Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 41 of 318
Found at i:15238306 original size:25 final size:24
Alignment explanation
Indices: 15238272--15238319 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
15238262 ATGTATTAAA
* *
15238272 ATATTTTAATAGTTATATAATAAC
1 ATATTTTAATAATTAAATAATAAC
15238296 ATATATTTAATAATTAAATAATAA
1 ATAT-TTTAATAATTAAATAATAA
15238320 TTTGAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATTTTAATAATTAAATAATAAC
Found at i:15239446 original size:3 final size:3
Alignment explanation
Indices: 15239438--15239463 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15239428 TGATCTGATG
15239438 AGT AGT AGT AGT AGT AGT AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AG
15239464 GCAGTGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
AGT
Found at i:15244101 original size:11 final size:12
Alignment explanation
Indices: 15244082--15244110 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
15244072 GGTAATAAAC
15244082 AAAAGATAAAAT
1 AAAAGATAAAAT
15244094 AAAA-ATAAAAT
1 AAAAGATAAAAT
15244105 AAAAGA
1 AAAAGA
15244111 ATGAATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAGATAAAAT
Found at i:15247166 original size:12 final size:12
Alignment explanation
Indices: 15247133--15247168 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
15247123 CAATTTGTGT
15247133 ATTGTTTTAAG-A
1 ATTGTTTT-AGTA
15247145 ATTGTTTTAGTA
1 ATTGTTTTAGTA
15247157 ATTGTTTTAGTA
1 ATTGTTTTAGTA
15247169 TCATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.09
12 21 0.91
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.56
Consensus pattern (12 bp):
ATTGTTTTAGTA
Found at i:15247231 original size:26 final size:24
Alignment explanation
Indices: 15247187--15247236 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
15247177 ATTTGTTTTA
*
15247187 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
15247211 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
15247237 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:15254059 original size:53 final size:53
Alignment explanation
Indices: 15253978--15254123 Score: 211
Period size: 53 Copynumber: 2.7 Consensus size: 53
15253968 CTTACACGGT
* * *
15253978 TCACATATCATACCGAAGCCATATCCCAGATATGGTCTTATACAGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACATTA
* *
15254033 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACATTA
**
15254086 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
15254124 AACGGGCGCA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 77 0.92
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACATTA
Found at i:15258675 original size:32 final size:31
Alignment explanation
Indices: 15258608--15258692 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
15258598 CACTTAATTT
*
15258608 AAAAAATTATAATTTGA-TCATTGAACTATTC
1 AAAAAATTAT-ATTTAAGTCATTGAACTATTC
*
15258639 AAAAAATTATCTTTAAGTCATTGAACTATTC
1 AAAAAATTATATTTAAGTCATTGAACTATTC
*
15258670 AAAAAAATTTTATTTAAGTCATT
1 -AAAAAATTATATTTAAGTCATT
15258693 AGACCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
30 4 0.08
31 24 0.50
32 20 0.42
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (31 bp):
AAAAAATTATATTTAAGTCATTGAACTATTC
Found at i:15269965 original size:19 final size:18
Alignment explanation
Indices: 15269934--15269969 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15269924 GGAGTAAAGA
*
15269934 GGGAAAAGTAAAAGTTTG
1 GGGAAAAATAAAAGTTTG
15269952 GGGAAAAATAAAAAGTTT
1 GGGAAAAAT-AAAAGTTT
15269970 TGAAGAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (18 bp):
GGGAAAAATAAAAGTTTG
Found at i:15270080 original size:31 final size:29
Alignment explanation
Indices: 15270045--15270103 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
15270035 GGGAGTGGGA
*
15270045 TAGGAAGGAAGCAAAAGTTTTAGGGGGAAAG
1 TAGG-AGGAAGCAAAA-ATTTAGGGGGAAAG
* *
15270076 TAGGAGGGAGTAAAAATTTAGGGGGAAA
1 TAGGAGGAAGCAAAAATTTAGGGGGAAA
15270104 ATAAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 9 0.36
31 4 0.16
ACGTcount: A:0.42, C:0.02, G:0.39, T:0.17
Consensus pattern (29 bp):
TAGGAGGAAGCAAAAATTTAGGGGGAAAG
Found at i:15271792 original size:32 final size:32
Alignment explanation
Indices: 15271740--15271809 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
15271730 GTGTATTTAG
* * *
15271740 AATTTATTTATTTTTATTTAAAAAATTTAATTT
1 AATTTATTTAATTTTATTTAAAAAAATT-ATTA
15271773 AATTTA-TTAATTTTATTTAAAAAAATTATTA
1 AATTTATTTAATTTTATTTAAAAAAATTATTA
15271804 AATTTA
1 AATTTA
15271810 ATAGTGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 9 0.26
32 19 0.56
33 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
AATTTATTTAATTTTATTTAAAAAAATTATTA
Found at i:15273214 original size:46 final size:47
Alignment explanation
Indices: 15273146--15273236 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 47
15273136 ACCAAAAAGG
15273146 AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAACA
1 AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAACA
* *
15273193 AAATCTGACTC-TCATTATTATATATATAAGATAAACATAGTAAA
1 AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAA
15273237 GAATCACCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 32 0.76
47 10 0.24
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (47 bp):
AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAACA
Found at i:15282991 original size:47 final size:47
Alignment explanation
Indices: 15282938--15283029 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
15282928 ATAAAATGTG
15282938 AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGGCA
1 AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGGCA
*
15282985 AAATGTATGTATGGAATTTCAATGGAAATCCATACTGAGTTATGG
1 AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGG
15283030 TACAGTGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.32
Consensus pattern (47 bp):
AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGGCA
Found at i:15283154 original size:34 final size:33
Alignment explanation
Indices: 15283074--15283158 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 33
15283064 ATGGCAAAAA
15283074 TGTGAATGTAGGTATGGCATTTCCCATACCGAG
1 TGTGAATGTAGGTATGGCATTTCCCATACCGAG
* *
15283107 TGATGGAACGTAGGTATGGCA-TTCCCATACTGAG
1 TG-T-GAATGTAGGTATGGCATTTCCCATACCGAG
15283141 TTGTGAAATGTAGGTATG
1 -TGTG-AATGTAGGTATG
15283159 ATATTTCAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
33 3 0.07
34 25 0.56
35 17 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (33 bp):
TGTGAATGTAGGTATGGCATTTCCCATACCGAG
Found at i:15284774 original size:15 final size:17
Alignment explanation
Indices: 15284744--15284776 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
15284734 TGACTATCAT
15284744 AATATAATATATTTATA
1 AATATAATATATTTATA
15284761 AATA-AATATA-TTATA
1 AATATAATATATTTATA
15284776 A
1 A
15284777 CATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAATATATTTATA
Found at i:15287743 original size:34 final size:34
Alignment explanation
Indices: 15287705--15287776 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
15287695 ATCCTGGTAA
*
15287705 ATTTTTT-TGAATGATTTTTTGTTTCTTCTTTTAG
1 ATTTTTTCTGAATGA-TTTTTGTTTCTTATTTTAG
15287739 ATTTTTTCTGAATGATTTTTGTTTCTTATTTTAG
1 ATTTTTTCTGAATGATTTTTGTTTCTTATTTTAG
15287773 ATTT
1 ATTT
15287777 ATGATCTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (34 bp):
ATTTTTTCTGAATGATTTTTGTTTCTTATTTTAG
Found at i:15295353 original size:21 final size:21
Alignment explanation
Indices: 15295327--15295367 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15295317 AGACGAGCAA
* *
15295327 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
15295348 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
15295368 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:15301747 original size:20 final size:21
Alignment explanation
Indices: 15301722--15301770 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
15301712 AAATAAGTGA
*
15301722 TTAATTAGAGTTTAATTAA-G
1 TTAATTAGAGCTTAATTAAGG
*
15301742 TTAATT-TAGCTTAATTAAGG
1 TTAATTAGAGCTTAATTAAGG
*
15301762 ATAATTAGA
1 TTAATTAGA
15301771 TAAAATGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 10 0.43
20 12 0.52
21 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (21 bp):
TTAATTAGAGCTTAATTAAGG
Found at i:15302164 original size:17 final size:19
Alignment explanation
Indices: 15302144--15302181 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15302134 CAGGGGAAGG
15302144 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
15302161 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
15302180 AA
1 AA
15302182 TTGAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:15311856 original size:16 final size:16
Alignment explanation
Indices: 15311835--15311865 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15311825 TTTATTATTT
15311835 TATTAACATAATATAA
1 TATTAACATAATATAA
*
15311851 TATTAATATAATATA
1 TATTAACATAATATA
15311866 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:15317007 original size:16 final size:16
Alignment explanation
Indices: 15316986--15317016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15316976 AGATATTTAA
15316986 TATATTATATTAATAT
1 TATATTATATTAATAT
*
15317002 TATATTATGTTAATA
1 TATATTATATTAATA
15317017 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:15317137 original size:12 final size:12
Alignment explanation
Indices: 15317098--15317125 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15317088 AGCAGGGGAG
15317098 AAAAGAGAAAGA
1 AAAAGAGAAAGA
15317110 AAAAGAGAAAGA
1 AAAAGAGAAAGA
15317122 AAAA
1 AAAA
15317126 TAAAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAGA
Found at i:15331159 original size:85 final size:85
Alignment explanation
Indices: 15331065--15331227 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 85
15331055 ACGTATTAAT
* *
15331065 TTATAAAAAGAATT-AAATAGAAATTATT-TCATTTTTAGGAAGTTAAA-TGCAATTTTA-T-TA
1 TTATAAAAAG-ATTGAAATA-AAATT-TTATCA-TTTTAGG-AGCTAAAGTACAATTTTATTATA
15331125 TATATTAATTTATAATTTTTTTTAC
61 TATATTAATTTATAATTTTTTTTAC
* * *
15331150 TTATAAAAAGATTGAATTAAAATTTTATTATTTTAGGGGCTAAAGTACAATTTTATTATATATAT
1 TTATAAAAAGATTGAAATAAAATTTTATCATTTTAGGAGCTAAAGTACAATTTTATTATATATAT
15331215 TAATTTATAATTT
66 TAATTTATAATTT
15331228 CTCTATTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
82 5 0.07
83 18 0.26
84 11 0.16
85 34 0.50
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (85 bp):
TTATAAAAAGATTGAAATAAAATTTTATCATTTTAGGAGCTAAAGTACAATTTTATTATATATAT
TAATTTATAATTTTTTTTAC
Found at i:15331357 original size:18 final size:18
Alignment explanation
Indices: 15331334--15331369 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15331324 CACTAACAGT
*
15331334 CAGTCATCTCATAATTAG
1 CAGTCATCTCACAATTAG
15331352 CAGTCATCTCACAATTAG
1 CAGTCATCTCACAATTAG
15331370 TAAGTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (18 bp):
CAGTCATCTCACAATTAG
Found at i:15331591 original size:19 final size:19
Alignment explanation
Indices: 15331550--15331608 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
15331540 GTCATGATTC
*
15331550 TATATAAAAA-TTATAATAAA
1 TATATAAAAACTTA-AA-ATA
15331570 TATATAAAAACTTAAAATA
1 TATATAAAAACTTAAAATA
* * *
15331589 TATGTAAATACATAAAATA
1 TATATAAAAACTTAAAATA
15331608 T
1 T
15331609 TAACAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 19 0.56
20 12 0.35
21 3 0.09
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TATATAAAAACTTAAAATA
Found at i:15336170 original size:22 final size:25
Alignment explanation
Indices: 15336129--15336185 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
15336119 AAATTTTATT
15336129 ATTATAAATATACTACATTC-A-CA
1 ATTATAAATATACTACATTCAATCA
15336152 ATTATAAATATA-TACATTCAATCA
1 ATTATAAATATACTACATTCAATCA
15336176 ATTA-AAATAT
1 ATTATAAATAT
15336186 GAAGTAGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.22
23 19 0.59
24 6 0.19
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTATAAATATACTACATTCAATCA
Found at i:15339073 original size:21 final size:21
Alignment explanation
Indices: 15339047--15339087 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15339037 ATCTGCTCAA
* *
15339047 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15339068 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15339088 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:15347637 original size:25 final size:23
Alignment explanation
Indices: 15347608--15347659 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
15347598 AATAACAAAA
*
15347608 TTTTAACAGTAGAAATAGATTGTAT
1 TTTTAACAGAAGAAATAG-TT-TAT
*
15347633 TTTTAACAGAAGAATTAGTTTAT
1 TTTTAACAGAAGAAATAGTTTAT
15347656 TTTT
1 TTTT
15347660 TGATCTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 16 0.64
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (23 bp):
TTTTAACAGAAGAAATAGTTTAT
Found at i:15347942 original size:144 final size:144
Alignment explanation
Indices: 15347677--15347970 Score: 579
Period size: 144 Copynumber: 2.0 Consensus size: 144
15347667 ATACATATGG
*
15347677 ACCAATATATCTATTTTTTAGTAGAGAGAATAAAGCAAAATACAATCCTACTCTTAATAAAAAAA
1 ACCATTATATCTATTTTTTAGTAGAGAGAATAAAGCAAAATACAATCCTACTCTTAATAAAAAAA
15347742 TTTCTATAATATTTTTATCACTCAGTCCCAACCATGCAACCTTTTATGTTATCCAACAAATATAT
66 TTTCTATAATATTTTTATCACTCAGTCCCAACCATGCAACCTTTTATGTTATCCAACAAATATAT
15347807 GTTTGGAGGAGGTA
131 GTTTGGAGGAGGTA
15347821 ACCATTATATCTATTTTTTAGTAGAGAGAATAAAGCAAAATACAATCCTACTCTTAATAAAAAAA
1 ACCATTATATCTATTTTTTAGTAGAGAGAATAAAGCAAAATACAATCCTACTCTTAATAAAAAAA
15347886 TTTCTATAATATTTTTATCACTCAGTCCCAACCATGCAACCTTTTATGTTATCCAACAAATATAT
66 TTTCTATAATATTTTTATCACTCAGTCCCAACCATGCAACCTTTTATGTTATCCAACAAATATAT
15347951 GTTTGGAGGAGGTA
131 GTTTGGAGGAGGTA
15347965 ACCATT
1 ACCATT
15347971 TGTAACTCAC
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 149 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (144 bp):
ACCATTATATCTATTTTTTAGTAGAGAGAATAAAGCAAAATACAATCCTACTCTTAATAAAAAAA
TTTCTATAATATTTTTATCACTCAGTCCCAACCATGCAACCTTTTATGTTATCCAACAAATATAT
GTTTGGAGGAGGTA
Found at i:15351491 original size:6 final size:6
Alignment explanation
Indices: 15351482--15351507 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15351472 TAAAAAGAAA
15351482 AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AA
15351508 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:15354072 original size:5 final size:5
Alignment explanation
Indices: 15354058--15354087 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
15354048 TTAGTGCGCT
15354058 AAAT- AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
15354088 GATGAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:15368171 original size:24 final size:25
Alignment explanation
Indices: 15368118--15368171 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
15368108 TTACTTGTTT
15368118 GAAA-TGAAAATTAAAAATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
* *
15368142 GCAATTGAAAA-TAAATATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
*
15368166 TAAATT
1 GAAATT
15368172 ATTCATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (25 bp):
GAAATTGAAAATTAAAAATTAAAAA
Found at i:15369705 original size:20 final size:20
Alignment explanation
Indices: 15369668--15369705 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15369658 AATGAATAAA
* *
15369668 AAATTAAAAATAATCGAACT
1 AAATTAAAAAGAACCGAACT
15369688 AAATTAAAAAGAACCGAA
1 AAATTAAAAAGAACCGAA
15369706 AATAACTCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.11, G:0.08, T:0.18
Consensus pattern (20 bp):
AAATTAAAAAGAACCGAACT
Found at i:15371337 original size:28 final size:25
Alignment explanation
Indices: 15371297--15371355 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 25
15371287 GATAAAATAA
15371297 TATAACTGATACAA-TATTAATAATTT
1 TATAACTGATACAAGT-TTAA-AATTT
15371323 TATAACTCGATTACAAGGTTTAAAATTT
1 TATAACT-GA-TACAA-GTTTAAAATTT
15371351 TATAA
1 TATAA
15371356 ACTATCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 7 0.24
27 2 0.07
28 15 0.52
29 4 0.14
30 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (25 bp):
TATAACTGATACAAGTTTAAAATTT
Found at i:15395676 original size:2 final size:2
Alignment explanation
Indices: 15395669--15395700 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15395659 CAAGCAATCA
15395669 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15395701 AACAGGGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15398206 original size:21 final size:19
Alignment explanation
Indices: 15398180--15398221 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
15398170 TAAAAAACCC
15398180 AAAAATATCATAAAATTATTT
1 AAAAATATCAT-AAATT-TTT
*
15398201 AAAAATTTCATAAATTTTT
1 AAAAATATCATAAATTTTT
15398220 AA
1 AA
15398222 GATTTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATATCATAAATTTTT
Found at i:15401063 original size:14 final size:14
Alignment explanation
Indices: 15401044--15401083 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
15401034 AACTTTGAAT
15401044 TCTAAATTTTAAAC
1 TCTAAATTTTAAAC
*
15401058 TCTAAATATTAAAC
1 TCTAAATTTTAAAC
*
15401072 TCGAAATTTTAA
1 TCTAAATTTTAA
15401084 CCCTAAACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (14 bp):
TCTAAATTTTAAAC
Found at i:15403475 original size:18 final size:18
Alignment explanation
Indices: 15403452--15403504 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
15403442 GATAAATCCT
15403452 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
* *
15403470 AATCAAGGATTGACCCCC
1 AATCAAGGATTTACTCCC
*
15403488 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
15403505 TATATTAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:15405499 original size:16 final size:17
Alignment explanation
Indices: 15405478--15405511 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15405468 ATTAAAAGAA
15405478 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
15405494 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
15405511 A
1 A
15405512 GAGAGAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:15408000 original size:19 final size:20
Alignment explanation
Indices: 15407961--15408001 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
15407951 ATTAACAATA
15407961 TATATGGTAAAATATTATTT
1 TATATGGTAAAATATTATTT
15407981 TATATGGTAAAATA-TATTT
1 TATATGGTAAAATATTATTT
15408000 TA
1 TA
15408002 CGATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TATATGGTAAAATATTATTT
Found at i:15408031 original size:18 final size:18
Alignment explanation
Indices: 15407988--15408040 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
15407978 TTTTATATGG
15407988 TAAAATATATT-T-TACGA
1 TAAAATATATTGTATAC-A
15408005 TAAAA-ATATTGTATACA
1 TAAAATATATTGTATACA
*
15408022 TAAAATATATAGTA-ACA
1 TAAAATATATTGTATACA
15408039 TA
1 TA
15408041 TTAAAGGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.16
17 17 0.53
18 10 0.31
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (18 bp):
TAAAATATATTGTATACA
Found at i:15410718 original size:17 final size:17
Alignment explanation
Indices: 15410696--15410731 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15410686 AAAGATATTA
15410696 TTCTTTAATTTGCACTT
1 TTCTTTAATTTGCACTT
**
15410713 TTCTTTTGTTTGCACTT
1 TTCTTTAATTTGCACTT
15410730 TT
1 TT
15410732 ATAAATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (17 bp):
TTCTTTAATTTGCACTT
Found at i:15418541 original size:43 final size:43
Alignment explanation
Indices: 15418493--15418580 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
15418483 TAAACAAGTA
15418493 AGTGCACAATCTGAGGGATATTTAATTTTAATTTAACTATCAG
1 AGTGCACAATCTGAGGGATATTTAATTTTAATTTAACTATCAG
15418536 AGTGCACAATCTGAGGGATATTTAATTTTAATTTAACTATCAG
1 AGTGCACAATCTGAGGGATATTTAATTTTAATTTAACTATCAG
15418579 AG
1 AG
15418581 ACATTCATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.36
Consensus pattern (43 bp):
AGTGCACAATCTGAGGGATATTTAATTTTAATTTAACTATCAG
Found at i:15429199 original size:17 final size:16
Alignment explanation
Indices: 15429177--15429219 Score: 70
Period size: 15 Copynumber: 2.7 Consensus size: 16
15429167 AAGTTGACAC
15429177 AAATATCATCAAAAAAA
1 AAATATCATC-AAAAAA
15429194 AAATATCATC-AAAAA
1 AAATATCATCAAAAAA
15429209 AAATATCATCA
1 AAATATCATCA
15429220 GTTTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.60
17 10 0.40
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATATCATCAAAAAA
Found at i:15434931 original size:16 final size:18
Alignment explanation
Indices: 15434898--15434934 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
15434888 ATTTTTTGAG
15434898 AAATATTTCTAGACAAAT
1 AAATATTTCTAGACAAAT
*
15434916 AAAT-TTTCTA-ATAAAT
1 AAATATTTCTAGACAAAT
15434932 AAA
1 AAA
15434935 AGATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATATTTCTAGACAAAT
Found at i:15434998 original size:27 final size:27
Alignment explanation
Indices: 15434950--15435011 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
15434940 ATAAAAACTC
*
15434950 TATTTTAAAAAATAATTCTTATAT-GA
1 TATTTTTAAAAATAATTCTTATATAGA
*
15434976 TATTTTTAAAAATATATTTTTATATAGA
1 TATTTTTAAAAATA-ATTCTTATATAGA
15435004 -ATTTTTAA
1 TATTTTTAA
15435012 TTTATTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 13 0.41
27 17 0.53
28 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
TATTTTTAAAAATAATTCTTATATAGA
Found at i:15438353 original size:40 final size:40
Alignment explanation
Indices: 15438298--15438376 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
15438288 AATACTAAAC
* * *
15438298 ATTGTTTTGAGTACTGAATTGAATTGTGAAGTTACTGAAT
1 ATTGTTATGAGTACTGAATTGAACTGTGAAATTACTGAAT
* * *
15438338 ATTGTTATGTGTACTGCATTGAACTGTGAAATTATTGAA
1 ATTGTTATGAGTACTGAATTGAACTGTGAAATTACTGAA
15438377 GTAATGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (40 bp):
ATTGTTATGAGTACTGAATTGAACTGTGAAATTACTGAAT
Found at i:15438686 original size:45 final size:45
Alignment explanation
Indices: 15438582--15438686 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
15438572 CAACTACTGT
* * *
15438582 TACTGTTACCCTTACTGTTACCGATTCGACACTTGGTGTGTCAAA
1 TACTGTTACCGTTACTATTACAGATTCGACACTTGGTGTGTCAAA
* **
15438627 TACTGTTACCGTTACTATTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTATTACAGATTCGA-CACTTGGTGTGTCAAA
*
15438672 TACTGTTACTGTTAC
1 TACTGTTACCGTTAC
15438687 CGTTATTGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 51 0.98
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
TACTGTTACCGTTACTATTACAGATTCGACACTTGGTGTGTCAAA
Found at i:15450869 original size:13 final size:13
Alignment explanation
Indices: 15450851--15450875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15450841 ATGGTTTAGG
15450851 GTTTTGAAGTGGT
1 GTTTTGAAGTGGT
15450864 GTTTTGAAGTGG
1 GTTTTGAAGTGG
15450876 GTCAAGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (13 bp):
GTTTTGAAGTGGT
Found at i:15453431 original size:31 final size:29
Alignment explanation
Indices: 15453365--15453423 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
15453355 GAATTTGATC
15453365 AAATCAAAATTATATGTATAAAATTACACA
1 AAATCAAAA-TATATGTATAAAATTACACA
*
15453395 AAATCAAAA-ATCATGTATACAATTACACA
1 AAATCAAAATAT-ATGTATAAAATTACACA
15453424 TTAAATCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 2 0.07
29 16 0.59
30 9 0.33
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (29 bp):
AAATCAAAATATATGTATAAAATTACACA
Found at i:15456366 original size:27 final size:27
Alignment explanation
Indices: 15456336--15456407 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 27
15456326 GAATTCTATT
15456336 ATCTGATTTCTAATTTTATGCAATAAA
1 ATCTGATTTCTAATTTTATGCAATAAA
**
15456363 ATC-----T-TAATTTTATGCAATATT
1 ATCTGATTTCTAATTTTATGCAATAAA
15456384 ATCTGATTTCTAATTTTATGCAAT
1 ATCTGATTTCTAATTTTATGCAAT
15456408 GATTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
21 18 0.49
22 1 0.03
26 1 0.03
27 17 0.46
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (27 bp):
ATCTGATTTCTAATTTTATGCAATAAA
Found at i:15456426 original size:27 final size:27
Alignment explanation
Indices: 15456332--15456407 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
15456322 GGATGAATTC
15456332 TATTATCTGATTTCTAATTTTATGCAA
1 TATTATCTGATTTCTAATTTTATGCAA
* *
15456359 TA--A---AATCT-TAATTTTATGCAA
1 TATTATCTGATTTCTAATTTTATGCAA
15456380 TATTATCTGATTTCTAATTTTATGCAA
1 TATTATCTGATTTCTAATTTTATGCAA
15456407 T
1 T
15456408 GATTTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
21 15 0.38
22 3 0.08
23 1 0.03
25 1 0.03
26 3 0.08
27 16 0.41
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (27 bp):
TATTATCTGATTTCTAATTTTATGCAA
Found at i:15462905 original size:4 final size:4
Alignment explanation
Indices: 15462896--15462922 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15462886 CTTGCTTAAT
15462896 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
15462923 TGTATGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:15470846 original size:45 final size:45
Alignment explanation
Indices: 15470796--15470892 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
15470786 CAATAACAGC
* * *
15470796 AACAGTATTCAACACATAAAGTG-CTGAATCTGTAATAGTAACGGT
1 AACAGTATTCAACACACAAAGTGTC-GAATCGGTAACAGTAACGGT
15470841 AACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACGGT
1 AACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACGGT
15470886 AACAGTA
1 AACAGTA
15470893 ACAATAGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (45 bp):
AACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACGGT
Found at i:15470887 original size:12 final size:12
Alignment explanation
Indices: 15470870--15470894 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15470860 AGTGTCGAAT
15470870 CGGTAACAGTAA
1 CGGTAACAGTAA
15470882 CGGTAACAGTAA
1 CGGTAACAGTAA
15470894 C
1 C
15470895 AATAGTAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:15471966 original size:13 final size:13
Alignment explanation
Indices: 15471950--15472001 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
15471940 TCTTTTTTTA
*
15471950 CTTTGTTTTATTT
1 CTTTATTTTATTT
15471963 CTTTATTTTATTT
1 CTTTATTTTATTT
*
15471976 CATTTCTTTTA-TT
1 C-TTTATTTTATTT
15471989 CTTTTATTTTATT
1 C-TTTATTTTATT
15472002 AACATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 24 0.73
14 9 0.27
ACGTcount: A:0.13, C:0.10, G:0.02, T:0.75
Consensus pattern (13 bp):
CTTTATTTTATTT
Found at i:15472293 original size:20 final size:20
Alignment explanation
Indices: 15472270--15472335 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
15472260 GTCTTTATTT
15472270 TAATTTATTTTTAATAATAA
1 TAATTTATTTTTAATAATAA
* *
15472290 TAA-TCATAATTTAATAAT-A
1 TAATTTAT-TTTTAATAATAA
*
15472309 TAAATTATTATTTAATAGAATAA
1 TAATTTATT-TTTAAT--AATAA
15472332 TAAT
1 TAAT
15472336 AATAAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
19 7 0.20
20 21 0.60
22 3 0.09
23 4 0.11
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATTTATTTTTAATAATAA
Found at i:15472394 original size:37 final size:35
Alignment explanation
Indices: 15472295--15472397 Score: 91
Period size: 36 Copynumber: 2.8 Consensus size: 35
15472285 AATAATAATC
* * *
15472295 ATAATTTAATAATATAAATTATTATTTAATAGAATAATA
1 ATAA-TTAATAAT-TAAATTA-TATATATTA-AATAAAA
* *
15472334 ATAATAAATAA-TAAATATCTATATACTTAAATAAAA
1 ATAATTAATAATTAAAT-TATATATA-TTAAATAAAA
15472370 AGTAATTAATAATTAAATTATATATATT
1 A-TAATTAATAATTAAATTATATATATT
15472398 TACATAATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
36 19 0.36
37 19 0.36
38 11 0.21
39 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (35 bp):
ATAATTAATAATTAAATTATATATATTAAATAAAA
Found at i:15472939 original size:31 final size:33
Alignment explanation
Indices: 15472903--15472969 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 33
15472893 AGCGGCTAGA
*
15472903 GGATTTACTTAGGGTAT-TTTT-GCTGCTATGG
1 GGATTTACTTAGGGTATGTTTTGGCTACTATGG
*
15472934 GGATTTACTTAGGGTTTGTTTTGGCTACTATGG
1 GGATTTACTTAGGGTATGTTTTGGCTACTATGG
15472967 GGA
1 GGA
15472970 ATATTAAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 16 0.50
32 4 0.12
33 12 0.38
ACGTcount: A:0.16, C:0.09, G:0.31, T:0.43
Consensus pattern (33 bp):
GGATTTACTTAGGGTATGTTTTGGCTACTATGG
Found at i:15473487 original size:19 final size:20
Alignment explanation
Indices: 15473463--15473504 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
15473453 GGTTAGATCA
15473463 TTGTTT-TAAAATTCA-TATT
1 TTGTTTATAAAA-TCATTATT
15473482 TTGTTTATAAAATCATTATT
1 TTGTTTATAAAATCATTATT
15473502 TTG
1 TTG
15473505 AAAGTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (20 bp):
TTGTTTATAAAATCATTATT
Found at i:15474422 original size:128 final size:129
Alignment explanation
Indices: 15474263--15474498 Score: 368
Period size: 128 Copynumber: 1.8 Consensus size: 129
15474253 GAAGATTCAT
* * * *
15474263 TAAAACAAAGGCAATATTCGATGTTTGGAAATTCGGTGAATAGTGCCCTATCGTGCTGGGTTTCG
1 TAAAACAAAGGCAATATTCGATGTTTCGAAATTCGGGGAATAGCGCCCTATCGTACTGGGTTTCG
*
15474328 ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTTTCTTGTGTTTTTCCAAACGC
66 ATTTCCCGTTTGTTCAAAAAAATCGAATATTCCTTTAGAATTTTTCTTGTGTTTTTCCAAACGC
*
15474392 TAAAAC-AAGGCAATA-TCTGATGTTTCGAAATTCGGGGAATAGCGCCCTATGGTACTGGGTTTC
1 TAAAACAAAGGCAATATTC-GATGTTTCGAAATTCGGGGAATAGCGCCCTATCGTACTGGGTTTC
* * *
15474455 GATTTCTCGTTTGTTTAAAAAAATCGAATATTCCTTTGGAATTT
65 GATTTCCCGTTTGTTCAAAAAAATCGAATATTCCTTTAGAATTT
15474499 CACTCGTGTT
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
127 2 0.02
128 89 0.92
129 6 0.06
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (129 bp):
TAAAACAAAGGCAATATTCGATGTTTCGAAATTCGGGGAATAGCGCCCTATCGTACTGGGTTTCG
ATTTCCCGTTTGTTCAAAAAAATCGAATATTCCTTTAGAATTTTTCTTGTGTTTTTCCAAACGC
Found at i:15477333 original size:50 final size:51
Alignment explanation
Indices: 15477256--15477384 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
15477246 GACCATGGCA
* * *
15477256 ACAAGTGGTAAATGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
15477307 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
15477357 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
15477385 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:15477390 original size:45 final size:46
Alignment explanation
Indices: 15477268--15477401 Score: 119
Period size: 50 Copynumber: 2.8 Consensus size: 46
15477258 AAGTGGTAAA
* * *
15477268 TGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTGATAAG
1 TGATAGCTTCGGCTA-AC---TCTGATCAATGACAAATGAAAGTGAAAAG
15477318 TGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGACAAGTGAAAAG
1 TGATAGCTTCGGCTA-AC---TCTGATCAATGACAAATGA-AAGTGAAAAG
* * *
15477369 TGGTAGCTTCGGCT-AC-CTGATCAGTGAAAAATG
1 TGATAGCTTCGGCTAACTCTGATCAATGACAAATG
15477402 GTAGCTCTAG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
45 15 0.19
49 2 0.03
50 38 0.49
51 22 0.29
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATAGCTTCGGCTAACTCTGATCAATGACAAATGAAAGTGAAAAG
Found at i:15477398 original size:31 final size:31
Alignment explanation
Indices: 15477360--15477595 Score: 292
Period size: 31 Copynumber: 7.8 Consensus size: 31
15477350 ACAAATGACA
15477360 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
15477391 AGTGAAAAATGGTAGC-TCTAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
15477422 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15477453 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
15477484 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
15477515 AGTGAAAAGTGGTAACTCCGG----CT-A-C
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
15477540 AGTAAAAAATGGTAGC-TCAGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
15477571 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
15477596 AAGTGACAAG
Statistics
Matches: 175, Mismatches: 18, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.01
25 16 0.09
26 1 0.01
27 2 0.01
29 2 0.01
30 5 0.03
31 142 0.81
32 6 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:15477552 original size:25 final size:25
Alignment explanation
Indices: 15477514--15477564 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15477504 GCTACCTGAT
* * *
15477514 CAGTGAAAAGTGGTAACTCCGGCTA
1 CAGTAAAAAATGGTAACTCAGGCTA
*
15477539 CAGTAAAAAATGGTAGCTCAGGCTA
1 CAGTAAAAAATGGTAACTCAGGCTA
15477564 C
1 C
15477565 CTGATCAGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
CAGTAAAAAATGGTAACTCAGGCTA
Found at i:15477683 original size:47 final size:47
Alignment explanation
Indices: 15477614--15477785 Score: 172
Period size: 47 Copynumber: 3.6 Consensus size: 47
15477604 AGTGATTTTC
*
15477614 GTATAAGACCAT-GTCTGGGATATGGCATCGGTGTGATATATGATACT
1 GTATAAGACCATAG-CTGGGATATGGCATCGGTGTGATATGTGATACT
* * * *
15477661 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
* * * *
15477707 GTGTAAGACCATAGATGGGCTATGGCATCGATATGTGATATGTGATTACAT
1 GTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TAC-T
* *
15477758 G--TAAGGCCATAGCTGGGCTATGGCATCG
1 GTATAAGACCATAGCTGGGATATGGCATCG
15477786 ATATATGAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
46 25 0.24
47 40 0.38
48 11 0.11
49 27 0.26
51 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
Found at i:15477768 original size:49 final size:48
Alignment explanation
Indices: 15477664--15477789 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 48
15477654 TGATACTGTA
** * * * *
15477664 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGATGGGCTATGGCATCGATATGTGATATGTGATTCATG
15477710 TAAGACCATAGATGGGCTATGGCATCGATATGTGATATGTGATTACATG
1 TAAGACCATAGATGGGCTATGGCATCGATATGTGATATGTGATT-CATG
* *
15477759 TAAGGCCATAGCTGGGCTATGGCATCGATAT
1 TAAGACCATAGATGGGCTATGGCATCGATAT
15477790 ATGAATATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 23 0.33
47 1 0.01
48 13 0.19
49 32 0.46
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGATGGGCTATGGCATCGATATGTGATATGTGATTCATG
Found at i:15477802 original size:42 final size:42
Alignment explanation
Indices: 15477756--15477853 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
15477746 ATGTGATTAC
* *
15477756 ATGTAAGGCCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 ATGTAAGACCATAGCTAGGCTATGGCATC-ATTATATGAATAT
* * *
15477798 ATGTAAAACCATAGCTAGGTTATGGCATCATTATGTGAATAT
1 ATGTAAGACCATAGCTAGGCTATGGCATCATTATATGAATAT
*
15477840 GTGTAAGACCATAG
1 ATGTAAGACCATAG
15477854 TTGAACTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (42 bp):
ATGTAAGACCATAGCTAGGCTATGGCATCATTATATGAATAT
Found at i:15491328 original size:22 final size:23
Alignment explanation
Indices: 15491298--15491353 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 23
15491288 TTAATCCATC
*
15491298 TATTTTTATTTGTTTGAAATTGG-
1 TATTTTTATTT-TTTCAAATTGGT
15491321 TA-TTTTA-TTTTTCAAATTGGT
1 TATTTTTATTTTTTCAAATTGGT
15491342 TATTTTTATTTT
1 TATTTTTATTTT
15491354 CAGTTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 10 0.34
21 4 0.14
22 10 0.34
23 5 0.17
ACGTcount: A:0.21, C:0.02, G:0.11, T:0.66
Consensus pattern (23 bp):
TATTTTTATTTTTTCAAATTGGT
Found at i:15491339 original size:20 final size:22
Alignment explanation
Indices: 15491298--15491353 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
15491288 TTAATCCATC
*
15491298 TATTTTTATTTGTTTGAAATTGG-
1 TATTTTTA-TT-TTTCAAATTGGT
15491321 TA-TTTTATTTTTCAAATTGGT
1 TATTTTTATTTTTCAAATTGGT
15491342 TATTTTTATTTT
1 TATTTTTATTTT
15491354 CAGTTTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.33
21 4 0.13
22 14 0.47
23 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.11, T:0.66
Consensus pattern (22 bp):
TATTTTTATTTTTCAAATTGGT
Found at i:15495587 original size:47 final size:47
Alignment explanation
Indices: 15495518--15495687 Score: 224
Period size: 47 Copynumber: 3.6 Consensus size: 47
15495508 CGCCCATAAG
15495518 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* *
15495565 CGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA
* * *
15495610 GTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
15495658 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
15495688 CGTTCGCATC
Statistics
Matches: 104, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 26 0.25
47 56 0.54
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:15495636 original size:46 final size:46
Alignment explanation
Indices: 15495511--15495730 Score: 186
Period size: 47 Copynumber: 4.7 Consensus size: 46
15495501 TGTAACCCGC
* *
15495511 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* *
15495561 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* * *
15495604 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * *
15495654 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
15495697 CCATAAGTGAACTTGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
15495731 AGATGCTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
42 4 0.03
43 7 0.05
44 4 0.03
45 5 0.04
46 51 0.36
47 55 0.39
48 5 0.04
49 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:15495670 original size:93 final size:93
Alignment explanation
Indices: 15495511--15495736 Score: 389
Period size: 93 Copynumber: 2.4 Consensus size: 93
15495501 TGTAACCCGC
*
15495511 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
*
15495576 TCAACTCAACGAGTTCGGGCATTCGCAT
66 TCAACTCAACGAGTTCGGACATTCGCAT
* *
15495604 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
*
15495669 TCAACTCAACGAGTTCGGACGTTCGCAT
66 TCAACTCAACGAGTTCGGACATTCGCAT
* *
15495697 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCAGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
15495737 TCAAATATCT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 124 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
TCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15514757 original size:467 final size:467
Alignment explanation
Indices: 15513884--15514807 Score: 1839
Period size: 467 Copynumber: 2.0 Consensus size: 467
15513874 ATCAAGTATG
15513884 AGGTTGCAGAAGTCAGGACCCCATTGAGACGGATGTGGAAAGAGATGGTTAAGAGATGATTAATC
1 AGGTTGCAGAAGTCAGGACCCCATTGAGACGGATGTGGAAAGAGATGGTTAAGAGATGATTAATC
15513949 GTGTTGAATTTGAGAGAAGAATCTGAAGAAAAGAGGAACTACTGTGAGTTCCACAACGAGGTGGG
66 GTGTTGAATTTGAGAGAAGAATCTGAAGAAAAGAGGAACTACTGTGAGTTCCACAACGAGGTGGG
15514014 GCATGAAATTCAAGAGTGTGTGGAGTTCAGGGCCCTCGTGCAGGACATGATAAACAATAGAGAAA
131 GCATGAAATTCAAGAGTGTGTGGAGTTCAGGGCCCTCGTGCAGGACATGATAAACAATAGAGAAA
15514079 TAGAGTTTTATGAAGAAATCGAAAACCCCAAAGAAGGAGATATATGCTCATCAGAGGGAGAATCA
196 TAGAGTTTTATGAAGAAATCGAAAACCCCAAAGAAGGAGATATATGCTCATCAGAGGGAGAATCA
15514144 ACGACACAGAACCAAACAGTTAATTACCCCGTGGTCATCATATCACGACCCAAAAGTAATGAAAC
261 ACGACACAGAACCAAACAGTTAATTACCCCGTGGTCATCATATCACGACCCAAAAGTAATGAAAC
15514209 AGTAGTGCAAATGCCACCGAAAGTCATAATCCAAATACCTGCAGTCTTCCCCTATAAAGATAGTA
326 AGTAGTGCAAATGCCACCGAAAGTCATAATCCAAATACCTGCAGTCTTCCCCTATAAAGATAGTA
15514274 AGAGGGTCCCATGAAATTACGACTGTAATGTGACGATCTCAGGAAAAGAGAACCTGGTTAACGAT
391 AGAGGGTCCCATGAAATTACGACTGTAATGTGACGATCTCAGGAAAAGAGAACCTGGTTAACGAT
15514339 TCCCCTATAAAT
456 TCCCCTATAAAT
15514351 AGGTTGCAGAAGTCAGGACCCCATTGAGACGGATGTGGAAAGAGATGGTTAAGAGATGATTAATC
1 AGGTTGCAGAAGTCAGGACCCCATTGAGACGGATGTGGAAAGAGATGGTTAAGAGATGATTAATC
15514416 GTGTTGAATTTGAGAGAAGAATCTGAAGAAAAGAGGAACTACTGTGAGTTCCACAACGAGGTGGG
66 GTGTTGAATTTGAGAGAAGAATCTGAAGAAAAGAGGAACTACTGTGAGTTCCACAACGAGGTGGG
15514481 GCATGAAATTCAAGAGTGTGTGGAGTTCAGGGCCCTCGTGCAGGACATGATAAACAATAGAGAAA
131 GCATGAAATTCAAGAGTGTGTGGAGTTCAGGGCCCTCGTGCAGGACATGATAAACAATAGAGAAA
*
15514546 TAGAGTTTTATGAAGAAATCGAAAACCCCGAAGAAGGAGATATATGCTCATCAGAGGGAGAATCA
196 TAGAGTTTTATGAAGAAATCGAAAACCCCAAAGAAGGAGATATATGCTCATCAGAGGGAGAATCA
15514611 ACGACACAGAACCAAACAGTTAATTACCCCGTGGTCATCATATCACGACCCAAAAGTAATGAAAC
261 ACGACACAGAACCAAACAGTTAATTACCCCGTGGTCATCATATCACGACCCAAAAGTAATGAAAC
15514676 AGTAGTGCAAATGCCACCGAAAGTCATAATCCAAATACCTGCAGTCTTCCCCTATAAAGATAGTA
326 AGTAGTGCAAATGCCACCGAAAGTCATAATCCAAATACCTGCAGTCTTCCCCTATAAAGATAGTA
15514741 AGAGGGTCCCATGAAATTACGACTGTAATGTGACGATCTCAGGAAAAGAGAACCTGGTTAACGAT
391 AGAGGGTCCCATGAAATTACGACTGTAATGTGACGATCTCAGGAAAAGAGAACCTGGTTAACGAT
15514806 TC
456 TC
15514808 AAAAGAGGAC
Statistics
Matches: 456, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
467 456 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (467 bp):
AGGTTGCAGAAGTCAGGACCCCATTGAGACGGATGTGGAAAGAGATGGTTAAGAGATGATTAATC
GTGTTGAATTTGAGAGAAGAATCTGAAGAAAAGAGGAACTACTGTGAGTTCCACAACGAGGTGGG
GCATGAAATTCAAGAGTGTGTGGAGTTCAGGGCCCTCGTGCAGGACATGATAAACAATAGAGAAA
TAGAGTTTTATGAAGAAATCGAAAACCCCAAAGAAGGAGATATATGCTCATCAGAGGGAGAATCA
ACGACACAGAACCAAACAGTTAATTACCCCGTGGTCATCATATCACGACCCAAAAGTAATGAAAC
AGTAGTGCAAATGCCACCGAAAGTCATAATCCAAATACCTGCAGTCTTCCCCTATAAAGATAGTA
AGAGGGTCCCATGAAATTACGACTGTAATGTGACGATCTCAGGAAAAGAGAACCTGGTTAACGAT
TCCCCTATAAAT
Found at i:15521133 original size:81 final size:82
Alignment explanation
Indices: 15521011--15521173 Score: 231
Period size: 81 Copynumber: 2.0 Consensus size: 82
15521001 AGGCTGAAGA
* * *
15521011 TTGTAGATCTTGTCTCCCTGAAGCAACAGTGGAATAGATCAAACAAAGTGATCCTTAACCCCCTA
1 TTGTAGATCTTGTCTCCCTGAAGCAACAGTGGAACAAATCAAACAAAGTGAGCCTTAACCCCCTA
15521076 AGTAGTAGGGTAACAGG
66 AGTAGTAGGGTAACAGG
* * * **
15521093 TTGTAGATCTTGTCTCTCT-AAGC-ACTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCT
1 TTGTAGATCTTGTCTCCCTGAAGCAAC-AGTGGAACAAATCAAACAAAGTGAGCCTTAACCCCCT
15521156 AAGTAGTAGGGTAACAGG
65 AAGTAGTAGGGTAACAGG
15521174 CCGAAGATTA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
80 2 0.03
81 52 0.72
82 18 0.25
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (82 bp):
TTGTAGATCTTGTCTCCCTGAAGCAACAGTGGAACAAATCAAACAAAGTGAGCCTTAACCCCCTA
AGTAGTAGGGTAACAGG
Found at i:15521292 original size:45 final size:45
Alignment explanation
Indices: 15521192--15521307 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
15521182 TAGCAGATTT
* * *
15521192 TATCTTCCTGAAGTTGCAGTGGAGC-GGATCAAAATCACAATCCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGATCAAAATCACAAACCA
* * * *
15521236 TATCTCTCTGAAGCTGCAGTAGAGCAGGAT-AAAATAGACAAACCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGATCAAAAT-CACAAACCA
15521281 TATCTCCCTGAAGTTGCAGTGGAGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAG
15521308 TTGCAGTAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 26 0.43
45 34 0.57
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGGATCAAAATCACAAACCA
Found at i:15521311 original size:14 final size:14
Alignment explanation
Indices: 15521292--15521321 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15521282 ATCTCCCTGA
*
15521292 AGTTGCAGTGGAGC
1 AGTTGCAGTAGAGC
15521306 AGTTGCAGTAGAGC
1 AGTTGCAGTAGAGC
15521320 AG
1 AG
15521322 ACTGAAGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (14 bp):
AGTTGCAGTAGAGC
Found at i:15523129 original size:19 final size:20
Alignment explanation
Indices: 15523102--15523140 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
15523092 TTAAATAATT
* *
15523102 ATTTTTAAATTTAT-ATATG
1 ATTTATAAATCTATGATATG
15523121 ATTTATAAATCTATGATATG
1 ATTTATAAATCTATGATATG
15523141 TATGGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTTATAAATCTATGATATG
Found at i:15523185 original size:15 final size:14
Alignment explanation
Indices: 15523161--15523190 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
15523151 CTCCCTAGAT
15523161 TATATTTCATTATA
1 TATATTTCATTATA
15523175 TATATTTTCATTATA
1 TATA-TTTCATTATA
15523190 T
1 T
15523191 TTTCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATTTCATTATA
Found at i:15523877 original size:128 final size:129
Alignment explanation
Indices: 15523712--15523959 Score: 390
Period size: 128 Copynumber: 1.9 Consensus size: 129
15523702 GAAGATTCGT
** ** * *
15523712 TAAAACAAAGGCAATATTTGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTTCTGGGTTTCG
1 TAAAACAAAGGCAATATCAGATGTTTCAAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCA
* *
15523777 ATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTTACTCGTGTTTTTCCAAACGC
66 ATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCGTGTTTTTCCAAACGC
*
15523841 TAAAAC-AAGGCAATATCAGATGTTTCAAAATTCGGGGAATAGTGCCTTATCGTGCTGGGTTTCA
1 TAAAACAAAGGCAATATCAGATGTTTCAAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCA
* *
15523905 ATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCACTCGTGTTTT
66 ATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCGTGTTTT
15523960 CTAAAGCAAG
Statistics
Matches: 108, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
128 102 0.94
129 6 0.06
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (129 bp):
TAAAACAAAGGCAATATCAGATGTTTCAAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCA
ATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCGTGTTTTTCCAAACGC
Found at i:15524554 original size:18 final size:19
Alignment explanation
Indices: 15524500--15524556 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
15524490 TTCGACACAT
*
15524500 ATATTTAAT-ATTAAATAG
1 ATATTTATTAATTAAATAG
* *
15524518 ATATTTATTATTTTATAAAAG
1 ATATTTATTA-ATTA-AATAG
15524539 ATATTTATTAATTAAATA
1 ATATTTATTAATTAAATA
15524557 ATTATATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.26
19 3 0.10
20 6 0.19
21 14 0.45
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
ATATTTATTAATTAAATAG
Found at i:15526293 original size:46 final size:46
Alignment explanation
Indices: 15526236--15526590 Score: 410
Period size: 46 Copynumber: 7.7 Consensus size: 46
15526226 AGTGTGCTCT
* *
15526236 CTGAAATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
15526282 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
15526328 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
15526374 ATGAAATAAAATGTGTGAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
15526420 GTGACATGAAAAGAATAAGACTATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * ** *
15526466 ATGA-CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
15526511 GTAATATGAAATG-GATAAGACCATGGTTGAAAGATACCATGGTAAC
1 CTGATATGAAATGTG-TAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
15526557 CTGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
15526591 CTATGGCATC
Statistics
Matches: 266, Mismatches: 39, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
45 37 0.14
46 228 0.86
47 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:15528937 original size:17 final size:17
Alignment explanation
Indices: 15528900--15528938 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15528890 TTATTTATTC
*
15528900 TATTGTTGGAATTGAAT
1 TATTGTTGGAATTGAAA
15528917 TATTGTTGGAATT-ATAA
1 TATTGTTGGAATTGA-AA
15528934 TATTG
1 TATTG
15528939 AATTGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TATTGTTGGAATTGAAA
Found at i:15535080 original size:52 final size:51
Alignment explanation
Indices: 15534936--15535106 Score: 135
Period size: 52 Copynumber: 3.4 Consensus size: 51
15534926 ATCCTAATTC
* *
15534936 TAAAAATTTAAAAA-ATATATAAAATACATAAGTATTTTT--TAAAA-ATATA
1 TAAAAA-TTAAAAATATATA-AAAATACATAAATATTTTTCAAAAAATATATA
* * * *
15534985 TAATAA-T--AAATATATAGAAATAGA-AAATTGATTATTGACAAAAAATGATATA
1 TAAAAATTAAAAATATATAAAAATACATAAA-T-ATT-TT-TCAAAAAAT-ATATA
15535037 TAAAAATTAAAAATATATAAAAATACATAAATATTTTTCAAAAAATATA-A
1 TAAAAATTAAAAATATATAAAAATACATAAATATTTTTCAAAAAATATATA
* *
15535087 TAATAAATTTAAAATTTATA
1 TAA-AAATTAAAAATATATA
15535107 TTAGCATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
44 2 0.02
45 10 0.10
46 8 0.08
47 3 0.03
49 5 0.05
50 8 0.08
51 17 0.18
52 18 0.19
53 3 0.03
54 3 0.03
55 16 0.17
56 3 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (51 bp):
TAAAAATTAAAAATATATAAAAATACATAAATATTTTTCAAAAAATATATA
Found at i:15539835 original size:46 final size:46
Alignment explanation
Indices: 15539608--15539834 Score: 321
Period size: 46 Copynumber: 4.9 Consensus size: 46
15539598 TTTGACATAA
* * * *
15539608 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * * *
15539654 TGCCATGGTATCTTTCAACCATGGCCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
15539700 TACCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
15539746 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
15539792 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
15539835 GAGAGCACAC
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 160 0.98
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:15541903 original size:11 final size:11
Alignment explanation
Indices: 15541887--15541934 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
15541877 CTTTATATAC
15541887 TAATAAAATAA
1 TAATAAAATAA
15541898 TAATAAAATATA
1 TAATAAAATA-A
* *
15541910 TTATTAAAATAT
1 -TAATAAAATAA
15541922 TAATAAAATAA
1 TAATAAAATAA
15541933 TA
1 TA
15541935 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:15541917 original size:24 final size:24
Alignment explanation
Indices: 15541881--15541936 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
15541871 TTCTTTCTTT
*
15541881 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
15541905 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
15541929 ATAATATT
1 AT-ATATT
15541937 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:15552651 original size:21 final size:21
Alignment explanation
Indices: 15552627--15552689 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
15552617 GCATATTGAC
15552627 ATGTAATTTTGCAATTTCTAA
1 ATGTAATTTTGCAATTTCTAA
* * *
15552648 ATGTAGA-TAT-CAAATT-GAA
1 ATGTA-ATTTTGCAATTTCTAA
*
15552667 ATGTTATTTTGCAATTTCTAA
1 ATGTAATTTTGCAATTTCTAA
15552688 AT
1 AT
15552690 TGTAGGATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
18 1 0.03
19 8 0.26
20 10 0.32
21 11 0.35
22 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (21 bp):
ATGTAATTTTGCAATTTCTAA
Found at i:15557024 original size:3 final size:3
Alignment explanation
Indices: 15557018--15557043 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15557008 AGAAGAAGAA
15557018 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
15557044 AAAGGGGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:15561358 original size:6 final size:6
Alignment explanation
Indices: 15561347--15561379 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
15561337 CGGCCACGAG
15561347 TCAGGC TCAGGC TCAGGC TCAGGC TCAGGC TCA
1 TCAGGC TCAGGC TCAGGC TCAGGC TCAGGC TCA
15561380 AGCCGGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.30, T:0.18
Consensus pattern (6 bp):
TCAGGC
Found at i:15564797 original size:21 final size:20
Alignment explanation
Indices: 15564764--15564802 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15564754 TTTTGAGCTT
*
15564764 TTTAATGAGAATTTCTAAATA
1 TTTAATGAAAATTT-TAAATA
*
15564785 TTTAATTAAAATTTTAAA
1 TTTAATGAAAATTTTAAA
15564803 AAATTTCCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTAATGAAAATTTTAAATA
Found at i:15580321 original size:15 final size:16
Alignment explanation
Indices: 15580303--15580341 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
15580293 CATTCCCAGC
15580303 AATCATATTCCAGT-G
1 AATCATATTCCAGTGG
* *
15580318 AATCACATTCCATTGG
1 AATCATATTCCAGTGG
15580334 AATCATAT
1 AATCATAT
15580342 CATAGAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (16 bp):
AATCATATTCCAGTGG
Found at i:15580338 original size:16 final size:15
Alignment explanation
Indices: 15580284--15580329 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
15580274 TTAACTTCCT
15580284 CAGT-AATCACATTCC
1 CAGTGAATCACATT-C
* *
15580299 CAG-CAATCATATTC
1 CAGTGAATCACATTC
15580313 CAGTGAATCACATTC
1 CAGTGAATCACATTC
15580328 CA
1 CA
15580330 TTGGAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (15 bp):
CAGTGAATCACATTC
Found at i:15581820 original size:30 final size:30
Alignment explanation
Indices: 15581786--15581848 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
15581776 ATTTATTTTA
15581786 TTGTTAATTTTTTTATTATTTTA-AAGACAT
1 TTGTTAATTTTTTTATTATTTTAGAAG-CAT
15581816 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTTTTATTATTTTAGAAGCAT
15581846 TTG
1 TTG
15581849 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTTTTATTATTTTAGAAGCAT
Found at i:15585905 original size:28 final size:30
Alignment explanation
Indices: 15585836--15585903 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
15585826 GAATAAAATT
*
15585836 TTAATTTTTTATAATTTTTAAAAAATTAAA
1 TTAAATTTTTATAATTTTTAAAAAATTAAA
15585866 TTAAATTTTTATAA-TTTT-AAAAATTAATA
1 TTAAATTTTTATAATTTTTAAAAAATTAA-A
*
15585895 TTTAATTTT
1 TTAAATTTT
15585904 ATCTTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 9 0.26
29 13 0.37
30 13 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TTAAATTTTTATAATTTTTAAAAAATTAAA
Found at i:15593064 original size:102 final size:102
Alignment explanation
Indices: 15592888--15593091 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
15592878 ACCATGCCCC
*
15592888 TTGGACTCCATAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
1 TTGGACTCCAAAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
15592953 CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
66 CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
15592990 TTGGACTCCAAAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
1 TTGGACTCCAAAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
*
15593055 CCATCATTTCTGGTCAGACTATGAAATAGCCTTTAAT
66 CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
15593092 CAGATCTATA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (102 bp):
TTGGACTCCAAAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
Found at i:15596526 original size:22 final size:22
Alignment explanation
Indices: 15596498--15596544 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
15596488 TTTGAGATTT
*
15596498 ATTAGGCACTAGAATGCCTTTG
1 ATTAGGCACTAGAATGCCTCTG
*
15596520 ATTAGGCATTAGAATGCCTCTG
1 ATTAGGCACTAGAATGCCTCTG
15596542 ATT
1 ATT
15596545 GGGGCGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (22 bp):
ATTAGGCACTAGAATGCCTCTG
Found at i:15603009 original size:44 final size:44
Alignment explanation
Indices: 15602952--15603062 Score: 168
Period size: 44 Copynumber: 2.5 Consensus size: 44
15602942 TGTTTCCGTG
* * * *
15602952 AAAAGTAATGGAGCCCATTACTGTAATCTTAACCGTATTTAAGT
1 AAAACTAACGGAGCCCATTACTGTAATCTCAACCATATTTAAGT
*
15602996 AAAACTAACGGAGCCCATTACTGTAATCTCAACCATATTTACGT
1 AAAACTAACGGAGCCCATTACTGTAATCTCAACCATATTTAAGT
*
15603040 AAAACTAACGGAGCCAATTACTG
1 AAAACTAACGGAGCCCATTACTG
15603063 ATTTTAACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (44 bp):
AAAACTAACGGAGCCCATTACTGTAATCTCAACCATATTTAAGT
Found at i:15614266 original size:23 final size:22
Alignment explanation
Indices: 15614240--15614294 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
15614230 CTGAATCTTG
15614240 AATTTTAAAAATAAAAATAAATA
1 AATTTTAAAAATAAAAATAAA-A
** *
15614263 AATTTTTTGAAATAAAAATATAA
1 AA-TTTTAAAAATAAAAATAAAA
15614286 AATTTTAAA
1 AATTTTAAA
15614295 TTTAAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 16 0.62
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTTTAAAAATAAAAATAAAA
Found at i:15615250 original size:8 final size:8
Alignment explanation
Indices: 15615237--15615261 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15615227 AGGGTTCTTT
15615237 GTTTTCGG
1 GTTTTCGG
15615245 GTTTTCGG
1 GTTTTCGG
15615253 GTTTTCGG
1 GTTTTCGG
15615261 G
1 G
15615262 GATTAGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.40, T:0.48
Consensus pattern (8 bp):
GTTTTCGG
Found at i:15617420 original size:52 final size:48
Alignment explanation
Indices: 15617326--15617532 Score: 179
Period size: 47 Copynumber: 4.2 Consensus size: 48
15617316 CCATGGCAAC
* * * *
15617326 ATGTGAAATGTGATTTCCGTATAAGACCATAGT-TGGGCTATGGCTTCGGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATA-TCTGGGATATGGCATC-G-G
*
15617377 AAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* ** *
15617427 -TGTGATATGTGCTACTATATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
15617474 -TGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
15617520 TATGTGATATGTG
1 -ATGTGATATGTG
15617533 ACTATGTGCA
Statistics
Matches: 129, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
46 25 0.19
47 52 0.40
48 10 0.08
50 1 0.01
51 2 0.02
52 28 0.22
53 11 0.09
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:15621375 original size:47 final size:47
Alignment explanation
Indices: 15621266--15621376 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
15621256 CCGGGATAAG
* * *
15621266 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
15621313 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
15621360 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
15621377 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:15627316 original size:16 final size:15
Alignment explanation
Indices: 15627291--15627328 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15627281 ACAAAATTTG
15627291 AAAGAAAAAGAAAGAA
1 AAAGAAAAAG-AAGAA
*
15627307 AAAGAGAAAGAAGAA
1 AAAGAAAAAGAAGAA
15627322 AAAGAAA
1 AAAGAAA
15627329 GAGACCCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:15627322 original size:19 final size:18
Alignment explanation
Indices: 15627293--15627332 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
15627283 AAAATTTGAA
15627293 AGAAAAAGAAAGAA-AAAG
1 AGAAAAAGAAA-AAGAAAG
15627311 AGAAAGAAGAAAAAGAAAG
1 AGAAA-AAGAAAAAGAAAG
15627330 AGA
1 AGA
15627333 CCCGTGGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AGAAAAAGAAAAAGAAAG
Found at i:15628740 original size:21 final size:21
Alignment explanation
Indices: 15628714--15628756 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15628704 GCAGGTTAGG
15628714 TACTTAACTTTTAATCACCGA
1 TACTTAACTTTTAATCACCGA
15628735 TACTTAACTTTTAATCACCGA
1 TACTTAACTTTTAATCACCGA
15628756 T
1 T
15628757 TCAGCATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (21 bp):
TACTTAACTTTTAATCACCGA
Found at i:15636586 original size:13 final size:13
Alignment explanation
Indices: 15636568--15636594 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15636558 GATATAGGAT
15636568 CACTTATGTTCGC
1 CACTTATGTTCGC
15636581 CACTTATGTTCGC
1 CACTTATGTTCGC
15636594 C
1 C
15636595 TAAATGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (13 bp):
CACTTATGTTCGC
Found at i:15650217 original size:26 final size:25
Alignment explanation
Indices: 15650188--15650247 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
15650178 TCATACATCT
*
15650188 TTTAATATCATT-TTAAATAATAATAA
1 TTTAATAT-ATTATTAAAAAATAA-AA
15650214 TTTAATATATTAATTAAAAAATAAAA
1 TTTAATATATT-ATTAAAAAATAAAA
*
15650240 TTAAATAT
1 TTTAATAT
15650248 GAAAAAAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 3 0.10
26 17 0.57
27 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTAATATATTATTAAAAAATAAAA
Found at i:15654252 original size:13 final size:13
Alignment explanation
Indices: 15654219--15654245 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15654209 CCAGTCAATC
15654219 ATTCAAAGCATAA
1 ATTCAAAGCATAA
15654232 ATTCAAAGCATAA
1 ATTCAAAGCATAA
15654245 A
1 A
15654246 ATTAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ATTCAAAGCATAA
Found at i:15658645 original size:30 final size:30
Alignment explanation
Indices: 15658606--15658662 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15658596 TTTTATAAGT
15658606 AATTAATATTT-A-TTACTTAAAAATATTTAA
1 AATTAATATTTCATTTA-TT-AAAATATTTAA
*
15658636 AATTTATATTTCATTTATTAAAATATT
1 AATTAATATTTCATTTATTAAAATATT
15658663 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 3 0.12
32 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATTTATTAAAATATTTAA
Found at i:15659447 original size:45 final size:45
Alignment explanation
Indices: 15659383--15659472 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
15659373 ATGTCAGATA
15659383 GAATTGCGGGATGAAATAAACAAACCTATTGAATGGGGCATTCAT
1 GAATTGCGGGATGAAATAAACAAACCTATTGAATGGGGCATTCAT
15659428 GAATTGCGGGATGAAATAAACAAACCTATTGAATGGGGCATTCAT
1 GAATTGCGGGATGAAATAAACAAACCTATTGAATGGGGCATTCAT
15659473 TTTGGCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (45 bp):
GAATTGCGGGATGAAATAAACAAACCTATTGAATGGGGCATTCAT
Found at i:15664951 original size:26 final size:26
Alignment explanation
Indices: 15664908--15665014 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15664898 TGGTACAAAT
15664908 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
15664933 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15664959 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15664985 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15665011 TGAT
1 TGAT
15665015 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 7 0.09
26 68 0.91
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15666722 original size:54 final size:54
Alignment explanation
Indices: 15666634--15666774 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
15666624 AGGAAGCGTC
* *
15666634 CTGGTGGCTATGCCACGATTATCTGATTTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
15666688 CTGGTGCCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
15666742 CTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTG
15666775 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:15666770 original size:32 final size:27
Alignment explanation
Indices: 15666634--15666774 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
15666624 AGGAAGCGTC
*
15666634 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
* * *
15666661 TTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
15666688 CTGGTGCCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
15666715 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
15666742 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
15666769 CTGGTG
1 CTGGTG
15666775 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.11
27 84 0.87
28 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:15666785 original size:27 final size:27
Alignment explanation
Indices: 15666634--15666792 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
15666624 AGGAAGCGTC
* *
15666634 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
* *
15666661 TTAGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
15666688 CTGGTGCCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
15666715 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
15666742 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
15666769 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
15666793 GCAGCCTCGC
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 11 0.10
27 98 0.89
28 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:15671148 original size:14 final size:14
Alignment explanation
Indices: 15671131--15671169 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
15671121 CTGAATGTTG
*
15671131 AAACTTTAAATCTT
1 AAACTTTAAACCTT
*
15671145 AAACCTTAAACCTT
1 AAACTTTAAACCTT
*
15671159 AAATTTTAAAC
1 AAACTTTAAAC
15671170 ATTTGACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (14 bp):
AAACTTTAAACCTT
Found at i:15674104 original size:2 final size:2
Alignment explanation
Indices: 15674097--15674138 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15674087 ATCCCCACTT
15674097 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15674139 GCTGCGTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15680805 original size:22 final size:23
Alignment explanation
Indices: 15680769--15680822 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
15680759 AGATTTGACG
*
15680769 TTTAAA-AAATATTA-TGTTAATA
1 TTTAAATAAATATTATTATTAA-A
*
15680791 TTTATATAAAT-TTATTATTAAA
1 TTTAAATAAATATTATTATTAAA
15680813 TTTAAATAAA
1 TTTAAATAAA
15680823 ATAACTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAATAAATATTATTATTAAA
Found at i:15711219 original size:38 final size:39
Alignment explanation
Indices: 15711135--15711269 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
15711125 ACCAATATGG
*
15711135 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
15711174 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
15711212 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
15711253 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15711270 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:15713530 original size:11 final size:11
Alignment explanation
Indices: 15713516--15713556 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
15713506 TATTTTCTCC
15713516 CTATTTTGCTA
1 CTATTTTGCTA
*
15713527 CTATTTTACTA
1 CTATTTTGCTA
* *
15713538 TTATGTTGCTA
1 CTATTTTGCTA
15713549 CTATTTTG
1 CTATTTTG
15713557 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:15713627 original size:29 final size:30
Alignment explanation
Indices: 15713593--15713654 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
15713583 TTTTATTTTA
15713593 TTGTTAATTTT-TTATTATTTTA-AACACAT
1 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
15713622 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTAGAAACAT
15713652 TTG
1 TTG
15713655 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 11 0.35
30 18 0.58
31 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAACAT
Found at i:15721947 original size:27 final size:26
Alignment explanation
Indices: 15721887--15721948 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
15721877 ATTTTATTTT
15721887 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
15721913 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
15721941 ATTTTATT
1 ATTTTATT
15721949 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Done.