTTGCATAC
*
91768830 TTCTTACTAGGCTTTATGCTTACTCCCTCTCTTTTCTATTTTCTTATA
66 TTCTTACTAAGCTTTATGCTTACTCCCTCTCTTTTCTATTTTCTTATA
91768878 TCATCGAACG
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 110 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (134 bp):
TTATAACTATTTTATATTAAGAGCATGTTGATGAATGGTATAGTTGTTGCTATATATTTGCATAC
TTCTTACTAAGCTTTATGCTTACTCCCTCTCTTTTCTATTTTCTTATAGTGTCACCTAAATAGCT
ATGC
Found at i:91772929 original size:20 final size:19
Alignment explanation
Indices: 91772906--91772947 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
91772896 AACTTTTTTT
91772906 TTTAAAAAATAAAATAAAAG
1 TTTAAAAAA-AAAATAAAAG
*
91772926 TTTAAAATAAAAATAAAAG
1 TTTAAAAAAAAAATAAAAG
91772945 TTT
1 TTT
91772948 TCTTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TTTAAAAAAAAAATAAAAG
Found at i:91772934 original size:18 final size:19
Alignment explanation
Indices: 91772911--91772947 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91772901 TTTTTTTTAA
91772911 AAAAT-AAAATAAAAGTTT
1 AAAATAAAAATAAAAGTTT
91772929 AAAATAAAAATAAAAGTTT
1 AAAATAAAAATAAAAGTTT
91772948 TCTTAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAATAAAAATAAAAGTTT
Found at i:91773146 original size:21 final size:21
Alignment explanation
Indices: 91773122--91773168 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
91773112 CTGAATATTG
* * * *
91773122 AATCTTGAACCTTATACCTTA
1 AATCTCGAACCTCAAACCCTA
91773143 AATCTCGAACCTCAAACCCTA
1 AATCTCGAACCTCAAACCCTA
91773164 AATCT
1 AATCT
91773169 AAATCTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (21 bp):
AATCTCGAACCTCAAACCCTA
Found at i:91775707 original size:15 final size:16
Alignment explanation
Indices: 91775680--91775710 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
91775670 AAAAATGTTA
91775680 AAAAATAATATTAAAT
1 AAAAATAATATTAAAT
91775696 AAAAATAA-ATTAAAT
1 AAAAATAATATTAAAT
91775711 TAAGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAATATTAAAT
Found at i:91776283 original size:13 final size:14
Alignment explanation
Indices: 91776255--91776287 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
91776245 CGATTGTGAG
*
91776255 GAAGAAATATAAAA
1 GAAGAAAGATAAAA
91776269 GAAGAAAGA-AAAA
1 GAAGAAAGATAAAA
91776282 GAAGAA
1 GAAGAA
91776288 GTGAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (14 bp):
GAAGAAAGATAAAA
Found at i:91777817 original size:16 final size:16
Alignment explanation
Indices: 91777793--91777824 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
91777783 ATCCGCAAGA
*
91777793 CTTATGTGCATGAATT
1 CTTACGTGCATGAATT
91777809 CTTACGTGCATGAATT
1 CTTACGTGCATGAATT
91777825 TCTCCTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (16 bp):
CTTACGTGCATGAATT
Found at i:91778452 original size:21 final size:21
Alignment explanation
Indices: 91778426--91778467 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
91778416 CCATATGAAA
91778426 ATAGACTCATCAAGATTCGAT
1 ATAGACTCATCAAGATTCGAT
*
91778447 ATAGACTCATCAAGCTTCGAT
1 ATAGACTCATCAAGATTCGAT
91778468 TCCATAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (21 bp):
ATAGACTCATCAAGATTCGAT
Found at i:91779267 original size:46 final size:46
Alignment explanation
Indices: 91779200--91779469 Score: 355
Period size: 46 Copynumber: 5.8 Consensus size: 46
91779190 TGTAACCCGC
* * * *
91779200 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
91779246 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
91779292 GCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * * *
91779338 CTATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * *
91779384 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
91779431 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
91779470 CCCAAATATC
Statistics
Matches: 191, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
45 2 0.01
46 154 0.81
47 33 0.17
48 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:91781730 original size:37 final size:37
Alignment explanation
Indices: 91781677--91781816 Score: 226
Period size: 37 Copynumber: 3.8 Consensus size: 37
91781667 CGAATAGTCC
* *
91781677 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
91781714 CCACACGTAGTCATCGGGCCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
* *
91781751 CCACACGTAGTCTTCGGGTCTTACCCGAACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
91781788 CCACACATAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
91781817 ATATATTTCC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:91782013 original size:48 final size:48
Alignment explanation
Indices: 91781955--91782436 Score: 829
Period size: 48 Copynumber: 10.0 Consensus size: 48
91781945 ATATACACAC
*
91781955 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
91782003 ATCTCATACATATTCCACACTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
91782051 ATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
91782099 ATCTCATACATATTTCACATTAGCCATTCGGATCTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
91782147 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
91782195 ATCTCATTCATATTTCACACTAGCCATTTGGATTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
91782243 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
91782291 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
91782339 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
91782387 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
91782435 AT
1 AT
91782437 TTATCTTGTA
Statistics
Matches: 411, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 411 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:91786262 original size:46 final size:46
Alignment explanation
Indices: 91786209--91786384 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
91786199 TGGTTGAGCA
91786209 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAATG
* *
91786255 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GA-T-GTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCG-AA-T--G
* *
91786300 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAATG
* *
91786348 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91786385 GCAGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 3 0.03
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 2 0.02
51 2 0.02
52 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAATG
Found at i:91786365 original size:93 final size:93
Alignment explanation
Indices: 91786206--91786377 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
91786196 GGATGGTTGA
* *
91786206 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
91786271 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
91786299 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
91786363 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
91786378 CTTATGGGCA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:91795099 original size:9 final size:9
Alignment explanation
Indices: 91795087--91795130 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
91795077 TCATTCTCGT
91795087 AATTCTCTC
1 AATTCTCTC
*
91795096 AATTTTCTC
1 AATTCTCTC
91795105 AATTCATCT-
1 AATTC-TCTC
91795114 -ATTCTCTC
1 AATTCTCTC
91795122 AATTCTCTC
1 AATTCTCTC
91795131 TAAGTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 3 0.10
8 4 0.13
9 20 0.67
10 3 0.10
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTCTCTC
Found at i:91796514 original size:42 final size:42
Alignment explanation
Indices: 91796463--91796558 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
91796453 CGGCCAAATA
*
91796463 ACACGCCCATGTGTGAGGCCATGTGTCACACACAACCGAGAC
1 ACACGCCCATGTGTGAGGCCATATGTCACACACAACCGAGAC
* * ** *
91796505 ACACACCCATGTGTGAGGCCGTATGTCACACACGGCTGAGAC
1 ACACGCCCATGTGTGAGGCCATATGTCACACACAACCGAGAC
91796547 ACACGCCCATGT
1 ACACGCCCATGT
91796559 CTCTAACCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.16
Consensus pattern (42 bp):
ACACGCCCATGTGTGAGGCCATATGTCACACACAACCGAGAC
Found at i:91797491 original size:25 final size:25
Alignment explanation
Indices: 91797444--91797492 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
91797434 TGTTCTCTCT
***
91797444 TGAGCCATATAATGGGAAGCTCATG
1 TGAGCCATATAACAAGAAGCTCATG
*
91797469 TGAGCCATATAACAAGAATCTCAT
1 TGAGCCATATAACAAGAAGCTCAT
91797493 TCGAGTTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
TGAGCCATATAACAAGAAGCTCATG
Found at i:91811410 original size:19 final size:19
Alignment explanation
Indices: 91811366--91811411 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
91811356 TGTTAGTTTT
91811366 TAAATTT-TGTTAATTATA
1 TAAATTTATGTTAATTATA
*
91811384 TAATATTTATG-TAATTATT
1 TAA-ATTTATGTTAATTATA
91811403 TGAAATTTA
1 T-AAATTTA
91811412 ATATTAGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 17 0.71
20 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TAAATTTATGTTAATTATA
Found at i:91812286 original size:266 final size:266
Alignment explanation
Indices: 91811807--91812340 Score: 1014
Period size: 266 Copynumber: 2.0 Consensus size: 266
91811797 CATTATTTAG
91811807 ACATCGCAATAAGTCATATCTACTTTCGAAGAAGGAAATGAGTAGGCAACGTTGTAGGAGGAGGC
1 ACATCGCAATAAGTCATATCTACTTTCGAAGAAGGAAATGAGTAGGCAACGTTGTAGGAGGAGGC
91811872 CAAGACAACCCTGCATTAATTCTACGTCGATAGTACATGCCTTGATGGAGTCGTCATCAACTCCA
66 CAAGACAACCCTGCATTAATTCTACGTCGATAGTACATGCCTTGATGGAGTCGTCATCAACTCCA
91811937 ACTCAACACAAGGCATCGATGGGTGCACTACCTCCTCATCTTCTTCATAGCTAGAGTCATCATCT
131 ACTCAACACAAGGCATCGATGGGTGCACTACCTCCTCATCTTCTTCATAGCTAGAGTCATCATCT
91812002 TTATCTTCACAACTACATGTTATTAGATCATGCAATCCAAACATGTCGAGGCACATGTAGCAATT
196 TTATCTTCACAACTACATGTTATTAGATCATGCAATCCAAACATGTCGAGGCACATGTAGCAATT
91812067 GCATGT
261 GCATGT
*
91812073 ACATTGCAATAAGTCATATCTACTTTCGAAGAAGGAAATGAGTAGGCAACGTTGTAGGAGGAGGC
1 ACATCGCAATAAGTCATATCTACTTTCGAAGAAGGAAATGAGTAGGCAACGTTGTAGGAGGAGGC
* * *
91812138 CAAGACAACCCTGCATTAATTCTAGGTTGATAGTACATGCCTTGATGGAGTTGTCATCAACTCCA
66 CAAGACAACCCTGCATTAATTCTACGTCGATAGTACATGCCTTGATGGAGTCGTCATCAACTCCA
*
91812203 ACTCAACACAAGGCATCGATGGGTGCACTACCTCCTCATCTTCTTCATAGCTAGATTCATCATCT
131 ACTCAACACAAGGCATCGATGGGTGCACTACCTCCTCATCTTCTTCATAGCTAGAGTCATCATCT
91812268 TTATCTTCACAACTACATGTTATTAGATCATGCAATCCAAACATGTCGAGGCACATGTAGCAATT
196 TTATCTTCACAACTACATGTTATTAGATCATGCAATCCAAACATGTCGAGGCACATGTAGCAATT
*
91812333 TCATGT
261 GCATGT
91812339 AC
1 AC
91812341 GCATGGAAAA
Statistics
Matches: 262, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 262 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (266 bp):
ACATCGCAATAAGTCATATCTACTTTCGAAGAAGGAAATGAGTAGGCAACGTTGTAGGAGGAGGC
CAAGACAACCCTGCATTAATTCTACGTCGATAGTACATGCCTTGATGGAGTCGTCATCAACTCCA
ACTCAACACAAGGCATCGATGGGTGCACTACCTCCTCATCTTCTTCATAGCTAGAGTCATCATCT
TTATCTTCACAACTACATGTTATTAGATCATGCAATCCAAACATGTCGAGGCACATGTAGCAATT
GCATGT
Found at i:91822659 original size:35 final size:35
Alignment explanation
Indices: 91822613--91822777 Score: 215
Period size: 35 Copynumber: 4.7 Consensus size: 35
91822603 TTTCCTCATT
* *
91822613 GAAATACCATACCTACATTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* **
91822648 GAAATGCCATACCTACGTTTCTTAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
** *
91822682 GATAATACCATACCTACGTTTCTTAACTCAATATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
*
91822718 AAAATACCATACCTACGTTTCACAACTCAGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
**
91822753 TTAATACCATACCTACGTTTCACAA
1 GAAATACCATACCTACGTTTCACAA
91822778 TTTTCCATGG
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
34 3 0.03
35 110 0.96
36 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.30
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATGG
Found at i:91830131 original size:35 final size:35
Alignment explanation
Indices: 91830087--91830249 Score: 195
Period size: 35 Copynumber: 4.7 Consensus size: 35
91830077 TCCTCATTGA
*
91830087 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
** **
91830122 AATGTCATACCTACATTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* **
91830157 AATACCATACCTACGTTTCTTAACTC-GATATGGAT
1 AATACCATACCTACATTTCACAACTCAG-TATGGAT
* * *
91830192 AATACCATACCTACGTTTCACAACTCATTATGGTT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
91830227 AATACCATACCTACATTTCACAA
1 AATACCATACCTACATTTCACAA
91830250 TTTTCCATGG
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
34 4 0.04
35 108 0.96
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:91832115 original size:17 final size:18
Alignment explanation
Indices: 91832086--91832126 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
91832076 TAAAGAGTCT
91832086 GCCAAACCCTTAAAGTTC
1 GCCAAACCCTTAAAGTTC
*
91832104 GTCAAA-CCTTAAAGTTC
1 GCCAAACCCTTAAAGTTC
91832121 GCCAAA
1 GCCAAA
91832127 TGAAAATTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (18 bp):
GCCAAACCCTTAAAGTTC
Found at i:91832787 original size:38 final size:41
Alignment explanation
Indices: 91832745--91832844 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 41
91832735 TTAATTAATT
*
91832745 TTTTAAAATTTAAAATAATTTAAAAT-A-TTTTTTT-ATAA
1 TTTTAAAATTTAAAATAATTTAAAATAATTTTTTTTGAAAA
* * * *
91832783 TTTTATACTTTATAAT-TTTTAAAATAATTTTTTTTGAAAA
1 TTTTAAAATTTAAAATAATTTAAAATAATTTTTTTTGAAAA
*
91832823 TTTTAAATATTAAAAACTAATT
1 TTTTAAA-ATTTAAAA-TAATT
91832845 AAATGCTGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 8 0.17
38 14 0.30
39 7 0.15
40 9 0.20
41 5 0.11
42 1 0.02
43 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (41 bp):
TTTTAAAATTTAAAATAATTTAAAATAATTTTTTTTGAAAA
Found at i:91835273 original size:46 final size:46
Alignment explanation
Indices: 91835220--91835395 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
91835210 TATTTGGGCA
91835220 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
91835266 TCCGAACTCTTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* * *
91835311 CATCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
91835359 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91835396 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 60 0.56
47 25 0.23
48 2 0.02
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:91835375 original size:93 final size:93
Alignment explanation
Indices: 91835216--91835388 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
91835206 GGGATATTTG
* * * *
91835216 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCTTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
91835281 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
91835309 GGCATCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
91835374 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
91835389 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:91838979 original size:15 final size:16
Alignment explanation
Indices: 91838948--91838981 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
91838938 ATAAGGGTAT
91838948 AATAAATTATTTAAAA
1 AATAAATTATTTAAAA
91838964 AATAAA-TATTTTAAAA
1 AATAAATTA-TTTAAAA
91838980 AA
1 AA
91838982 GTGATACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAATTATTTAAAA
Found at i:91840445 original size:21 final size:21
Alignment explanation
Indices: 91840421--91840471 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
91840411 TCTCACGAGC
*
91840421 TTCTGTTTAACTC-ATATGAGA
1 TTCTGTTTAACTCTAT-TAAGA
* * *
91840442 TTCTATTCAACTCTATTAAGC
1 TTCTGTTTAACTCTATTAAGA
91840463 TTCTGTTTA
1 TTCTGTTTA
91840472 CCCTTATGAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAACTCTATTAAGA
Found at i:91840527 original size:42 final size:42
Alignment explanation
Indices: 91840460--91840554 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
91840450 AACTCTATTA
* *
91840460 AGCTTCTGTT-TACCCTTATGAGTTTTCGTTCAGCTCTT-ACG
1 AGCTTCTGTTCAATCCTTATGAGTTTTCGTTCAGCT-TTCACG
* * * * *
91840501 AGCTTTTGTTCAATCCTTATGGGTTTTTGTTTAGCTTTCATG
1 AGCTTCTGTTCAATCCTTATGAGTTTTCGTTCAGCTTTCACG
91840543 AGCTTCTGTTCA
1 AGCTTCTGTTCA
91840555 GCCTTTGGGC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 11 0.25
42 33 0.75
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (42 bp):
AGCTTCTGTTCAATCCTTATGAGTTTTCGTTCAGCTTTCACG
Found at i:91842458 original size:21 final size:23
Alignment explanation
Indices: 91842434--91842476 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91842424 CAATTCAAAT
*
91842434 ATTATAA-TAGAA-ATTTTTAAA
1 ATTATAATTAAAATATTTTTAAA
91842455 ATTATAATTAAAATATTTTTAA
1 ATTATAATTAAAATATTTTTAA
91842477 CATATTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATAATTAAAATATTTTTAAA
Found at i:91842750 original size:44 final size:44
Alignment explanation
Indices: 91842702--91842792 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
91842692 TTAGCTGTAA
* * * * *
91842702 ATTAAATTATAATTATTTTTAGATGTGTAATTATCACAACTTTT
1 ATTAAATTATAATTACTTTTAAATGTATAACTATCACAACTTCT
*
91842746 ATTAAATTGTAATTACTTTTAAATGTATAACTATCACAACTTCT
1 ATTAAATTATAATTACTTTTAAATGTATAACTATCACAACTTCT
91842790 ATT
1 ATT
91842793 TTACTTCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.47
Consensus pattern (44 bp):
ATTAAATTATAATTACTTTTAAATGTATAACTATCACAACTTCT
Found at i:91842929 original size:2 final size:2
Alignment explanation
Indices: 91842922--91842958 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
91842912 CTTGCACTTT
91842922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91842959 TACAGTTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91843325 original size:20 final size:20
Alignment explanation
Indices: 91843279--91843325 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
91843269 TTATAAATAT
*
91843279 ATTACAATAGTTAGACATAAA
1 ATTAAAATAGTTAGACA-AAA
*
91843300 AATAAAATAGTTAGTAC-AAA
1 ATTAAAATAGTTAG-ACAAAA
91843320 ATTAAA
1 ATTAAA
91843326 CTTGAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.36
21 12 0.55
22 2 0.09
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (20 bp):
ATTAAAATAGTTAGACAAAA
Found at i:91843877 original size:22 final size:21
Alignment explanation
Indices: 91843830--91843905 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
91843820 AAAAATTATA
*
91843830 ATTTTTTATTGTTTTGCTACT
1 ATTTTTTATTGTTTTACTACT
*
91843851 GTTTTTTCATTGTTTTACTA-T
1 ATTTTTT-ATTGTTTTACTACT
* * *
91843872 CATTTTACTATTATATTACTAC-
1 -ATTTT-TTATTGTTTTACTACT
91843894 -TTTTTTATTGTT
1 ATTTTTTATTGTT
91843906 ATTGTTTAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
19 5 0.12
20 4 0.10
21 7 0.17
22 25 0.60
23 1 0.02
ACGTcount: A:0.18, C:0.11, G:0.07, T:0.64
Consensus pattern (21 bp):
ATTTTTTATTGTTTTACTACT
Found at i:91845884 original size:14 final size:15
Alignment explanation
Indices: 91845867--91845895 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91845857 ACTCTTCTTC
91845867 TTTTTTCT-TTTTTT
1 TTTTTTCTGTTTTTT
91845881 TTTTTTCTGTTTTTT
1 TTTTTTCTGTTTTTT
91845896 CCTTTAACAA
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:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTTTCTGTTTTTT
Found at i:91849726 original size:128 final size:128
Alignment explanation
Indices: 91849493--91849739 Score: 422
Period size: 128 Copynumber: 1.9 Consensus size: 128
91849483 CTTCACGTGA
*
91849493 TCAAACTATGGTTTCAATGATGAGTTCATATAAGAAACACCTAACAGATGTTTCTTCAATGAAGC
1 TCAAACTATGGTTTCAACGATGAGTTCATATAAGAAACACCTAACAGATGTTTCTTCAATGAAGC
**
91849558 ATGGAGAAATCGTTTCCCATTGGGAATTGATTTTACGGAACCAACTATTGCATCAAACGCTGG
66 ATGGAGAAATCGTTTCCCATCAGGAATTGATTTTACGGAACCAACTATTGCATCAAACGCTGG
*
91849621 TCAAACTATGGTTTCAACGATGAGTTCATATAAGAAACACCTGACAGATGTTTCTTCAATGAAGC
1 TCAAACTATGGTTTCAACGATGAGTTCATATAAGAAACACCTAACAGATGTTTCTTCAATGAAGC
* * **
91849686 ATGGAGCAATCTTTTCCCATCAGGAATTGATTTTGTGGAACCAACTATTGCATC
66 ATGGAGAAATCGTTTCCCATCAGGAATTGATTTTACGGAACCAACTATTGCATC
91849740 GAACACTGTC
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 111 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (128 bp):
TCAAACTATGGTTTCAACGATGAGTTCATATAAGAAACACCTAACAGATGTTTCTTCAATGAAGC
ATGGAGAAATCGTTTCCCATCAGGAATTGATTTTACGGAACCAACTATTGCATCAAACGCTGG
Found at i:91856392 original size:33 final size:32
Alignment explanation
Indices: 91856296--91856469 Score: 113
Period size: 33 Copynumber: 5.3 Consensus size: 32
91856286 CCATGTTGCT
* * * *
91856296 GTGGATACAACCCAGGAGGAGTGGAGTACTACA
1 GTGGATACGAGCC-GGAGGAGTGCAGTACTGCA
91856329 GTGGATAC-AGGCCAGG-GGTAGTGCTA-TACTGCA
1 GTGGATACGA-GCC-GGAGG-AGTGC-AGTACTGCA
* *
91856362 GTGGATACGAGCCGGAAGGAGTGGAGTACTGTA
1 GTGGATACGAGCCGG-AGGAGTGCAGTACTGCA
* * * * * *
91856395 GTAGATACG-GACGGGGGTAGTGCTGTACAGCG
1 GTGGATACGAGCCGGAGG-AGTGCAGTACTGCA
* * *
91856427 GTGGATACGAGCCGAGAGAAATGCTGTACTGCA
1 GTGGATACGAGCCG-GAGGAGTGCAGTACTGCA
91856460 GTGGATACGA
1 GTGGATACGA
91856470 CCCAAAGATA
Statistics
Matches: 111, Mismatches: 20, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
31 2 0.02
32 27 0.24
33 76 0.68
34 6 0.05
ACGTcount: A:0.28, C:0.16, G:0.38, T:0.18
Consensus pattern (32 bp):
GTGGATACGAGCCGGAGGAGTGCAGTACTGCA
Found at i:91856435 original size:65 final size:66
Alignment explanation
Indices: 91856312--91856440 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 66
91856302 ACAACCCAGG
* * *
91856312 AGGAGTGGAGTACTACAGTGGATACAGGCCAGGGGTAGTGCTATACTGCAGTGGATACGAGCCGG
1 AGGAGTGGAGTACTACAGTAGATACAGGACAGGGGTAGTGCTATACAGCAGTGGATACGAGCCGG
91856377 A
66 A
** * * *
91856378 AGGAGTGGAGTACTGTAGTAGATAC-GGACGGGGGTAGTGCTGTACAGCGGTGGATACGAGCCG
1 AGGAGTGGAGTACTACAGTAGATACAGGACAGGGGTAGTGCTATACAGCAGTGGATACGAGCCG
91856441 AGAGAAATGC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
65 33 0.60
66 22 0.40
ACGTcount: A:0.26, C:0.16, G:0.40, T:0.19
Consensus pattern (66 bp):
AGGAGTGGAGTACTACAGTAGATACAGGACAGGGGTAGTGCTATACAGCAGTGGATACGAGCCGG
A
Found at i:91856456 original size:65 final size:65
Alignment explanation
Indices: 91856320--91856468 Score: 156
Period size: 65 Copynumber: 2.3 Consensus size: 65
91856310 GGAGGAGTGG
* * * * * * *
91856320 AGTACTACAGTGGATACAGGCCAGGGGTAGTGCTATACTGCAGTGGATACGAGCCGGAAGGAGTG
1 AGTACTGCAGTAGATAC-GGACGGGGGTAGTGCTATACAGCAGTGGATACGAGCCGGAAGAAATG
*
91856385 G
65 C
* * *
91856386 AGTACTGTAGTAGATACGGACGGGGGTAGTGCTGTACAGCGGTGGATACGAGCC-GAGAGAAATG
1 AGTACTGCAGTAGATACGGACGGGGGTAGTGCTATACAGCAGTGGATACGAGCCGGA-AGAAATG
91856450 C
65 C
* *
91856451 TGTACTGCAGTGGATACG
1 AGTACTGCAGTAGATACG
91856469 ACCCAAAGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
64 2 0.03
65 52 0.76
66 14 0.21
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.19
Consensus pattern (65 bp):
AGTACTGCAGTAGATACGGACGGGGGTAGTGCTATACAGCAGTGGATACGAGCCGGAAGAAATGC
Found at i:91858868 original size:11 final size:11
Alignment explanation
Indices: 91858848--91858880 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
91858838 ATTTTTAAAA
91858848 TATATTATTTT
1 TATATTATTTT
*
91858859 TATTTTATTTT
1 TATATTATTTT
91858870 TATATTATTTT
1 TATATTATTTT
91858881 AGTACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATATTATTTT
Found at i:91858888 original size:149 final size:147
Alignment explanation
Indices: 91858646--91859031 Score: 577
Period size: 149 Copynumber: 2.6 Consensus size: 147
91858636 TTTTTTTCGG
* *
91858646 TGATTTTGGCCATTTGTTGGT-TTTTTTT-TTTTTGGATTTTATTTTTTAAAATATACTATTTTC
1 TGATTTTGGCCCTTTGTTTGTATTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTC
*
91858709 GTATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTATAT
66 -TATTTTATTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTATAT
91858773 TAATTTAGTAAAAAACCC
130 TAATTTAGTAAAAAACCC
* *
91858791 TGATTTTGGCCCTTTGTTTTATTTGTATTTTTTTATTTTTAGATTTTA-TTTTTAAAATATATTA
1 TGATTTTGGCCCTTTG-----TTTGTATTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTA
* *
91858855 TTTT-TATTTTATTTTTATATTATTTTAGTACATAATATTTTAAATTTATTATTTTAGTGTTTTT
61 TTTTCTATTTTATTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTT
*
91858919 ATATTAATTTAGTAAAAAACCT
126 ATATTAATTTAGTAAAAAACCC
* *
91858941 TGATTTTGGCCCTTTGTTTGTA-TTTTTTATTGTCGGATTTTATTTTTTAAAATATACTATTTTC
1 TGATTTTGGCCCTTTGTTTGTATTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTC
91859005 ATATTTTATTTTTATATTATTTTAGTA
66 -TATTTTATTTTTATATTATTTTAGTA
91859032 AAAAAACCCG
Statistics
Matches: 218, Mismatches: 12, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
144 17 0.08
145 40 0.18
147 26 0.12
149 51 0.23
150 46 0.21
151 26 0.12
152 12 0.06
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (147 bp):
TGATTTTGGCCCTTTGTTTGTATTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTC
TATTTTATTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTATATT
AATTTAGTAAAAAACCC
Found at i:91859115 original size:16 final size:17
Alignment explanation
Indices: 91859096--91859129 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
91859086 TTCATTAAGA
*
91859096 TATTTTTT-TAGTATTT
1 TATTTTTTATACTATTT
91859112 TATTTTTTATACTATTT
1 TATTTTTTATACTATTT
91859129 T
1 T
91859130 TGTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TATTTTTTATACTATTT
Found at i:91860485 original size:18 final size:17
Alignment explanation
Indices: 91860460--91860520 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
91860450 AAATGAAGTA
91860460 ATTATTTCAAATATATT
1 ATTATTTCAAATATATT
* *
91860477 ATTATTTTCATATATA-A
1 ATTA-TTTCAAATATATT
*
91860494 AATATTTCAAATATCATT
1 ATTATTTCAAATAT-ATT
*
91860512 ATTTTTTCA
1 ATTATTTCA
91860521 TCTACATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 9 0.26
17 8 0.24
18 17 0.50
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATTTCAAATATATT
Found at i:91860795 original size:37 final size:37
Alignment explanation
Indices: 91860720--91860800 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
91860710 GAGTTATTTA
* ** **
91860720 TAAAAATAAAAAATTTGAAAATAATATATTTATTAAT
1 TAAAAATAAAAAAATTGAAAATAATATAAATAAAAAT
91860757 TAAAAATAAAAAAATTG-AAATAATATGAAATAAAAAT
1 TAAAAATAAAAAAATTGAAAATAATAT-AAATAAAAAT
*
91860794 TATAAAT
1 TAAAAAT
91860801 GTGTTTAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
36 9 0.24
37 28 0.76
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (37 bp):
TAAAAATAAAAAAATTGAAAATAATATAAATAAAAAT
Found at i:91861735 original size:15 final size:15
Alignment explanation
Indices: 91861715--91861754 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
91861705 CGTTGCAAAA
91861715 AATGCCACTATAGCT
1 AATGCCACTATAGCT
91861730 AATGCCACTATAGCT
1 AATGCCACTATAGCT
91861745 AATGCCACTA
1 AATGCCACTA
91861755 AATTTTGCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (15 bp):
AATGCCACTATAGCT
Found at i:91861864 original size:43 final size:43
Alignment explanation
Indices: 91861798--91861901 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
91861788 ATAGAACATG
* * *
91861798 ACCTTTAGCGGCACTTTTCCCATAAACGCTGCTAAAAAGCATA
1 ACCTTTAGCGACACTTTTACCATAAACGCCGCTAAAAAGCATA
*
91861841 ACCTTTAGCGACACTTTTACCATAAACGCCGCTAAAAAGCATG
1 ACCTTTAGCGACACTTTTACCATAAACGCCGCTAAAAAGCATA
**
91861884 ATATTTAGCGACACTTTT
1 ACCTTTAGCGACACTTTT
91861902 CTCATAGAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (43 bp):
ACCTTTAGCGACACTTTTACCATAAACGCCGCTAAAAAGCATA
Found at i:91866438 original size:44 final size:43
Alignment explanation
Indices: 91866357--91866453 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 43
91866347 ACCGCCGCAA
* * *
91866357 TTTAGCGGCGTTTATCTAAAAAAAATTACAAATGATCAAGACT
1 TTTAGCGGTGTTTATCTAAAAAAAACTACAAAAGATCAAGACT
* * *
91866400 TTTAGAGGTGTTTATCTGAAAAAAAGCTACAAAAGATCAAGATT
1 TTTAGCGGTGTTTATCT-AAAAAAAACTACAAAAGATCAAGACT
91866444 TTTAGCGGTG
1 TTTAGCGGTG
91866454 CTTTTTTCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 15 0.33
44 31 0.67
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAGCGGTGTTTATCTAAAAAAAACTACAAAAGATCAAGACT
Found at i:91867364 original size:82 final size:81
Alignment explanation
Indices: 91867227--91867399 Score: 301
Period size: 82 Copynumber: 2.1 Consensus size: 81
91867217 TGGGAAGGAG
* *
91867227 AGTTGGGGTTCGACTCCCACATGTACAAAAGAGTTTTATTTTTCTTTATATCAGGGAACGACGCA
1 AGTTGGGGTTCGACTCCCACATGTACAAAAGAGTTTTATTTTTCTTTATACCAGGGAACAACGCA
91867292 GGAAAGTGTTATATAA
66 GGAAAGTGTTATATAA
* *
91867308 AGTTGGGGTTCGACTCCCAACATGTGCAAAAGAGTTTTATTTTTCTTTATACCAGGGAACAATGC
1 AGTTGGGGTTCGACTCCC-ACATGTACAAAAGAGTTTTATTTTTCTTTATACCAGGGAACAACGC
91867373 AGGAAAGTGTTATATAA
65 AGGAAAGTGTTATATAA
91867390 AGTTGGGGTT
1 AGTTGGGGTT
91867400 AAAAAGTAAC
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 18 0.21
82 69 0.79
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (81 bp):
AGTTGGGGTTCGACTCCCACATGTACAAAAGAGTTTTATTTTTCTTTATACCAGGGAACAACGCA
GGAAAGTGTTATATAA
Found at i:91870283 original size:16 final size:17
Alignment explanation
Indices: 91870251--91870283 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
91870241 CATCAAGAAG
91870251 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
91870269 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
91870284 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:91876014 original size:9 final size:9
Alignment explanation
Indices: 91876000--91876225 Score: 88
Period size: 9 Copynumber: 24.7 Consensus size: 9
91875990 TAAGTATAAT
91876000 TAAGTTATG
1 TAAGTTATG
91876009 TAAGTTATG
1 TAAGTTATG
* * *
91876018 ATATGATATA
1 -TAAGTTATG
*
91876028 T-ATTTATG
1 TAAGTTATG
91876036 T-A-TTATG
1 TAAGTTATG
91876043 TAAGTTATG
1 TAAGTTATG
*
91876052 TAAATTATG
1 TAAGTTATG
91876061 TAAGTTATG
1 TAAGTTATG
* * *
91876070 AAATTTGATCTT
1 TAAGTT-A--TG
*
91876082 TAAATTATG
1 TAAGTTATG
91876091 TTAAGTTATG
1 -TAAGTTATG
* * *
91876101 AAATTTGATCTT
1 TAAGTT-A--TG
*
91876113 TAAATTATG
1 TAAGTTATG
*
91876122 TTAGTTATG
1 TAAGTTATG
91876131 T-A-TTATG
1 TAAGTTATG
* *
91876138 TAAGTTTTT
1 TAAGTTATG
*
91876147 TAAATTATG
1 TAAGTTATG
91876156 TAAGTTATG
1 TAAGTTATG
* * *
91876165 AAATTTGAACTT
1 TAAGTT--A-TG
*
91876177 TAAATTATG
1 TAAGTTATG
91876186 TAAGTTATG
1 TAAGTTATG
91876195 T-A-TTATG
1 TAAGTTATG
*
91876202 TAAATTATG
1 TAAGTTATG
*
91876211 TAAATTATG
1 TAAGTTATG
*
91876220 TGAGTT
1 TAAGTT
91876226 GCTAGTAAAC
Statistics
Matches: 161, Mismatches: 39, Indels: 34
0.69 0.17 0.15
Matches are distributed among these distances:
7 18 0.11
8 10 0.06
9 98 0.61
10 17 0.11
11 3 0.02
12 15 0.09
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:91876086 original size:30 final size:30
Alignment explanation
Indices: 91876052--91876194 Score: 189
Period size: 30 Copynumber: 4.6 Consensus size: 30
91876042 GTAAGTTATG
91876052 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGATCTT
91876082 TAAATTATGTTAAGTTATGAAATTTGATCTT
1 TAAATTATG-TAAGTTATGAAATTTGATCTT
* * *
91876113 TAAATTATGTTAGTTATG-TATTATGTAAGTTTTT
1 TAAATTATGTAAGTTATGAAATT-TG--A--TCTT
*
91876147 TAAATTATGTAAGTTATGAAATTTGAACTT
1 TAAATTATGTAAGTTATGAAATTTGATCTT
91876177 TAAATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
91876195 TATTATGTAA
Statistics
Matches: 99, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.03
30 39 0.39
31 30 0.30
32 2 0.02
34 22 0.22
35 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGATCTT
Found at i:91876172 original size:64 final size:64
Alignment explanation
Indices: 91876080--91876225 Score: 229
Period size: 64 Copynumber: 2.3 Consensus size: 64
91876070 AAATTTGATC
* * * *
91876080 TTTAAATTATGTTAAGTTATGAAATTTGATCTTTAAATTATGTTAGTTATGTATTATGTAAGTTT
1 TTTAAATTATG-TAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATTATGTAAATTA
91876145 TTTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATTATGTAAATTA
1 TTTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATTATGTAAATTA
* *
91876209 TGTAAATTATGTGAGTT
1 TTTAAATTATGTAAGTT
91876226 GCTAGTAAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
64 64 0.85
65 11 0.15
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.49
Consensus pattern (64 bp):
TTTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATTATGTAAATTA
Found at i:91876406 original size:38 final size:38
Alignment explanation
Indices: 91876364--91876440 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 38
91876354 ACAACTTAAT
91876364 TTAATTATGTAATG-TTAAAATAAAATAAAATA-TTAAAA
1 TTAATT-T-TAATGATTAAAATAAAATAAAATATTTAAAA
** *
91876402 TTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAA
1 TTAATTTTAATGATTAAAATAAAATAAAATATTTAAAA
91876440 T
1 T
91876441 GAAACTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 3 0.09
37 18 0.53
38 13 0.38
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (38 bp):
TTAATTTTAATGATTAAAATAAAATAAAATATTTAAAA
Found at i:91876429 original size:99 final size:99
Alignment explanation
Indices: 91876319--91876695 Score: 411
Period size: 99 Copynumber: 3.7 Consensus size: 99
91876309 AATTAAAGTG
* * *
91876319 AAATAAAATAAAATATGTAAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT-TGAAA
91876383 ATAAAATAAAATATTAAAATTAATTTTCGTGATTC
65 ATAAAATAAAATATTAAAATTAATTTTCGTGATTC
* * * *
91876418 AAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTTATTAGGTAAATTGAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAA
* * * * * *
91876483 TAAAATTAAAGA--AAAAATATTTTTCATGATTAAATT
66 TAAAATAAAATATTAAAATTAATTTTCGTGA-T---TC
* * *
91876519 AAAGTGAAATAAATTAAAATATTTAAAATAAAACTTTAAGTACAACTTAATTTAATTATGT-GAT
1 AAA-T---A-AAA-TAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT
* *
91876583 GTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTC
60 -TGAAAATAAAATAAAATATTAAAATTAATTTTCGTGATTC
* * * *
91876624 AAATAAAATAAAATATTTAAAATGATACTTTAAAATATAATTTAATTTAATTAGGTAAATTGAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTT-AAATACAACTTAATTTAATTAGGTAAATTGAAA
91876689 ATAAAAT
65 ATAAAAT
91876696 TAAAGAAAAC
Statistics
Matches: 226, Mismatches: 36, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
97 14 0.06
98 1 0.00
99 85 0.38
100 37 0.16
101 7 0.03
102 1 0.00
104 1 0.00
105 5 0.02
106 5 0.02
107 56 0.25
108 1 0.00
109 13 0.06
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.37
Consensus pattern (99 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAA
TAAAATAAAATATTAAAATTAATTTTCGTGATTC
Found at i:91876540 original size:107 final size:100
Alignment explanation
Indices: 91876240--91876704 Score: 372
Period size: 99 Copynumber: 4.5 Consensus size: 100
91876230 GTAAACTTAA
* * * * *
91876240 AAATAAAACTTAATTTAATTAGGTAAATTGAAAATAAAATTGAAGAAAACAAAATATTTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATT-AA-AGAA-AAAATAATTTTCATG
*
91876305 ATT-AAATTAAAGTGAAATAAAATAAAATATGTAAAATAAAACTTT
63 ATTCAAA-TAAA-T-AAATAAAAT---AT-T-TAAAATGAAACTTT
* * * * * * * *
91876350 AAATACAACTTAATTTAATTATGT-AATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAAT-TGAAAATAAAATTAAAGA--AAAAATAATTTTCATG
91876414 ATTCAAAT--A-AAATAAAATATTTAAAATGAAACTTT
63 ATTCAAATAAATAAATAAAATATTTAAAATGAAACTTT
* *
91876449 AAATATAATTTAATTTTATTAGGTAAATTGAAAATAAAATTAAAGAAAAAATATTTTTCATGATT
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAAAATAATTTTCATGA-T
* *
91876514 AAATTAAAGTGAAATAAATTAAAATATTTAAAATAAAACTTT
65 ---TCAAA-T-AAATAAA-TAAAATATTTAAAATGAAACTTT
* * * * * * * * * * *
91876556 AAGTACAACTTAATTTAATTATGT-GATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAAT-TGAAAATAAAATTAAAGA--AAAAATAATTTTCATG
*
91876620 ATTCAAAT--A-AAATAAAATATTTAAAATGATACTTT
63 ATTCAAATAAATAAATAAAATATTTAAAATGAAACTTT
91876655 AAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAA
1 -AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAA
91876705 CAAATGTATG
Statistics
Matches: 290, Mismatches: 45, Indels: 52
0.75 0.12 0.13
Matches are distributed among these distances:
97 14 0.05
98 3 0.01
99 69 0.24
100 42 0.14
101 9 0.03
102 1 0.00
104 10 0.03
105 5 0.02
106 5 0.02
107 57 0.20
108 3 0.01
109 35 0.12
110 37 0.13
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (100 bp):
AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAAAATAATTTTCATGATT
CAAATAAATAAATAAAATATTTAAAATGAAACTTT
Found at i:91876611 original size:206 final size:207
Alignment explanation
Indices: 91876232--91876704 Score: 804
Period size: 206 Copynumber: 2.3 Consensus size: 207
91876222 AGTTGCTAGT
* * * *
91876232 AAACTTAAAAATAAAACTTAATTTAATTAGGTAAATTGAAAATAAAATTGAAGAAAACAAAATAT
1 AAACTTTAAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATT-AA-AGAA-AAAATAT
*
91876297 TTTTCGTGATTAAATTAAAGTGAAATAAAATAAAATATGTAAAATAAAACTTTAAATACAACTTA
63 TTTTCATGATTAAATTAAAGTGAAATAAAATAAAATATGTAAAATAAAACTTTAAATACAACTTA
91876362 ATTTAATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGTGATTCAAATAAAAT
128 ATTTAATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGTGATTCAAATAAAAT
91876427 AAAATATTTAAAATG
193 AAAATATTTAAAATG
*
91876442 AAACTTT-AAATATAATTTAATTTTATTAGGTAAATTGAAAATAAAATTAAAGAAAAAATATTTT
1 AAACTTTAAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAAAATATTTT
* * *
91876506 TCATGATTAAATTAAAGTGAAATAAATTAAAATATTTAAAATAAAACTTTAAGTACAACTTAATT
66 TCATGATTAAATTAAAGTGAAATAAAATAAAATATGTAAAATAAAACTTTAAATACAACTTAATT
* *
91876571 TAATTATGTGATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAA
131 TAATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGTGATTCAAATAAAATAAA
91876636 ATATTTAAAATG
196 ATATTTAAAATG
*
91876648 ATACTTTAAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAA
1 AAACTTTAAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAA
91876705 CAAATGTATG
Statistics
Matches: 249, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
206 152 0.61
207 51 0.20
208 2 0.01
209 38 0.15
210 6 0.02
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (207 bp):
AAACTTTAAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAAAATATTTT
TCATGATTAAATTAAAGTGAAATAAAATAAAATATGTAAAATAAAACTTTAAATACAACTTAATT
TAATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGTGATTCAAATAAAATAAA
ATATTTAAAATG
Found at i:91878162 original size:34 final size:34
Alignment explanation
Indices: 91878123--91878190 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
91878113 AAGTTGAGAT
91878123 GTGTTTAACACGGATTAGTTGAGAACAAGATTGA
1 GTGTTTAACACGGATTAGTTGAGAACAAGATTGA
*
91878157 GTGTTTAACACGGATTAGTTGAGAACATGATTGA
1 GTGTTTAACACGGATTAGTTGAGAACAAGATTGA
91878191 TAGTTTGGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (34 bp):
GTGTTTAACACGGATTAGTTGAGAACAAGATTGA
Found at i:91878183 original size:17 final size:17
Alignment explanation
Indices: 91878129--91878183 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
91878119 AGATGTGTTT
91878129 AACACGGATTAGTTGAG
1 AACACGGATTAGTTGAG
* **
91878146 AACA-AGATTGAG-TGTTT
1 AACACGGATT-AGTTG-AG
91878163 AACACGGATTAGTTGAG
1 AACACGGATTAGTTGAG
91878180 AACA
1 AACA
91878184 TGATTGATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 6 0.21
17 16 0.57
18 6 0.21
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.25
Consensus pattern (17 bp):
AACACGGATTAGTTGAG
Found at i:91881165 original size:49 final size:49
Alignment explanation
Indices: 91881103--91881234 Score: 246
Period size: 49 Copynumber: 2.7 Consensus size: 49
91881093 ATGTATGAGA
91881103 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
91881152 TATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
91881201 TGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTG
91881235 TATATATGTG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 80 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:91881240 original size:32 final size:32
Alignment explanation
Indices: 91881199--91881266 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
91881189 AATGTGAAAG
91881199 TGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGTATATATGTGATAAGGCCTAATGGCCGA
91881231 TGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGTATATATGTGATAAGGCCTAATGGCCGA
91881263 TGTG
1 TGTG
91881267 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (32 bp):
TGTGTATATATGTGATAAGGCCTAATGGCCGA
Found at i:91881253 original size:81 final size:81
Alignment explanation
Indices: 91881157--91881315 Score: 309
Period size: 81 Copynumber: 2.0 Consensus size: 81
91881147 AAGTGTATAC
91881157 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCT
91881222 AATGGCCGATGTGTAT
66 AATGGCCGATGTGTAT
91881238 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCT
*
91881303 AATGGTCGATGTG
66 AATGGCCGATGTG
91881316 ATGAATGTGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.31
Consensus pattern (81 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGTAT
Found at i:91881286 original size:49 final size:47
Alignment explanation
Indices: 91881232--91881439 Score: 281
Period size: 47 Copynumber: 4.4 Consensus size: 47
91881222 AATGGCCGAT
* *
91881232 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
91881279 GTGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAG
1 --GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
91881328 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * ** * *
91881375 GTGTATATATGTGATAGGGCCGAGTGGCCAACATGATGGATGTGGAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
91881422 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
91881440 TCTCGAAGGG
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 100 0.69
49 45 0.31
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:91884812 original size:29 final size:29
Alignment explanation
Indices: 91884763--91884862 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
91884753 CATATTATGT
91884763 ATGCATATAAATTAATTAAATAAAAACATG
1 ATGC-TATAAATTAATTAAATAAAAACATG
*
91884793 ATGCTA-AATATTGAA-TAAATATAAATATTATG
1 ATGCTATAA-ATT-AATTAAATA-AAA-A-CATG
91884825 TATGCATATAAATTAATTAAATAAAAACATG
1 -ATGC-TATAAATTAATTAAATAAAAACATG
91884856 ATGCTAT
1 ATGCTAT
91884863 TTATATCAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 19
0.74 0.03 0.24
Matches are distributed among these distances:
28 2 0.03
29 14 0.24
30 13 0.22
31 4 0.07
32 4 0.07
33 9 0.15
34 11 0.19
35 2 0.03
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (29 bp):
ATGCTATAAATTAATTAAATAAAAACATG
Found at i:91885096 original size:7 final size:7
Alignment explanation
Indices: 91885067--91885109 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
91885057 TCTAAAATTG
91885067 AAACCCT
1 AAACCCT
91885074 AAA-CCT
1 AAACCCT
* *
91885080 GAGACTCT
1 -AAACCCT
91885088 AAACCCT
1 AAACCCT
91885095 AAACCCT
1 AAACCCT
91885102 AAACCCT
1 AAACCCT
91885109 A
1 A
91885110 GACCACAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 3 0.10
7 25 0.83
8 2 0.07
ACGTcount: A:0.42, C:0.37, G:0.05, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:91886464 original size:24 final size:24
Alignment explanation
Indices: 91886435--91886482 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
91886425 TAAGTAATCC
91886435 CTAAAACTCCCCATTTCATTTAAA
1 CTAAAACTCCCCATTTCATTTAAA
91886459 CTAAAACTCCCCATTTCATTTAAA
1 CTAAAACTCCCCATTTCATTTAAA
91886483 AAAGTTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (24 bp):
CTAAAACTCCCCATTTCATTTAAA
Found at i:91889957 original size:46 final size:46
Alignment explanation
Indices: 91889907--91890082 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
91889897 TGGTTGAGCA
91889907 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91889953 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
91889998 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91890046 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91890083 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:91890063 original size:93 final size:93
Alignment explanation
Indices: 91889904--91890075 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
91889894 GGATGGTTGA
* *
91889904 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91889969 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
91889997 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91890062 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
91890076 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:91897061 original size:46 final size:46
Alignment explanation
Indices: 91897011--91897186 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
91897001 TGGTTGAGCA
91897011 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91897057 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
91897102 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91897150 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91897187 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:91897167 original size:93 final size:93
Alignment explanation
Indices: 91897008--91897179 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
91896998 GGATGGTTGA
* *
91897008 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91897073 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
91897101 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91897166 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
91897180 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:91901866 original size:39 final size:39
Alignment explanation
Indices: 91901812--91901934 Score: 219
Period size: 39 Copynumber: 3.2 Consensus size: 39
91901802 TTAAGCCTGA
* * *
91901812 ATATAATACCAGCACGAATGCCTTTGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
91901851 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
91901890 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
91901929 ATATAA
1 ATATAA
91901935 TTCTCCATTA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
Found at i:91901960 original size:2 final size:2
Alignment explanation
Indices: 91901953--91901986 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
91901943 TATCATGCAC
91901953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91901987 CATAACACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91902975 original size:2 final size:2
Alignment explanation
Indices: 91902968--91902999 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
91902958 TCAATATAAT
91902968 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
91903000 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Done.