Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 191 of 208
Found at i:59524820 original size:28 final size:30
Alignment explanation
Indices: 59524746--59524823 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
59524736 GCTTAAACAA
59524746 CAAAATGGTACCTAAACTATATTAATTTTCT
1 CAAAATGGTACCTAAACTATATT-ATTTTCT
* * *
59524777 CAAATTGGTACTTAAACT-T-TT-TTTTGT
1 CAAAATGGTACCTAAACTATATTATTTTCT
59524804 CAAAATCGGTACCTAAACTA
1 CAAAAT-GGTACCTAAACTA
59524824 GTCAACCGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 10 0.25
28 11 0.28
29 2 0.05
30 1 0.03
31 16 0.40
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (30 bp):
CAAAATGGTACCTAAACTATATTATTTTCT
Found at i:59525730 original size:19 final size:20
Alignment explanation
Indices: 59525696--59525733 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
59525686 TAAATTTAAA
59525696 ATTATGTAATTTTTTATTTT
1 ATTATGTAATTTTTTATTTT
59525716 ATTATGTAA-TTTTTATTT
1 ATTATGTAATTTTTTATTT
59525734 ATTTACCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTATGTAATTTTTTATTTT
Found at i:59546648 original size:14 final size:14
Alignment explanation
Indices: 59546629--59546668 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
59546619 TTGATTGGCA
59546629 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
59546643 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
59546657 GAAAAATGTTTT
1 GTAAAATGTTTT
59546669 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:59546677 original size:20 final size:20
Alignment explanation
Indices: 59546652--59546691 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59546642 CGTAAAATGA
*
59546652 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
59546672 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
59546692 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:59546681 original size:34 final size:35
Alignment explanation
Indices: 59546637--59546703 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
59546627 CAGTAAAATG
*
59546637 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
59546671 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
59546704 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:59546814 original size:20 final size:20
Alignment explanation
Indices: 59546789--59546827 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59546779 TGTTTTACAT
*
59546789 ATATTATTAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
59546809 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
59546828 TTTTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:59554264 original size:16 final size:16
Alignment explanation
Indices: 59554220--59554255 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
59554210 CTTTCTTTGC
59554220 CCAAGCCGAGCCACCT
1 CCAAGCCGAGCCACCT
*
59554236 CCAAGCCGAGCCACGT
1 CCAAGCCGAGCCACCT
59554252 CCAA
1 CCAA
59554256 TTCGAGCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.47, G:0.19, T:0.06
Consensus pattern (16 bp):
CCAAGCCGAGCCACCT
Found at i:59557307 original size:18 final size:16
Alignment explanation
Indices: 59557284--59557341 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 16
59557274 AAAGAATTGC
59557284 AAATAAATAACTAATAG
1 AAATAAATAACTAA-AG
59557301 TAAATAAATAACTAAAG
1 -AAATAAATAACTAAAG
* * *
59557318 GAATAAATAAATAAGG
1 AAATAAATAACTAAAG
59557334 ATAATAAA
1 A-AATAAA
59557342 ATGCAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.37
17 8 0.23
18 14 0.40
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22
Consensus pattern (16 bp):
AAATAAATAACTAAAG
Found at i:59566881 original size:15 final size:14
Alignment explanation
Indices: 59566857--59566888 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
59566847 AACACATTCT
59566857 TTTATTTATTTTTA
1 TTTATTTATTTTTA
59566871 TTTATTTTATTTTTA
1 TTTA-TTTATTTTTA
59566886 TTT
1 TTT
59566889 CATCTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:59574449 original size:25 final size:25
Alignment explanation
Indices: 59574412--59574467 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
59574402 CAAGAAAAAT
* *
59574412 CACAAAACTCATCAATCCTTTAGAA
1 CACAAAACCCATCAATCCATTAGAA
*
59574437 CACAATACCCATCAATCCATTAGAA
1 CACAAAACCCATCAATCCATTAGAA
59574462 CA-AAAA
1 CACAAAA
59574468 TTCCAGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.20
Consensus pattern (25 bp):
CACAAAACCCATCAATCCATTAGAA
Found at i:59576087 original size:14 final size:14
Alignment explanation
Indices: 59576068--59576097 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59576058 CTTACTTACC
59576068 GACATGATTTGAGT
1 GACATGATTTGAGT
59576082 GACATGATTTGAGT
1 GACATGATTTGAGT
59576096 GA
1 GA
59576098 AAGTGATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (14 bp):
GACATGATTTGAGT
Found at i:59585478 original size:28 final size:30
Alignment explanation
Indices: 59585447--59585510 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
59585437 TAATTTTGAT
* * *
59585447 ATAAATATATTAATTTA-TTTTTATTAA-A
1 ATAAATAAATTAACTTACTCTTTATTAATA
59585475 ATAAATAAATTAACTTACGTCTTTATTAATA
1 ATAAATAAATTAACTTAC-TCTTTATTAATA
59585506 ATAAA
1 ATAAA
59585511 CTAATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 15 0.50
30 9 0.30
31 6 0.20
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (30 bp):
ATAAATAAATTAACTTACTCTTTATTAATA
Found at i:59588357 original size:3 final size:3
Alignment explanation
Indices: 59588349--59588398 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
59588339 TTAATGAGTT
59588349 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59588397 TA
1 TA
59588399 TGTTTTTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:59603262 original size:13 final size:12
Alignment explanation
Indices: 59603244--59603281 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
59603234 AAGAAAAAAA
59603244 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
59603257 GAAGAGAGAAGG
1 GAAGAGAGAAGG
59603269 G-AGAGAGAAGG
1 GAAGAGAGAAGG
59603280 GA
1 GA
59603282 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:59604458 original size:44 final size:44
Alignment explanation
Indices: 59604410--59604507 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
59604400 AACTTCAGAG
* *
59604410 AGATAAGATCATTTAT-TTTAATCCACTCCACTGTAATCTCAGGC
1 AGATAAGATCA-CTATCTTCAATCCACTCCACTGTAATCTCAGGC
* * * ** *
59604454 AGATAGGATTACTATCTTCAATCTACTCTGCTGTAATCTCAGGG
1 AGATAAGATCACTATCTTCAATCCACTCCACTGTAATCTCAGGC
59604498 AGATAAGATC
1 AGATAAGATC
59604508 TGAAATTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (44 bp):
AGATAAGATCACTATCTTCAATCCACTCCACTGTAATCTCAGGC
Found at i:59604501 original size:88 final size:87
Alignment explanation
Indices: 59604386--59604694 Score: 248
Period size: 88 Copynumber: 3.4 Consensus size: 87
59604376 GTCTGCTGTG
*
59604386 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTGTAATCTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCA
59604451 GGCAGATAGGATTACTATCTTCA
66 GG-AGATAGGATTACTATCTTCA
* * * *** * *
59604474 ATCTACTCTGCTGTAA-TCTCAGGGAGATAAGATCTGAAATT-TTTCGGTCTGTTCCACTGTAAT
1 ATCTACTCTACTGTAACT-TCAGAGAGATAAGATC---ATTTATTTTAATCCGCTCCACTGTAAT
* * **
59604537 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTG
62 CTCA-GGAGATAGGA--T-T-AC-T--ATCT--T-CA
*
59604574 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTC
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATC-TC
* *
59604638 AGAGAGATGGGATTACTAGCTTCA
65 AG-GAGATAGGATTACTATCTTCA
** *
59604662 ATCTACTCCGCTGTAA-TCTCAGGGAGATAAGAT
1 ATCTACTCTACTGTAACT-TCAGAGAGATAAGAT
59604695 TACTATGGCT
Statistics
Matches: 170, Mismatches: 31, Indels: 40
0.71 0.13 0.17
Matches are distributed among these distances:
87 2 0.01
88 58 0.34
89 1 0.01
90 27 0.16
91 8 0.05
92 1 0.01
93 2 0.01
94 2 0.01
95 2 0.01
96 1 0.01
97 8 0.05
98 26 0.15
99 1 0.01
100 30 0.18
101 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (87 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCA
GGAGATAGGATTACTATCTTCA
Found at i:59604653 original size:188 final size:187
Alignment explanation
Indices: 59604353--59604742 Score: 554
Period size: 188 Copynumber: 2.1 Consensus size: 187
59604343 CTAACTGCTT
* *** *
59604353 AGGGAGATAAGATCTGTGGTTTTGTCTGCTGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
* *
59604418 TCATTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCT
66 TCATTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTAGCTTCAATCTACTCC
** ** * *
59604483 GCTGTAATCTCAGGGAGATAAGATCTGA-AAT-TTTTCGGTCTGTTCCACTGTAATCTC
131 GCTGTAATCTCAGGGAGATAAGAT-T-ACAATGGCTTCAATCTGCTCCACTGTAACCTC
59604540 AGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
1 AGGGAGATAAGATCTCTGG-TTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
* * *
59604605 ATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGAG-AGATGGGATTACTAGCTTCAATCTAC
65 ATCATTTATTTTAATCCACTCCACTGTAATC-TCAG-GCAGATAGGATTACTAGCTTCAATCTAC
*
59604668 TCCGCTGTAATCTCAGGGAGATAAGATTACTATGGCTTCAATCTGCTCCACTGTAACCTC
128 TCCGCTGTAATCTCAGGGAGATAAGATTACAATGGCTTCAATCTGCTCCACTGTAACCTC
59604728 AGGGAGATAAGATCT
1 AGGGAGATAAGATCT
59604743 GAAATTCTTC
Statistics
Matches: 181, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
186 1 0.01
187 22 0.12
188 157 0.87
189 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (187 bp):
AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
TCATTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTAGCTTCAATCTACTCC
GCTGTAATCTCAGGGAGATAAGATTACAATGGCTTCAATCTGCTCCACTGTAACCTC
Found at i:59604722 original size:46 final size:45
Alignment explanation
Indices: 59604574--59605345 Score: 342
Period size: 44 Copynumber: 17.4 Consensus size: 45
59604564 ATCTGATGTG
* * * * * ** *
59604574 ATCTACTCTACTGTAACTTCAGAGAGATAAGA-TCCTTTATTTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
** * * **
59604618 ATCCGCTCCACTGTAACTTCAGAGAGATGGGATTACTA-GCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
* *
59604662 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATTACTATGGCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTAT-GCTTCA
* * * *
59604708 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGAT-T-ACTATGCTTCA
* * * * * *
59604754 GTCTACTCCACTGTAACCTCAGGGTGATAAG---AC-CTGATACG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
** * * * * ** *
59604795 ATCTACTCTGCTGTAACTTCAGAGAGATAAGA-TCCTTTATTTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
** * * *
59604839 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATAACTA-GCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
* * ** *
59604883 ATATACTCCACTGTAACCACAAAGAGGTAA-AGTCGGTCATCT-TCGATCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-T---T-A-CTAT-G--CTTCA
* * **
59604935 ATCTATTCCACTGCCAA-C-CAGGGAGAT-AGAATTA-TCGGCTTCA
1 ATCTACTCCACTG-TAACCTCAGGGAGATAAG-ATTACTATGCTTCA
* * * * *
59604978 ATGTACTCCACTGTAACCACAGGGAGGTAA-A-TCCTGATG---CG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACT-ATGCTTCA
* * ** * * * * *
59605019 ATCTACTCTACTATAATTTCAGAGAGATAAGA-TCCTTTGTTTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
* * * **
59605063 ATCTGCTCCACTGTAATCTCAAGGAGATGGGATTACTA-GCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
* *
59605107 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATTACTATGGCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTAT-GCTTCA
* * * *
59605153 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGAT-T-ACTATGCTTCA
* * * * * *
59605199 GTCTACTCCACTGTAACCTCAGGGTGATAAG---AC-CTGATACG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
* * * * * ** *
59605240 ATCTACTCTACTGTAACTTCAGAGAGATAAGA-TCCTTTATTTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
** * *
59605284 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA-GCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
*
59605328 ATATACTCCACTGTAACC
1 ATCTACTCCACTGTAACC
59605346 ACAAAGAGGT
Statistics
Matches: 533, Mismatches: 152, Indels: 86
0.69 0.20 0.11
Matches are distributed among these distances:
41 86 0.16
42 8 0.02
43 22 0.04
44 225 0.42
45 14 0.03
46 136 0.26
47 7 0.01
48 4 0.01
49 2 0.00
50 2 0.00
51 7 0.01
52 18 0.03
53 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
ATCTACTCCACTGTAACCTCAGGGAGATAAGATTACTATGCTTCA
Found at i:59605285 original size:221 final size:222
Alignment explanation
Indices: 59604573--59605584 Score: 1126
Period size: 224 Copynumber: 4.5 Consensus size: 222
59604563 AATCTGATGT
59604573 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC-T
* * *
59604637 CAGAGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGAT-T-A-CT
65 CAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATGTCATCT
* * ** **
59604699 AT-G-GCTTCAATCTGCTCCACTG-TAACCTCAGGGAGATA-AGATCTGAAATTCTTCGGTCTAC
130 -TCGAGCTTCAATCTACTCCACTGCCAA-C-CAGGGAGATAGA-AT-T-AAAGGCTTCAATCTAC
* *
59604760 TCCACTGTAACCTCAGGGTGATAAGA-CCTGATAC
189 TCCACTGTAACCACAGGGAGATAA-ATCCTGATAC
*
59604794 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * * * ** *
59604859 AGGGAGATAGGATAACTAGCTTCAATATACTCCACTGTAACCACAAAGAGGTAA-AGTCGGTCAT
66 AGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-T--GTCAT
* * ** *
59604923 CTTCGATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCA
128 CTTCGAGCTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTAAAGGCTTCAATCTACTCCA
* *
59604988 CTGTAACCACAGGGAGGTAAATCCTGATGC
193 CTGTAACCACAGGGAGATAAATCCTGATAC
* * * *
59605018 GATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCTGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * *
59605083 AAGGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGAT-T-A-CTA
66 AGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATGTCATCT-
* * ** **
59605145 T-G-GCTTCAATCTGCTCCACTG-TAACCTCAGGGAGATA-AGATCTGAAATTCTTCGGTCTACT
130 TCGAGCTTCAATCTACTCCACTGCCAA-C-CAGGGAGATAGA-AT-T-AAAGGCTTCAATCTACT
* *
59605206 CCACTGTAACCTCAGGGTGATAAGA-CCTGATAC
190 CCACTGTAACCACAGGGAGATAA-ATCCTGATAC
59605239 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * * ** *
59605304 AGGGAGATAGGATTACTAGCTTCAATATACTCCACTGTAACCACAAAGAGGTAA-AGTCGGTCAT
66 AGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-T--GTCAT
* * ** *
59605368 CTTCGATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCA
128 CTTCGAGCTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTAAAGGCTTCAATCTACTCCA
* *
59605433 CTGTAACCACAGGGAGGTAAATCCTGATGC
193 CTGTAACCACAGGGAGATAAATCCTGATAC
* * *
59605463 GATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* ** * ** *
59605528 AGGGAGATAGGATTACTATCTTTGATCTGCTCTTCTGTAATCTCAGGGAGATCAGAT
66 AGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGAT
59605585 CTGCAATTCT
Statistics
Matches: 659, Mismatches: 100, Indels: 61
0.80 0.12 0.07
Matches are distributed among these distances:
217 2 0.00
218 18 0.03
219 15 0.02
220 5 0.01
221 252 0.38
222 2 0.00
223 2 0.00
224 285 0.43
225 8 0.01
226 30 0.05
227 36 0.05
228 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (222 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
AGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATGTCATCTT
CGAGCTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTAAAGGCTTCAATCTACTCCACTG
TAACCACAGGGAGATAAATCCTGATAC
Found at i:59605609 original size:445 final size:445
Alignment explanation
Indices: 59604566--59605584 Score: 1869
Period size: 445 Copynumber: 2.3 Consensus size: 445
59604556 TGGCTTCAAT
* * * *
59604566 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
*
59604631 TAA-CTTCAGAGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGAT
66 TAATC-TCAGGGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGAT
59604695 TACTATGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
130 TACTATGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
*
59604760 TCCACTGTAACCTCAGGGTGATAAGACCTGATACGATCTACTCTGCTGTAACTTCAGAGAGATAA
195 TCCACTGTAACCTCAGGGTGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAA
59604825 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATAACTAGCTTCAATATACT
260 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATAACTAGCTTCAATATACT
59604890 CCACTGTAACCACAAAGAGGTAAAGTCGGTCATCTTCGATCTTCAATCTATTCCACTGCCAACCA
325 CCACTGTAACCACAAAGAGGTAAAGTCGGTCATCTTCGATCTTCAATCTATTCCACTGCCAACCA
59604955 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAATC
390 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAATC
*
59605011 CTGATGCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
*
59605076 TAATCTCAAGGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATT
59605141 ACTATGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACT
131 ACTATGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACT
59605206 CCACTGTAACCTCAGGGTGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAG
196 CCACTGTAACCTCAGGGTGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAG
*
59605271 ATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATATACTC
261 ATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATAACTAGCTTCAATATACTC
59605336 CACTGTAACCACAAAGAGGTAAAGTCGGTCATCTTCGATCTTCAATCTATTCCACTGCCAACCAG
326 CACTGTAACCACAAAGAGGTAAAGTCGGTCATCTTCGATCTTCAATCTATTCCACTGCCAACCAG
59605401 GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAATC
391 GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAATC
59605456 CTGATGCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
* * ** * ** *
59605521 TAATCTCAGGGAGATAGGATTACTATCTTTGATCTGCTCTTCTGTAATCTCAGGGAGATCAGAT
66 TAATCTCAGGGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGAT
59605585 CTGCAATTCT
Statistics
Matches: 554, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
445 553 1.00
446 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (445 bp):
CTGATGCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
TAATCTCAGGGAGATGGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATT
ACTATGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACT
CCACTGTAACCTCAGGGTGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAG
ATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATAACTAGCTTCAATATACTC
CACTGTAACCACAAAGAGGTAAAGTCGGTCATCTTCGATCTTCAATCTATTCCACTGCCAACCAG
GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAATC
Found at i:59605751 original size:87 final size:88
Alignment explanation
Indices: 59605581--59606033 Score: 551
Period size: 88 Copynumber: 5.2 Consensus size: 88
59605571 CAGGGAGATC
* * * * * *
59605581 AGATCTGCAATTCTTCAACTAGCTCCACTACAACCGA-GAGAGGTAAGG-TTTGTCTTCGACCTG
1 AGATCTGCTA-TCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTG
* * **
59605644 CTTCACTGTCAACGCAGGAAGATA
65 CTTCGCTGTTAACGCAGGAAGGCA
* * * * * ** * *
59605668 AAATCAGTTGTCTTCAACCAACTCTTCTACACCCGA-GAGAGGCAAGGCTTTGTTTTCGATCTGC
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGC
*
59605732 TTCGCTGTTAACGTAGGAAGGCA
66 TTCGCTGTTAACGCAGGAAGGCA
*
59605755 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTTCGATCTA
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTG-TTTTCGATCTG
*
59605819 CTTCGCTGTTAATGCAGGAAGGCA
65 CTTCGCTGTTAACGCAGGAAGGCA
* * * *
59605843 AGATCTGCTATCTTCAACCAGCTCCACTGTAACCAATGA-AGGCAAAGCTTTGTTTTTCGATCTA
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTG-TTTTCGATCTG
*
59605907 CTTCGCTGTTAATGCAGGAAGGCA
65 CTTCGCTGTTAACGCAGGAAGGCA
* * *
59605931 AGATCTGCTATCTTCAACCAGCTCCACTGTAACCAATGA-AGGCAAAGC-TTGTTTTCGATCTGC
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGC
59605994 TTCGCTGTTAACGCAGGAAGGCA
66 TTCGCTGTTAACGCAGGAAGGCA
*
59606017 AGATCTGCAATCTTCAA
1 AGATCTGCTATCTTCAA
59606034 TCTATTCCAC
Statistics
Matches: 326, Mismatches: 36, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
86 80 0.25
87 81 0.25
88 165 0.51
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (88 bp):
AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGC
TTCGCTGTTAACGCAGGAAGGCA
Found at i:59605972 original size:44 final size:43
Alignment explanation
Indices: 59605748--59605975 Score: 135
Period size: 44 Copynumber: 5.2 Consensus size: 43
59605738 GTTAACGTAG
*
59605748 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGAT
1 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAACC-AT
* * * * * * * * * *
59605792 GGAGGCAAGGCTTTG-T-TTTTCGATCTA-CTTCGCTGTTAATGCAG
1 GAAGGCAA-GATCTGCTATCTTC-AACCAGCTCCACTG-TAA-CCAT
59605836 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAACCAAT
1 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAACC-AT
* * * * * * * * *
59605880 GAAGGCAAAGCTTTG-T-TTTTCGATCTA-CTTCGCTGTTAATGCAG
1 GAAGGC-AAGATCTGCTATCTTC-AACCAGCTCCACTG-TAA-CCAT
59605924 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAACCAAT
1 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAACC-AT
59605968 GAAGGCAA
1 GAAGGCAA
59605976 AGCTTGTTTT
Statistics
Matches: 129, Mismatches: 39, Indels: 32
0.64 0.19 0.16
Matches are distributed among these distances:
43 32 0.25
44 65 0.50
45 32 0.25
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAACCAT
Found at i:59606261 original size:86 final size:86
Alignment explanation
Indices: 59606115--59606378 Score: 402
Period size: 86 Copynumber: 3.1 Consensus size: 86
59606105 AAATCTGCCA
* * *
59606115 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
59606180 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
59606202 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* *
59606267 AAACGAGAGTGGTAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
59606288 TCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
59606353 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
59606374 TCTTC
1 TCTTC
59606379 AATTTTTACT
Statistics
Matches: 160, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
86 140 0.88
87 20 0.12
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:59608573 original size:21 final size:21
Alignment explanation
Indices: 59608535--59608574 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59608525 GATTTTGGAG
*
59608535 AAAGAATGAATAATTATTAAT
1 AAAGAATGAATAAATATTAAT
59608556 AAAGAATGAA-AGAATATTA
1 AAAGAATGAATA-AATATTA
59608575 GCTCAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
AAAGAATGAATAAATATTAAT
Found at i:59610492 original size:19 final size:20
Alignment explanation
Indices: 59610463--59610511 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
59610453 CACTTCGTGA
* *
59610463 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
59610482 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
59610502 AAATG-AATGC
1 AAATGTAATGC
59610512 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:59613047 original size:23 final size:23
Alignment explanation
Indices: 59613028--59613077 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
59613018 TGTATACACG
59613028 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
*
59613051 TACATAATAATAATAGTGATACTAA
1 TACATAATAAAAATA-T-ATACTAA
59613076 TA
1 TA
59613078 GTACTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 14 0.58
24 1 0.04
25 9 0.38
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:59613583 original size:11 final size:12
Alignment explanation
Indices: 59613563--59613600 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
59613553 AGAAAAAAAA
59613563 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
59613576 GAAGAGAGAAGG
1 GAAGAGAGAAGG
59613588 G-AGAGAGAAGG
1 GAAGAGAGAAGG
59613599 GA
1 GA
59613601 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:59615540 original size:5 final size:5
Alignment explanation
Indices: 59615530--59615585 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
59615520 GCCAACAATA
* *
59615530 TATAT TATAT TATAT TATAT TATAT TATAT TATA- AAAAT TAT-T TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
59615578 TA-AT TATA
1 TATAT TATA
59615586 GATGTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
4 10 0.23
5 34 0.77
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:59621980 original size:20 final size:20
Alignment explanation
Indices: 59621952--59621991 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59621942 TAAGTTTTTA
* *
59621952 TTATTTATATTATGTTATTT
1 TTATATATATTATGTAATTT
59621972 TTATATATATTATGTAATTT
1 TTATATATATTATGTAATTT
59621992 AAAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTATATATATTATGTAATTT
Found at i:59633954 original size:87 final size:86
Alignment explanation
Indices: 59633833--59633993 Score: 304
Period size: 87 Copynumber: 1.9 Consensus size: 86
59633823 GTAACAAAAA
59633833 AAATTTCGTGACGCTTTAAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTAA
1 AAATTTCGTGACGCTTTAAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTAA
59633898 AAGTAAAAAAAATTAAAAATC
66 AAGTAAAAAAAATTAAAAATC
*
59633919 AAATTTTGTGACGCTTTAGAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTA
1 AAATTTCGTGACGCTTTA-AACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTA
59633984 AAAGTAAAAA
65 AAAGTAAAAA
59633994 TTCTCACTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
86 17 0.23
87 56 0.77
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (86 bp):
AAATTTCGTGACGCTTTAAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTAA
AAGTAAAAAAAATTAAAAATC
Found at i:59644444 original size:24 final size:25
Alignment explanation
Indices: 59644417--59644466 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
59644407 AGAAGAAAGT
59644417 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
59644441 TTAAATTACTTAAAACGAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
59644466 T
1 T
59644467 ATGGGGATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.20
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:59645082 original size:22 final size:25
Alignment explanation
Indices: 59645030--59645088 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 25
59645020 TTTCAATAAA
59645030 TAAAAATATATATAATTATTAAACAT
1 TAAAAATA-ATATAATTATTAAACAT
*
59645056 T-AAAATAATATAA-TA-TAAA-TT
1 TAAAAATAATATAATTATTAAACAT
59645077 TAAAAATAATAT
1 TAAAAATAATAT
59645089 GGTCGGGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 2 0.06
22 14 0.45
23 2 0.06
24 6 0.19
25 6 0.19
26 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAAATAATATAATTATTAAACAT
Found at i:59671104 original size:37 final size:37
Alignment explanation
Indices: 59671039--59671177 Score: 104
Period size: 37 Copynumber: 3.8 Consensus size: 37
59671029 ACACCCAGTC
* * * *
59671039 CAAAAACAGAATATGAACAGGGGAGATTCCCTACAAAT
1 CAAAGACAGAA-ATGAACAAGAGAGATTCCCTACAAAG
* *
59671077 CAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAG
1 CAAAGACAGAAATGAACAAGAGAGATTCCCT-AC-AAAG
** * * *
59671116 CAACCA-AG-AATGAA-TAGTGAGATTCCTTACAAAG
1 CAAAGACAGAAATGAACAAGAGAGATTCCCTACAAAG
* * *
59671150 CAAAGACAGATATGAACGAGAGTGATTC
1 CAAAGACAGAAATGAACAAGAGAGATTC
59671178 TTTGCCAAAA
Statistics
Matches: 77, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
34 8 0.10
35 3 0.04
36 15 0.19
37 31 0.40
38 13 0.17
39 7 0.09
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (37 bp):
CAAAGACAGAAATGAACAAGAGAGATTCCCTACAAAG
Found at i:59671184 original size:73 final size:73
Alignment explanation
Indices: 59671061--59671292 Score: 263
Period size: 73 Copynumber: 3.2 Consensus size: 73
59671051 ATGAACAGGG
*
59671061 GAGATTCCCTACAAATCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
1 GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
59671126 TGAATAGT
66 TGAATAGT
* * * **
59671134 GAGATTCCTTACAAAGCAAAGACAGATATGAACGAGAGTGATTCTTTGCCAAAAGCAACCAAGAA
1 GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
*
59671199 TGAACAGT
66 TGAATAGT
* * ** * * * * * *
59671207 AAGGTTCCCCGCCAAGCAAAGACAAAAATGAA-TAGTA-AGATTCCCTG-CAAAAACAACTAAGA
1 GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAG-AGTGATTCCCTGCCAAAAGCAACCAAGA
* *
59671269 ATGAACAAT
65 ATGAATAGT
59671278 GAGATTCCCTACAAA
1 GAGATTCCCTACAAA
59671293 AATGTTGTAG
Statistics
Matches: 131, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
71 31 0.24
72 9 0.07
73 91 0.69
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (73 bp):
GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
TGAATAGT
Found at i:59671202 original size:37 final size:37
Alignment explanation
Indices: 59671087--59671204 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 37
59671077 CAAAGACAGA
*
59671087 AATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAG
1 AATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAG
* * * * **
59671124 AATGAA-TAGTGAGATTCCTT-AC-AAAGCAAAGACAG
1 AATGAACAAGAGTGATTCCTTGCCAAAAGCAACCA-AG
* *
59671159 ATATGAACGAGAGTGATTCTTTGCCAAAAGCAACCAAG
1 A-ATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAG
59671197 AATGAACA
1 AATGAACA
59671205 GTAAGGTTCC
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
34 8 0.13
35 4 0.07
36 15 0.25
37 22 0.36
38 4 0.07
39 8 0.13
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (37 bp):
AATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAG
Found at i:59674141 original size:16 final size:16
Alignment explanation
Indices: 59674122--59674152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59674112 TATTTTTCAA
*
59674122 AATTTTTATATTATAT
1 AATTTATATATTATAT
59674138 AATTTATATATTATA
1 AATTTATATATTATA
59674153 AAAACAAACT
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:0.00, T:0.58
Consensus pattern (16 bp):
AATTTATATATTATAT
Found at i:59683623 original size:25 final size:25
Alignment explanation
Indices: 59683577--59683632 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
59683567 GCATTCTTTT
59683577 AAAATAATAACAAAAATGAAATA-A
1 AAAATAATAACAAAAATGAAATATA
* *
59683601 ATAAATAATAA-ATACAATTAAATATA
1 A-AAATAATAACA-AAAATGAAATATA
59683627 AAAATA
1 AAAATA
59683633 TATATACGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 23 0.85
26 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (25 bp):
AAAATAATAACAAAAATGAAATATA
Found at i:59685822 original size:132 final size:133
Alignment explanation
Indices: 59685481--59686296 Score: 1447
Period size: 133 Copynumber: 6.2 Consensus size: 133
59685471 AGATTCGTGG
* * *
59685481 TAAGATTCGCTATCTTCGATCTGCTCCACTACTGGTTAGGGTGACATAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
59685546 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
59685611 AGA
131 AGA
*
59685614 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
*
59685679 CTACTCTACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATT-GGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
59685743 AGA
131 AGA
* * *
59685746 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGTGACAGAATCTTGGAATCTTTAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
59685811 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATT-GGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
59685875 AGA
131 AGA
* *
59685878 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAAGGTGACAGAATCTTGGAATCTTTAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
* *
59685943 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATTTGTTTCTCCACTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
59686008 AGA
131 AGA
*
59686011 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
* *
59686076 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGATTAAATATGCTTCTCCACTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
59686141 AGA
131 AGA
59686144 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
* * * *
59686209 CTACTCCACTACTGTTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
59686274 AGA
131 AGA
59686277 TAAGATTCACCATCTTCGAT
1 TAAGATTCACCATCTTCGAT
59686297 ATACTCCGCT
Statistics
Matches: 658, Mismatches: 24, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
132 258 0.39
133 400 0.61
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (133 bp):
TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
AGA
Found at i:59686339 original size:46 final size:46
Alignment explanation
Indices: 59686300--59686476 Score: 302
Period size: 46 Copynumber: 3.9 Consensus size: 46
59686290 CTTCGATATA
* *
59686300 CTCCGCTGCCAAATACATGAAGATAAGATCTGCTATCTTCGATCCC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
*
59686346 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTTGATCCC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
*
59686392 TTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
*
59686438 CTCCGCTGCCAAATACAGGAAGATAAGATCTGCTA-CTTC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
59686477 ATTGATCTGT
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (46 bp):
CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
Found at i:59687558 original size:21 final size:21
Alignment explanation
Indices: 59687532--59687578 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
59687522 GGTATAGCAA
59687532 GATCACCAT-ATGCCCCAATCT
1 GATCA-CATCATGCCCCAATCT
* *
59687553 GATCACTTCATGCCCCATTCT
1 GATCACATCATGCCCCAATCT
59687574 GATCA
1 GATCA
59687579 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACATCATGCCCCAATCT
Found at i:59687680 original size:6 final size:7
Alignment explanation
Indices: 59687661--59687712 Score: 52
Period size: 8 Copynumber: 7.0 Consensus size: 7
59687651 TTAGCCTCTC
59687661 CATTTTT
1 CATTTTT
59687668 -ACTTTTT
1 CA-TTTTT
59687675 CATTTTTT
1 CA-TTTTT
59687683 CATTTTT
1 CATTTTT
59687690 CATTTTTT
1 CA-TTTTT
*
59687698 CATTCATT
1 CATT-TTT
59687706 CATTTTT
1 CATTTTT
59687713 TTATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 1 0.03
7 16 0.42
8 21 0.55
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:59687681 original size:8 final size:8
Alignment explanation
Indices: 59687670--59687713 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
59687660 CCATTTTTAC
59687670 TTTTTCAT
1 TTTTTCAT
59687678 TTTTTCA-
1 TTTTTCAT
59687685 TTTTTCAT
1 TTTTTCAT
59687693 TTTTTCAT
1 TTTTTCAT
**
59687701 TCATTCAT
1 TTTTTCAT
59687709 TTTTT
1 TTTTT
59687714 TATATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTCAT
Found at i:59687688 original size:15 final size:15
Alignment explanation
Indices: 59687661--59687713 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
59687651 TTAGCCTCTC
*
59687661 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
59687675 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
*
59687690 CATTTTTTCATTCATT
1 CATTTTTTCATT-TTT
59687706 CATTTTTT
1 CATTTTTT
59687714 TATATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.23
15 17 0.49
16 10 0.29
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:59687707 original size:23 final size:22
Alignment explanation
Indices: 59687661--59687712 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
59687651 TTAGCCTCTC
**
59687661 CATTTTTACTTTTTCATTTTTT
1 CATTTTTACTTTTTCATTCATT
*
59687683 CATTTTTCATTTTTTCATTCATT
1 CATTTTT-ACTTTTTCATTCATT
59687706 CATTTTT
1 CATTTTT
59687713 TTATATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (22 bp):
CATTTTTACTTTTTCATTCATT
Found at i:59688543 original size:12 final size:12
Alignment explanation
Indices: 59688526--59688565 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
59688516 TTGACCTCTC
59688526 TTTTTTTTTATT
1 TTTTTTTTTATT
*
59688538 TTTTTTTTGATT
1 TTTTTTTTTATT
59688550 TTTTTATTTT-TT
1 TTTTT-TTTTATT
59688562 TTTT
1 TTTT
59688566 GGAGTCTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:59688553 original size:20 final size:20
Alignment explanation
Indices: 59688528--59688566 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
59688518 GACCTCTCTT
59688528 TTTTTTTATTTTTTTTTTGA
1 TTTTTTTATTTTTTTTTTGA
59688548 TTTTTTTATTTTTTTTTTG
1 TTTTTTTATTTTTTTTTTG
59688567 GAGTCTGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.08, C:0.00, G:0.05, T:0.87
Consensus pattern (20 bp):
TTTTTTTATTTTTTTTTTGA
Found at i:59692333 original size:3 final size:3
Alignment explanation
Indices: 59692319--59692357 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
59692309 AATAAGTATG
*
59692319 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59692358 GACTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:59697837 original size:322 final size:315
Alignment explanation
Indices: 59697219--59698890 Score: 1554
Period size: 322 Copynumber: 5.2 Consensus size: 315
59697209 AAAAAAGCTA
** * * *
59697219 TGAAAGTGGATCGAGGACGTGACCCTTCAAGAATTTTGTCTAACACCCTCCTTTATAGATATCTT
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCC-TT-T-GATAT-TT
* * * *
59697284 TT-AAATGTGATGAACGTGGATCGAACAGGTGACCTTTTGATCTTCAATCTAACGCTCTCCCAAC
62 TTAAAATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCCAAC
* * * * *
59697348 TAAGCTATACTCGCAACTGTGAA-TAAAAATAATAATTACATTGAGTATAAATTGCATCAAATTT
127 TGAGCTATCCTCGCAACTAT-AAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTT
* * * *
59697412 CCCTTACTTGA-CCGAAC-A-ACAAAATTCAAGTTCAGTAAATGATAAATAAGCTATGAATATTT
191 CCCTTACTTGATCC-AACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTT
*
59697474 TAAAAATT-TTATTTCAACTACATTAAATGAACACTGAGGTATGGATATTTTAAAAATGTTG
255 T-AAAATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
* * * *
59697535 TGAAAGTTGATCGACCAGGTAACCCTTCAAGTATTTAGTCTAACACTGTCCTCTTCAGATATTTT
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCCT-TT--GATATTTT
* * * * * *
59697600 TAAAATATGATGAACATGGGTCGAATACTTGGACCTTTAGATCTTCAATCTGACACTCTTCCAAC
63 TAAAATGTGATGAACGTGGATCGAACACGT-GACCTTTAGATCTTCAATCTGACGCTCTTCCAAC
* * *
59697665 TAAGCTATCCTCGCAATTATAAGTAAAAATGATAATAATTATATTGAGTATGAATTGCATCGAAT
127 TGAGCTATCCTCGCAACTATAAGT-AAAA--ATAATAATTACATTGAGTATGAATTGCATCGAAT
* *
59697730 TTCCCTTACTTGATCCAACAACACAAAATTCAAGTGCATTAAATGATAACTAAGCTGTGCATATT
189 TTCCCTTACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATT
* * * *
59697795 TTAAAATTGTTATTTCAACTACATTCAATGAAAACCGAGGTATGGATATTCTAAAAATAG-AG
254 TTAAAATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAAT-GTTG
* * * *
59697857 TGAAAGTGAATCGACCAAGTGACCCTTCAAGTATTTAGTCTAACACTCTTCTCTATGGATATTTT
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTC-TC-CT-TTGATATTTT
** * * * * * *
59697922 TAAAATGTGATGAACGTGGGCCGAACACATGATCTTCAGATCTTCATTCTGATGCTCTCCCAA-T
63 TAAAATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCCAACT
* *
59697986 GAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATTAATTCCATCGAATTT-C
128 GAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTTCC
* *
59698050 C---C-T--TCCAACAACCCAAAATTCAAGTACATTAAATGACAACTAAGCTATGCATATTTTAA
193 CTTACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTTTAA
* * * * * * * * *
59698109 AAATGTTATTCCAACTACATTAAATGACAAGTGCGCTATGTATAGTTTTAAAAAATAAAGGCTA
258 AATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATA-TTTT-AAAAAT----GTTG
* * ** * *
59698173 TGAAAGCGG-GCTGAAGACGTGACCCTTGAAGAATTTAGTCTAACACTCTCCATTTATCGATATT
1 TGAAAGTGGATC-GACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCC--TT-T-GATATT
* * * * * * *
59698237 TTTAAAATGCGATGAACTTGGATCAAACACGTGACCATTAGATCATCAATTTGATGCTC-TCCGA
61 TTTAAAATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCC-A
** ** * * * * * *
59698301 GTTGAGCTATCCTTACAATTGTGATTAAAATTAATAATAATTAGATTGAGTATGAATTCCATCGA
125 ACTGAGCTATCCTCGCAACTATAAGT-AAA--AATAATAATTACATTGAGTATGAATTGCATCGA
* * *
59698366 ATTTCGCTTACTTGATCCAACAAC-CTAAAATTCATGTACATTAAATGATAACGAAGCTATGCAT
187 ATTTCCCTTACTTGATCCAACAACAC-AAAATTCAAGTACATTAAATGATAACTAAGCTATGCAT
* * * * *
59698430 ATTTTCAAAA-TGTTATTTCAACTACAATAAATGTAATGAAAATTGAGGTGTTGATATTTTAAGA
251 ATTTT-AAAATTGTTATTTCAACTAC-AT---T-AAATGAAAACTGAGGTATGGATATTTTAAAA
59698494 ATGTTG
310 ATGTTG
* * ** ** * * * *
59698500 TCAAAGTGGATAGAAGACATGTCCCTTGAAGAATTTAGTATAACACTCTCCTTT-AT-GTTTTAA
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCCTTTGATATTTTTAA
* * * * * * * * *
59698563 AATGCGATGAACGTGGATCAAACACGTGAACTTCAAATTTTCAGTCTAACGCTC-TCCTAATTGA
66 AATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCC-AACTGA
* * *
59698627 GCTATCCTCGCAA-TAGTGAGTATAAATAATAATTACATTGAATATGAATTGCATCGAATTTCCC
130 GCTATCCTCGCAACTA-TAAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTTCCC
* * * * * * *
59698691 TTACTTGATCAAACAACCCAAAATTAAAGTTCATTAGATGATAATTAAGCTATGAATATTTTAAA
194 TTACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTTTAAA
* *
59698756 ATTTTTATTTCAACTATATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
259 ATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
* * * * *
59698813 TAAAAGTGGATCTACGAGGTTGGTTGACCCTTCAAGTATTTAGTCTAACACACTCCTTTATGGAT
1 TGAAAGTGGATCGACCA----GG-TGACCCTTCAAGAATTTAGTCTAACACTCTCC-TT-T-GAT
*
59698878 ATTTTAAAAATGT
58 ATTTTTAAAATGT
59698891 TGTAAAAGTG
Statistics
Matches: 1116, Mismatches: 181, Indels: 111
0.79 0.13 0.08
Matches are distributed among these distances:
310 87 0.08
311 3 0.00
312 7 0.01
313 46 0.04
314 2 0.00
315 11 0.01
316 116 0.10
317 141 0.13
318 150 0.13
319 10 0.01
320 73 0.07
321 143 0.13
322 167 0.15
323 12 0.01
324 4 0.00
325 3 0.00
326 1 0.00
327 46 0.04
328 63 0.06
329 6 0.01
331 5 0.00
332 5 0.00
333 15 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (315 bp):
TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCCTTTGATATTTTTAA
AATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCCAACTGAG
CTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTTCCCTT
ACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTTTAAAAT
TGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
Found at i:59698446 original size:638 final size:638
Alignment explanation
Indices: 59697219--59698807 Score: 1723
Period size: 638 Copynumber: 2.5 Consensus size: 638
59697209 AAAAAAGCTA
* * * * * *
59697219 TGAAAGTGGATCGAGGACGTGACCCTTCAAGAATTTTGTCTAACACCCTCCTTTATAGATATCTT
1 TGAAAGTGGATCGAAGAAGTGACCCTTCAAGAATTTAGTCTAACACTCTTCTCTAT-GATATCTT
* * **
59697284 TT-AAATGTGATGAACGTGGATCGAACAGGTGACCTTTTGATCTTCAATCTAACGCTCTCCCAAC
65 TTAAAATGTGATGAACGTGGATCGAACACGTGAACTTCAGATCTTCAATCTAACGCTCTCCCAAC
* * * *
59697348 TAAGCTATACTCGCAACTGTGAA-TAAAAATAATAATTACATTGAGTATAAATTGCATCAAATTT
130 TGAGCTATCCTCGCAACTAT-AAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTT
* * * *
59697412 CCCTTACTTGACCGAACAACAAAATTCAAGTTCAGTAAATGATAAATAAGCTATGAATATTTTAA
194 CCCTTAC-TCAAC-AAC-CCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTTAA
* *
59697477 AAATTTTATTTCAACTACATTAAATGAACACTGAGGTATGGATATTTT-AAAAATGTTGTGAAAG
256 AAATTTTATTTCAACTACATTAAATGAA-ACTGAGGTATGGATATTTTAAAAAATGCTATGAAAG
** * * * *
59697541 TTGATCGACCAGGTAACCCTTCAAGTATTTAGTCTAACACTGTCCTCTTCAGATATTTTTAAAAT
320 GGGATCGAACACGTAACCCTTCAAGAATTTAGTCTAACACTCTCCTCTTCAGATATTTTTAAAAT
* * * * * * *
59697606 ATGATGAACATGGGTCGAATACTTGGACCTTTAGATCTTCAATCTGACACTCTTCCAACTAAGCT
385 ACGATGAACATGGATCAAACACGTGGACCATTAGATCATCAATCTGACACTCTTCCAACTAAGCT
* * * *
59697671 ATCCTCGCAATTATAAGTAAAAATGATAATAATTATATTGAGTATGAATTGCATCGAATTTCCCT
450 ATCCTCACAATTATAAGTAAAAATAATAATAATTAGATTGAGTATGAATTCCATCGAATTTCCCT
* * *
59697736 TACTTGATCCAACAACACAAAATTCAAGTGCATTAAATGATAACTAAGCTGTGCATATTTTAAAA
515 TACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACGAAGCTATGCATATTTTAAAA
59697801 TTGTTATTTCAACTAC-AT-T-CAATGAAAACCGAGGTATGGATATTCTAAAAATAG-AG
580 TTGTTATTTCAACTACAATATGCAATGAAAACCGAGGTATGGATATTCTAAAAAT-GTAG
* ** *
59697857 TGAAAGTGAATCGACCAAGTGACCCTTCAAGTATTTAGTCTAACACTCTTCTCTATGGATAT-TT
1 TGAAAGTGGATCGAAGAAGTGACCCTTCAAGAATTTAGTCTAACACTCTTCTCTAT-GATATCTT
** * * * * *
59697921 TTAAAATGTGATGAACGTGGGCCGAACACATGATCTTCAGATCTTCATTCTGATGCTCTCCCAA-
65 TTAAAATGTGATGAACGTGGATCGAACACGTGAACTTCAGATCTTCAATCTAACGCTCTCCCAAC
* *
59697985 TGAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATTAATTCCATCGAATTTC
130 TGAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTTC
* * * *
59698050 CCTT-C-CAACAACCCAAAATTCAAGTACATTAAATGACAACTAAGCTATGCATATTTTAAAAAT
195 CCTTACTCAACAACCCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTTAAAAAT
* * * * * *
59698113 GTTATTCCAACTACATTAAATGACAAGTGCGCTATGTATAGTTTTAAAAAATAAAGGCTATGAAA
260 TTTATTTCAACTACATTAAATGA-AACTGAGGTATGGATA-TTTTAAAAAAT----GCTATGAAA
* * * * *
59698178 GCGGGCT-GAAGACGTGACCCTTGAAGAATTTAGTCTAACACTCTCCATTTATC-GATATTTTTA
319 G-GGGATCGAACACGTAACCCTTCAAGAATTTAGTCTAACACTCTCC-TCT-TCAGATATTTTTA
* * * ** **
59698241 AAATGCGATGAACTTGGATCAAACACGT-GACCATTAGATCATCAATTTGATGCTC-TCCGAGTT
381 AAATACGATGAACATGGATCAAACACGTGGACCATTAGATCATCAATCTGACACTCTTCC-AACT
* * * * * *
59698304 GAGCTATCCTTACAATTGTGATTAAAATTAATAATAATTAGATTGAGTATGAATTCCATCGAATT
445 AAGCTATCCTCACAATTATAAGTAAAAATAATAATAATTAGATTGAGTATGAATTCCATCGAATT
* *
59698369 TCGCTTACTTGATCCAACAAC-CTAAAATTCATGTACATTAAATGATAACGAAGCTATGCATATT
510 TCCCTTACTTGATCCAACAACAC-AAAATTCAAGTACATTAAATGATAACGAAGCTATGCATATT
* ** * * * *
59698433 TTCAAAA-TGTTATTTCAACTACAATAAATGTAATGAAAATTGAGGTGTTGATATTTTAAGAATG
574 TT-AAAATTGTTATTTCAACTACAAT--ATGCAATGAAAACCGAGGTATGGATATTCTAAAAATG
*
59698497 TTG
636 TAG
* * * * * *
59698500 TCAAAGTGGATAGAAGACA-TGTCCCTTGAAGAATTTAGTATAACACTC-TC-CT-T--TATGTT
1 TGAAAGTGGATCGAAGA-AGTGACCCTTCAAGAATTTAGTCTAACACTCTTCTCTATGATATCTT
* * * * * * *
59698559 TTAAAATGCGATGAACGTGGATCAAACACGTGAACTTCAAATTTTCAGTCTAACGCTCTCCTAAT
65 TTAAAATGTGATGAACGTGGATCGAACACGTGAACTTCAGATCTTCAATCTAACGCTCTCCCAAC
* * * *
59698624 TGAGCTATCCTCGCAA-TAGTGAGTATAAATAATAATTACATTGAATATGAATTGCATCGAATTT
130 TGAGCTATCCTCGCAACTA-TAAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTT
* * *
59698688 CCCTTACTTGATCAAACAACCCAAAATTAAAGTTCATTAGATGATAATTAAGCTATGAATATTTT
194 CCCTTAC----TC-AACAACCCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTT
* *
59698753 AAAATTTTTATTTCAACTATATTAAATGAAAACTGAGGTATGGATATTTTAAAAA
254 AAAAATTTTATTTCAACTACATTAAATG-AAACTGAGGTATGGATATTTTAAAAA
59698808 TGTTGTAAAA
Statistics
Matches: 788, Mismatches: 130, Indels: 59
0.81 0.13 0.06
Matches are distributed among these distances:
632 77 0.10
633 8 0.01
634 8 0.01
636 3 0.00
637 71 0.09
638 352 0.45
639 102 0.13
640 4 0.01
641 2 0.00
642 4 0.01
643 64 0.08
644 1 0.00
645 10 0.01
646 81 0.10
647 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (638 bp):
TGAAAGTGGATCGAAGAAGTGACCCTTCAAGAATTTAGTCTAACACTCTTCTCTATGATATCTTT
TAAAATGTGATGAACGTGGATCGAACACGTGAACTTCAGATCTTCAATCTAACGCTCTCCCAACT
GAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTTCC
CTTACTCAACAACCCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTTAAAAATT
TTATTTCAACTACATTAAATGAAACTGAGGTATGGATATTTTAAAAAATGCTATGAAAGGGGATC
GAACACGTAACCCTTCAAGAATTTAGTCTAACACTCTCCTCTTCAGATATTTTTAAAATACGATG
AACATGGATCAAACACGTGGACCATTAGATCATCAATCTGACACTCTTCCAACTAAGCTATCCTC
ACAATTATAAGTAAAAATAATAATAATTAGATTGAGTATGAATTCCATCGAATTTCCCTTACTTG
ATCCAACAACACAAAATTCAAGTACATTAAATGATAACGAAGCTATGCATATTTTAAAATTGTTA
TTTCAACTACAATATGCAATGAAAACCGAGGTATGGATATTCTAAAAATGTAG
Found at i:59709688 original size:4 final size:4
Alignment explanation
Indices: 59709679--59709705 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
59709669 AAGTGTCACT
59709679 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
59709706 CATCGCTTTA
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:59719271 original size:13 final size:13
Alignment explanation
Indices: 59719253--59719277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59719243 AGTTTGGTTT
59719253 TTAATTTTTCATA
1 TTAATTTTTCATA
59719266 TTAATTTTTCAT
1 TTAATTTTTCAT
59719278 TTTGGATTTT
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTTTTCATA
Found at i:59721941 original size:14 final size:14
Alignment explanation
Indices: 59721922--59721951 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59721912 GAAACAGCAA
59721922 AATTTAACTTAATG
1 AATTTAACTTAATG
59721936 AATTTAACTTAATG
1 AATTTAACTTAATG
59721950 AA
1 AA
59721952 AAGTACAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
AATTTAACTTAATG
Found at i:59729119 original size:256 final size:256
Alignment explanation
Indices: 59728664--59729177 Score: 866
Period size: 256 Copynumber: 2.0 Consensus size: 256
59728654 TATCCATCCA
*
59728664 CACAATGCCAATGGCAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
1 CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
* * *
59728729 AAGTCATGCCATACACAAGTCCTGTACCCAACATACCAGCTATGGGCCCGATCATCTTTAGAGCA
66 AAGTCATGCCATACACAAGTCATGTACACAACATACCAGCTATGGGCCCGATCATCTTTAAAGCA
* * * * * *
59728794 TAAGCCTCCACTTATATCAAAGCACATGATTTGTATACGCATAGTTAGTGGCTAACTCATGATTT
131 TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATAGTCAGTGACTAACTCAGGATTT
59728859 AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
196 AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
*
59728920 CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCATTGTTGCTAGTA
1 CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
* ** *
59728985 AAGTCATGCCATACACAAGTCATGTACACAACATATCAGCTATGGGCTTGATCGTCTTTAAAGCA
66 AAGTCATGCCATACACAAGTCATGTACACAACATACCAGCTATGGGCCCGATCATCTTTAAAGCA
* *
59729050 TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATGGTCAGTGACTAACTTAGGATTT
131 TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATAGTCAGTGACTAACTCAGGATTT
*
59729115 AGGTAAATCAAACCATGAATGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
196 AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
59729176 CA
1 CA
59729178 TTTTGGGTCC
Statistics
Matches: 240, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
256 240 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (256 bp):
CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
AAGTCATGCCATACACAAGTCATGTACACAACATACCAGCTATGGGCCCGATCATCTTTAAAGCA
TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATAGTCAGTGACTAACTCAGGATTT
AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
Found at i:59730393 original size:39 final size:39
Alignment explanation
Indices: 59730339--59730424 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
59730329 TTCCCCCATT
* *
59730339 TAAATACAAAATATACCCTGAACCTTAAAC-CATAAACCC
1 TAAATACAAAATATACCCTGAACCCTAAACTC-TAAACAC
59730378 TAAATACAAAATATACCCTGAACCCTAAACTCTAAACAC
1 TAAATACAAAATATACCCTGAACCCTAAACTCTAAACAC
*
59730417 AAAATACA
1 TAAATACA
59730425 CCGTACTACT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 42 0.98
40 1 0.02
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (39 bp):
TAAATACAAAATATACCCTGAACCCTAAACTCTAAACAC
Found at i:59731101 original size:9 final size:9
Alignment explanation
Indices: 59731087--59731266 Score: 53
Period size: 9 Copynumber: 18.9 Consensus size: 9
59731077 ATGAATAAAA
59731087 ATAAAATTT
1 ATAAAATTT
*
59731096 ATAAAAATT
1 ATAAAATTT
* *
59731105 AAAAAAATT
1 ATAAAATTT
**
59731114 A-AAAAAAT
1 ATAAAATTT
*
59731122 ATGAAAATTG
1 AT-AAAATTT
*
59731132 ATATAAA-CT
1 ATA-AAATTT
59731141 ATAAAATTT
1 ATAAAATTT
*
59731150 ATAAAATTA
1 ATAAAATTT
59731159 ATAAAACATATT
1 AT-AAA-AT-TT
59731171 -TAAAATTTT
1 ATAAAA-TTT
**
59731180 ATAAAAACAT
1 AT-AAAATTT
59731190 ATTAAAATTCT
1 A-TAAAATT-T
* *
59731201 ACAAAAATCAT
1 A-TAAAAT-TT
*
59731212 AAAAAATTT
1 ATAAAATTT
*
59731221 GTAAAAATTT
1 AT-AAAATTT
*
59731231 ATAAAA-GT
1 ATAAAATTT
*
59731239 ATTAAAATTG
1 A-TAAAATTT
*
59731249 ATATAAACTT
1 ATA-AAATTT
59731259 ATAAAATT
1 ATAAAATT
59731267 AAAAAAATAA
Statistics
Matches: 126, Mismatches: 28, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
8 12 0.10
9 51 0.40
10 45 0.36
11 17 0.13
12 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAAAATTT
Found at i:59731104 original size:10 final size:10
Alignment explanation
Indices: 59731089--59731236 Score: 71
Period size: 10 Copynumber: 15.3 Consensus size: 10
59731079 GAATAAAAAT
59731089 AAAATTTATA
1 AAAATTTATA
59731099 AAAA-TTA-A
1 AAAATTTATA
*
59731107 AAAAATTA-A
1 AAAATTTATA
* *
59731116 AAAA-ATATG
1 AAAATTTATA
*
59731125 AAAATTGATA
1 AAAATTTATA
* *
59731135 TAAA-CTAT-
1 AAAATTTATA
59731143 AAAATTTAT-
1 AAAATTTATA
*
59731152 AAAATTAATA
1 AAAATTTATA
59731162 AAACATATT-TA
1 AAA-AT-TTATA
*
59731173 AAATTTTATA
1 AAAATTTATA
** *
59731183 AAAACATATT
1 AAAATTTATA
*
59731193 AAAATTCTACA
1 AAAATT-TATA
*
59731204 AAAA-TCATAA
1 AAAATTTAT-A
*
59731214 AAAATTTGTA
1 AAAATTTATA
59731224 AAAATTTATA
1 AAAATTTATA
59731234 AAA
1 AAA
59731237 GTATTAAAAT
Statistics
Matches: 101, Mismatches: 26, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
8 10 0.10
9 31 0.31
10 44 0.44
11 15 0.15
12 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAATTTATA
Found at i:59731185 original size:21 final size:21
Alignment explanation
Indices: 59731151--59731198 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
59731141 ATAAAATTTA
59731151 TAAAA-TTAAT-AAAACATATT
1 TAAAATTTAATAAAAACATA-T
*
59731171 TAAAATTTTATAAAAACATAT
1 TAAAATTTAATAAAAACATAT
59731192 TAAAATT
1 TAAAATT
59731199 CTACAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 12 0.48
22 8 0.32
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTTAATAAAAACATAT
Found at i:59731206 original size:21 final size:22
Alignment explanation
Indices: 59731161--59731212 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
59731151 TAAAATTAAT
* *
59731161 AAAACATATTTAAAATTTTATA
1 AAAACATATTTAAAATTCTACA
59731183 AAAACATA-TTAAAATTCTACA
1 AAAACATATTTAAAATTCTACA
59731204 AAAATCATA
1 AAAA-CATA
59731213 AAAAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAACATATTTAAAATTCTACA
Found at i:59731207 original size:22 final size:22
Alignment explanation
Indices: 59731161--59731212 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
59731151 TAAAATTAAT
* *
59731161 AAAACATATTTAAAATTTTATA
1 AAAACATATTTAAAATTCTAAA
59731183 AAAACATA-TTAAAATTCTACAA
1 AAAACATATTTAAAATTCTA-AA
*
59731205 AAATCATA
1 AAAACATA
59731213 AAAAATTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAACATATTTAAAATTCTAAA
Found at i:59731273 original size:28 final size:27
Alignment explanation
Indices: 59731211--59731285 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
59731201 ACAAAAATCA
* *
59731211 TAAAAAATTTGTAAAAATTTATAAAAG
1 TAAAAAAATTGTAAAAACTTATAAAAG
** * *
59731238 TATTAAAATTGATATAAACTTATAAAAT
1 TAAAAAAATTG-TAAAAACTTATAAAAG
**
59731266 TAAAAAAATAATAAAAACTT
1 TAAAAAAATTGTAAAAACTT
59731286 GAACTTGATC
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
27 16 0.44
28 20 0.56
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (27 bp):
TAAAAAAATTGTAAAAACTTATAAAAG
Found at i:59731695 original size:9 final size:9
Alignment explanation
Indices: 59731681--59731927 Score: 73
Period size: 9 Copynumber: 26.6 Consensus size: 9
59731671 ATTTATGATT
59731681 TTTTTATAA
1 TTTTTATAA
59731690 TTTTTATAA
1 TTTTTATAA
* **
59731699 GCTTAAATCAA
1 -TTTTTAT-AA
*
59731710 TTTTAAT-A
1 TTTTTATAA
59731718 TTTTTATAGCA
1 TTTTTATA--A
*
59731729 TTTTTACAA
1 TTTTTATAA
*
59731738 TTTTTATTA
1 TTTTTATAA
59731747 TTTTTAATAA
1 TTTTT-ATAA
* *
59731757 TTCTAATACA
1 TTTTTATA-A
59731767 TTTTT-TAA
1 TTTTTATAA
*
59731775 ATTTTA-AA
1 TTTTTATAA
59731783 TATTTTAAATAA
1 T-TTTT--ATAA
* *
59731795 GTTCTATTAA
1 TTTTTA-TAA
59731805 -TTTTATAA
1 TTTTTATAA
59731813 -TTTTATAA
1 TTTTTATAA
* *
59731821 TATTTACAA
1 TTTTTATAA
*
59731830 GTTTGTATAA
1 -TTTTTATAA
59731840 TTTTTTTAAATAA
1 --TTTTT--ATAA
*
59731853 TTTTAATAA
1 TTTTTATAA
*
59731862 GTTTATATCAA
1 -TTTTTAT-AA
* **
59731873 TGTAAAT-A
1 TTTTTATAA
*
59731881 TTTTTAAAA
1 TTTTTATAA
59731890 TTTTTA-AA
1 TTTTTATAA
*
59731898 TATTTA-ACA
1 TTTTTATA-A
59731907 TTTTT-T-A
1 TTTTTATAA
59731914 TTTTTATAA
1 TTTTTATAA
59731923 TTTTT
1 TTTTT
59731928 TTTCTAATTT
Statistics
Matches: 176, Mismatches: 37, Indels: 50
0.67 0.14 0.19
Matches are distributed among these distances:
7 6 0.03
8 38 0.22
9 64 0.36
10 38 0.22
11 24 0.14
12 2 0.01
13 4 0.02
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (9 bp):
TTTTTATAA
Found at i:59731769 original size:38 final size:37
Alignment explanation
Indices: 59731710--59731825 Score: 103
Period size: 38 Copynumber: 3.1 Consensus size: 37
59731700 CTTAAATCAA
* * *
59731710 TTTTAAT-ATTTTTATAGCATTTTTACAATTTTTATTAT
1 TTTTAATAATTCTAATA-CATTTTTA-AATTTTTAATAT
*
59731748 TTTTAATAATTCTAATACATTTTTTAAATTTTAAATAT
1 TTTTAATAATTCTAATACA-TTTTTAAATTTTTAATAT
* *
59731786 TTTAAATAAGTTCTATTA-A-TTTTATAATTTTATAATAT
1 TTTTAATAA-TTCTAATACATTTTTA-AATTTT-TAATAT
59731824 TT
1 TT
59731826 ACAAGTTTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
36 5 0.08
37 6 0.09
38 35 0.53
39 20 0.30
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (37 bp):
TTTTAATAATTCTAATACATTTTTAAATTTTTAATAT
Found at i:59735169 original size:18 final size:18
Alignment explanation
Indices: 59735146--59735182 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59735136 GAAAATAAAT
59735146 TATTAAAAAATAAAAAAA
1 TATTAAAAAATAAAAAAA
* *
59735164 TATTAAAAATTATAAAAA
1 TATTAAAAAATAAAAAAA
59735182 T
1 T
59735183 TGGTTTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TATTAAAAAATAAAAAAA
Found at i:59743191 original size:3 final size:3
Alignment explanation
Indices: 59743183--59743230 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
59743173 GTACTTTTGC
59743183 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59743231 CATCTTTACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59743437 original size:37 final size:37
Alignment explanation
Indices: 59743383--59743464 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
59743373 AATTTGTTTA
* *
59743383 ATATATATATACGTATAC-TCATATTTCTTTTTTATAT
1 ATATATATATACATATACAT-ATATTTATTTTTTATAT
* *
59743420 ATATCTATATACATATACATATTTTTATTTTTTATA-
1 ATATATATATACATATACATATATTTATTTTTTATAT
59743456 AGTATATAT
1 A-TATATAT
59743465 TTATATGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
36 1 0.03
37 36 0.95
38 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (37 bp):
ATATATATATACATATACATATATTTATTTTTTATAT
Found at i:59743484 original size:14 final size:14
Alignment explanation
Indices: 59743450--59743484 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
59743440 ATTTTTATTT
*
59743450 TTTATAAGTATATA
1 TTTATATGTATATA
*
59743464 TTTATATGTATGTA
1 TTTATATGTATATA
59743478 TTTATAT
1 TTTATAT
59743485 ATTTTTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (14 bp):
TTTATATGTATATA
Found at i:59743711 original size:18 final size:18
Alignment explanation
Indices: 59743688--59743724 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59743678 TATACACCTA
59743688 TATATATATACATATTTT
1 TATATATATACATATTTT
*
59743706 TATATATATGCATATTTT
1 TATATATATACATATTTT
59743724 T
1 T
59743725 CTTCTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:59766259 original size:64 final size:62
Alignment explanation
Indices: 59766070--59766415 Score: 246
Period size: 64 Copynumber: 5.3 Consensus size: 62
59766060 TTATCAAGGC
*** * * * *
59766070 TAGCTGATTTAAGATAAAAACCTAACTTTATTCGATTTAAGATCATGAACAATTTTGTTCAAGT
1 TAGCTGATTTAAGATCGCAACCTAAGTTCATT-GATTTAAGATCATGAACAATTTTATT-AGGT
** * * ** * * * * *
59766134 TAATTAATTTAATATCGCAACTCTGAACAACTCGTTGATTTAACATCA-CAACTGATATTATTAC
1 TAGCTGATTTAAGATCGCAAC-CT--A-AGTTCATTGATTTAAGATCATGAAC-AATTTTATTA-
59766198 GGT
60 GGT
* *
59766201 TAGCTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTATTTGGT
1 TAGCTGATTTAAGATCGCAACCTAAGTTCATT-GATTTAAGATCATGAACAATTTTATTAGGT
* * * * * * *
59766264 TAGCTGATTTAATATTGCAACTCCAAACAGCTCGTTGATTTAAGATCA-CAACTAATATTATTAA
1 TAGCTGATTTAAGATCGCAA--CC-TA-AGTTCATTGATTTAAGATCATGAAC-AATTTTATT-A
*
59766328 TGT
60 GGT
* * *
59766331 TAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAATAATTTTATTTAAGT
1 TAGCTGATTTAAGATCGCAACCTAAGTTCA-TTGATTTAAGATCATGAACAATTTTA-TTAGGT
59766395 TAGCTGATTTAAGATCGCAAC
1 TAGCTGATTTAAGATCGCAAC
59766416 TGATATTATC
Statistics
Matches: 216, Mismatches: 49, Indels: 34
0.72 0.16 0.11
Matches are distributed among these distances:
63 31 0.14
64 77 0.36
65 16 0.07
66 27 0.12
67 61 0.28
68 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (62 bp):
TAGCTGATTTAAGATCGCAACCTAAGTTCATTGATTTAAGATCATGAACAATTTTATTAGGT
Found at i:59766333 original size:130 final size:130
Alignment explanation
Indices: 59765984--59766416 Score: 544
Period size: 131 Copynumber: 3.3 Consensus size: 130
59765974 ATAATCTGTT
* * * * * *
59765984 ATGAACAATTTT-TTTGTGTTAGTTTATTTAATTTAGCAACTCCGAACAACTTGTTGATTTAAGA
1 ATGAACAATTTTATTT-AGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGA
* * ** * *
59766048 TCACAACTGATATTATCAAGGCTAGCTGATTTAAGATAAAAACCTAACTTTATTCGATTTAAGAT
65 TCACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGAT
59766113 C
130 C
* * ** * * *
59766114 ATGAACAATTTTGTTCAAGTTAATTAATTTAATATCGCAACTCTGAACAACTCGTTGATTTAACA
1 ATGAACAATTTTATT-TAGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGA
* *
59766179 TCACAACTGATATTATTACGGTTAGCTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAAGAT
65 TCACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGAT
59766244 C
130 C
* * * *
59766245 ATGAACAATTTTATTTGGTTAGCTGATTTAATATTGCAACTCCAAACAGCTCGTTGATTTAAGAT
1 ATGAACAATTTTATTTAGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGAT
* * * * *
59766310 CACAACTAATATTATTAATGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATC
66 CACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGATC
* *
59766375 ATGAATAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACT
1 ATGAACAATTTTATTT-AGTTAGCTGATTTAATATCGCAACT
59766417 GATATTATCA
Statistics
Matches: 262, Mismatches: 38, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
130 126 0.48
131 136 0.52
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (130 bp):
ATGAACAATTTTATTTAGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGAT
CACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGATC
Found at i:59774181 original size:10 final size:10
Alignment explanation
Indices: 59774166--59774199 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
59774156 AAGTTTTAGA
*
59774166 TTTAATCTTT
1 TTTAATTTTT
59774176 TTTAATTTTT
1 TTTAATTTTT
*
59774186 TTTAGTTTTT
1 TTTAATTTTT
59774196 TTTA
1 TTTA
59774200 GTTTCTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:59774200 original size:10 final size:10
Alignment explanation
Indices: 59774173--59774203 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
59774163 AGATTTAATC
*
59774173 TTTTTTAATT
1 TTTTTTAGTT
59774183 TTTTTTAGTT
1 TTTTTTAGTT
59774193 TTTTTTAGTT
1 TTTTTTAGTT
59774203 T
1 T
59774204 CTCAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (10 bp):
TTTTTTAGTT
Found at i:59774734 original size:27 final size:28
Alignment explanation
Indices: 59774704--59774760 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
59774694 ACTCATTTTT
*
59774704 TTATATTTAAATA-TCTTTTTTGAAGAA
1 TTATATTTAAATATTCTTTTTTGAAAAA
* *
59774731 TTATGTTTAAATATTTTTTTTTGAAAAA
1 TTATATTTAAATATTCTTTTTTGAAAAA
59774759 TT
1 TT
59774761 TAAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (28 bp):
TTATATTTAAATATTCTTTTTTGAAAAA
Found at i:59777008 original size:16 final size:18
Alignment explanation
Indices: 59776987--59777019 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
59776977 TGATATAATA
59776987 AAATAT-TTTT-AAAAAT
1 AAATATCTTTTGAAAAAT
59777003 AAATATCTTTTGAAAAA
1 AAATATCTTTTGAAAAA
59777020 AGACGCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
AAATATCTTTTGAAAAAT
Found at i:59778714 original size:20 final size:20
Alignment explanation
Indices: 59778655--59778714 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
59778645 AAAACTATAA
*
59778655 ATTTTAGAATTTTT-ATAAAT
1 ATTTTA-AATTTTTGATAATT
* * *
59778675 ATTTTGATTTTTTGAAAATT
1 ATTTTAAATTTTTGATAATT
*
59778695 ATTTTAAATTTTTGGTAATT
1 ATTTTAAATTTTTGATAATT
59778715 TTTGTTGATA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTAAATTTTTGATAATT
Found at i:59780379 original size:18 final size:18
Alignment explanation
Indices: 59780356--59780392 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
59780346 TAAATCTTTT
59780356 TATGGATTTATTCACTTG
1 TATGGATTTATTCACTTG
59780374 TATGGATTTATTCACTTG
1 TATGGATTTATTCACTTG
59780392 T
1 T
59780393 GACGTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (18 bp):
TATGGATTTATTCACTTG
Found at i:59783625 original size:17 final size:17
Alignment explanation
Indices: 59783603--59783635 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59783593 ACGAAAATGA
59783603 ATTTTATATTTT-GTGAT
1 ATTTTA-ATTTTAGTGAT
59783620 ATTTTAATTTTAGTGA
1 ATTTTAATTTTAGTGA
59783636 GACATGGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTTTAATTTTAGTGAT
Found at i:59789211 original size:18 final size:19
Alignment explanation
Indices: 59789180--59789216 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
59789170 CTCAAACTAA
59789180 ACATTTTTCTTTAAGTAGC
1 ACATTTTTCTTTAAGTAGC
59789199 ACATTTTTC-TTAAGTAGC
1 ACATTTTTCTTTAAGTAGC
59789217 TTAGCCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (19 bp):
ACATTTTTCTTTAAGTAGC
Found at i:59793029 original size:18 final size:19
Alignment explanation
Indices: 59792998--59793034 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
59792988 CTCAAACTTA
59792998 ACATTTTTCTTTAAGTAGC
1 ACATTTTTCTTTAAGTAGC
59793017 ACATTTTTC-TTAAGTAGC
1 ACATTTTTCTTTAAGTAGC
59793035 TTAGCCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (19 bp):
ACATTTTTCTTTAAGTAGC
Found at i:59805604 original size:9 final size:9
Alignment explanation
Indices: 59805590--59805661 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
59805580 AAATTAATTA
59805590 ATTTTTAAT
1 ATTTTTAAT
59805599 ATTTTTAA-
1 ATTTTTAAT
59805607 A-TTTTAAT
1 ATTTTTAAT
*
59805615 AATTTTT-TT
1 -ATTTTTAAT
*
59805624 ATTTTT-TT
1 ATTTTTAAT
*
59805632 ATTTTTTACAA
1 A-TTTTTA-AT
59805643 ATTTTTAAT
1 ATTTTTAAT
*
59805652 AGTTTTAAT
1 ATTTTTAAT
59805661 A
1 A
59805662 ACTTTCTTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
7 6 0.12
8 10 0.19
9 25 0.48
10 10 0.19
11 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:59805611 original size:16 final size:17
Alignment explanation
Indices: 59805587--59805621 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
59805577 TAGAAATTAA
*
59805587 TTAATTTTTAAT-ATTT
1 TTAAATTTTAATAATTT
59805603 TTAAATTTTAATAATTT
1 TTAAATTTTAATAATTT
59805620 TT
1 TT
59805622 TTATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTAAATTTTAATAATTT
Found at i:59805621 original size:27 final size:26
Alignment explanation
Indices: 59805583--59805659 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
59805573 ACATTAGAAA
59805583 TTAATTAATTTTTAATATTTTTAAATT
1 TTAA-TAATTTTTAATATTTTTAAATT
* * **
59805610 TTAATAATTTTTTTATTTTTTTATTTT
1 TTAATAA-TTTTTAATATTTTTAAATT
*
59805637 TTACA-AATTTTTAATAGTTTTAA
1 TTA-ATAATTTTTAATATTTTTAA
59805660 TAACTTTCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
26 15 0.38
27 24 0.60
28 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (26 bp):
TTAATAATTTTTAATATTTTTAAATT
Found at i:59805661 original size:46 final size:43
Alignment explanation
Indices: 59805591--59805691 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 43
59805581 AATTAATTAA
* * *
59805591 TTTTTAATATTTTTAAATTTTAATAATTTTTTTATTTTTTTAT
1 TTTTTAAAATTTTTAAATTTTAATAACTTTCTTATTTTTTTAT
59805634 TTTTTACAAATTTTTAATAGTTTTAATAACTTTCTTATTTTTCTTAGAT
1 TTTTTA-AAATTTTTAA-A-TTTTAATAACTTTCTTATTTTT-TT--AT
59805683 TTTTTAAAA
1 TTTTTAAAA
59805692 AATTAATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 6 0.12
44 9 0.18
45 1 0.02
46 20 0.41
47 2 0.04
48 3 0.06
49 8 0.16
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (43 bp):
TTTTTAAAATTTTTAAATTTTAATAACTTTCTTATTTTTTTAT
Found at i:59808252 original size:17 final size:17
Alignment explanation
Indices: 59808231--59808263 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
59808221 AAATAGAAAT
59808231 TAAAAAATT-TTTAAAA
1 TAAAAAATTATTTAAAA
59808247 TAAAAAATTATTTAAAA
1 TAAAAAATTATTTAAAA
59808264 GTTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAAATTATTTAAAA
Found at i:59809006 original size:20 final size:20
Alignment explanation
Indices: 59808981--59809022 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
59808971 TATTCATTCA
*
59808981 TTTATAATTTTATATGTATT
1 TTTATAATTTTATATATATT
* *
59809001 TTTATAGTTTTGTATATATT
1 TTTATAATTTTATATATATT
59809021 TT
1 TT
59809023 GTCGAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTATAATTTTATATATATT
Found at i:59809074 original size:25 final size:24
Alignment explanation
Indices: 59809032--59809080 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
59809022 TGTCGAAAAA
59809032 TAAATTTTTAAATATTTTCCTTTT
1 TAAATTTTTAAATATTTTCCTTTT
* * *
59809056 TAAAGTTTTTTAATTTTTTGCTTTT
1 TAAA-TTTTTAAATATTTTCCTTTT
59809081 GAATATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (24 bp):
TAAATTTTTAAATATTTTCCTTTT
Found at i:59823246 original size:23 final size:22
Alignment explanation
Indices: 59823220--59823273 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
59823210 TGTATACACG
59823220 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
59823243 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
59823265 TAC-TAATAA
1 TACATAATAA
59823274 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:59823254 original size:3 final size:3
Alignment explanation
Indices: 59823223--59823293 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
59823213 ATACACGTAC
* * * *
59823223 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
59823270 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
59823294 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:59824768 original size:41 final size:40
Alignment explanation
Indices: 59824701--59824813 Score: 190
Period size: 41 Copynumber: 2.8 Consensus size: 40
59824691 GTGTTTTTAG
* *
59824701 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
59824741 TCTGCTCCACTAACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACT-ACTGCTTAGGGAGATAAGACTTGATGCGA
*
59824782 TCTGCTCCACTATTGCTTAGGGAGATAAGACT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACT
59824814 GTAATCTTCG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 31 0.45
41 38 0.55
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:59825194 original size:186 final size:186
Alignment explanation
Indices: 59825000--59825553 Score: 1072
Period size: 186 Copynumber: 3.0 Consensus size: 186
59824990 GAGTTATCGG
* *
59825000 CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCAGC
1 CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
59825065 TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGA
66 TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGA
59825130 TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGA
131 TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGA
59825186 CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
*
59825251 TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTTAGAGAGA
66 TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGA
59825316 TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGA
131 TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGA
59825372 CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
*
59825437 TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAAAGAGA
66 TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGA
59825502 TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
131 TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
59825554 GAAATTCTTC
Statistics
Matches: 363, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 363 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (186 bp):
CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGA
TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGA
Found at i:59825400 original size:142 final size:141
Alignment explanation
Indices: 59825254--59825523 Score: 339
Period size: 142 Copynumber: 1.9 Consensus size: 141
59825244 AATCCGCTCC
* * *
59825254 ACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAATCTT-AGAGAGAT
1 ACTGTAACTTCAGAGAGATAAGATCT-CTA-CTTCAATCCACTCCACTGTAA-CTTCAGAGAGAT
* * **
59825317 AAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGACTTCAATCT
63 AAGAT-TACTAGCTTCAATCTACTCCACTGTAACCTCAAAGAGATAAGATCTCTGACTTCAATCT
59825381 GATGTGATCTACTCT
127 GATGTGATCTACTCT
* * * * *
59825396 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAG
1 ACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAA
* * *
59825461 GATTACTAGCTTCAATCTACTCCGCTGTAATCTCAAAGAGATAAGATCTCTGGCTTCAATCTG
65 GATTACTAGCTTCAATCTACTCCACTGTAACCTCAAAGAGATAAGATCTCTGACTTCAATCTG
59825524 CTCCACTGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
141 4 0.04
142 102 0.94
143 2 0.02
144 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (141 bp):
ACTGTAACTTCAGAGAGATAAGATCTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAAG
ATTACTAGCTTCAATCTACTCCACTGTAACCTCAAAGAGATAAGATCTCTGACTTCAATCTGATG
TGATCTACTCT
Found at i:59825489 original size:44 final size:44
Alignment explanation
Indices: 59825015--59825639 Score: 416
Period size: 44 Copynumber: 13.8 Consensus size: 44
59825005 ATCTGATGTG
* * * *
59825015 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTA-TTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATC-TCTAGCTTCA
*
59825059 ATC-AGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTA-CTCCACTGTAACTTCAGAGAGATAAGATCT-CTAGCTTCA
* *
59825103 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTCTAGCTTCA
* * *
59825147 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCT-GACTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAG-CTTCA
* * *
59825191 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTA
1 ATC-----T-A-CT-C-C-ACTGTAACTTCAGAGAGATAAGAT-CTCTAGCTTCA
** *
59825245 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT-CTAGCTTCA
* *
59825289 ATCTACTCCGCTGTAATCTT-AGAGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAA-CTTCAGAGAGATAAGATCTCTAGCTTCA
* * *
59825333 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCT-GACTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAG-CTTCA
* * *
59825377 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTA
1 ATC-----T-A-CT-C-C-ACTGTAACTTCAGAGAGATAAGAT-CTCTAGCTTCA
** *
59825431 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT-CTAGCTTCA
* * *
59825475 ATCTACTCCGCTGTAA-TCTCAAAGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTCTAGCTTCA
* * * ** * *
59825519 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT-CTA-GCTTCA
* * * * * * * *
59825565 GTCTACTCCCCTGTAACCTCAGGGTGATAAGA-C-CT-GATGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGCTTCA
**
59825606 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATC
59825640 CTTTATTTTA
Statistics
Matches: 459, Mismatches: 76, Indels: 94
0.73 0.12 0.15
Matches are distributed among these distances:
41 29 0.06
42 4 0.01
43 13 0.03
44 293 0.64
45 10 0.02
46 34 0.07
47 4 0.01
49 2 0.00
51 4 0.01
52 2 0.00
53 2 0.00
54 56 0.12
55 6 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGCTTCA
Found at i:59825677 original size:44 final size:44
Alignment explanation
Indices: 59825385--59825853 Score: 180
Period size: 44 Copynumber: 10.7 Consensus size: 44
59825375 CAATCTGATG
* * *
59825385 TGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTT
1 TGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTT
* * * * * *
59825429 TAATCCGCTCCACTGTAA-CTTCAGAGAGATAGGAT--TACTAGCTT
1 TGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCT-TTA-TTT
** * * ** ***
59825473 CAATCTACTCCGCTGTAATCTCAAAGAGATAAGAT-CTCTGGCTT
1 TGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTATTT
** * **
59825517 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCT
1 TGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTATT-T
* * * * * * *
59825562 TCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGA-CC-TGA-TG
1 T-GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTT
* * ** *
59825604 CGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTT
1 TGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTT
* * * **
59825648 TAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-CTGAAATTCTT
1 TGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-T-TT
* * * * * *
59825694 TGGTCTGTTCCACTGTAACCTCAGGGTGATAAGA-CC-TGA-TA
1 TGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTT
* * ** *
59825735 CGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTT
1 TGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTT
* * * *
59825779 TAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTATCTT
1 TGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTAT-TT
*
59825823 TGATCTGCTCCGCTGTAATCTCAGGGAGATA
1 TGATCTGCTCCACTGTAATCTCAGGGAGATA
59825854 GAATTATCGG
Statistics
Matches: 316, Mismatches: 86, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.01
41 51 0.16
42 6 0.02
43 12 0.04
44 180 0.57
45 6 0.02
46 59 0.19
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTT
Found at i:59825810 original size:131 final size:131
Alignment explanation
Indices: 59825475--59825813 Score: 520
Period size: 131 Copynumber: 2.6 Consensus size: 131
59825465 ACTAGCTTCA
* * *** * * *
59825475 ATCTACTCCGCTGTAA-TCTCAAAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCT
1 ATCTACTCTGCTGTAACT-TCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAATCT
* *
59825538 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGAT
64 CAGGGAGATAGGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGTGATAAGACCTGAT
*
59825603 GCG
129 ACG
59825606 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
* **
59825671 GGGAGATAGGATCTGAAATTCTTTGGTCTGTTCCACTGTAACCTCAGGGTGATAAGACCTGATAC
66 GGGAGATAGGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGTGATAAGACCTGATAC
59825736 G
131 G
59825737 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
59825802 GGGAGATAGGAT
66 GGGAGATAGGAT
59825814 TACTATCTTT
Statistics
Matches: 192, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
131 189 0.98
132 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
GGGAGATAGGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGTGATAAGACCTGATAC
G
Found at i:59826176 original size:86 final size:86
Alignment explanation
Indices: 59826042--59826477 Score: 656
Period size: 86 Copynumber: 5.1 Consensus size: 86
59826032 AAATCTGCCA
* * * * *
59826042 TCTTTGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTA
59826107 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* * *
59826129 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
*
59826194 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
59826215 TCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
*
59826280 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
59826301 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGAAAGATCTGATAGCTTCAACTAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
* *
59826366 GACCGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
59826387 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAGCTTCAACTAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
* * *
59826452 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
59826473 TCTTC
1 TCTTC
59826478 AATTTTTACT
Statistics
Matches: 327, Mismatches: 22, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
86 308 0.94
87 19 0.06
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:59827091 original size:108 final size:108
Alignment explanation
Indices: 59826902--59827097 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 108
59826892 GAAAAATGCT
* **
59826902 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTATAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGCCGAGAGCAAAGCTATAAACAAACAAAT
*
59826967 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGTATAAGA
66 CAATCAAGATAGCAAATGTTGCTGAGATACGAGATGTATAAGA
* * * * **
59827010 TGAAAAAGATTATCACAATGGATAAGATGAAAATTTGCCGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGCCGAGAGCAAAGCTATAAACAAACAAAT
*
59827075 TAATCAAGATAGCAAATGTTGCT
66 CAATCAAGATAGCAAATGTTGCT
59827098 AGAATACAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 77 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGCCGAGAGCAAAGCTATAAACAAACAAAT
CAATCAAGATAGCAAATGTTGCTGAGATACGAGATGTATAAGA
Found at i:59827444 original size:6 final size:6
Alignment explanation
Indices: 59827433--59827476 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
59827423 TTGGCCTCTC
*
59827433 CTTTTT CTTTTT CTTTTT TTTTTT CATTTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT C--TTTTT C-TTTTT CTTTT
59827477 CGTTTTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 21 0.64
7 6 0.18
8 6 0.18
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:59827465 original size:20 final size:20
Alignment explanation
Indices: 59827440--59827486 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
59827430 CTCCTTTTTC
* *
59827440 TTTTTCTTTTTTTTTTTCAT
1 TTTTTCATTTTTCTTTTCAT
*
59827460 TTTTTCATTTTTCTTTTCGT
1 TTTTTCATTTTTCTTTTCAT
59827480 TTTTTCA
1 TTTTTCA
59827487 AGTGAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTCATTTTTCTTTTCAT
Found at i:59827956 original size:16 final size:15
Alignment explanation
Indices: 59827917--59827972 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
59827907 GAGGTTTTTC
*
59827917 TTTTA-TTTGTTTAT
1 TTTTATTTTTTTTAT
**
59827931 TTGTT-TTTTTTTGCT
1 TT-TTATTTTTTTTAT
59827946 TTTTATTTTTTTTAT
1 TTTTATTTTTTTTAT
59827961 TTTTATTTTTTT
1 TTTTATTTTTTT
59827973 GCCTCCACTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 4 0.12
15 30 0.88
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTTTTAT
Found at i:59827962 original size:30 final size:29
Alignment explanation
Indices: 59827917--59827974 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
59827907 GAGGTTTTTC
59827917 TTTTATTTGTTTATTTGTT-TTTTTTTGCT
1 TTTTATTTGTTTATTT-TTATTTTTTTGCT
*
59827946 TTTTATTTTTTTTATTTTTATTTTTTTGC
1 TTTTA-TTTGTTTATTTTTATTTTTTTGC
59827975 CTCCACTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.09, C:0.03, G:0.07, T:0.81
Consensus pattern (29 bp):
TTTTATTTGTTTATTTTTATTTTTTTGCT
Found at i:59831876 original size:23 final size:23
Alignment explanation
Indices: 59831857--59831910 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
59831847 TGTATACACG
59831857 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
59831880 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
59831902 TAC-TAATAA
1 TACATAATAA
59831911 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:59831891 original size:3 final size:3
Alignment explanation
Indices: 59831860--59831930 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
59831850 ATACACGTAC
* * * *
59831860 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
59831907 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
59831931 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:59841095 original size:24 final size:24
Alignment explanation
Indices: 59841063--59841113 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
59841053 TTTTAATAAG
*
59841063 ATTTAATATTAAATTTAATCTAAT
1 ATTTAATATTAAATTAAATCTAAT
* * *
59841087 ATTTGATATTAGATTAAATTTAAT
1 ATTTAATATTAAATTAAATCTAAT
59841111 ATT
1 ATT
59841114 AAAGTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTAATATTAAATTAAATCTAAT
Found at i:59846068 original size:19 final size:18
Alignment explanation
Indices: 59846020--59846079 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 18
59846010 ATTTAATTAC
59846020 AAATATTTAATTATTATATTT
1 AAATATTTAA--A-TATATTT
59846041 AAATATTTAAATATAGTTT
1 AAATATTTAAATATA-TTT
* *
59846060 ATAAT-TTTAATTAAATTT
1 A-AATATTTAAATATATTT
59846078 AA
1 AA
59846080 TAAATAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 1 0.03
18 8 0.23
19 13 0.37
20 3 0.09
21 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AAATATTTAAATATATTT
Found at i:59846344 original size:13 final size:14
Alignment explanation
Indices: 59846308--59846344 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
59846298 CACTCAAATG
59846308 TTTCAAAAACACTT
1 TTTCAAAAACACTT
*
59846322 TTTC-ACAACAC-T
1 TTTCAAAAACACTT
59846334 TTTCAAAAACA
1 TTTCAAAAACA
59846345 AGAATTGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.25
13 11 0.55
14 4 0.20
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
TTTCAAAAACACTT
Found at i:59852521 original size:3 final size:3
Alignment explanation
Indices: 59852457--59852512 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
59852447 TTTGTTAACT
*
59852457 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
59852502 TTA TTA GTA TT
1 TTA TTA TTA TT
59852513 GGTATTATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.98
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:59855070 original size:19 final size:20
Alignment explanation
Indices: 59855030--59855073 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
59855020 GTCTCTTTAG
* *
59855030 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
59855049 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
59855068 GCATTA
1 GCATTA
59855074 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:59857615 original size:8 final size:8
Alignment explanation
Indices: 59857572--59857600 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59857562 TCTCATGAAT
59857572 TCAAAAAA
1 TCAAAAAA
59857580 TCAAAAAA
1 TCAAAAAA
59857588 TCAAAAAA
1 TCAAAAAA
59857596 TCAAA
1 TCAAA
59857601 GTCAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (8 bp):
TCAAAAAA
Found at i:59859068 original size:88 final size:88
Alignment explanation
Indices: 59858916--59859434 Score: 597
Period size: 88 Copynumber: 5.9 Consensus size: 88
59858906 ATGAAGTTAC
*
59858916 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
59858981 TGATAGAGCTGGTTAAAGACAAA
66 TGATAGAGCTGGTTAAAGACAAA
*
59859004 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTTGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
59859069 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTAAAGACAAA
* * *
59859092 AGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
59859157 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTAAAGACAAA
* *
59859180 AGATCTTGCCTTCTTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
* **
59859245 T-AGTGGAGCTGGTTAAAGA-AGC
66 TGA-TAGAGCTGGTTAAAGACAAA
* ** * * * * * ** *
59859267 AGATCTTACCTTCCCACATTAATAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCATCCATCGATT
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTTTCGGTT
* * * **
59859330 G-CAGTGGAGCTAGTTAAAGA-AGC
65 GTGA-TAGAGCTGGTTAAAGACAAA
* ** * * **
59859353 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGCCTTGCCTCCATCGGTT
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTTTCGGTT
* *
59859416 G-CATTGGAGCTGGTTAAAG
65 GTGA-TAGAGCTGGTTAAAG
59859435 GTCACAGATT
Statistics
Matches: 389, Mismatches: 38, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
85 8 0.02
86 104 0.27
87 33 0.08
88 244 0.63
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTAAAGACAAA
Found at i:59859232 original size:44 final size:44
Alignment explanation
Indices: 59858920--59859234 Score: 200
Period size: 44 Copynumber: 7.2 Consensus size: 44
59858910 AGTTACAGAT
* *
59858920 CTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
* * ** * ** * *
59858964 CTTGCC-TCTTTCGGTTGTGA-T-AGAGCTGGTTAAAGACAAAAGAT
1 CTTGCCTTCTTGC-ATTGACAGTGA-AGCAGGTCGAAGACACAA-AC
*
59859008 CTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
* * ** * * * *
59859052 CTTGCCTCTTTTG-GTTGTGA-T-AGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TCTTGCATTGACAGTGA-AGCAGGTCGAAGACACAA-AC
* *
59859096 CTTGCCTT-TCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCT-TGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
* * ** * * * *
59859140 CTTGCC-TCTTTCGGTTGTGA-T-AGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCTTGC-ATTGACAGTGA-AGCAGGTCGAAGACACAA-AC
59859184 CTTGCCTTCTTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
59859228 CTTGCCT
1 CTTGCCT
59859235 CTCTCGGTTG
Statistics
Matches: 195, Mismatches: 56, Indels: 40
0.67 0.19 0.14
Matches are distributed among these distances:
42 4 0.02
43 55 0.28
44 76 0.39
45 57 0.29
46 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTGCCTTCTTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
Found at i:59861264 original size:3 final size:3
Alignment explanation
Indices: 59861200--59861255 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
59861190 TTTGTTAACT
*
59861200 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
59861245 TTA TTA GTA TT
1 TTA TTA TTA TT
59861256 GGTATTATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.98
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:59863460 original size:12 final size:12
Alignment explanation
Indices: 59863443--59863503 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
59863433 TATTTTAATA
59863443 AAATTTAATATT
1 AAATTTAATATT
*
59863455 AAATTTAAT-CT
1 AAATTTAATATT
*
59863466 -AATATCAATA-T
1 AAAT-TTAATATT
59863477 AAATATTAA-ATT
1 AAAT-TTAATATT
59863489 AAATTTAATATT
1 AAATTTAATATT
59863501 AAA
1 AAA
59863504 GTTATTAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
10 3 0.07
11 11 0.27
12 27 0.66
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATTTAATATT
Found at i:59866504 original size:18 final size:18
Alignment explanation
Indices: 59866478--59866521 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
59866468 TTTGGGCCGA
59866478 GTGGG-CCACACGGGCGT
1 GTGGGCCCACACGGGCGT
*
59866495 GTGGGCCCACATGGGCGT
1 GTGGGCCCACACGGGCGT
*
59866513 GTGAGCCCA
1 GTGGGCCCA
59866522 TTTTCACTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.14, C:0.30, G:0.43, T:0.14
Consensus pattern (18 bp):
GTGGGCCCACACGGGCGT
Found at i:59889936 original size:3 final size:3
Alignment explanation
Indices: 59889928--59889956 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
59889918 CATGATCAAG
59889928 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
59889957 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:59889961 original size:3 final size:3
Alignment explanation
Indices: 59889955--59889990 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
59889945 CAACAACAAC
59889955 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59889991 GAAAAGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:59890348 original size:36 final size:36
Alignment explanation
Indices: 59890308--59890383 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
59890298 TGAAACATAG
*
59890308 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
59890344 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
59890381 AAA
1 AAA
59890384 TGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:59891680 original size:132 final size:132
Alignment explanation
Indices: 59891463--59891798 Score: 460
Period size: 132 Copynumber: 2.5 Consensus size: 132
59891453 AACGCCAAGG
* * * * *
59891463 AGATAAGATTCGCTGCCTTCGATCTACTCCACTACTGCTTAGGGATACAGGATCTACAATCTTCG
1 AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGTTTAGGGAGACAGGATCTACAATCTTCA
** ** *
59891528 ACCTACTCCACTGCTACTCAGGGAGA-AGGGGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTG
66 ACCTACTCCACCACTACTCAGGGAGATA-GGACTGGTGGCTTAAATCTACTTCCCTACTACCTTG
59891592 GGA
130 GGA
* *
59891595 AGATAGGATTTGCTGCCTTCGATCTGCTCTACTACTGTTTAGGGAGACAGGATCTACAATCTTCA
1 AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGTTTAGGGAGACAGGATCTACAATCTTCA
* *
59891660 ACCTACTCCACCACTGCTCAGGGGGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
66 ACCTACTCCACCACTACTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
59891725 GA
131 GA
* *** *
59891727 AGATAAGATTTACCATCTTCGATCTGCTCCACTACT-TCTTAGGGAGACAAGATCTACAATCTTC
1 AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGT-TTAGGGAGACAGGATCTACAATCTTC
*
59891791 AATCTACT
65 AACCTACT
59891799 TTGCTACAAA
Statistics
Matches: 180, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.01
132 178 0.99
133 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGTTTAGGGAGACAGGATCTACAATCTTCA
ACCTACTCCACCACTACTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
GA
Found at i:59892878 original size:45 final size:45
Alignment explanation
Indices: 59891771--59892870 Score: 1446
Period size: 45 Copynumber: 24.4 Consensus size: 45
59891761 CTTCTTAGGG
* * * * * * * *
59891771 AGACAAGATCTACAATCTTCAATCTACTTTGCTACAAAGAAAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * * * * *
59891816 AGACAAGATCTACAATCTTCAATCTACTTCACTGCCAATATAAGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * * *
59891861 AGACAAGATATACTATCTTTGATCTACTTCGCTGCCAGTACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
*
59891906 AGTCAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* *
59891951 AAACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * ** *
59891996 AGACAAAATCTGTTATCTTTAATCTACTTCGCTGCCAATATAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* *
59892041 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGTCAATACAGAA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
59892086 AGACAAGATATGCTATCTTCGATCTACTTCGCTGCCAGTACAAGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* *
59892131 AGACAAGATCTACTATCTTCGATCTACTTCGCTGCCAATATAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
59892176 AGACAAGATATGTTATCTTCGATCTATTTCGCTG-CAAGTACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAA-TACAGGA
* * * *
59892221 AAACAAGATCTGTTATCTTCGATCTACTTCACAGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
59892266 AGACAAGATCTGTTATCTTCGATCTACTTCGCTGCTAGTACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * **
59892311 AGACAAGATCTACTATCTTCAATCTACTTCATTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
59892356 AGACAAGATCTACTATCTTCGATCTATTTCACTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
59892401 AGACAAGATCTGCTATCTTAGATCTACTTCGCTGTCAGTACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* *
59892446 AGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATATAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
59892491 AGACAAGATCTACTACCTTCGATCTACTTCACTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * * *
59892536 AGATAAGATCTACTATCTTCAATCTACTTCGCTGCCAGTACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* *
59892581 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATATAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
*
59892626 AGACAAGATCTGTTATCTTCGATCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* ** * * *
59892671 AGACAAAATCTGCTATCTTCGATCTACTTAACTGTCAGTACAGAA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
59892716 AGACAAGATCTGCTAACTTCAATCTACTTCGCTGTCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* * * *
59892761 AGACAAGATCTGTTATCTTCAATCTACTTCGCTACCAATACAGAA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* *
59892806 AGACAAGATCTGCTAACTTCGATCTACTTCACTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
* *
59892851 AGACAAAATCTGTTATCTTC
1 AGACAAGATCTGCTATCTTC
59892871 AACCTACTCC
Statistics
Matches: 925, Mismatches: 128, Indels: 4
0.88 0.12 0.00
Matches are distributed among these distances:
44 3 0.00
45 919 0.99
46 3 0.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (45 bp):
AGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGA
Found at i:59895172 original size:10 final size:10
Alignment explanation
Indices: 59895151--59895180 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
59895141 TGGCCTCTTA
59895151 TTTTTCTATTC
1 TTTTTCT-TTC
59895162 TTTTTCTTTC
1 TTTTTCTTTC
59895172 TTTTTCTTT
1 TTTTTCTTT
59895181 TTCATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:59895180 original size:16 final size:15
Alignment explanation
Indices: 59895159--59895205 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
59895149 TATTTTTCTA
*
59895159 TTCTTTTTCTTTCTTT
1 TTCTTTTTCATT-TTT
59895175 TTCTTTTTCATTTTT
1 TTCTTTTTCATTTTT
* *
59895190 TT-ATTTTGATTTTT
1 TTCTTTTTCATTTTT
59895204 TT
1 TT
59895206 AATTTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 5 0.18
16 11 0.39
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (15 bp):
TTCTTTTTCATTTTT
Found at i:59895196 original size:14 final size:15
Alignment explanation
Indices: 59895179--59895211 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
59895169 TTCTTTTTCT
59895179 TTTTCATTTTTTT-A
1 TTTTCATTTTTTTAA
*
59895193 TTTTGATTTTTTTAA
1 TTTTCATTTTTTTAA
59895208 TTTT
1 TTTT
59895212 TTCTTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCATTTTTTTAA
Done.