Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 175 of 204
Found at i:51934434 original size:21 final size:21
Alignment explanation
Indices: 51934405--51934446 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
51934395 AGGTCAGCCA
51934405 TGCTATATTCAAAATCCCACG
1 TGCTATATTCAAAATCCCACG
* *
51934426 TGCTGTATTCAAAATCTCACG
1 TGCTATATTCAAAATCCCACG
51934447 AACAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (21 bp):
TGCTATATTCAAAATCCCACG
Found at i:51935676 original size:22 final size:23
Alignment explanation
Indices: 51935637--51935681 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
51935627 CCCTATTTTG
51935637 CTACCATTTTACTATTA-TGTTT
1 CTACCATTTTACTATTATTGTTT
* * *
51935659 CTACTATTTTATTGTTATTGTTT
1 CTACCATTTTACTATTATTGTTT
51935682 GGATATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (23 bp):
CTACCATTTTACTATTATTGTTT
Found at i:51935950 original size:30 final size:30
Alignment explanation
Indices: 51935916--51935978 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
51935906 ACTTATTTTA
51935916 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
51935946 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
51935976 TTG
1 TTG
51935979 CTTTTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:51936060 original size:53 final size:54
Alignment explanation
Indices: 51936002--51936103 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
51935992 ATTTATCTTA
51936002 GTGTTATTTAAGTCTACATA-TTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
1 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
51936055 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGG
1 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGG
51936104 AAAGTATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 20 0.42
54 28 0.58
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (54 bp):
GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
Found at i:51950875 original size:31 final size:30
Alignment explanation
Indices: 51950835--51950924 Score: 87
Period size: 31 Copynumber: 2.9 Consensus size: 30
51950825 GATTGAATCA
*
51950835 AAATTAAAGTTTCATGTATATATTTAGACC
1 AAATCAAAGTTTCATGTATATATTTAGACC
*
51950865 ACAATCAAAGTTTCATGTGTATCA-TT-GCACC
1 A-AATCAAAGTTTCATGTATAT-ATTTAG-ACC
*
51950896 AAATCAAAG-TTCGTGTATCATATTGTAGA
1 AAATCAAAGTTTCATGTAT-ATATT-TAGA
51950925 ATGAACCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
29 8 0.16
30 13 0.27
31 26 0.53
32 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (30 bp):
AAATCAAAGTTTCATGTATATATTTAGACC
Found at i:51950903 original size:30 final size:28
Alignment explanation
Indices: 51950817--51950906 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 28
51950807 TTCTTTAAAA
* *
51950817 ATGTGTATGATTGAATCAAAATTAAAGTTTC
1 ATGTGTAT-ATTG-A-CCAAATCAAAGTTTC
*
51950848 ATGTATATATTTAGACCACAATCAAAGTTTC
1 ATGTGTATA-TT-GACCA-AATCAAAGTTTC
51950879 ATGTGTATCATTGCACCAAATCAAAGTT
1 ATGTGTAT-ATTG-ACCAAATCAAAGTT
51950907 CGTGTATCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
30 14 0.28
31 34 0.68
32 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (28 bp):
ATGTGTATATTGACCAAATCAAAGTTTC
Found at i:51962187 original size:36 final size:38
Alignment explanation
Indices: 51962149--51962227 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 38
51962139 ATATTGACTT
* *
51962149 GAAAAT-AGAAAAGT-AAATTTGTATTGAATTGTG-A-TT
1 GAAAATGA-AAAAGTGAAA-TTGAATTGAAATGTGAATTT
*
51962185 GAAAGTGAAAAAGTGAAATTGAATTGAAATGTGAATTT
1 GAAAATGAAAAAGTGAAATTGAATTGAAATGTGAATTT
51962223 GAAAA
1 GAAAA
51962228 GTATGTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
36 24 0.69
37 5 0.14
38 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (38 bp):
GAAAATGAAAAAGTGAAATTGAATTGAAATGTGAATTT
Found at i:51962449 original size:23 final size:22
Alignment explanation
Indices: 51962420--51962507 Score: 90
Period size: 23 Copynumber: 4.0 Consensus size: 22
51962410 GCTTTGCCGA
*
51962420 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TCATGTGTCGTATT
* *
51962443 TTAGGCACCTCGTGTGTCGTATT
1 TCAGGCA-CTCATGTGTCGTATT
51962466 TCAGGCACATCATGTGTCGTA--
1 TCAGGCAC-TCATGTGTCGTATT
* *
51962487 TCAAGCACTTATGTGTCGTAT
1 TCAGGCACTCATGTGTCGTAT
51962508 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
20 11 0.20
21 7 0.13
22 1 0.02
23 35 0.64
24 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAGGCACTCATGTGTCGTATT
Found at i:51964816 original size:7 final size:7
Alignment explanation
Indices: 51964804--51964839 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
51964794 GCTATCACCC
51964804 CTTATTT
1 CTTATTT
51964811 CTTATTT
1 CTTATTT
*
51964818 CTTGTTT
1 CTTATTT
51964825 ACTTATTT
1 -CTTATTT
51964833 CTTATTT
1 CTTATTT
51964840 ATTGTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (7 bp):
CTTATTT
Found at i:51964831 original size:15 final size:15
Alignment explanation
Indices: 51964804--51964840 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
51964794 GCTATCACCC
51964804 CTTATTT-CTTATTT
1 CTTATTTACTTATTT
*
51964818 CTTGTTTACTTATTT
1 CTTATTTACTTATTT
51964833 CTTATTTA
1 CTTATTTA
51964841 TTGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.16, C:0.14, G:0.03, T:0.68
Consensus pattern (15 bp):
CTTATTTACTTATTT
Found at i:51964832 original size:22 final size:22
Alignment explanation
Indices: 51964804--51964847 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51964794 GCTATCACCC
*
51964804 CTTATTTCTTATTTCTTGTTTA
1 CTTATTTCTTATTTATTGTTTA
51964826 CTTATTTCTTATTTATTGTTTA
1 CTTATTTCTTATTTATTGTTTA
51964848 AAGGAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (22 bp):
CTTATTTCTTATTTATTGTTTA
Found at i:51966167 original size:20 final size:20
Alignment explanation
Indices: 51966152--51966199 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 20
51966142 GGGTTATTGG
51966152 TTTAGTGTTAGGGTTAGGGT
1 TTTAGTGTTAGGGTTAGGGT
*
51966172 TTTAGTGTTTTTAGGTTTAGGGT
1 TTTAGTG---TTAGGGTTAGGGT
51966195 TTTAG
1 TTTAG
51966200 AGAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
23 17 0.71
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (20 bp):
TTTAGTGTTAGGGTTAGGGT
Found at i:51966538 original size:97 final size:95
Alignment explanation
Indices: 51966223--51966540 Score: 318
Period size: 96 Copynumber: 3.3 Consensus size: 95
51966213 TAAATAAGGG
* ** * * * * * *
51966223 ATTAGGGATTAGGGTTTGTTAATTATATTAATTATAAAATTTT-CAAAATTGGATTA-GGTTTCG
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
* * *
51966286 TGTTTATTGTTTTTTAAGAAAAAGTCAATTAA
66 TGTTTA-GGATTTTTAAGAAAAA-TCAAATAA
* * * **
51966318 ATTAGGGTTTAGGGTTATTTGAGTAATTTAATTA-ATTTTTTTAAAAAAATTAGATTAGGGTTTA
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTT-AAAAAATTAGATTAGGGTTTA
** * *
51966382 AAGTTAAGGGTTTTTAAGGAAAAATCAAATAA
65 GTGTTTAGGATTTTTAA-GAAAAATCAAATAA
* * * *
51966414 ATTAGGGTTCAGAGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTTGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
51966479 TGTTTAGGATTTTTAAGTAAAAACTCAAATAA
66 TGTTTAGGATTTTTAAG-AAAAA-TCAAATAA
* *
51966511 ATTAGGGTTTGGGGTTACTTAATTAAATTA
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTA
51966541 TTTGTTAATT
Statistics
Matches: 181, Mismatches: 35, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
94 5 0.03
95 28 0.15
96 94 0.52
97 54 0.30
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
TGTTTAGGATTTTTAAGAAAAATCAAATAA
Found at i:51968500 original size:18 final size:18
Alignment explanation
Indices: 51968474--51968516 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
51968464 GACTAGAAAA
* * *
51968474 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
51968492 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
51968510 AGGATAC
1 AGGATAC
51968517 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:51968628 original size:30 final size:30
Alignment explanation
Indices: 51968575--51968650 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
51968565 ACTGCTGGGT
* * * * *
51968575 CGGGTGACTGTGTCGGTGCTGATGCTGGGC
1 CGGGTGATTGTATGGGTGCTGATGATAGGC
* *
51968605 CTGGTGATTGTATGGGTGTTGATGATAGGC
1 CGGGTGATTGTATGGGTGCTGATGATAGGC
*
51968635 CGGGTGATTGTCTGGG
1 CGGGTGATTGTATGGG
51968651 CCTCGTTGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.11, C:0.13, G:0.45, T:0.32
Consensus pattern (30 bp):
CGGGTGATTGTATGGGTGCTGATGATAGGC
Found at i:51970338 original size:11 final size:11
Alignment explanation
Indices: 51970324--51970369 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
51970314 TTTTTTAAAT
51970324 AGGAATTTGAG
1 AGGAATTTGAG
51970335 AGGAATTTGAG
1 AGGAATTTGAG
51970346 A-GAATATT-AG
1 AGGAAT-TTGAG
*
51970356 AGAGAAATTGAG
1 AG-GAATTTGAG
51970368 AG
1 AG
51970370 AAAGGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 16 0.53
12 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:51970368 original size:10 final size:10
Alignment explanation
Indices: 51970330--51970372 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
51970320 AAATAGGAAT
*
51970330 TTGAGAGGAAT
1 TTGAGA-GAAA
51970341 TTGAGAGAATA
1 TTGAGAGAA-A
51970352 TTAGAGAGAAA
1 TT-GAGAGAAA
51970363 TTGAGAGAAA
1 TTGAGAGAAA
51970373 GGATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:51976978 original size:23 final size:24
Alignment explanation
Indices: 51976952--51977019 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 24
51976942 TATTTTTTTT
51976952 CTATATGTA-ATTATTT-TTTTAAC
1 CTATATGTATA-TATTTATTTTAAC
51976975 CTATATGTATATATTTATTTTAGTAC
1 CTATATGTATATATTTATTTTA--AC
* * *
51977001 ATATATGTATGTATATATT
1 CTATATGTATATATTTATT
51977020 AATATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 14 0.37
24 6 0.16
26 18 0.47
ACGTcount: A:0.32, C:0.06, G:0.07, T:0.54
Consensus pattern (24 bp):
CTATATGTATATATTTATTTTAAC
Found at i:51990615 original size:75 final size:75
Alignment explanation
Indices: 51990478--51990617 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 75
51990468 CTTACATATA
* * * * * *
51990478 TGTATATGTTCTTTTACTAAATTTAGGTAGGACATTTATATAAGTTTATATGAGGTTTGATTATG
1 TGTATATGTTCTTGTAATAAATTTAAGTAGGAAATTTATATAAGTGTATATGAAGTTTGATTATG
51990543 CAAGATTATG
66 CAAGATTATG
* * *
51990553 TGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATAT-A-TGTATGTGAAAGTTTCGATTA
1 TGTATATGTTCTTGTAATAAATTTAAGTAGGAAATTTATATAAGTGTATATG-AAGTTT-GATTA
51990616 TG
64 TG
51990618 TATGTATATT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
73 6 0.11
74 6 0.11
75 42 0.78
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (75 bp):
TGTATATGTTCTTGTAATAAATTTAAGTAGGAAATTTATATAAGTGTATATGAAGTTTGATTATG
CAAGATTATG
Found at i:51990758 original size:41 final size:41
Alignment explanation
Indices: 51990712--51990817 Score: 178
Period size: 41 Copynumber: 2.6 Consensus size: 41
51990702 CACAGACTTT
*
51990712 ACCTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAA
1 ACCTAGCAGGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAA
51990753 ACCTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAA
1 ACCTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAA
*
51990794 GCCTAGCAGGCTAAGTGCCGGTGA
1 ACCTAGCAGGCTAAGTGCCGGTGA
51990818 ACATGTTAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 1 0.02
41 61 0.98
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (41 bp):
ACCTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAA
Found at i:51993632 original size:44 final size:44
Alignment explanation
Indices: 51993426--51994022 Score: 200
Period size: 44 Copynumber: 13.6 Consensus size: 44
51993416 CCAAGCCTTG
* * * * *
51993426 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* ** *
51993470 TCTCCCTAAGCAGTAGTGGAGTAGATCAAAGA-CGGAGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAG-ATCTTA
* * * *
51993514 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTG-AGCCA-C-CA-AGCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGA-TTGAAG--ATCGTAGATCTTA
* * * * * *
51993557 TCTCCCTGAGTAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* * *
51993601 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATC-GTAGATCTTA
* * ** * *
51993645 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATCGTAGATCTTA
* * * * **
51993689 TCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
** * * *
51993733 TCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGATGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* * ** * *
51993777 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATCGTAGATCTTA
* * * * **
51993821 TCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* * * **
51993865 TCTCTCTAAGTAGTAGTGGAGCAGATCGAAGA-CGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAG-ATCTTA
* * ** * *
51993909 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATCGTAGATCTTA
* * * * *
51993953 TCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
51993997 TCTCCCTAAGCAGTAGTGGAGCAGAT
1 TCTCCCTAAGCAGTAGTGGAGCAGAT
51994023 CAGAGACGGC
Statistics
Matches: 389, Mismatches: 118, Indels: 92
0.65 0.20 0.15
Matches are distributed among these distances:
41 1 0.00
42 25 0.06
43 46 0.12
44 273 0.70
45 27 0.07
46 17 0.04
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
Found at i:51993752 original size:132 final size:132
Alignment explanation
Indices: 51993331--51994097 Score: 1288
Period size: 132 Copynumber: 5.8 Consensus size: 132
51993321 GGTAACCAGT
** *
51993331 GATCTTATCTTTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
* * *
51993396 TGGGAAGCAGATTTGAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTG
51993461 TA
131 TA
* *
51993463 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGG-AGAATCTTATCTTTCCAAGATA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCA-AATCTTATCTTTCCAAGATA
* * * *
51993527 GTGGGAAGCAGATTTGAGCCACCAAG-CTTGTCTCCCTGAGTAGCAGTGGAGAAGGTTGAAGATT
65 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATT
51993591 GTA
130 GTA
51993594 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
*
51993659 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTG
51993724 TA
131 TA
* *
51993726 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGATGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
*
51993791 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTG
51993856 TA
131 TA
* * *
51993858 GATCTTATCTCTCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
51993923 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTG
51993988 TA
131 TA
51993990 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AGAGACGGCAAATCTTATCTTTCCAAGATA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGACGGCAAATCTTATCTTTCCAAGATA
* * * *
51994054 GTGGGAAGCAGATTAAAGCTACCAAGCTTTGTCTCCCTGGGCAG
65 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
51994098 CAATGGAGCA
Statistics
Matches: 603, Mismatches: 28, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
131 126 0.21
132 477 0.79
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTG
TA
Found at i:51995699 original size:24 final size:21
Alignment explanation
Indices: 51995661--51995731 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 21
51995651 ATGATTATTG
51995661 TTATTTTTTTT-CTATATGTAA
1 TTATTTTTTTTACTATATGT-A
51995682 TTATTTTTTTTAACCTATATGTA
1 TTATTTTTTTT-A-CTATATGTA
51995705 TATATTTATTTTAGTACATATATGTA
1 T-TATTT-TTTT--TAC-TATATGTA
51995731 T
1 T
51995732 GTATATATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
21 11 0.26
23 2 0.05
24 13 0.31
25 5 0.12
26 10 0.24
27 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (21 bp):
TTATTTTTTTTACTATATGTA
Found at i:51995726 original size:26 final size:24
Alignment explanation
Indices: 51995673--51995740 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
51995663 ATTTTTTTTC
* *
51995673 TATATGTA-ATTATTTTTTTTAACC
1 TATATGTATA-TATTTATTTTAACA
51995697 TATATGTATATATTTATTTTAGTACA
1 TATATGTATATATTTATTTTA--ACA
* *
51995723 TATATGTATGTATATATT
1 TATATGTATATATTTATT
51995741 AATATTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 18 0.49
25 1 0.03
26 18 0.49
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.56
Consensus pattern (24 bp):
TATATGTATATATTTATTTTAACA
Found at i:52001180 original size:3 final size:3
Alignment explanation
Indices: 52001159--52001217 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
52001149 GCATTTTTTC
* * * * *
52001159 TCT TCT CCT TCT CCT TCT TCT TCT TAT TCT CCT T-T TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
52001206 TTT TC- TCT TCT T
1 TCT TCT TCT TCT T
52001218 AAACCCTAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:52001198 original size:17 final size:17
Alignment explanation
Indices: 52001167--52001218 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
52001157 TCTCTTCTCC
52001167 TTCTCCTTCTTCTTCTTA
1 TTCTCCTT-TTCTTCTTA
*
52001185 TTCTCCTTTTCTTCTTT
1 TTCTCCTTTTCTTCTTA
*
52001202 TTCT-TTTTCTCTTCTTA
1 TTCTCCTTT-TCTTCTTA
52001219 AACCCTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.10
17 19 0.63
18 8 0.27
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTCCTTTTCTTCTTA
Found at i:52002315 original size:31 final size:30
Alignment explanation
Indices: 52002276--52002353 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
52002266 CATTTTAATG
*
52002276 ATAGAGTGACTAAAATTAACAACTTATCTA
1 ATAGAGTGACTAAAATCAACAACTTATCTA
* * *
52002306 ATAGAAGTGACTCAAATCAATAATTTATCTA
1 ATAG-AGTGACTAAAATCAACAACTTATCTA
* *
52002337 ACATGAGGGACTAAAAT
1 ATA-GAGTGACTAAAAT
52002354 AAAAAAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 4 0.10
31 34 0.87
32 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (30 bp):
ATAGAGTGACTAAAATCAACAACTTATCTA
Found at i:52002825 original size:22 final size:21
Alignment explanation
Indices: 52002797--52002848 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
52002787 ATAAAAAAAT
52002797 AAAAAATAATACATTAAATTAA
1 AAAAAATAATAC-TTAAATTAA
* *
52002819 AAAAAATAATTCTTAATTTAA
1 AAAAAATAATACTTAAATTAA
*
52002840 AGAAAATAA
1 AAAAAATAA
52002849 ATATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATAATACTTAAATTAA
Found at i:52004060 original size:29 final size:29
Alignment explanation
Indices: 52004027--52004085 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
52004017 TCCACCTTGA
* *
52004027 CACGAATTCTCAACGAACAAATTCTTCAC
1 CACGAACTCTCAACAAACAAATTCTTCAC
* *
52004056 CACGAACTCTCAACAAACAAGTTTTTCAC
1 CACGAACTCTCAACAAACAAATTCTTCAC
52004085 C
1 C
52004086 TCTTCCACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.32, G:0.07, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAATTCTTCAC
Found at i:52005263 original size:15 final size:15
Alignment explanation
Indices: 52005243--52005271 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52005233 AACATAATCC
52005243 TCGGCAGAGAATTCA
1 TCGGCAGAGAATTCA
52005258 TCGGCAGAGAATTC
1 TCGGCAGAGAATTC
52005272 TTCTCGAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (15 bp):
TCGGCAGAGAATTCA
Found at i:52006450 original size:3 final size:3
Alignment explanation
Indices: 52006442--52006479 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
52006432 ATGTTATTAA
52006442 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
52006480 GAAATAAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:52006885 original size:17 final size:17
Alignment explanation
Indices: 52006863--52006896 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
52006853 GGAAAGGAAG
52006863 GAAAGAAAGAAGA-AAAA
1 GAAAGAAA-AAGAGAAAA
52006880 GAAAGAAAAAGAGAAAA
1 GAAAGAAAAAGAGAAAA
52006897 TAGGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAGAGAAAA
Found at i:52009925 original size:27 final size:27
Alignment explanation
Indices: 52009887--52009938 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
52009877 TCATTGAAGC
*
52009887 ATCTTCATTGCCGTCCATGCATGTATT
1 ATCTTCAATGCCGTCCATGCATGTATT
52009914 ATCTTCAATGCCGTCCATGCATGTA
1 ATCTTCAATGCCGTCCATGCATGTA
52009939 CCTACCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (27 bp):
ATCTTCAATGCCGTCCATGCATGTATT
Found at i:52010100 original size:3 final size:3
Alignment explanation
Indices: 52010092--52010120 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
52010082 TCTTAATACT
52010092 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
52010121 TAATAATAAT
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:52010269 original size:11 final size:11
Alignment explanation
Indices: 52010249--52010288 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
52010239 AAAAAAATAC
52010249 CTTCTTTTTCT
1 CTTCTTTTTCT
*
52010260 CTTCTCTTTCT
1 CTTCTTTTTCT
52010271 C-TCTTTTTCT
1 CTTCTTTTTCT
52010281 CTTCTTTT
1 CTTCTTTT
52010289 CCGCAACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:52010276 original size:21 final size:20
Alignment explanation
Indices: 52010251--52010289 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
52010241 AAAAATACCT
52010251 TCTTTTTCTCTTCTCTTTCTC
1 TCTTTTTCTCTTCT-TTTCTC
52010272 TCTTTTTCTCTTCTTTTC
1 TCTTTTTCTCTTCTTTTC
52010290 CGCAACACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTTTTCTCTTCTTTTCTC
Found at i:52010417 original size:27 final size:27
Alignment explanation
Indices: 52010373--52010473 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
52010363 ACACGAGTAA
* *
52010373 TGCCGCCAATGCCTTTGGCACCATTGG
1 TGCCGCCAATGGCTTTGGCACCTTTGG
*
52010400 TGCCGCCAATGGCATTGGCACCTTTGG
1 TGCCGCCAATGGCTTTGGCACCTTTGG
* *
52010427 TGCCGCCAATCGTTTTGGCACCTTTGG
1 TGCCGCCAATGGCTTTGGCACCTTTGG
* *
52010454 TGCCGCCAATCGTTTTGGCA
1 TGCCGCCAATGGCTTTGGCA
52010474 TGACCAAGGT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.14, C:0.31, G:0.27, T:0.29
Consensus pattern (27 bp):
TGCCGCCAATGGCTTTGGCACCTTTGG
Found at i:52010563 original size:22 final size:22
Alignment explanation
Indices: 52010533--52010577 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
52010523 TGTTTTTTTT
*
52010533 ATATTTTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
52010555 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
52010577 A
1 A
52010578 AGTTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:52014496 original size:22 final size:21
Alignment explanation
Indices: 52014471--52014519 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
52014461 AATTTAAAAT
* *
52014471 AAATAACATATGAGACAATTTA
1 AAATAACATAT-AAAAAATTTA
*
52014493 AAATAATATATAAAAAATTTA
1 AAATAACATATAAAAAATTTA
52014514 AAATAA
1 AAATAA
52014520 ATAAAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
AAATAACATATAAAAAATTTA
Found at i:52014533 original size:26 final size:26
Alignment explanation
Indices: 52014404--52014638 Score: 135
Period size: 26 Copynumber: 8.9 Consensus size: 26
52014394 TAAATAGTAT
* *
52014404 AAAACAATTTAAAGTAAATAATATGT
1 AAAACAATTTAAAATAAATAATATGC
* **
52014430 AAAACAAATTAAAATAAATAATACAC
1 AAAACAATTTAAAATAAATAATATGC
*
52014456 AAAGCAATTTAAAATAAATAACATATG-
1 AAAACAATTTAAAATAAAT-A-ATATGC
*
52014483 -AGACAATTTAAAAT-AAT-ATAT--
1 AAAACAATTTAAAATAAATAATATGC
*
52014504 AAAA-AATTTAAAATAAATAAAATGC
1 AAAACAATTTAAAATAAATAATATGC
* * * *
52014529 AAAAAGAAGTTTCAAATAACTAATATAC
1 -AAAACAA-TTTAAAATAAATAATATGC
* *
52014557 AAAACAGTTTAAAAAATAAATGAGGTATAT-A
1 AAAACAATTT--AAAATAAAT-A---ATATGC
* **
52014588 AAAACAATTCAAAATAAATAATATAT
1 AAAACAATTTAAAATAAATAATATGC
* * *
52014614 ATAATAGTTTAAAAATAAATAATAT
1 AAAACAATTT-AAAATAAATAATAT
52014639 ATACAAAAAA
Statistics
Matches: 162, Mismatches: 29, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
21 10 0.06
22 9 0.06
23 3 0.02
25 7 0.04
26 63 0.39
27 22 0.14
28 26 0.16
29 10 0.06
31 8 0.05
32 4 0.02
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (26 bp):
AAAACAATTTAAAATAAATAATATGC
Found at i:52014647 original size:56 final size:54
Alignment explanation
Indices: 52014493--52014647 Score: 145
Period size: 56 Copynumber: 2.8 Consensus size: 54
52014483 AGACAATTTA
* * *
52014493 AAATAATATATAAAAAATTT-AAAATAAATAAA-ATGCAAAAAGAAGTTTCAAAT
1 AAATAATATATAAAAAGTTTAAAAATAAATAAATATACAAAAACAAG-TTCAAAT
* * ** *
52014546 AACTAATATACAAAACAGTTTAAAAAATAAATGAGGTATATAAAAACAA-TTCAAAAT
1 AAATAATATATAAAA-AGTTT-AAAAATAAAT-AAATATACAAAAACAAGTTC-AAAT
*
52014603 AAATAATATATATAATAGTTTAAAAATAAATAATATATACAAAAA
1 AAATAATATATA-AAAAGTTTAAAAATAAATAA-ATATACAAAAA
52014648 ATAGATAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
53 13 0.16
54 4 0.05
55 1 0.01
56 31 0.39
57 20 0.25
58 11 0.14
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (54 bp):
AAATAATATATAAAAAGTTTAAAAATAAATAAATATACAAAAACAAGTTCAAAT
Found at i:52014730 original size:29 final size:29
Alignment explanation
Indices: 52014698--52014769 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
52014688 GGAAAACTAG
*
52014698 AAATAAATAATAATAAAATA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-AGATTTAAAAT
* *
52014727 AAAT-AATATATAAGAAAAAGGTTTTAAAT
1 AAATAAATA-ATAAGAAAAAGATTTAAAAT
52014756 AAATAAATGAATAA
1 AAATAAAT-AATAA
52014770 CAAATTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 5 0.14
29 23 0.64
30 7 0.19
31 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAAGATTTAAAAT
Found at i:52016150 original size:46 final size:46
Alignment explanation
Indices: 52016049--52016338 Score: 372
Period size: 46 Copynumber: 6.6 Consensus size: 46
52016039 TACATATGAT
*
52016049 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
52016092 CACTTATCACTTTGTCACTTGATCAGATAGGAGTAGCTAGGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
52016138 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAACTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
52016184 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
52016220 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
52016266 CACTTATCACTTTGTCTCTTGATCAAATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
52016312 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
52016339 AGTACTCAAA
Statistics
Matches: 215, Mismatches: 19, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
36 29 0.13
38 3 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 10 0.05
44 8 0.04
45 18 0.08
46 141 0.66
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:52016225 original size:36 final size:36
Alignment explanation
Indices: 52016184--52016256 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
52016174 CTAAGGCTAA
52016184 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
52016220 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
52016256 C
1 C
52016257 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:52016275 original size:82 final size:82
Alignment explanation
Indices: 52016138--52016302 Score: 267
Period size: 82 Copynumber: 2.0 Consensus size: 82
52016128 CTAGGGCTAC
*
52016138 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAACTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAACTAAAGCTAACACTTATCACTTTGTCACT
*
52016203 TGATCAGATAAGTATAG
66 TGATCAAATAAGTATAG
* * * *
52016220 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAACTAAAGCTAACACTTATCACTTTGTCACT
*
52016285 TGATCAAATAAGTGTAG
66 TGATCAAATAAGTATAG
52016302 C
1 C
52016303 TAATGCTACC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAACTAAAGCTAACACTTATCACTTTGTCACT
TGATCAAATAAGTATAG
Found at i:52016287 original size:128 final size:128
Alignment explanation
Indices: 52016092--52016338 Score: 386
Period size: 128 Copynumber: 1.9 Consensus size: 128
52016082 GCTAGGCTAC
* **
52016092 CACTTATCACTTTGTCACTTGATCAGATAGGAGTAGCTAGGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACT
* *
52016157 TGATCAGATAAGTGTAACTAAGGCTAACACTTATCACTTTGTCACTTGATCAGATAAGTATAG
66 TGATCAAATAAGTGTAACTAAGGCTAACACTTATCACTTTATCACTTGATCAGATAAGTATAG
* * * *
52016220 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACT
* * *
52016285 TGATCAAATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
66 TGATCAAATAAGTGTAACTAAGGCTAACACTTATCACTTTATCACTTGATCAGA
52016339 AGTACTCAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 107 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (128 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACT
TGATCAAATAAGTGTAACTAAGGCTAACACTTATCACTTTATCACTTGATCAGATAAGTATAG
Found at i:52019017 original size:25 final size:26
Alignment explanation
Indices: 52018988--52019036 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
52018978 TTTTAGGCTA
52018988 ATTGGGCTTAAGTTAGT-TTTGGGTT
1 ATTGGGCTTAAGTTAGTATTTGGGTT
* * *
52019013 ATTGGGTTTTAGTTTGTATTTGGG
1 ATTGGGCTTAAGTTAGTATTTGGG
52019037 CTGTCTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.51
Consensus pattern (26 bp):
ATTGGGCTTAAGTTAGTATTTGGGTT
Found at i:52019321 original size:44 final size:44
Alignment explanation
Indices: 52019265--52019934 Score: 190
Period size: 44 Copynumber: 14.8 Consensus size: 44
52019255 AACTTATCGT
* * *
52019265 TTCAAT-TCGCTCCACTGCAACTTCAGAGAGATAGGATTAGTAGC
1 TTCAATCT-GCTCCACTGTAACTTCAGGGAGATAGGATTGGTAGC
* * * *
52019309 TTTAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTATC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTGGTAGC
* ** * *
52019353 TTCAGTCTGCTCCACCATAACTTCAGGGAGATAAGG-CTGGTGGC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGAT-AGGATTGGTAGC
* *
52019397 TTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGAT-AG----G-----ATTGGTAGC
* * * * * * *
52019451 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGATT-GGTAGC
* * * * * * *
52019496 TTCAGTCTGCTGCACTGCAACTTCAGGGAGATAAGACTAGTAAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTGGTAGC
* * * ** * *
52019540 TTCAACCTACTTCACTACAACTTCAGGGAGATAAGGTTTGATA--
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGAT-AGGATTGGTAGC
* * * ** * **
52019583 -T-GATCTGCTCTATTACAACTTCAGAGAGATAAGATCTGTAATTTATAGC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGAT-AG----G--ATTGGTAGC
** ** * * * * *
52019632 TTCAATCTATTTTACTGCAACTTCAGGGAAATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGA-TTGGTAGC
* * * * *
52019677 TTCAATCTACTCCACTGTAACTTCAGGGAGATAAGACTAGTAAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTGGTAGC
* * * * *
52019721 TTCAACCTGCTCCACTGCAACTTTAAGGAGATAATGATT-G-A-C
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGAT-AGGATTGGTAGC
* * * * * ** **
52019763 AT-GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGC
1 TTCAATCTGCTCCACTGTAACTTCAG-G-G---AGA--TAGGATTGGTAGC
* * * * *
52019813 TTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGATT-GGTAGC
** * * * * * * *
52019858 TTCAATCTTTTCCACTGCAACTTTAAGGAGATAAGACTAGTAAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTGGTAGC
* * * *
52019902 TTAAACCTACTCCACTGTAACTTCAAGGAGATA
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATA
52019935 AGGTTTGATA
Statistics
Matches: 467, Mismatches: 121, Indels: 76
0.70 0.18 0.11
Matches are distributed among these distances:
41 44 0.09
42 4 0.01
43 2 0.00
44 200 0.43
45 119 0.25
46 6 0.01
47 10 0.02
48 2 0.00
49 3 0.01
50 5 0.01
51 39 0.08
53 1 0.00
54 32 0.07
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTGGTAGC
Found at i:52019562 original size:143 final size:142
Alignment explanation
Indices: 52019304--52019574 Score: 362
Period size: 143 Copynumber: 1.9 Consensus size: 142
52019294 GATAGGATTA
* * * *
52019304 GTAGCTTTAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTATCTTCAGTCTGCTCCACC
1 GTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTATCTTCAGTCTGCTCCACC
* * * ** * * **
52019369 ATAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGAT
66 ACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGAT
52019434 CTGCCATAATTT
131 CTGCCATAATTT
* *
52019446 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTGCAC
1 GTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT-GCTATCTTCAGTCTGCTCCAC
** * *
52019511 TGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTTCACTACAACTTCAGGGAGATAAG
65 CACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAGGAAGATAAG
52019575 GTTTGATATG
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
142 39 0.36
143 70 0.64
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (142 bp):
GTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTATCTTCAGTCTGCTCCACC
ACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGAT
CTGCCATAATTT
Found at i:52019701 original size:181 final size:181
Alignment explanation
Indices: 52019275--52019950 Score: 791
Period size: 181 Copynumber: 3.7 Consensus size: 181
52019265 TTCAATTCGC
* * * * * * * *
52019275 TCCACTGCAACTTCAGAGAGATAGGATTAG-TAGCTTTAATTTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * ** * * * * * * *
52019339 ATAAGATTGGTATCTTCAGTCTGCTCCACCATAACTTCAGGGAGATAAGGCTGGTGGCT-TCAAT
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGG-T--TTGATAT-GAT
* * * *
52019403 CTGCTCCACTGTAACTTCAG-GAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGT
127 CTGCTCTACTGCAACTTCAGAG-AGATAAGATCTG---TAATTTATAGCTTCAATCTGT
* *
52019461 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTGCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* *
52019526 ATAAGACTAGTAACTTCAACCTACTTCACTACAACTTCAGGGAGATAAGGTTTGATATGATCTGC
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCTGC
* * *
52019591 TCTATTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTAT
131 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
** * * *
52019642 TTTACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
52019707 ATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTTAAGGAGATAATGATTGACATGATCTGC
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCTGC
* *
52019772 TCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
131 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
* ** * *
52019823 TCCACTGTAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTTTTCCACTGCAACTTTAAGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* **
52019888 ATAAGACTAGTAACTTAAACCTACTCCACTGTAACTTCAAGGAGATAAGGTTTGATATGATCT
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCT
52019951 TCAATCCATC
Statistics
Matches: 422, Mismatches: 65, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
181 291 0.69
184 33 0.08
185 2 0.00
186 27 0.06
187 69 0.16
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (181 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCTGC
TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
Found at i:52019880 original size:45 final size:44
Alignment explanation
Indices: 52019454--52019936 Score: 269
Period size: 45 Copynumber: 10.7 Consensus size: 44
52019444 TTGTAGCTTT
* * *
52019454 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTC
* * * *
52019499 AGTCTGCTGCACTGCAACTTCAGGGAGATAAGACTAGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * * * * * *
52019543 AACCTACTTCACTACAACTTCAGGGAGATAAGGTTTG-AT-AT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * * * * *
52019584 GATCTGCTCTATTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-GTAT--CTTC
** ** * *
52019635 AATCTATTTTACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTC
* * * *
52019680 AATCTACTCCACTGTAACTTCAGGGAGATAAGACTAGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * * *
52019724 AACCTGCTCCACTGCAACTTTAAGGAGATAATGATT-G-A-CAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTAGTATCTTC
* * * * *
52019765 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-GTAT--CTTC
* * * *
52019816 AATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTC
** * * * * *
52019861 AATCTTTTCCACTGCAACTTTAAGGAGATAAGACTAGTAACTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * * *
52019905 AACCTACTCCACTGTAACTTCAAGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
52019937 GTTTGATATG
Statistics
Matches: 331, Mismatches: 83, Indels: 49
0.71 0.18 0.11
Matches are distributed among these distances:
40 2 0.01
41 51 0.15
42 4 0.01
43 4 0.01
44 101 0.31
45 102 0.31
47 9 0.03
48 2 0.01
49 2 0.01
50 3 0.01
51 51 0.15
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
Found at i:52025963 original size:50 final size:49
Alignment explanation
Indices: 52025882--52026244 Score: 174
Period size: 58 Copynumber: 6.8 Consensus size: 49
52025872 AAACGAAACA
* * * * * * *
52025882 AAATAATATATAGAACAATTTGAAGTGAATAATATAAAATAATATAAAGT
1 AAATAATATATAAAACAAATTAAAATAAATAATATAAAA-AATTTAAAAT
* *
52025932 AAATAATATGTAAAACAAATTAAAATAAATAATACACAAAGCAATTTAAAAT
1 AAATAATATATAAAACAAATTAAAATAAATAATATA-AAA--AATTTAAAAT
* * * * *
52025984 AAATAACATATTAGACAATTTAAAAT-AAT-ATATAAAAAGTTTAAAAT
1 AAATAATATATAAAACAAATTAAAATAAATAATATAAAAAATTTAAAAT
* * *
52026031 AAATAATATGCA-AAAAGAATTTTCAAATAAATAATATACAAAATAGTTTAAAAAAAT
1 AAATAATAT--ATAAAACAA-ATTAAAATAAATAATATA-AAAA-A-TTT---AAAAT
* * *
52026088 AAATGATGTATATAAAAAAAATTCAAAATAAATAATATATATAACAGTTTAAAAAT
1 AAAT-A-ATATATAAAACAAATT-AAAATAAATAATATA-A-AA-AATTT-AAAAT
* * ** *
52026144 AAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAACAATTCAAAAT
1 AAATAATATATAAAACAAATT---AAAATAAAT-A---ATAT-AAAA-AATTTAAAAT
* **
52026202 AAATAATATATATAACAGTTTAAAAATAAATAATATATAAAAA
1 AAATAATATATAAAACAAATT-AAAATAAATAATATA-AAAAA
52026245 AAATGGATAA
Statistics
Matches: 246, Mismatches: 40, Indels: 53
0.73 0.12 0.16
Matches are distributed among these distances:
47 17 0.07
48 4 0.02
49 11 0.04
50 36 0.15
51 14 0.06
52 40 0.16
54 14 0.06
55 2 0.01
56 29 0.12
57 13 0.05
58 48 0.20
59 11 0.04
60 6 0.02
61 1 0.00
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.29
Consensus pattern (49 bp):
AAATAATATATAAAACAAATTAAAATAAATAATATAAAAAATTTAAAAT
Found at i:52026009 original size:22 final size:21
Alignment explanation
Indices: 52025984--52026032 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
52025974 AATTTAAAAT
*
52025984 AAATAACATATTAGACAA-TTTA
1 AAATAACATA-TA-AAAAGTTTA
*
52026006 AAATAATATATAAAAAGTTTA
1 AAATAACATATAAAAAGTTTA
52026027 AAATAA
1 AAATAA
52026033 ATAATATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.50
22 9 0.38
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
AAATAACATATAAAAAGTTTA
Found at i:52026081 original size:101 final size:97
Alignment explanation
Indices: 52025909--52026089 Score: 222
Period size: 101 Copynumber: 1.8 Consensus size: 97
52025899 ATTTGAAGTG
* * *
52025909 AATAATATAAAATAATATAAAGTAAATAATATGTAAAACAAATTAAAATAAATAATACACAAAGC
1 AATAATATAAAATAATATAAAATAAATAATATGCAAAACAAATTAAAATAAATAATACACAAAAC
52025974 AATTTAAAATAAATAACATATTAGACAATTTAA
66 AATTTAAAA-AAATAACATATTAGACAATTTAA
* * *
52026007 AATAATATATAAA-AAGTTTAAAATAAATAATATGCAAAA-AGAATTTTCAAATAAATAATATAC
1 AATAATATA-AAATAA-TATAAAATAAATAATATGCAAAACA-AA--TTAAAATAAATAATACAC
* *
52026070 AAAATAGTTTAAAAAAATAA
61 AAAACAATTTAAAAAAATAA
52026090 ATGATGTATA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
98 12 0.17
99 25 0.36
100 6 0.09
101 27 0.39
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.28
Consensus pattern (97 bp):
AATAATATAAAATAATATAAAATAAATAATATGCAAAACAAATTAAAATAAATAATACACAAAAC
AATTTAAAAAAATAACATATTAGACAATTTAA
Found at i:52026142 original size:27 final size:27
Alignment explanation
Indices: 52026006--52026243 Score: 187
Period size: 27 Copynumber: 8.6 Consensus size: 27
52025996 AGACAATTTA
52026006 AAATAATATATAAAA-AGTTT-AAAAT
1 AAATAATATATAAAACAGTTTAAAAAT
* * **
52026031 AAATAATATGCA-AAAAGAATTTTCAAAT
1 AAATAATAT--ATAAAACAGTTTAAAAAT
* *
52026059 AAATAATATACAAAATAGTTTAAAAAAAT
1 AAATAATATATAAAACAGTTT--AAAAAT
* * ** *
52026088 AAATGATGTATATAAAAAAAATTCAAAAT
1 AAAT-A-ATATATAAAACAGTTTAAAAAT
*
52026117 AAATAATATATATAACAGTTTAAAAAT
1 AAATAATATATAAAACAGTTTAAAAAT
* *
52026144 AAATAATATACAAAATAGTTTAAAAAAAT
1 AAATAATATATAAAACAGTTT--AAAAAT
* * *
52026173 AAATGATGTATATAAAAACA-ATTCAAAAT
1 AAAT-A-ATATAT-AAAACAGTTTAAAAAT
*
52026202 AAATAATATATATAACAGTTTAAAAAT
1 AAATAATATATAAAACAGTTTAAAAAT
52026229 AAATAATATATAAAA
1 AAATAATATATAAAA
52026244 AAAATGGATA
Statistics
Matches: 167, Mismatches: 31, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
25 9 0.05
26 10 0.06
27 73 0.44
28 15 0.09
29 36 0.22
30 2 0.01
31 17 0.10
32 5 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (27 bp):
AAATAATATATAAAACAGTTTAAAAAT
Found at i:52026158 original size:85 final size:85
Alignment explanation
Indices: 52026055--52026243 Score: 360
Period size: 85 Copynumber: 2.2 Consensus size: 85
52026045 AAGAATTTTC
52026055 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAAAAATTCAAAATAAA
1 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAAAAATTCAAAATAAA
52026120 TAATATATATAACAGTTTAA
66 TAATATATATAACAGTTTAA
*
52026140 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAACAATTCAAAATAAA
1 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAAAAATTCAAAATAAA
52026205 TAATATATATAACAGTTTAA
66 TAATATATATAACAGTTTAA
*
52026225 AAATAAATAATATATAAAA
1 AAATAAATAATATACAAAA
52026244 AAAATGGATA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 102 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (85 bp):
AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAAAAATTCAAAATAAA
TAATATATATAACAGTTTAA
Found at i:52026226 original size:26 final size:26
Alignment explanation
Indices: 52025882--52026240 Score: 175
Period size: 26 Copynumber: 13.5 Consensus size: 26
52025872 AAACGAAACA
* * *
52025882 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATATATAACAATTTAAAAT
* * * *
52025908 GAATAATATA-A-AATAATATAAAGT
1 AAATAATATATATAACAATTTAAAAT
* * *
52025932 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATATATAACAATTTAAAAT
* *
52025958 AAATAATACACA-AAGCAATTTAAAAT
1 AAATAATATATATAA-CAATTTAAAAT
*
52025984 AAATAACATAT-TAGACAATTTAAAAT
1 AAATAATATATATA-ACAATTTAAAAT
*
52026010 -AAT-ATATA-A-AA-AGTTTAAAAT
1 AAATAATATATATAACAATTTAAAAT
* * *
52026031 AAATAATATGCA-AAAAGAATTTTCAAAT
1 AAATAATAT--ATATAACAA-TTTAAAAT
* * * *
52026059 AAATAATATACAAAATAGTTTAAAA-
1 AAATAATATATATAACAATTTAAAAT
* *
52026084 AAATAAATGATGTATATAAAAAAAATTCAAAAT
1 AAAT-AAT-A--TATAT---AACAATTTAAAAT
*
52026117 AAATAATATATATAACAGTTTAAAAAT
1 AAATAATATATATAACAATTT-AAAAT
* * * *
52026144 AAATAATATACAAAATAGTTTAAAA-
1 AAATAATATATATAACAATTTAAAAT
*
52026169 AAATAAATGATGTATATAAAAACAATTCAAAAT
1 AAAT-AAT-A--TATAT---AACAATTTAAAAT
*
52026202 AAATAATATATATAACAGTTTAAAAAT
1 AAATAATATATATAACAATTT-AAAAT
52026229 AAATAATATATA
1 AAATAATATATA
52026241 AAAAAAATGG
Statistics
Matches: 259, Mismatches: 42, Indels: 63
0.71 0.12 0.17
Matches are distributed among these distances:
21 9 0.03
22 4 0.02
23 5 0.02
24 22 0.08
25 17 0.07
26 87 0.34
27 49 0.19
28 16 0.06
29 16 0.06
31 2 0.01
32 24 0.09
33 8 0.03
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.29
Consensus pattern (26 bp):
AAATAATATATATAACAATTTAAAAT
Found at i:52026325 original size:25 final size:28
Alignment explanation
Indices: 52026297--52026360 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 28
52026287 GGAAAACTAG
*
52026297 AAATAAATAATA-ATAA-AATAA-TTTA
1 AAATAAATAATATATAAGAAAAAGTTTA
52026322 AAATAAATAATATATAAGAAAAAGGTTTA
1 AAATAAATAATATATAAGAAAAA-GTTTA
52026351 AAATAAATAA
1 AAATAAATAA
52026361 ATGAATAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.35
26 4 0.12
27 4 0.12
29 14 0.41
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (28 bp):
AAATAAATAATATATAAGAAAAAGTTTA
Found at i:52026329 original size:29 final size:29
Alignment explanation
Indices: 52026297--52026368 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
52026287 GGAAAACTAG
*
52026297 AAATAAATAATAATAAAATA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-AGATTTAAAAT
*
52026326 AAAT-AATATATAAGAAAAAGGTTTAAAAT
1 AAATAAATA-ATAAGAAAAAGATTTAAAAT
52026355 AAATAAATGAATAA
1 AAATAAAT-AATAA
52026369 CAAATTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 5 0.14
29 24 0.65
30 7 0.19
31 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAAGATTTAAAAT
Found at i:52031357 original size:34 final size:34
Alignment explanation
Indices: 52031318--52031386 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
52031308 AAGAAGAAAG
*
52031318 CTATTTGAATTTTGCTTCGTAGATTTGTGTTGTT
1 CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
52031352 CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
1 CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
52031386 C
1 C
52031387 AAAATTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.16, C:0.10, G:0.19, T:0.55
Consensus pattern (34 bp):
CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
Found at i:52031377 original size:20 final size:19
Alignment explanation
Indices: 52031320--52031378 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
52031310 GAAGAAAGCT
52031320 ATTTGAATTTTGCTTCGTAG
1 ATTTGAATTTTGCTTC-TAG
*
52031340 ATTTG--TGTTG-TTCT--
1 ATTTGAATTTTGCTTCTAG
52031354 ATTTGAATTTTGCTTCATAG
1 ATTTGAATTTTGCTTC-TAG
52031374 ATTTG
1 ATTTG
52031379 TGTTGTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
14 5 0.16
16 5 0.16
17 6 0.19
18 5 0.16
20 10 0.32
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (19 bp):
ATTTGAATTTTGCTTCTAG
Found at i:52034498 original size:17 final size:17
Alignment explanation
Indices: 52034478--52034511 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52034468 TTAAAATACT
52034478 TTTTAAAATTTTTTAAA
1 TTTTAAAATTTTTTAAA
52034495 TTTTAAAATTTTTTAAA
1 TTTTAAAATTTTTTAAA
52034512 ATACTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAAAATTTTTTAAA
Found at i:52034500 original size:29 final size:26
Alignment explanation
Indices: 52034457--52034527 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 26
52034447 TTATTTTTTT
52034457 ATTTTTTAATTTTAAAATACTTTTTAAA
1 ATTTTTTAATTTTAAAAT--TTTTTAAA
52034485 ATTTTTTAAATTTTAAAATTTTTTAAAA
1 ATTTTTT-AATTTTAAAATTTTTT-AAA
52034513 TACTTTTTTAATTTT
1 -A-TTTTTTAATTTT
52034528 TTTTAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.13
28 10 0.26
29 18 0.46
30 6 0.15
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTTAATTTTAAAATTTTTTAAA
Found at i:52034532 original size:40 final size:40
Alignment explanation
Indices: 52034466--52034568 Score: 172
Period size: 39 Copynumber: 2.6 Consensus size: 40
52034456 TATTTTTTAA
* *
52034466 TTTTAAAATACTTTTTAAAATTTTTTAAATTTTAAAAT-T
1 TTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATAT
*
52034505 TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATAT
52034545 TTTTAAAATACTTTTTTAAATTTT
1 TTTTAAAATACTTTTTTAAATTTT
52034569 AAAATAATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.59
40 24 0.41
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATAT
Found at i:52034536 original size:31 final size:29
Alignment explanation
Indices: 52034505--52034581 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
52034495 TTTTAAAATT
*
52034505 TTTTAAAATACTTTTTTAAT-TTTTTTTAA
1 TTTTAAAATA-TTTTTTAATACTTTTTTAA
*
52034534 TTTTAAAATATTTTTAAAATACTTTTTTAAA
1 TTTTAAAATATTTTT-TAATACTTTTTT-AA
52034565 TTTTAAAATAATTTTTT
1 TTTTAAAAT-ATTTTTT
52034582 GGTATTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.12
29 13 0.32
30 6 0.15
31 11 0.27
32 6 0.15
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTAAAATATTTTTTAATACTTTTTTAA
Found at i:52034565 original size:12 final size:11
Alignment explanation
Indices: 52034466--52034565 Score: 60
Period size: 12 Copynumber: 9.8 Consensus size: 11
52034456 TATTTTTTAA
52034466 TTTTAAAATACT
1 TTTTAAAATA-T
52034478 TTTTAAAAT-T
1 TTTTAAAATAT
52034488 TTTT--AA-A-
1 TTTTAAAATAT
52034495 TTTTAAAAT-T
1 TTTTAAAATAT
52034505 TTTTAAAATACT
1 TTTTAAAATA-T
*
52034517 TTTT-TAAT-T
1 TTTTAAAATAT
* *
52034526 TTTT---TTAA
1 TTTTAAAATAT
52034534 TTTTAAAATAT
1 TTTTAAAATAT
52034545 TTTTAAAATACT
1 TTTTAAAATA-T
*
52034557 TTTTTAAAT
1 TTTTAAAAT
52034566 TTTAAAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
7 5 0.07
8 6 0.09
9 7 0.10
10 14 0.20
11 15 0.21
12 23 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:52037535 original size:3 final size:3
Alignment explanation
Indices: 52037527--52037607 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
52037517 ATTGATTAAA
52037527 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
52037575 AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
52037608 CTAAAACAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:52045540 original size:40 final size:41
Alignment explanation
Indices: 52045473--52045579 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 41
52045463 CGTTTGAACA
52045473 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-CTTTAGG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
* * * * *
52045513 AAAAACGCCGCTAAAGATCCAGTATTAGCGGCGTTTTTTGG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
*
52045554 -AAAACGCCGCTAAAAATGAA-CATTAG
1 AAAAACGCCGCTAAAAATCAAGCATTAG
52045580 TGGCATTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 5 0.09
40 47 0.82
41 5 0.09
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
Found at i:52045711 original size:41 final size:41
Alignment explanation
Indices: 52045646--52045837 Score: 237
Period size: 41 Copynumber: 4.7 Consensus size: 41
52045636 TTTTTCAGGG
* * *
52045646 CTTTAGCGGCGTTTTTCGAAAAGCGCTGCTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCGGGT
*
52045687 CTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCGGGT
*
52045728 CTTTAGCGGCATTTTT-GAAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCATTTTTGGAA-AAGCGCCGCTAATGCTCGGGT
* **
52045769 CTTTAGCGGCGTTTTT-GATAAAGCGCCGCTAATGCTC-TAT
1 CTTTAGCGGCATTTTTGGA-AAAGCGCCGCTAATGCTCGGGT
* * **
52045809 TTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 CTTTAGCGGCATTTTTGGAAAAGCGCCGC
52045838 AAAAAATATT
Statistics
Matches: 137, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
40 28 0.20
41 108 0.79
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCGGGT
Found at i:52046938 original size:21 final size:20
Alignment explanation
Indices: 52046904--52047006 Score: 59
Period size: 21 Copynumber: 5.0 Consensus size: 20
52046894 TATAGATTTA
*
52046904 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
52046924 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
** * *
52046945 ATGAGTTAGGGATT-AGGAGTT
1 GGGA-TTAAGGTTTAAGG-GTT
* *
52046966 AGGGATTTAGGGTTTTAAGGGTC
1 -GGGA-TTAAGG-TTTAAGGGTT
52046989 GGG-TTAAGGTTT-AGGGTT
1 GGGATTAAGGTTTAAGGGTT
52047007 TAGATTAATT
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
18 5 0.08
19 3 0.05
20 11 0.17
21 26 0.41
22 11 0.17
23 4 0.06
24 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.41, T:0.37
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:52046953 original size:14 final size:14
Alignment explanation
Indices: 52046936--52046972 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
52046926 GATTTAAGGT
* *
52046936 TTAGGGGTTATGAG
1 TTAGGGATTAGGAG
52046950 TTAGGGATTAGGAG
1 TTAGGGATTAGGAG
52046964 TTAGGGATT
1 TTAGGGATT
52046973 TAGGGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGATTAGGAG
Found at i:52050417 original size:43 final size:43
Alignment explanation
Indices: 52050364--52050526 Score: 229
Period size: 43 Copynumber: 3.8 Consensus size: 43
52050354 AAGATATATT
* * *
52050364 TTTAGTGGCGTTTGTTTG-AAAAGCGCCGCTAAAAGCCATGGTC
1 TTTAGTGGCGTTTG-TGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
52050407 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTT
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
52050450 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
52050493 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAG
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAG
52050527 TTAGCGACGC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 2 0.02
43 106 0.98
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:52050507 original size:86 final size:86
Alignment explanation
Indices: 52050362--52050526 Score: 258
Period size: 86 Copynumber: 1.9 Consensus size: 86
52050352 AAAAGATATA
** * *
52050362 TTTTTAGTGGCGTTTGTTTGAAAAGCGCCGCTAAAAGCCATGGTCTTTAGCGGCGTTTGTGGTAA
1 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
52050427 AAGCGCCGCTAAAGGTCATGG
66 AAGCGCCGCTAAAGGTCATGG
* * * *
52050448 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAGTCTTTAGTGGCGTTTGTGGAAA
1 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
52050513 AAGCGCCGCTAAAG
66 AAGCGCCGCTAAAG
52050527 TTAGCGACGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (86 bp):
TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
AAGCGCCGCTAAAGGTCATGG
Found at i:52050626 original size:22 final size:22
Alignment explanation
Indices: 52050598--52050641 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52050588 TAGTGGCGCT
* *
52050598 AAAAAGCGTCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
52050620 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
52050642 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:52054894 original size:19 final size:20
Alignment explanation
Indices: 52054863--52054900 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52054853 TCATATTTTG
*
52054863 ATAATATAAAATATTTTAAT
1 ATAATATAAAATAATTTAAT
52054883 ATAATA-AAAATAATTTAA
1 ATAATATAAAATAATTTAA
52054901 ATTCAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATATAAAATAATTTAAT
Found at i:52056213 original size:24 final size:24
Alignment explanation
Indices: 52056186--52056237 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
52056176 TTAGCAAGTC
*
52056186 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
52056210 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
52056234 AAAT
1 AAAT
52056238 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:52058184 original size:24 final size:24
Alignment explanation
Indices: 52058157--52058208 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
52058147 TTAGCAAGTC
*
52058157 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
52058181 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
52058205 AAAT
1 AAAT
52058209 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:52063772 original size:5 final size:5
Alignment explanation
Indices: 52063762--52063789 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
52063752 ATATTTTAAA
52063762 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
52063790 AATATTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:52067069 original size:26 final size:27
Alignment explanation
Indices: 52067009--52067069 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
52066999 AAATTGTATG
*
52067009 TAAA-ACAAATTAAAATAAATAATACA
1 TAAAGACAATTTAAAATAAATAATACA
52067035 TAAAG-CAATTTAAAATAAAT-A-ACA
1 TAAAGACAATTTAAAATAAATAATACA
52067059 TATAAGACAAT
1 TA-AAGACAAT
52067070 AAAAAGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 5 0.16
25 4 0.13
26 22 0.71
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (27 bp):
TAAAGACAATTTAAAATAAATAATACA
Found at i:52068270 original size:23 final size:21
Alignment explanation
Indices: 52068219--52068270 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
52068209 AAGTATCACC
*
52068219 TTGAAGTGTTGTTTTTTTTTTT
1 TTGAA-TGTTGTTTTATTTTTT
52068241 TTCGAATGTTCGTTGTTATTTTTT
1 TT-GAATGTT-GTT-TTATTTTTT
52068265 TTGAAT
1 TTGAAT
52068271 CAGTTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.23
23 10 0.38
24 10 0.38
ACGTcount: A:0.13, C:0.04, G:0.17, T:0.65
Consensus pattern (21 bp):
TTGAATGTTGTTTTATTTTTT
Found at i:52069013 original size:17 final size:16
Alignment explanation
Indices: 52068993--52069048 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
52068983 CATATTTTCA
52068993 TTAAAAACATAAAAAAT
1 TTAAAAA-ATAAAAAAT
*
52069010 TT-AAAAATGAAAAAT
1 TTAAAAAATAAAAAAT
*
52069025 TATGAAAAATAAAAATAT
1 T-TAAAAAATAAAAA-AT
52069043 TTAAAA
1 TTAAAA
52069049 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.27
16 5 0.15
17 16 0.48
18 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
TTAAAAAATAAAAAAT
Found at i:52069024 original size:15 final size:15
Alignment explanation
Indices: 52068996--52069056 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 15
52068986 ATTTTCATTA
52068996 AAAACATAAAAAATTT
1 AAAA-ATAAAAAATTT
*
52069012 AAAAATGAAAAATTAT
1 AAAAATAAAAAATT-T
52069028 GAAAAATAAAAATATTT
1 -AAAAATAAAAA-ATTT
*
52069045 AAAATTAAAAAA
1 AAAAATAAAAAA
52069057 ATTGAAATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 10 0.26
16 15 0.38
17 11 0.28
18 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (15 bp):
AAAAATAAAAAATTT
Found at i:52069063 original size:32 final size:33
Alignment explanation
Indices: 52068996--52069063 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
52068986 ATTTTCATTA
* *
52068996 AAAACATAAAAAATTTAAAAATGAAAAATTATG
1 AAAACATAAAAAATTTAAAAATAAAAAAATATG
*
52069029 AAAA-ATAAAAATATTTAAAATTAAAAAAAT-TG
1 AAAACATAAAAA-ATTTAAAAATAAAAAAATATG
52069061 AAA
1 AAA
52069064 TGATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (33 bp):
AAAACATAAAAAATTTAAAAATAAAAAAATATG
Found at i:52070447 original size:15 final size:15
Alignment explanation
Indices: 52070418--52070456 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
52070408 CTTTATACTA
* *
52070418 TAAAACATTTGTTAT
1 TAAAATATTTATTAT
*
52070433 TAATATATTTATTAT
1 TAAAATATTTATTAT
52070448 TAAAATATT
1 TAAAATATT
52070457 AATATTGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (15 bp):
TAAAATATTTATTAT
Found at i:52070569 original size:23 final size:24
Alignment explanation
Indices: 52070542--52070602 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 24
52070532 TTATTATATG
52070542 ATTAAAAATAAAT-GTTTAATAAT
1 ATTAAAAATAAATAGTTTAATAAT
*
52070565 ATTAAAAATTATAATATTTTAATAAT
1 ATTAAAAA-TA-AATAGTTTAATAAT
*
52070591 TTTAAAAATAAA
1 ATTAAAAATAAA
52070603 AATAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 8 0.24
24 4 0.12
25 5 0.15
26 16 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATTAAAAATAAATAGTTTAATAAT
Found at i:52073763 original size:21 final size:20
Alignment explanation
Indices: 52073739--52073777 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52073729 CAGCTCGTTT
52073739 CAGCTCAATTTAATTTATTTC
1 CAGCTC-ATTTAATTTATTTC
*
52073760 CAGCTCATTTACTTTATT
1 CAGCTCATTTAATTTATT
52073778 GCTAGAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (20 bp):
CAGCTCATTTAATTTATTTC
Found at i:52075904 original size:6 final size:6
Alignment explanation
Indices: 52075893--52075957 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
52075883 TAATTTAGCC
* * * * * *
52075893 ATTTTT ATTTTT ATTATA ATTTTT GTTTTT AGTTTA ATTTTT ACTTTCT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTTT
52075942 ATTTTT -TCTTTT ATTT
1 ATTTTT AT-TTTT ATTT
52075958 GCTTCTGGCA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
5 1 0.02
6 37 0.84
7 6 0.14
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:52075914 original size:18 final size:18
Alignment explanation
Indices: 52075893--52075935 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
52075883 TAATTTAGCC
52075893 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
*
52075911 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
52075929 ATTTTTA
1 ATTTTTA
52075936 CTTTCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:52077220 original size:27 final size:27
Alignment explanation
Indices: 52077190--52077244 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
52077180 GAAGAAGCCG
*
52077190 AACCTTGATGAGATGTTGACGAAGTTT
1 AACCTTGAGGAGATGTTGACGAAGTTT
52077217 AACCTTGAGGAGATGTTGACGAAGTTT
1 AACCTTGAGGAGATGTTGACGAAGTTT
52077244 A
1 A
52077245 TCTCGGTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (27 bp):
AACCTTGAGGAGATGTTGACGAAGTTT
Found at i:52078995 original size:16 final size:16
Alignment explanation
Indices: 52078965--52079021 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
52078955 CATATTTTCA
52078965 TTAAAAACATAAAAATT
1 TTAAAAA-ATAAAAATT
*
52078982 TTAAAAAATGAAAATT
1 TTAAAAAATAAAAATT
*
52078998 TATGAAAAATAAAAATCT
1 T-TAAAAAATAAAAAT-T
52079016 TTAAAA
1 TTAAAA
52079022 TTCAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 9 0.26
17 23 0.68
18 2 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (16 bp):
TTAAAAAATAAAAATT
Found at i:52080161 original size:21 final size:21
Alignment explanation
Indices: 52080137--52080176 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52080127 GAATGGAAAA
*
52080137 TAAAAAAAAATAAAGGAAAGT
1 TAAAAAAAAATAAAAGAAAGT
* *
52080158 TAAAATAATATAAAAGAAA
1 TAAAAAAAAATAAAAGAAA
52080177 AAATTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (21 bp):
TAAAAAAAAATAAAAGAAAGT
Found at i:52080460 original size:15 final size:15
Alignment explanation
Indices: 52080437--52080474 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
52080427 TTATACTACA
52080437 AAAATATTTATTATT
1 AAAATATTTATTATT
*
52080452 AATATATTTATTATT
1 AAAATATTTATTATT
52080467 AAAATATT
1 AAAATATT
52080475 AATATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:52082684 original size:53 final size:53
Alignment explanation
Indices: 52082617--52082723 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
52082607 TATTTAAGTA
* * * *
52082617 ACAAATTGCGAATTGAGTTTTAACTCGATTGATATGTGTATTGTTGTTAATGT
1 ACAAATTACAAATTGAGTTTTAACTCAATTAATATGTGTATTGTTGTTAATGT
52082670 ACAAATTACAAATTGAGTTTTAACTCAATTAATATGTGTATTGTTGTTAATGT
1 ACAAATTACAAATTGAGTTTTAACTCAATTAATATGTGTATTGTTGTTAATGT
52082723 A
1 A
52082724 AGAAGTTCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (53 bp):
ACAAATTACAAATTGAGTTTTAACTCAATTAATATGTGTATTGTTGTTAATGT
Found at i:52084002 original size:13 final size:13
Alignment explanation
Indices: 52083984--52084011 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
52083974 AGTTCTTCAT
52083984 TGTTTTTGAAAAG
1 TGTTTTTGAAAAG
52083997 TGTTTTTGAAAAG
1 TGTTTTTGAAAAG
52084010 TG
1 TG
52084012 CTGTGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (13 bp):
TGTTTTTGAAAAG
Found at i:52091750 original size:5 final size:5
Alignment explanation
Indices: 52091742--52091803 Score: 67
Period size: 5 Copynumber: 12.6 Consensus size: 5
52091732 TACCCTTTTC
*
52091742 TTTAT TTTAT TTTAT GTTAT TTTAT TTT-T ATTTA- TTTAT TTTAT TATTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT T-TTAT
*
52091792 TTT-T TATAT TTT
1 TTTAT TTTAT TTT
52091804 TATATATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 8 0.17
5 35 0.73
6 5 0.10
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:52091761 original size:10 final size:9
Alignment explanation
Indices: 52091742--52091844 Score: 59
Period size: 10 Copynumber: 10.8 Consensus size: 9
52091732 TACCCTTTTC
52091742 TTTATTTTAT
1 TTTA-TTTAT
52091752 TTTATGTTAT
1 TTTAT-TTAT
*
52091762 TTTATTTTT
1 TTTATTTAT
52091771 ATTTATTTAT
1 -TTTATTTAT
52091781 TTTATTATTAT
1 TTTA-T-TTAT
52091792 TTT-TTATATT
1 TTTATT-TA-T
*
52091802 TTTATATAT
1 TTTATTTAT
*
52091811 ATTATTTGA-
1 TTTATTT-AT
*
52091820 TCTATTT-T
1 TTTATTTAT
*
52091828 CTTATTTATT
1 TTTATTTA-T
52091838 TTTATTT
1 TTTATTT
52091845 TTATTTGTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
8 6 0.08
9 22 0.31
10 36 0.50
11 8 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:52091763 original size:15 final size:14
Alignment explanation
Indices: 52091737--52091798 Score: 67
Period size: 13 Copynumber: 4.4 Consensus size: 14
52091727 CCTTTTACCC
*
52091737 TTTTCTTTATTTTA
1 TTTTATTTATTTTA
52091751 TTTTATGTTATTTTA
1 TTTTAT-TTATTTTA
52091766 TTTTTATTTA-TTTA
1 -TTTTATTTATTTTA
52091780 TTTTA-TTATTATT-
1 TTTTATTTATT-TTA
52091793 TTTTAT
1 TTTTAT
52091799 ATTTTTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.07
13 11 0.26
14 11 0.26
15 11 0.26
16 6 0.14
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:52091779 original size:24 final size:22
Alignment explanation
Indices: 52091751--52091850 Score: 83
Period size: 26 Copynumber: 4.0 Consensus size: 22
52091741 CTTTATTTTA
52091751 TTTTATGTTATTTTATTTTTATT
1 TTTTAT-TTATTTTATTTTTATT
52091774 TATTTATTTTATTATTATTTTTTATAT
1 T-TTTA-TTTATT-TTA-TTTTTAT-T
* *
52091801 TTTTATATATATTATTTGATCTATT
1 TTTTATTTATTTTATTT--T-TATT
52091826 TTCTTATTTATTTTTATTTTTATT
1 TT-TTATTTA-TTTTATTTTTATT
52091850 T
1 T
52091851 GTGCTCAGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
23 4 0.06
24 17 0.27
25 13 0.21
26 20 0.32
27 9 0.14
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTATTTTATTTTTATT
Found at i:52091782 original size:34 final size:34
Alignment explanation
Indices: 52091742--52091844 Score: 113
Period size: 34 Copynumber: 3.0 Consensus size: 34
52091732 TACCCTTTTC
52091742 TTTATTTTATT-TTATGTTATTTTATTTTTATTTA
1 TTTATTTTATTATTAT-TTATTTTATTTTTATTTA
*
52091776 TTTATTTTATTATTATTT-TTTATATTTTTATATA
1 TTTATTTTATTATTATTTATTT-TATTTTTATTTA
* *
52091810 TATTATTTGATCTATTTTCTTA-TTTATTTTTATTT
1 T-TTATTTTAT-TATTAT-TTATTTTATTTTTATTT
52091845 TTATTTGTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
33 3 0.05
34 25 0.42
35 12 0.20
36 15 0.25
37 4 0.07
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (34 bp):
TTTATTTTATTATTATTTATTTTATTTTTATTTA
Found at i:52091801 original size:15 final size:15
Alignment explanation
Indices: 52091742--52091850 Score: 68
Period size: 15 Copynumber: 7.2 Consensus size: 15
52091732 TACCCTTTTC
52091742 TTTATTTTATT-TTA
1 TTTATTTTATTATTA
*
52091756 TGTTATTTTATTTTTA
1 T-TTATTTTATTATTA
*
52091772 TTTATTTATTTTATTA
1 TTTATTT-TATTATTA
52091788 -TTATTTT-TTA-TA
1 TTTATTTTATTATTA
*
52091800 TTT-TTATATATATTA
1 TTTATTTTAT-TATTA
*
52091815 TTTGATCTATT-TTCTTA
1 TTT-AT-T-TTATTATTA
*
52091832 TTTATTTTTATTTTTA
1 TTTA-TTTTATTATTA
52091848 TTT
1 TTT
52091851 GTGCTCAGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 24
0.72 0.06 0.23
Matches are distributed among these distances:
12 5 0.07
13 6 0.08
14 4 0.05
15 29 0.38
16 20 0.26
17 9 0.12
18 2 0.03
19 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTATTTTATTATTA
Found at i:52091914 original size:12 final size:12
Alignment explanation
Indices: 52091880--52091919 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
52091870 ATTTTAATTA
*
52091880 TATTATTTTTAG
1 TATTATTTTTAC
52091892 TATT-TTTTTAC
1 TATTATTTTTAC
*
52091903 TATTATTCTTAC
1 TATTATTTTTAC
52091915 TATTA
1 TATTA
52091920 CCTTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (12 bp):
TATTATTTTTAC
Found at i:52091973 original size:12 final size:12
Alignment explanation
Indices: 52091952--52092000 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
52091942 TGAGTTTATT
52091952 TTTTC-TTTTTCG
1 TTTTCATTTTT-G
*
52091964 TTTTCATTTTTA
1 TTTTCATTTTTG
52091976 TTTTC-TTTTTG
1 TTTTCATTTTTG
*
52091987 TTTTTATTTTTG
1 TTTTCATTTTTG
52091999 TT
1 TT
52092001 ATTAGTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 9 0.28
12 18 0.56
13 5 0.16
ACGTcount: A:0.06, C:0.08, G:0.06, T:0.80
Consensus pattern (12 bp):
TTTTCATTTTTG
Found at i:52091983 original size:24 final size:23
Alignment explanation
Indices: 52091952--52091997 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
52091942 TGAGTTTATT
52091952 TTTTCTTTTTCGTTTTCATTTTTA
1 TTTTCTTTTT-GTTTTCATTTTTA
*
52091976 TTTTCTTTTTGTTTTTATTTTT
1 TTTTCTTTTTGTTTTCATTTTT
52091998 GTTATTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.07, C:0.09, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTGTTTTCATTTTTA
Found at i:52092076 original size:5 final size:6
Alignment explanation
Indices: 52092061--52092085 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52092051 TGAACTATGT
52092061 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
52092086 GGTTGTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:52093011 original size:10 final size:9
Alignment explanation
Indices: 52092996--52093053 Score: 57
Period size: 10 Copynumber: 6.2 Consensus size: 9
52092986 TGATTGTTCT
52092996 AGAAAAAATA
1 AGAAAAAA-A
52093006 AGAAAAGAAA
1 AGAAAA-AAA
52093016 AGAAAAAACA
1 AGAAAAAA-A
*
52093026 A-AACAAAAC
1 AGAA-AAAAA
52093035 A-AAAAAAA
1 AGAAAAAAA
52093043 AGAAAAAAA
1 AGAAAAAAA
52093052 AG
1 AG
52093054 TATTGATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 5 0.12
9 16 0.38
10 19 0.45
11 2 0.05
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:52093907 original size:30 final size:30
Alignment explanation
Indices: 52093893--52093954 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
52093883 TAGGCACATG
*
52093893 CCCGTGTGAGCCACACAGGCTGGACACTCA
1 CCCGTGTGAGCCACACGGGCTGGACACTCA
* *
52093923 CCCGTGTGAGCCACACGGGCTGAACACACA
1 CCCGTGTGAGCCACACGGGCTGGACACTCA
52093953 CC
1 CC
52093955 TATGTGCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.39, G:0.26, T:0.11
Consensus pattern (30 bp):
CCCGTGTGAGCCACACGGGCTGGACACTCA
Found at i:52097255 original size:43 final size:43
Alignment explanation
Indices: 52097207--52097499 Score: 277
Period size: 43 Copynumber: 6.8 Consensus size: 43
52097197 AAAAAAACAT
** * * *
52097207 CGCTAAAGGTCATGACCTTTAGCGGCGCTTCTCTAACAAACAC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTATAACAAACGC
** * * * *
52097250 CGCTAAAGGTCATTG-TCTTTAGCGGCACTTTTCCT-ACAAATGC
1 CGCTAAAGACCA-TGACCTTTAGCGGCGCTTTT-ATAACAAACGC
* *
52097293 CGCTAAAGACCATGACTTTTAGCGGCGCTTTTATACCAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTATAACAAACGC
* * *
52097336 CGCTAAAGACCATGACTTTTAACGGCGCTTTTATATCAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTATAACAAACGC
* * * *
52097379 CGCTAAAGACCATGACTTTTGGCGGCACTTTTATATCAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTATAACAAACGC
* * * **
52097422 CTCTAAAGATCAT-AGCCTTTAGCGGCGCTTCTACCACAAACGC
1 CGCTAAAGACCATGA-CCTTTAGCGGCGCTTTTATAACAAACGC
* *
52097465 CGCTAAAGACCACGACCTTTTAACGGCGCTCTTTA
1 CGCTAAAGACCATGACC-TTTAGCGGCGCT-TTTA
52097500 GTGGCGCTTT
Statistics
Matches: 210, Mismatches: 32, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
42 4 0.02
43 187 0.89
44 16 0.08
45 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (43 bp):
CGCTAAAGACCATGACCTTTAGCGGCGCTTTTATAACAAACGC
Found at i:52097314 original size:86 final size:86
Alignment explanation
Indices: 52097207--52097499 Score: 313
Period size: 86 Copynumber: 3.4 Consensus size: 86
52097197 AAAAAAACAT
** * * * * * *
52097207 CGCTAAAGGTCATGACCTTTAGCGGCGCTTCTCTAACAAACACCGCTAAAGGTCATTGTCTTTAG
1 CGCTAAAGACCATGACTTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCATTGACTTTAG
* *
52097272 CGGCACTTTTCCTACAAATGC
66 CGGCGCTTTTCCTACAAACGC
* *
52097293 CGCTAAAGACCATGACTTTTAGCGGCGCTTTTATACCAAACGCCGCTAAAGACCA-TGACTTTTA
1 CGCTAAAGACCATGACTTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCATTGAC-TTTA
* *
52097357 ACGGCGCTTTT-ATATCAAACGC
65 GCGGCGCTTTTCCTA-CAAACGC
* * * * * *
52097379 CGCTAAAGACCATGACTTTTGGCGGCACTTTTATATCAAACGCCTCTAAAGATCATAGCCTTTAG
1 CGCTAAAGACCATGACTTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCATTGACTTTAG
*
52097444 CGGCGCTTCTACC-ACAAACGC
66 CGGCGCTT-TTCCTACAAACGC
* *
52097465 CGCTAAAGACCACGACCTTTTAACGGCGCTCTTTA
1 CGCTAAAGACCATGA-CTTTTAGCGGCGCT-TTTA
52097500 GTGGCGCTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
85 5 0.03
86 148 0.86
87 15 0.09
88 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (86 bp):
CGCTAAAGACCATGACTTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCATTGACTTTAG
CGGCGCTTTTCCTACAAACGC
Found at i:52097350 original size:129 final size:129
Alignment explanation
Indices: 52097207--52097494 Score: 323
Period size: 129 Copynumber: 2.2 Consensus size: 129
52097197 AAAAAAACAT
** * * ** *
52097207 CGCTAAAGGTCATGACCTTTAGCGGCGCTTCTCTAACAAACACCGCTAAAGGTCATTGTC-TTTA
1 CGCTAAAGACCATGACCTTTAACGGCGCTTCTATAACAAACACCGCTAAAGACCA-TGACTTTTA
* * * *
52097271 GCGGCACTTTTCCTA-CAAATGCCGCTAAAGACCAT-GACTTTTAGCGGCGCTTTTATAC-CAAA
65 GCGGCACTTTT-ATATCAAACGCCGCTAAAGACCATAG-CCTTTAGCGGCGCTTCTA-ACACAAA
52097333 CGC
127 CGC
* * * * *
52097336 CGCTAAAGACCATGACTTTTAACGGCGCTTTTATATCAAACGCCGCTAAAGACCATGACTTTTGG
1 CGCTAAAGACCATGACCTTTAACGGCGCTTCTATAACAAACACCGCTAAAGACCATGACTTTTAG
* * *
52097401 CGGCACTTTTATATCAAACGCCTCTAAAGATCATAGCCTTTAGCGGCGCTTCTACCACAAACGC
66 CGGCACTTTTATATCAAACGCCGCTAAAGACCATAGCCTTTAGCGGCGCTTCTAACACAAACGC
*
52097465 CGCTAAAGACCACGACCTTTTAACGGCGCT
1 CGCTAAAGACCATGACC-TTTAACGGCGCT
52097495 CTTTAGTGGC
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
128 6 0.05
129 114 0.86
130 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (129 bp):
CGCTAAAGACCATGACCTTTAACGGCGCTTCTATAACAAACACCGCTAAAGACCATGACTTTTAG
CGGCACTTTTATATCAAACGCCGCTAAAGACCATAGCCTTTAGCGGCGCTTCTAACACAAACGC
Found at i:52097568 original size:43 final size:43
Alignment explanation
Indices: 52097516--52097597 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
52097506 CTTTTTCCCC
*
52097516 CAAACGCCGCTAAAGACCATGACTTTTAGCGGCACTTTTCCTA
1 CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCTA
* * *
52097559 CAAATGCCGCTAAAGACCTTGACCTTTAGCGGCGCTTTT
1 CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTT
52097598 TTAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (43 bp):
CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCTA
Found at i:52097817 original size:19 final size:19
Alignment explanation
Indices: 52097793--52097830 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52097783 TACAAAAATG
*
52097793 TTAAAAGTTAAAATGATAA
1 TTAAAAGTCAAAATGATAA
52097812 TTAAAAGTCAAAATGATAA
1 TTAAAAGTCAAAATGATAA
52097831 AAATATTTAC
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:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (19 bp):
TTAAAAGTCAAAATGATAA
Found at i:52097960 original size:21 final size:21
Alignment explanation
Indices: 52097934--52097982 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
52097924 TCTATGCTGG
*
52097934 TCTGCTTCCCTTGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* *
52097955 TCTGCTTCTCTCGCTGCCGCC
1 TCTGCTTCCCTCGCTGCAGCC
52097976 TCTGCTT
1 TCTGCTT
52097983 TAAGCTGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.43, G:0.18, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:52098067 original size:66 final size:66
Alignment explanation
Indices: 52097953--52098122 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 66
52097943 CTTGCTGCAG
* * * *
52097953 CCTCTGCTTCTCTCGCTGCCGCCTCTGCTTTAAGCTGCAGCTGGAGTTCTTCATA-CTTCCGTTG
1 CCTCAGCTTCTCTCGCAGCCGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTT-CGTTG
52098017 AA
65 AA
* * * **
52098019 CCTTAGCTTCTCTCGCAGCCGCATCTGCTTTAAGTTGTAGCTGTAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCAGCCGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCGTTGA
52098084 A
66 A
* *
52098085 CCTCAGCTTCTCTCG-ATGCTGCCTCCGCTTTAAGTTGT
1 CCTCAGCTTCTCTCGCA-GCCGCCTCTGCTTTAAGTTGT
52098123 GTAATTTGCT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 85 0.96
67 3 0.03
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCAGCCGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCGTTGA
A
Found at i:52103579 original size:9 final size:9
Alignment explanation
Indices: 52103565--52104076 Score: 247
Period size: 9 Copynumber: 57.4 Consensus size: 9
52103555 AGTATATATG
52103565 AGTTATGTA
1 AGTTATGTA
52103574 AGTTATGTA
1 AGTTATGTA
*
52103583 AGTAATGTA
1 AGTTATGTA
*
52103592 AGTTAAGT-
1 AGTTATGTA
52103600 A-TTATGTA
1 AGTTATGTA
52103608 AGTTATGTA
1 AGTTATGTA
** *
52103617 AG-TCCGACA
1 AGTTATG-TA
*
52103626 AGTTAATATA
1 AGTT-ATGTA
*
52103636 TA-ATAT-TA
1 -AGTTATGTA
52103644 A-TTATGTA
1 AGTTATGTA
*
52103652 ACTTATGTATA
1 AGTTATG--TA
*
52103663 ATATTAATGTA
1 A-GTT-ATGTA
52103674 AGTTATGT-
1 AGTTATGTA
52103682 A-TTATGTA
1 AGTTATGTA
* *
52103690 AGTTTTTTA
1 AGTTATGTA
*
52103699 AGTTATATA
1 AGTTATGTA
*
52103708 AGTTGTGT-
1 AGTTATGTA
52103716 A-TTATGTA
1 AGTTATGTA
52103724 AGTTATGTA
1 AGTTATGTA
*
52103733 AGTTGTGTA
1 AGTTATGTA
*
52103742 AGTTGTGT-
1 AGTTATGTA
52103750 A-TTATGTA
1 AGTTATGTA
52103758 AGTTATGTA
1 AGTTATGTA
*
52103767 AGTTGTGTA
1 AGTTATGTA
*
52103776 AGTTGTGT-
1 AGTTATGTA
52103784 A-TTATGTA
1 AGTTATGTA
52103792 AGTTATGTA
1 AGTTATGTA
*
52103801 AGTTGTGTA
1 AGTTATGTA
*
52103810 AGTTGTGT-
1 AGTTATGTA
52103818 A-TTATGTA
1 AGTTATGTA
52103826 AGTTATGTA
1 AGTTATGTA
* *
52103835 AG-TCTGACA
1 AGTTATG-TA
*
52103844 AGTTATGTTT
1 AGTTATG-TA
52103854 AG-TAT-TA
1 AGTTATGTA
52103861 A-TTAAT-TA
1 AGTT-ATGTA
52103869 AGTTATGTA
1 AGTTATGTA
52103878 AGTTATGTATA
1 AGTTATG--TA
*
52103889 ATATTAATGTA
1 A-GTT-ATGTA
52103900 AGTTATGT-
1 AGTTATGTA
52103908 A-TTATGTA
1 AGTTATGTA
* *
52103916 AGTTATTTT
1 AGTTATGTA
52103925 AGTTATGTA
1 AGTTATGTA
*
52103934 AGTTGTGT-
1 AGTTATGTA
*
52103942 A-TTATGTG
1 AGTTATGTA
*
52103950 AGTTATGCA
1 AGTTATGTA
* *
52103959 ATTTACGTA
1 AGTTATGTA
* * *
52103968 GGCTATAT-
1 AGTTATGTA
52103976 AG-TATGTA
1 AGTTATGTA
*
52103984 CGTTAT-TA
1 AGTTATGTA
*
52103992 TGTTATTATGTA
1 AG---TTATGTA
*
52104004 AGTTATGCA
1 AGTTATGTA
*
52104013 AGTTTTTATATA
1 AG---TTATGTA
*
52104025 AGTTCTATATA
1 AG-T-TATGTA
52104036 AGTTATGTA
1 AGTTATGTA
52104045 AGTTATTATGTA
1 AG---TTATGTA
52104057 AGTTATGT-
1 AGTTATGTA
52104065 A-TTATGTA
1 AGTTATGTA
52104073 AGTT
1 AGTT
52104077 TATATATAAG
Statistics
Matches: 390, Mismatches: 62, Indels: 102
0.70 0.11 0.18
Matches are distributed among these distances:
7 59 0.15
8 40 0.10
9 222 0.57
10 15 0.04
11 25 0.06
12 23 0.06
13 6 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:52103704 original size:25 final size:27
Alignment explanation
Indices: 52103669--52104076 Score: 225
Period size: 25 Copynumber: 15.3 Consensus size: 27
52103659 TATAATATTA
52103669 ATGTAAGTTATGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
* * * *
52103694 TTTTAAGTTATATAAGTTGTGT-A-TT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
*
52103719 ATGTAAGTTATGTAAGTTGTGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
*
52103746 GTGT-A-TTATGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
* *
52103771 GTGTAAGTTGTGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
* *
52103796 ATGTAAGTTGTGTAAGTTGTGT-A-TT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
* *
52103821 ATGTAAGTTATGTAAG-TCTGACAAGTT
1 ATGTAAGTTATGTAAGTTATG-TAAGTT
*
52103848 ATGTTTAG-TAT-TAA-TTAAT-TAAGTT
1 ATG-TAAGTTATGTAAGTT-ATGTAAGTT
*
52103873 ATGTAAGTTATGTATAATATTAATGTAAGTT
1 ATGTAAGTTATG--TAA-GTT-ATGTAAGTT
* *
52103904 ATGT-A-TTATGTAAGTTATTTTAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
* *
52103929 ATGTAAGTTGTGT-A-TTATGTGAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTT
* * * * * *
52103954 ATGCAATTTACGTAGGCTATAT-AG-T
1 ATGTAAGTTATGTAAGTTATGTAAGTT
* *
52103979 ATGTACGTTAT-TATGTTATTATGTAAGTT
1 ATGTAAGTTATGTAAG---TTATGTAAGTT
* * *
52104008 ATGCAAGTTTTTATATAAGTTCTATATAAGTT
1 ATGTAAG---TTATGTAAG-T-TATGTAAGTT
52104040 ATGTAAGTTATTATGTAAGTTATGT-A-TT
1 ATGTAAG---TTATGTAAGTTATGTAAGTT
52104068 ATGTAAGTT
1 ATGTAAGTT
52104077 TATATATAAG
Statistics
Matches: 300, Mismatches: 48, Indels: 70
0.72 0.11 0.17
Matches are distributed among these distances:
24 9 0.03
25 144 0.48
26 19 0.06
27 45 0.15
28 17 0.06
29 12 0.04
30 10 0.03
31 12 0.04
32 29 0.10
33 3 0.01
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGTTATGTAAGTT
Found at i:52103847 original size:34 final size:34
Alignment explanation
Indices: 52103670--52103837 Score: 291
Period size: 34 Copynumber: 4.9 Consensus size: 34
52103660 ATAATATTAA
* * * *
52103670 TGTAAGTTATGTATTATGTAAGTTTTTTAAGTTA
1 TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
*
52103704 TATAAGTTGTGTATTATGTAAGTTATGTAAGTTG
1 TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
52103738 TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
1 TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
52103772 TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
1 TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
52103806 TGTAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TGTAAGTTGTGTATTATGTAAGTTATGTAAGT
52103838 CTGACAAGTT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 128 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (34 bp):
TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
Found at i:52103881 original size:34 final size:37
Alignment explanation
Indices: 52103843--52103956 Score: 107
Period size: 34 Copynumber: 3.2 Consensus size: 37
52103833 TAAGTCTGAC
52103843 AAGTTATGTTTAGTATTAAT-TAA-TTAAG-TTATGT
1 AAGTTATGTTTAGTATTAATGTAAGTTAAGATTATGT
* * *
52103877 AAGTTATGTATAATATTAATGTAAGTTATGTATTATGT
1 AAGTTATGTTTAGTATTAATGTAAGTTAAG-ATTATGT
**
52103915 AAGTTAT-TTTAG--TT-ATGTAAGTTGTGTATTATGT
1 AAGTTATGTTTAGTATTAATGTAAGTTAAG-ATTATGT
*
52103949 GAGTTATG
1 AAGTTATG
52103957 CAATTTACGT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
34 43 0.63
35 5 0.07
36 4 0.06
37 3 0.04
38 13 0.19
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.49
Consensus pattern (37 bp):
AAGTTATGTTTAGTATTAATGTAAGTTAAGATTATGT
Found at i:52104039 original size:32 final size:31
Alignment explanation
Indices: 52103997--52104088 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 31
52103987 TATTATGTTA
* *
52103997 TTATGTAAGTTATGCAAGTTTTTATATAAGT
1 TTATATAAGTTATGTAAGTTTTTATATAAGT
* *
52104028 TCTATATAAGTTATGTAAGTTATTATGTAAG-
1 T-TATATAAGTTATGTAAGTTTTTATATAAGT
* *
52104059 TTATGT-A-TTATGTAAGTTTATATATAAGT
1 TTATATAAGTTATGTAAGTTTTTATATAAGT
52104088 T
1 T
52104089 ATGATATGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
28 18 0.35
29 2 0.04
30 4 0.08
31 2 0.04
32 25 0.49
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (31 bp):
TTATATAAGTTATGTAAGTTTTTATATAAGT
Found at i:52104283 original size:33 final size:33
Alignment explanation
Indices: 52104246--52104340 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 33
52104236 ATAAAATTTG
52104246 AAATATATGTTACATATCCATACCATATATTAA
1 AAATATATGTTACATATCCATACCATATATTAA
*
52104279 AAATATA-G------AT---T-GCATATATTAA
1 AAATATATGTTACATATCCATACCATATATTAA
*
52104301 AAATATATGTTACATATCCATACCGTATATTAA
1 AAATATATGTTACATATCCATACCATATATTAA
52104334 AAATATA
1 AAATATA
52104341 GATTGCATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 22
0.66 0.04 0.30
Matches are distributed among these distances:
22 17 0.35
23 2 0.04
26 2 0.04
29 2 0.04
32 2 0.04
33 23 0.48
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (33 bp):
AAATATATGTTACATATCCATACCATATATTAA
Found at i:52104284 original size:22 final size:22
Alignment explanation
Indices: 52104259--52104307 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52104249 TATATGTTAC
*
52104259 ATATCCATACCATATATTAAAA
1 ATATACATACCATATATTAAAA
* **
52104281 ATATAGATTGCATATATTAAAA
1 ATATACATACCATATATTAAAA
52104303 ATATA
1 ATATA
52104308 TGTTACATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATACATACCATATATTAAAA
Done.