Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 104 of 226
Found at i:32094424 original size:24 final size:24
Alignment explanation
Indices: 32094396--32094447 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
32094386 TTTGTAGGTC
*
32094396 AAATAGATTAT-GCTAATAAATGCT
1 AAATAGATTATAG-TAATAAATACT
*
32094420 AAATATATTATAGTAATAAATACT
1 AAATAGATTATAGTAATAAATACT
32094444 AAAT
1 AAAT
32094448 CTTCTTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (24 bp):
AAATAGATTATAGTAATAAATACT
Found at i:32106513 original size:16 final size:17
Alignment explanation
Indices: 32106465--32106566 Score: 75
Period size: 18 Copynumber: 5.8 Consensus size: 17
32106455 AACAGTTTAC
*
32106465 ACTTTGATGTGCTCGCA
1 ACTTTGATGAGCTCGCA
32106482 AC-TTGAGTTGAGCTCGCA
1 ACTTTGA--TGAGCTCGCA
*
32106500 ACTTTGAT-AGCTCGCG
1 ACTTTGATGAGCTCGCA
*
32106516 TCTTTG-TGCGAGCTCGCA
1 ACTTTGAT--GAGCTCGCA
* * *
32106534 GCTTTCAATGAGCTCACA
1 ACTTT-GATGAGCTCGCA
32106552 ACTTTGATAGAGCTC
1 ACTTTGAT-GAGCTC
32106567 ACAGTTTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
15 1 0.01
16 16 0.24
17 5 0.07
18 40 0.60
19 4 0.06
20 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (17 bp):
ACTTTGATGAGCTCGCA
Found at i:32106556 original size:18 final size:18
Alignment explanation
Indices: 32106525--32106587 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
32106515 GTCTTTGTGC
* *
32106525 GAGCTCGCAGCTTTCAAT-
1 GAGCTCACAACTTT-AATA
*
32106543 GAGCTCACAACTTTGATA
1 GAGCTCACAACTTTAATA
** *
32106561 GAGCTCACAGTTTTAAGA
1 GAGCTCACAACTTTAATA
32106579 GAGCTCACA
1 GAGCTCACA
32106588 TTCACATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 35 0.95
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (18 bp):
GAGCTCACAACTTTAATA
Found at i:32113875 original size:18 final size:19
Alignment explanation
Indices: 32113849--32113885 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
32113839 AATTTTGGAA
32113849 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
32113867 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
32113886 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:32118034 original size:30 final size:30
Alignment explanation
Indices: 32117977--32118038 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
32117967 GCTTTTTGAA
* *
32117977 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
32118007 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
32118037 AA
1 AA
32118039 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:32124557 original size:21 final size:20
Alignment explanation
Indices: 32124528--32124573 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
32124518 CGAAATGCAA
32124528 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
32124549 TCAATCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
32124569 T-AACC
1 TCAACC
32124574 ATTCCAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:32125159 original size:422 final size:422
Alignment explanation
Indices: 32124375--32125218 Score: 1562
Period size: 422 Copynumber: 2.0 Consensus size: 422
32124365 GTCCATTAAT
*
32124375 TACAATTTCAATCTATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
1 TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
*
32124440 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAATATAAACACAATTTTAA
66 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
32124505 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
131 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
* *
32124570 AACCATTCCAGCAACATAAATATTCATATATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
196 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
* *
32124635 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGTTCCGTTCTTCCTTCTC
261 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGATCCATTCTTCCTTCTC
*
32124700 TATTTTTGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
326 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
32124765 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
391 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
*
32124797 TACAATTTCAATCCGTTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
1 TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
32124862 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
66 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
* *
32124927 TAACTTTAACAAACGGAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTTATTAAATT
131 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
32124992 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
196 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
*
32125057 TAGGGAACAAGAATCAAATCCGGTGTTATTCCGTGGCTTGACTAGTTGATCCATTCTTCCTTCTC
261 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGATCCATTCTTCCTTCTC
* *
32125122 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGGTGCTCCAAATATCTGATGAATGC
326 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
*
32125187 CCCTTTCCCAATAGGAGAAATCAACAAAAGAG
391 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
32125219 CAAGGGAATT
Statistics
Matches: 408, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
422 408 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (422 bp):
TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGATCCATTCTTCCTTCTC
TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
Found at i:32128785 original size:13 final size:12
Alignment explanation
Indices: 32128753--32128797 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
32128743 GAATTTTTTT
32128753 ATTTTTTT-AAA
1 ATTTTTTTCAAA
*
32128764 TTTTCTTTTCAAA
1 ATTT-TTTTCAAA
32128777 AGTTTTTTTCAAA
1 A-TTTTTTTCAAA
32128790 ATTTTTTT
1 ATTTTTTT
32128798 AAATAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 3 0.10
12 11 0.38
13 12 0.41
14 3 0.10
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (12 bp):
ATTTTTTTCAAA
Found at i:32133176 original size:27 final size:27
Alignment explanation
Indices: 32133145--32133472 Score: 344
Period size: 27 Copynumber: 12.2 Consensus size: 27
32133135 GGGTAGAAAA
*
32133145 GTCATTTTACTCTATAGAGGTATTTCG
1 GTCATTTTACCCTATAGAGGTATTTCG
* * *
32133172 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGAGGTATTTCG
*
32133199 GTCATTTTACCCTATAG-GGTTACTTCG
1 GTCATTTTACCCTATAGAGG-TATTTCG
* * *
32133226 ATCATTTTACCCTATTGGGGTATTTCG
1 GTCATTTTACCCTATAGAGGTATTTCG
* * *
32133253 ATCATTTTATCCTAT-GAGGGTATATCG
1 GTCATTTTACCCTATAGA-GGTATTTCG
* *
32133280 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGAGGTATTTCG
*
32133307 GTCATTTTACCCTAT-GAGGGTATTTAG
1 GTCATTTTACCCTATAGA-GGTATTTCG
**
32133334 GTCATTTTACCCTAT-GAGGGTATTTTA
1 GTCATTTTACCCTATAGA-GGTATTTCG
* * * *
32133361 ATCATTCTACCGTATGGAGGTATTTCG
1 GTCATTTTACCCTATAGAGGTATTTCG
* *
32133388 GTCATTTTGCCCT-T-GCAGGTATTTCT
1 GTCATTTTACCCTATAG-AGGTATTTCG
* *
32133414 GTCATTCTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGAGGTATTTCG
*
32133441 GTCATTTTACCCTATAGAGGTATTTTG
1 GTCATTTTACCCTATAGAGGTATTTCG
32133468 GTCAT
1 GTCAT
32133473 AACAATGTAA
Statistics
Matches: 253, Mismatches: 39, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
25 1 0.00
26 25 0.10
27 221 0.87
28 6 0.02
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGAGGTATTTCG
Found at i:32133666 original size:20 final size:20
Alignment explanation
Indices: 32133641--32133680 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32133631 GCCCATTGAG
* *
32133641 CCAACACGGCTCATTTCGGC
1 CCAACACGGCCCATTACGGC
*
32133661 CCAACATGGCCCATTACGGC
1 CCAACACGGCCCATTACGGC
32133681 TTAAGCCCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.20, T:0.17
Consensus pattern (20 bp):
CCAACACGGCCCATTACGGC
Found at i:32134574 original size:11 final size:10
Alignment explanation
Indices: 32134544--32134571 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
32134534 CGTTCCATGG
32134544 ATGTTTTTGA
1 ATGTTTTTGA
32134554 ATGTTTTTGA
1 ATGTTTTTGA
32134564 ATGTTTTT
1 ATGTTTTT
32134572 TGATAAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (10 bp):
ATGTTTTTGA
Found at i:32135076 original size:89 final size:88
Alignment explanation
Indices: 32134905--32135079 Score: 255
Period size: 89 Copynumber: 2.0 Consensus size: 88
32134895 TTATTTATTT
32134905 AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
1 AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
*
32134970 TACTACAATGATCCTAGTTATCG
66 TACTACAACGATCCTAGTTATCG
* ** *
32134993 AGATCAAGATAAACCACAATC-AGACTTAATTCAAGGAAAAGTTAAAGCTTCGGATTAGTTCGAC
1 AGATCAAGATAAACCACAATCGA-ACTTAA-TAAAGGAAAAACTAAAGCTTAGGATTAGTTCGAC
*
32135057 TCTACTACTACGA-CACTAGTTAT
64 TCTACTACAACGATC-CTAGTTAT
32135080 TGAGGTAAGT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
87 1 0.01
88 28 0.36
89 49 0.63
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (88 bp):
AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
TACTACAACGATCCTAGTTATCG
Found at i:32139535 original size:31 final size:31
Alignment explanation
Indices: 32139500--32139563 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
32139490 GACCTCAAAA
* * *
32139500 TAGGTAATATAACTGAAATACCCCCATAGGG
1 TAGGTAAAATAACTAAAATACCCCCATAAGG
*
32139531 TAGGTAAAATGACTAAAATACCCCCATAAGG
1 TAGGTAAAATAACTAAAATACCCCCATAAGG
32139562 TA
1 TA
32139564 AAATGATCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (31 bp):
TAGGTAAAATAACTAAAATACCCCCATAAGG
Found at i:32139576 original size:27 final size:27
Alignment explanation
Indices: 32139533--32139758 Score: 316
Period size: 27 Copynumber: 8.4 Consensus size: 27
32139523 CCATAGGGTA
* * *
32139533 GGTAAAATGA-CTAAAATACCCCCATAA
1 GGTAAAATGATC-GAAATACCCCTATAG
32139560 GGTAAAATGATCGAAATA-CCCTCATAG
1 GGTAAAATGATCGAAATACCCCT-ATAG
32139587 GGTAAAATGA-CAGAAATACCCCTATAG
1 GGTAAAATGATC-GAAATACCCCTATAG
* * *
32139614 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCCTATAG
*
32139641 GATAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGATCGAAATACCCCTATAG
*
32139668 GGTAAAATGA-CTGAAATACCCTTATAG
1 GGTAAAATGATC-GAAATACCCCTATAG
32139695 GGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGATCGAAATACCCCTATAG
32139722 GGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGATCGAAATACCCCTATAG
32139749 GGTAAAATGA
1 GGTAAAATGA
32139759 CTGTTATACC
Statistics
Matches: 180, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
26 5 0.03
27 168 0.93
28 7 0.04
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGATCGAAATACCCCTATAG
Found at i:32139760 original size:81 final size:80
Alignment explanation
Indices: 32139533--32139772 Score: 365
Period size: 81 Copynumber: 3.0 Consensus size: 80
32139523 CCATAGGGTA
*
32139533 GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGATCGAAATA-CCCTCATAGGGTAAAATGA
1 GGTAAAATGAC-AAAATACCCCCATAGGGTAAAATGATCGAAATACCCCT-ATAGGGTAAAATGA
*
32139597 CAGAAATACCCCTATAG
64 CTGAAATACCCCTATAG
*
32139614 GGTAAAATGACCAAAATACCCCCATAGGATAAAATGATCGAAATACCCCTATAGGGTAAAATGAC
1 GGTAAAATGA-CAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGAC
*
32139679 TGAAATACCCTTATAG
65 TGAAATACCCCTATAG
* *
32139695 GGTAAAATGATCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGAC
1 GGTAAAATGA-CAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGAC
**
32139760 TGTTATACCCCTA
65 TGAAATACCCCTA
32139773 GGAGATGAAA
Statistics
Matches: 146, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
81 141 0.97
82 5 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (80 bp):
GGTAAAATGACAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACT
GAAATACCCCTATAG
Found at i:32143287 original size:30 final size:30
Alignment explanation
Indices: 32143219--32143304 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 30
32143209 GATTAAATCA
* *
32143219 AAATTAAAGTTTTAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * *
32143249 ACAATTAAAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
* *
32143280 AAATTAAAG-TTCATGCATACAATTG
1 AAATTAAAGTTTCAAGTATACAATTG
32143305 CACATTAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 12 0.27
30 9 0.20
31 24 0.53
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:32143332 original size:29 final size:27
Alignment explanation
Indices: 32143266--32143332 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
32143256 AAGTTTCACG
*
32143266 TGTATAATTGCACCAAATTAAAGTTCA
1 TGTATAATTGCACCAAATCAAAGTTCA
* *
32143293 TGCATACAATTGCACATTAAATCAAAGTTCA
1 TG--TATAATTGCAC--CAAATCAAAGTTCA
32143324 TGTATAATT
1 TGTATAATT
32143333 TTGAGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.06
29 16 0.50
31 14 0.44
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAGTTCA
Found at i:32144360 original size:19 final size:19
Alignment explanation
Indices: 32144336--32144376 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32144326 AACACGTGTG
* *
32144336 ATAATTTTTCAATTTTGTA
1 ATAATTTATCAATTTCGTA
*
32144355 ATAATTTATCAGTTTCGTA
1 ATAATTTATCAATTTCGTA
32144374 ATA
1 ATA
32144377 TATAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (19 bp):
ATAATTTATCAATTTCGTA
Found at i:32183443 original size:89 final size:89
Alignment explanation
Indices: 32183270--32183446 Score: 230
Period size: 89 Copynumber: 2.0 Consensus size: 89
32183260 TTATTTATTT
* * * * ** *
32183270 AGATTAAGATAAATCACAATAAGACTTAACTCGAGGAAAAGCTAAAGCTTTGGATTAGTTCGACT
1 AGATCAAGATAAACCACAATAAGACTTAAATCGAGGAAAAACTAAAGCTTCAGATTAGTTCAACT
*
32183335 CTACTACTAAGACCTTAGTTATCA
66 CTACTACTAAGACCCTAGTTATCA
** *
32183359 AGATCAAGATAAACCACAATCGGACTTAAATTGAGGAAAAACTAAAGCTTCAGATTAGTTCAACT
1 AGATCAAGATAAACCACAATAAGACTTAAATCGAGGAAAAACTAAAGCTTCAGATTAGTTCAACT
*
32183424 CTACTACTGCA-ACCCTAGTTATC
66 CTACTACT-AAGACCCTAGTTATC
32183447 GAGGTAAGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
89 74 0.99
90 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (89 bp):
AGATCAAGATAAACCACAATAAGACTTAAATCGAGGAAAAACTAAAGCTTCAGATTAGTTCAACT
CTACTACTAAGACCCTAGTTATCA
Found at i:32188122 original size:6 final size:6
Alignment explanation
Indices: 32188099--32188142 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
32188089 ATTTACAATG
* *
32188099 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
32188143 ATGGCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:32188127 original size:20 final size:19
Alignment explanation
Indices: 32188100--32188144 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
32188090 TTTACAATGT
*
32188100 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
32188119 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
32188139 AAAAAT
1 AAAAAT
32188145 GGCTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:32189598 original size:29 final size:30
Alignment explanation
Indices: 32189553--32189617 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
32189543 CCAGCCTAAA
*
32189553 TATATTATGTTATAAAAATATTATAT-TAAT
1 TATA-TATGTTAAAAAAATATTATATATAAT
* *
32189583 TATATATGTTAAAAAATTATTATATATATT
1 TATATATGTTAAAAAAATATTATATATAAT
32189613 TATAT
1 TATAT
32189618 TAAATCGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATGTTAAAAAAATATTATATATAAT
Found at i:32190628 original size:31 final size:31
Alignment explanation
Indices: 32190592--32190650 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
32190582 ATTTAACAGA
*
32190592 GAGTGACCAAAATAGAAACAATCTAAAATGT
1 GAGTGACAAAAATAGAAACAATCTAAAATGT
**
32190623 GAGTGACAAAAATAGAAATTATCTAAAA
1 GAGTGACAAAAATAGAAACAATCTAAAA
32190651 CACCAGTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.20
Consensus pattern (31 bp):
GAGTGACAAAAATAGAAACAATCTAAAATGT
Found at i:32199632 original size:16 final size:16
Alignment explanation
Indices: 32199611--32199641 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32199601 CCTTTCAATT
*
32199611 TTTTTTCTCGTTTTTA
1 TTTTTTCTCATTTTTA
32199627 TTTTTTCTCATTTTT
1 TTTTTTCTCATTTTT
32199642 CTAATTTTAA
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:0.06, C:0.13, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTCTCATTTTTA
Found at i:32202149 original size:64 final size:64
Alignment explanation
Indices: 32202027--32202154 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
32202017 ACAAATAGCC
* * * * ** * * *
32202027 TATATCAGGACGCTCATAAAGAGTTGTGGTATGTCCGCATTATATACAGGATCCATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
*
32202091 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATGCAAGATCAATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
32202155 GGATGCTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
Found at i:32206912 original size:50 final size:50
Alignment explanation
Indices: 32206851--32207053 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
32206841 GCATCGGAGT
* * *
32206851 TCTCATATCGGTGCCCATGCCATCTCCTAGACATGGTCTTACA-GGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGG-CC
* * *
32206901 TCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGGCC
1 TCTCATATCGGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGGCC
* * * *
32206951 TCTCATATCGGTGCCAACGCCATGT-CTCAGAGATGGTCTTACATAGGACA
1 TCTCATATCGGTGCCAACGCCATGTCCT-AGACATGGTCTTACATGGGGCC
* * *
32207001 TCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 TCTCAT-A--TC---GGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGG
32207054 ATCTATTTAC
Statistics
Matches: 126, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
49 1 0.01
50 86 0.68
51 5 0.04
53 2 0.02
56 31 0.25
57 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGGCC
Found at i:32207005 original size:100 final size:101
Alignment explanation
Indices: 32206825--32207053 Score: 248
Period size: 100 Copynumber: 2.2 Consensus size: 101
32206815 CAATGTCATA
* * * * * *
32206825 TCCCAAATATGGTCTTGCATCGGAGTTCTCATATCGGTGCCCATGCCATCTCCTAGACATGGTCT
1 TCCCAAACATGGTCTTACAT-GGGGCTCTCATATCGGTGCCAACGCCATCTCCTAGACATGGTCT
* * *
32206890 TACAGGGGACCTCTC-ATCTC-GGTGCCAACGCCATG
65 TACAGAGGACATCTCAATCTCAGATGCCAACGCCATG
* *
32206925 TCCCAAACATGGTCTTACATGGGGCCTCTCATATCGGTGCCAACGCCATGT-CTCAGAGATGGTC
1 TCCCAAACATGGTCTTACATGGGG-CTCTCATATCGGTGCCAACGCCATCTCCT-AGACATGGTC
* *
32206989 TTACATAGGACATCTCATAATCTCAATGATGCCAATGCCATG
64 TTACAGAGGACATCTC--AATCTC-A-GATGCCAACGCCATG
*
32207031 TCCCAGACATGGTCTTACATGGG
1 TCCCAAACATGGTCTTACATGGG
32207054 ATCTATTTAC
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
99 5 0.05
100 62 0.58
103 5 0.05
106 35 0.33
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (101 bp):
TCCCAAACATGGTCTTACATGGGGCTCTCATATCGGTGCCAACGCCATCTCCTAGACATGGTCTT
ACAGAGGACATCTCAATCTCAGATGCCAACGCCATG
Found at i:32210617 original size:50 final size:50
Alignment explanation
Indices: 32210537--32210653 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
32210527 AGATCCCATA
* * * ** *
32210537 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTTTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACG
* * *
32210587 TAAGACCATGTTTGGGACATGGCATGGGCACCTATATGAGAACTCCCATG
1 TAAGACCATGTTTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACG
*
32210637 TAAGACCATATTTGGGA
1 TAAGACCATGTTTGGGA
32210654 TATGACATTG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTTTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACG
Found at i:32211272 original size:31 final size:31
Alignment explanation
Indices: 32211237--32211299 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
32211227 ATATGTAAAT
*
32211237 ATTTGATGATGAATAGTTATTAAAATGGCTA
1 ATTTGATGATGAATAGTTATTAAAATGACTA
32211268 ATTTGATGATGAATAGTTATTAAAATGACTA
1 ATTTGATGATGAATAGTTATTAAAATGACTA
32211299 A
1 A
32211300 GTATGAAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.38
Consensus pattern (31 bp):
ATTTGATGATGAATAGTTATTAAAATGACTA
Found at i:32214023 original size:23 final size:22
Alignment explanation
Indices: 32213980--32214024 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
32213970 ATTTTAAAAA
*
32213980 TAAAAAACATAAAAAAGTATTT
1 TAAAAAAAATAAAAAAGTATTT
32214002 TAAAATAAAATAAATAAA-TATTT
1 TAAAA-AAAATAAA-AAAGTATTT
32214025 ATTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 12 0.60
24 3 0.15
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAAAAAATAAAAAAGTATTT
Found at i:32214027 original size:27 final size:28
Alignment explanation
Indices: 32213962--32214019 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
32213952 AATAAACACC
32213962 AAAAAATTATTTTAAAAATAAAAAACAT
1 AAAAAATTATTTTAAAAATAAAAAACAT
*
32213990 AAAAAAGTATTTT-AAAATAAAATAA-AT
1 AAAAAATTATTTTAAAAATAAAA-AACAT
32214017 AAA
1 AAA
32214020 TATTTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAAATTATTTTAAAAATAAAAAACAT
Found at i:32219373 original size:22 final size:21
Alignment explanation
Indices: 32219323--32219374 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
32219313 ACACATGTAT
* *
32219323 TTATTATG-ATTTTTTTTTCA
1 TTATTATGAATTTTTTCTTAA
*
32219343 TATAATATGAATTTTTTCCTTAA
1 T-TATTATGAATTTTTT-CTTAA
32219366 TTATTATGA
1 TTATTATGA
32219375 TTGAGTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 6 0.24
22 14 0.56
23 4 0.16
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (21 bp):
TTATTATGAATTTTTTCTTAA
Found at i:32226583 original size:21 final size:21
Alignment explanation
Indices: 32226557--32226598 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
32226547 ATGTGCTATT
32226557 AAATAAAAATAAAAATTTAAA
1 AAATAAAAATAAAAATTTAAA
32226578 AAATAAAAATAAAAATTTAAA
1 AAATAAAAATAAAAATTTAAA
32226599 TAGATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAATAAAAATTTAAA
Found at i:32231196 original size:89 final size:85
Alignment explanation
Indices: 32231018--32231220 Score: 228
Period size: 89 Copynumber: 2.3 Consensus size: 85
32231008 TTAAATGGTA
* *** * * *
32231018 GGAATAAATCCTGAAACAGATTTTATTCAATTTAATTTCTCGTTTTGGAAATAAAATAAAAAGGG
1 GGAATAAA-CCCGAAACAGATTTTATTCAATTTAAAAACTAGTTTTGGAAATAAAATAAAAACGA
*
32231083 AATAAAATTCGTTGAACAACG
65 AATAAAATTCATTGAACAACG
* *
32231104 GGAATAAACCCGAAACAGATTTTATTCTAATTTAAAAACTTATTTTTGGAAATAAAAATCAAAAT
1 GGAATAAACCCGAAACAGATTTTATTC-AATTTAAAAAC-TAGTTTTGGAAAT-AAAAT-AAAAA
**
32231169 CGAAATAAAA-TCTATTGAACAGTG
62 CGAAATAAAATTC-ATTGAACAACG
*
32231193 GGAATAAACCCGAAACAAATTTTATTCA
1 GGAATAAACCCGAAACAGATTTTATTCA
32231221 CCCTTTTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
85 18 0.18
86 16 0.16
87 11 0.11
88 8 0.08
89 46 0.46
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (85 bp):
GGAATAAACCCGAAACAGATTTTATTCAATTTAAAAACTAGTTTTGGAAATAAAATAAAAACGAA
ATAAAATTCATTGAACAACG
Found at i:32232194 original size:40 final size:40
Alignment explanation
Indices: 32232139--32232219 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
32232129 TTTCATGGAG
32232139 TAGAATATGAAACCAAAAAATTATGATTCAACTCTCCACC
1 TAGAATATGAAACCAAAAAATTATGATTCAACTCTCCACC
32232179 TAGAATATGAAACCAAAAAATTATGATTCAACTCTCCACC
1 TAGAATATGAAACCAAAAAATTATGATTCAACTCTCCACC
32232219 T
1 T
32232220 TTACCTATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (40 bp):
TAGAATATGAAACCAAAAAATTATGATTCAACTCTCCACC
Found at i:32236136 original size:19 final size:19
Alignment explanation
Indices: 32236098--32236137 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32236088 AAAGTATCAT
*
32236098 ATTAATTTAAATTAATTTG
1 ATTAATTTAAATTAACTTG
* *
32236117 ATTAATTTAATTTTACTTG
1 ATTAATTTAAATTAACTTG
32236136 AT
1 AT
32236138 CAAAGTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:32237882 original size:14 final size:12
Alignment explanation
Indices: 32237855--32237889 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
32237845 AATTTTTATT
32237855 TTTATTTTACAA
1 TTTATTTTACAA
32237867 TTTATTCTTACTAA
1 TTTATT-TTAC-AA
32237881 TTTATTTTA
1 TTTATTTTA
32237890 TTTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 7 0.33
14 8 0.38
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATTTTACAA
Found at i:32242379 original size:3 final size:3
Alignment explanation
Indices: 32242353--32242425 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
32242343 GCAATCTAAA
* * * * *
32242353 GAG GAG GAA GAG GAAG AAG AAG GAG GAG GAG GAA GAG GAG GAG TAG
1 GAG GAG GAG GAG G-AG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
* * *
32242399 GAT GAG GAG GAG GGG GAG GAA GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
32242426 AGATTGAAGA
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
3 53 0.96
4 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.58, T:0.03
Consensus pattern (3 bp):
GAG
Found at i:32247364 original size:101 final size:101
Alignment explanation
Indices: 32247241--32247427 Score: 288
Period size: 101 Copynumber: 1.8 Consensus size: 101
32247231 AAAGTGATGG
* * *
32247241 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAT-T-ATAGGTCGCATGTGTAGT
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCG-AATGTAAT-GGTCACATGTGTAGC
32247304 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
64 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
* *
32247342 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGCA
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAAT-GTAATGGTCACATGTGTAGCA
32247407 CTATGTGCAGGCTACTATGTG
65 CTATGTGCAGGCTACTATGTG
32247428 AACTAAACAT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 38 0.49
102 36 0.46
103 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAATGTAATGGTCACATGTGTAGCAC
TATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
Found at i:32247371 original size:51 final size:50
Alignment explanation
Indices: 32247238--32247423 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 50
32247228 GTGAAAGTGA
* *
32247238 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GA-AATT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT
* *
32247286 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTT
1 -T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT
* * * * * *
32247338 TCGATCACGTGTGTAATACTATGTGCAGGCTACTACGTGTATCGGATGGTAA
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-T
*
32247390 TGGTCACATGTGTAGCACTATGTGCAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
32247424 TGTGAACTAA
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 38 0.33
51 73 0.63
52 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT
Found at i:32247498 original size:45 final size:45
Alignment explanation
Indices: 32247434--32247520 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
32247424 TGTGAACTAA
* *
32247434 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
32247479 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
32247521 TGAGTATCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:32255980 original size:3 final size:3
Alignment explanation
Indices: 32255972--32256007 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
32255962 GGAATCATTG
*
32255972 ACA ACA ACA ACA ACA ACA ACA ACA ACA AGA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
32256008 GCAGCAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.31, G:0.03, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:32263485 original size:16 final size:15
Alignment explanation
Indices: 32263464--32263493 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
32263454 TTTTGTACTA
32263464 TTTTAATATTAAATAT
1 TTTTAAT-TTAAATAT
32263480 TTTTAATTTAAATA
1 TTTTAATTTAAATA
32263494 AAATTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAATTTAAATAT
Found at i:32263768 original size:33 final size:33
Alignment explanation
Indices: 32263721--32263784 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
32263711 TATGGAGATC
* *
32263721 ATTCTTGAGCAATTTAGATGTATTTTCTTTATT
1 ATTCTCGAGAAATTTAGATGTATTTTCTTTATT
32263754 ATTCTCGAGAAATTTAGATGTATTTTCTTTA
1 ATTCTCGAGAAATTTAGATGTATTTTCTTTA
32263785 CTTTTGACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (33 bp):
ATTCTCGAGAAATTTAGATGTATTTTCTTTATT
Found at i:32279427 original size:19 final size:19
Alignment explanation
Indices: 32279398--32279457 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
32279388 ATTAAAAAAC
* *
32279398 ATTTTAATTTTCCTATTATT
1 ATTTTATTTTTACTATT-TT
32279418 A-TTTATTTTTACTATTTT
1 ATTTTATTTTTACTATTTT
*
32279436 ATTTTATTTTCA-T-TTTT
1 ATTTTATTTTTACTATTTT
32279453 ATTTT
1 ATTTT
32279458 TGCAGGAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.25
18 4 0.11
19 22 0.61
20 1 0.03
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTATTTTTACTATTTT
Found at i:32279437 original size:18 final size:20
Alignment explanation
Indices: 32279398--32279445 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
32279388 ATTAAAAAAC
* *
32279398 ATTTTAATTTTCCTATTATT
1 ATTTTATTTTTACTATTATT
32279418 A-TTTATTTTTACTATT-TT
1 ATTTTATTTTTACTATTATT
32279436 ATTTTATTTT
1 ATTTTATTTT
32279446 CATTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 21 0.84
20 1 0.04
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTTTTACTATTATT
Found at i:32283609 original size:30 final size:30
Alignment explanation
Indices: 32283540--32283609 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
32283530 CTTTATAGCT
* * *
32283540 TATATTTTTATAATTTTTAAAGGATTAAAT
1 TATAATTTTATAATTTTTAAAGGACTAAAG
*
32283570 TA-AATTTTTATAA-TTTTACAGGGACTAAAG
1 TATAA-TTTTATAATTTTTA-AAGGACTAAAG
32283600 TATAATTTTA
1 TATAATTTTA
32283610 CCTTTACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 6 0.18
30 25 0.76
31 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGGACTAAAG
Found at i:32286190 original size:15 final size:15
Alignment explanation
Indices: 32286170--32286204 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32286160 TAATTTGCGT
32286170 ATTTTAATTTAATTA
1 ATTTTAATTTAATTA
**
32286185 ATTTTAATTTCTTTA
1 ATTTTAATTTAATTA
32286200 ATTTT
1 ATTTT
32286205 TTATTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTAATTTAATTA
Found at i:32298391 original size:20 final size:20
Alignment explanation
Indices: 32298368--32298415 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32298358 ATCAAAAGCA
32298368 TCGATACCCGTAACAAAGTT
1 TCGATACCCGTAACAAAGTT
** * *
32298388 TCGATACCTTTCATAAAGTT
1 TCGATACCCGTAACAAAGTT
32298408 TCGATACC
1 TCGATACC
32298416 TTATCCTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (20 bp):
TCGATACCCGTAACAAAGTT
Found at i:32302735 original size:2 final size:2
Alignment explanation
Indices: 32302728--32302752 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32302718 ACACCCCACA
32302728 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32302753 AATAATGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32310146 original size:59 final size:59
Alignment explanation
Indices: 32310054--32310169 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
32310044 TGGAGCTTGG
* *
32310054 TCAACTCCTGTTGTAATTGTGTTGTATCTTTTTGAAATCTGGTGGTGACACCACTACCA
1 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTACCA
*
32310113 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAGATCTGGTGATGACACCACTAC
1 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTAC
32310170 TATCCATGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.39
Consensus pattern (59 bp):
TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTACCA
Found at i:32311829 original size:35 final size:35
Alignment explanation
Indices: 32311752--32311831 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
32311742 ACGATTATCG
* *
32311752 ATAGGTCCTTTAGGGTGACACCATGTAAACGGTAT
1 ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
* * *
32311787 ATAGGTCCTTCAGGGTGACACCGTGTAAATAGTTT
1 ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
*
32311822 ATGGGTCCTT
1 ATAGGTCCTT
32311832 TGAGGCTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (35 bp):
ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
Found at i:32312992 original size:78 final size:77
Alignment explanation
Indices: 32312748--32313021 Score: 272
Period size: 78 Copynumber: 3.6 Consensus size: 77
32312738 AAAAATCCTG
* * * * * * *
32312748 TTTCAGTATTTTATTCCTGTCGTTTAACATGATTTATTTGATTTCTGTTTCAAACAGAAAATCAA
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
32312813 TTGAACACTGCTA
66 TTGAACACT-CTA
* * * * * *
32312826 TTTCAGGATTTTACTCTTGTCGTTTAATAGGATTTGTTT-A--TTT-TTTCAAATATAGACTCAA
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
32312887 TTGAACACTCCTA
66 TTGAACACT-CTA
* * *
32312900 TTTTAGGATTTTATTCCTGCCGTTTAACATGATTTGTTTGATTTTTGTTTTAAATAGGAAACT-A
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATA-GAAACTCA
*
32312964 ATTGAACAAT-TA
65 ATTGAACACTCTA
** * *
32312976 TGTTCAGGATTTTTATTCCTGCCACTCAACAGGATTTGTTCGATTT
1 T-TTCAGGA-TTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTT
32313022 CCACAATTCT
Statistics
Matches: 161, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
74 59 0.37
75 3 0.02
76 3 0.02
77 10 0.06
78 82 0.51
79 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (77 bp):
TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
TTGAACACTCTA
Found at i:32322842 original size:16 final size:16
Alignment explanation
Indices: 32322821--32322851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32322811 ACTAGCTTTG
*
32322821 GCTTTTGATCTTTGTT
1 GCTTTTGATCCTTGTT
32322837 GCTTTTGATCCTTGT
1 GCTTTTGATCCTTGT
32322852 GACTCATCAT
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:0.06, C:0.16, G:0.19, T:0.58
Consensus pattern (16 bp):
GCTTTTGATCCTTGTT
Found at i:32330297 original size:68 final size:72
Alignment explanation
Indices: 32330158--32330297 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 72
32330148 AACTTAATTA
*
32330158 CTTTAATATTAAATTAATAAAATATTTATTTACAAGATAAATATTAAATTAAAATTTAATATTAA
1 CTTTAATAGTAAATTAATAAAATATTTATTTA-AAGATAAATATTAAATTAAAATTTAATATTAA
*
32330223 GATAATAT
65 AATAATAT
* *
32330231 CTTTAATAGTAAATTAA-AAAATA-TTA-TT-AAGATAAATATTAAATT-TATTTTAATATTAAA
1 CTTTAATAGTAAATTAATAAAATATTTATTTAAAGATAAATATTAAATTAAAATTTAATATTAAA
32330291 ACTAATA
66 A-TAATA
32330298 AAATAATATT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
67 13 0.21
68 22 0.35
70 2 0.03
71 3 0.05
72 6 0.10
73 16 0.26
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (72 bp):
CTTTAATAGTAAATTAATAAAATATTTATTTAAAGATAAATATTAAATTAAAATTTAATATTAAA
ATAATAT
Found at i:32336203 original size:102 final size:103
Alignment explanation
Indices: 32336001--32336207 Score: 344
Period size: 102 Copynumber: 2.0 Consensus size: 103
32335991 TCTTAGGTGG
*
32336001 AGATGGTAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
1 AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
*
32336066 TATCACATCCATTCCCATATATAACTCAAAACATGCAT
66 CATCACATCCATTCCCATATATAACTCAAAACATGCAT
* * *
32336104 AGATGATAGTCCATGGTCTATTTTCTAAGAACCATAACCTTGGC-AAAAAATAACAATTATATAA
1 AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
* *
32336168 CATCGCATCCATTTCCATATATAACTCAAAACATGCAT
66 CATCACATCCATTCCCATATATAACTCAAAACATGCAT
32336206 AG
1 AG
32336208 TATCTAAAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 56 0.58
103 41 0.42
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (103 bp):
AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
CATCACATCCATTCCCATATATAACTCAAAACATGCAT
Found at i:32336804 original size:38 final size:36
Alignment explanation
Indices: 32336762--32336838 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 36
32336752 ACTTAATCAC
*
32336762 TTTAATATTAAATTAATA-AAATACTATTAAGATAAGTA
1 TTTAAT-TTAAATTAATATAAA-ACTATTAAAATAA-TA
*
32336800 TTTAATTTAATTTAATATTAAAACTATTAAAATAATA
1 TTTAATTTAAATTAATA-TAAAACTATTAAAATAATA
32336837 TT
1 TT
32336839 ATTTCTGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 14 0.40
38 18 0.51
39 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTAATTTAAATTAATATAAAACTATTAAAATAATA
Found at i:32340603 original size:24 final size:26
Alignment explanation
Indices: 32340553--32340599 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
32340543 AGTGTTCATC
32340553 TCTTTTTTACTTATTATGTATTGTGT
1 TCTTTTTTACTTATTATGTATTGTGT
32340579 TCTTTTTT-C-TATTAT-TATTGT
1 TCTTTTTTACTTATTATGTATTGT
32340600 TGTTAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 1 0.05
26 8 0.38
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.68
Consensus pattern (26 bp):
TCTTTTTTACTTATTATGTATTGTGT
Found at i:32345232 original size:16 final size:16
Alignment explanation
Indices: 32345162--32345234 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
32345152 ACATTTGGTT
32345162 GAGTTG-AATGAAATA
1 GAGTTGTAATGAAATA
*
32345177 GGGTTGTAATGAAATA
1 GAGTTGTAATGAAATA
* *
32345193 GAGATGTAA-CAGAATA
1 GAGTTGTAATGA-AATA
* ** *
32345209 CAACTGTAATGGAATA
1 GAGTTGTAATGAAATA
32345225 GAGTTGTAAT
1 GAGTTGTAAT
32345235 TAGTAATTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
15 6 0.14
16 37 0.86
ACGTcount: A:0.42, C:0.04, G:0.26, T:0.27
Consensus pattern (16 bp):
GAGTTGTAATGAAATA
Found at i:32357494 original size:11 final size:11
Alignment explanation
Indices: 32357478--32357510 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32357468 TATATATGTA
32357478 AATATAATAAT
1 AATATAATAAT
32357489 AATATAATAAT
1 AATATAATAAT
*
32357500 AACA-AATAAT
1 AATATAATAAT
32357510 A
1 A
32357511 CAATAACAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATAATAAT
Found at i:32358926 original size:100 final size:100
Alignment explanation
Indices: 32358750--32359309 Score: 789
Period size: 100 Copynumber: 5.6 Consensus size: 100
32358740 CTCAAGTCCA
*
32358750 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGCTGTGGCTTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
32358815 GGAGAAACCAGATCTGCCGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *
32358850 CTACACTGCACCGCCAGGGATGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
** * *
32358915 GAAGAAACCAGATCCACCGTTGTGACTTCAATATG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * ***
32358950 CTCCACTACACTGCCAGGGAAGTAAGATCTATTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCT
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTC---AATCTTTTTAATTGCGCT
*
32359014 GTCGGGGAAACCAGATTCGCCGTTGTGACTTCAATCTG
63 GTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * * * *
32359052 CTTCACTGCACCGCTAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCACTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
32359117 GGGGAAACTAGATCCCCCGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *
32359152 CTCCACTGCATCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* * *
32359217 GAGGAAACCAGATCCGCTGTTGTGATTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *
32359252 CTCCACTGCACAGCTAGGGAAGCAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTG
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTG
32359310 AAATGCCAAA
Statistics
Matches: 406, Mismatches: 50, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
99 2 0.00
100 316 0.78
102 85 0.21
103 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (100 bp):
CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
Found at i:32359096 original size:50 final size:50
Alignment explanation
Indices: 32359026--32359300 Score: 198
Period size: 50 Copynumber: 5.5 Consensus size: 50
32359016 CGGGGAAACC
*
32359026 AGATTCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGTA
* * * * * * * * * *
32359076 AGATCTGCTGTTGTGGCTTCAAACT-TTTAAATTGCACTG-TCGGGGAAACT-
1 AGATCCGCCGTTGTGACTTCAATCTGCTT-CACTGCACCGCT-AGGG-AAGTA
* * * *
32359126 AGATCCCCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGTA
* ** * * * * ***
32359176 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-TCGAGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAG-GGAAGTA
* * * * *
32359226 AGATCCGCTGTTGTGATTTCAATCTGCTCCACTGCACAGCTAGGGAAGCA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGTA
* *
32359276 AGATCTGCCGTTGTGGCTTCAATCT
1 AGATCCGCCGTTGTGACTTCAATCT
32359301 TTTTAATTGA
Statistics
Matches: 162, Mismatches: 55, Indels: 16
0.70 0.24 0.07
Matches are distributed among these distances:
49 7 0.04
50 149 0.92
51 6 0.04
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGTA
Found at i:32360731 original size:15 final size:13
Alignment explanation
Indices: 32360713--32360763 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 13
32360703 TTAGCCTCTC
32360713 CATTTTTATTTTTT
1 CATTTTT-TTTTTT
32360727 CCATTTTTTATTTTT
1 -CATTTTTT-TTTTT
32360742 CATTTTTTTATTTT
1 CATTTTTTT-TTTT
32360756 CATTTTTT
1 CATTTTTT
32360764 CACATCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.03
14 21 0.62
15 12 0.35
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (13 bp):
CATTTTTTTTTTT
Found at i:32360740 original size:14 final size:14
Alignment explanation
Indices: 32360711--32360763 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
32360701 GCTTAGCCTC
*
32360711 TCCATTTTTATTTTT
1 TCCATTTTT-TATTT
32360726 TCCATTTTTTATTT
1 TCCATTTTTTATTT
*
32360740 TTCATTTTTTTATTT
1 TCCA-TTTTTTATTT
32360755 T-CATTTTTT
1 TCCATTTTTT
32360764 CACATCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 6 0.17
14 9 0.26
15 20 0.57
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (14 bp):
TCCATTTTTTATTT
Found at i:32367405 original size:25 final size:25
Alignment explanation
Indices: 32367368--32367429 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
32367358 TAATTTAAAA
*
32367368 GCACTGTAGAAGGAAGGGACCAATT
1 GCACTGTAAAAGGAAGGGACCAATT
32367393 GCACTGTAAAAGGAAGGGACCAATT
1 GCACTGTAAAAGGAAGGGACCAATT
32367418 GCACTGTAAAAG
1 GCACTGTAAAAG
32367430 CACTGTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (25 bp):
GCACTGTAAAAGGAAGGGACCAATT
Found at i:32397031 original size:35 final size:35
Alignment explanation
Indices: 32396888--32397081 Score: 214
Period size: 35 Copynumber: 5.6 Consensus size: 35
32396878 GTATAAAGAT
*
32396888 GGAGAGATTCCCTACAA-GAAATGATGTGTGAATA
1 GGAGAGATTCCCTACAACAAAATGATGTGTGAATA
*
32396922 -GAGAGATTCCCTACAACAAAATGATGTGTGAACA
1 GGAGAGATTCCCTACAACAAAATGATGTGTGAATA
* * *
32396956 GGATAGATTCCCTGCAA-GAAATGATGTGTGAATA
1 GGAGAGATTCCCTACAACAAAATGATGTGTGAATA
* **
32396990 GGAGAGATTCCCTACAACAAAATAATGCATGAATA
1 GGAGAGATTCCCTACAACAAAATGATGTGTGAATA
* * * * *
32397025 GCAGAGATTCCCTGCAACAAAATAATGCGTGAACA
1 GGAGAGATTCCCTACAACAAAATGATGTGTGAATA
* * * *
32397060 GGAAATATTCCCTGCAAGAAAA
1 GGAGAGATTCCCTACAACAAAA
32397082 GACAAGTGAA
Statistics
Matches: 137, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
33 16 0.12
34 45 0.33
35 76 0.55
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (35 bp):
GGAGAGATTCCCTACAACAAAATGATGTGTGAATA
Found at i:32397033 original size:69 final size:68
Alignment explanation
Indices: 32396890--32397041 Score: 232
Period size: 69 Copynumber: 2.2 Consensus size: 68
32396880 ATAAAGATGG
* * **
32396890 AGAGATTCCCTACAAGAAATGATGTGTGAATAGAGAGATTCCCTACAACAAAATGATGTGTGAAC
1 AGAGATTCCCTGCAAGAAATGATGTGTGAATAGAGAGATTCCCTACAACAAAATAATGCATGAAC
*
32396955 AGG
66 AGC
*
32396958 ATAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTACAACAAAATAATGCATGAA
1 AGAGATTCCCTGCAAGAAATGATGTGTGAATA-GAGAGATTCCCTACAACAAAATAATGCATGAA
*
32397023 TAGC
65 CAGC
32397027 AGAGATTCCCTGCAA
1 AGAGATTCCCTGCAA
32397042 CAAAATAATG
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
68 30 0.40
69 45 0.60
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (68 bp):
AGAGATTCCCTGCAAGAAATGATGTGTGAATAGAGAGATTCCCTACAACAAAATAATGCATGAAC
AGC
Found at i:32397070 original size:104 final size:102
Alignment explanation
Indices: 32396888--32397080 Score: 287
Period size: 104 Copynumber: 1.9 Consensus size: 102
32396878 GTATAAAGAT
* * ** * *
32396888 GGAGAGATTCCCTACAAGAAATGATGTGTGAATAGAGAGATTCCCTACAACAAAATGATGTGTGA
1 GGAGAGATTCCCTACAAAAAATAATGCATGAATAGAGAGATTCCCTACAACAAAATAATGCGTGA
*
32396953 ACAGGATAGATTCCCTGCAAGAAATGATGTGTGAATA
66 ACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAATA
*
32396990 GGAGAGATTCCCTACAACAAAATAATGCATGAATAGCAGAGATTCCCTGCAACAAAATAATGCGT
1 GGAGAGATTCCCTACAA-AAAATAATGCATGAATAG-AGAGATTCCCTACAACAAAATAATGCGT
*
32397055 GAACAGGAAATATTCCCTGCAAGAAA
64 GAACAGGAAAGATTCCCTGCAAGAAA
32397081 AGACAAGTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 17 0.21
103 14 0.17
104 49 0.61
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (102 bp):
GGAGAGATTCCCTACAAAAAATAATGCATGAATAGAGAGATTCCCTACAACAAAATAATGCGTGA
ACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAATA
Found at i:32397310 original size:10 final size:10
Alignment explanation
Indices: 32397278--32397317 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
32397268 TTCTCCAAAG
32397278 AGTTTCTCAA
1 AGTTTCTCAA
* *
32397288 AATTT-TTAA
1 AGTTTCTCAA
32397297 AGTTTCTCAA
1 AGTTTCTCAA
32397307 AGTTTCTCAA
1 AGTTTCTCAA
32397317 A
1 A
32397318 ATTTTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (10 bp):
AGTTTCTCAA
Found at i:32397418 original size:27 final size:27
Alignment explanation
Indices: 32397380--32397431 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
32397370 TTTTCAAACC
32397380 GATCCTCAGATCCTCGGGACTTACTAA
1 GATCCTCAGATCCTCGGGACTTACTAA
32397407 GATCCTCAGATCCTCGGGACTTACT
1 GATCCTCAGATCCTCGGGACTTACT
32397432 GGTATCAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (27 bp):
GATCCTCAGATCCTCGGGACTTACTAA
Found at i:32431525 original size:37 final size:37
Alignment explanation
Indices: 32431447--32431525 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
32431437 GTGCCGAGGC
* * *
32431447 GTGTTATCGGTTGGATTAGCTCTCATAAGCGTTTGGC
1 GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
* * * *
32431484 GTGTTATTAGTTGGATTAGCTCTTATGAGTGTTTAGA
1 GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
32431521 GTGTT
1 GTGTT
32431526 TTGATTGGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (37 bp):
GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
Found at i:32445022 original size:120 final size:120
Alignment explanation
Indices: 32444809--32445048 Score: 383
Period size: 120 Copynumber: 2.0 Consensus size: 120
32444799 ATAATAAATT
* *
32444809 GAGTACTGAATACCCTATTAATTGTTTCGATAGAGTCGGATAAAGTTGGCATGACATAGGATAGG
1 GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCGAATAAAGTTGGCATGACATAGGATAGG
* * *
32444874 AAGAGTTCGGGATTACTTCAAATACGAGTCAATGAGGCACTAGGTGCCAAATTGC
66 AAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
* * *
32444929 GAGTAATGAATACCCTATTAATTGTTTCGGTAGAGTCGAATATAA-TTGGCATGCCATAGGATTG
1 GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCGAATA-AAGTTGGCATGACATAGGATAG
*
32444993 GAAGAGTTCAGGATTACTTCGAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
65 GAAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
32445049 TTCAGTTATA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 108 0.98
121 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (120 bp):
GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCGAATAAAGTTGGCATGACATAGGATAGG
AAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
Found at i:32457495 original size:23 final size:23
Alignment explanation
Indices: 32457405--32457496 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 23
32457395 GAGCCATGAT
*
32457405 CGGTAAGCTCATTCCAAGCTGATAAA
1 CGGTAAGCTCA-TACAAGCTG--AAA
* * *
32457431 CGATAAGCTC-TATCGAGCTAAAA
1 CGGTAAGCTCATA-CAAGCTGAAA
* * *
32457454 CAGTAAGCTCCGTA-GAGCTGAAA
1 CGGTAAGCT-CATACAAGCTGAAA
32457477 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACAAGCTG
32457497 TGGTGAGTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
22 3 0.06
23 31 0.60
24 2 0.04
25 7 0.13
26 9 0.17
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCATACAAGCTGAAA
Found at i:32468993 original size:4 final size:4
Alignment explanation
Indices: 32468984--32469010 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32468974 ATTGCTAATA
32468984 GATT GATT GATT GATT GATT GATT GAT
1 GATT GATT GATT GATT GATT GATT GAT
32469011 AATAGCATGT
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:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
GATT
Found at i:32470850 original size:5 final size:5
Alignment explanation
Indices: 32470835--32470869 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
32470825 GGAGAAAAAT
*
32470835 ACCCA ATCCA ACCCA ACCCA ACCCA ACCCA ACCCA
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA
32470870 GAGCTAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.40, C:0.57, G:0.00, T:0.03
Consensus pattern (5 bp):
ACCCA
Found at i:32471809 original size:37 final size:34
Alignment explanation
Indices: 32471768--32471853 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 34
32471758 AACACATTAA
*
32471768 AAATTATTTGTATTAAAAACACTACCATAAATATAAT
1 AAATTATTT-TATTAAAAACA-TA-AATAAATATAAT
*
32471805 AAATTTTTATTATATTAAAAACATAAATAAATATAAT
1 AAA---TTATTTTATTAAAAACATAAATAAATATAAT
32471842 AAA-TATTTTATT
1 AAATTATTTTATT
32471854 GTATTAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
33 8 0.19
37 17 0.40
38 2 0.05
39 11 0.26
40 5 0.12
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (34 bp):
AAATTATTTTATTAAAAACATAAATAAATATAAT
Found at i:32471860 original size:38 final size:39
Alignment explanation
Indices: 32471775--32471861 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 39
32471765 TAAAAATTAT
*
32471775 TTGTATTAAAAACACTACCATAAATATAATAAATTTTTA
1 TTGTATTAAAAACACTACAATAAATATAATAAATTTTTA
*
32471814 TTATATTAAAAACA-TA-AATAAATATAATAAATATTTTA
1 TTGTATTAAAAACACTACAATAAATATAATAAAT-TTTTA
32471852 TTGTATTAAA
1 TTGTATTAAA
32471862 TATAATTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 15 0.34
38 16 0.36
39 13 0.30
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (39 bp):
TTGTATTAAAAACACTACAATAAATATAATAAATTTTTA
Found at i:32475889 original size:12 final size:12
Alignment explanation
Indices: 32475872--32475897 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32475862 GTAAGAAATG
32475872 ATTCATTTGAAA
1 ATTCATTTGAAA
32475884 ATTCATTTGAAA
1 ATTCATTTGAAA
32475896 AT
1 AT
32475898 GAAAATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATTCATTTGAAA
Found at i:32482048 original size:17 final size:17
Alignment explanation
Indices: 32482022--32482054 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32482012 AATTATGTGC
32482022 ATATAATAAATTTAAAA
1 ATATAATAAATTTAAAA
*
32482039 ATATACTAAATTTAAA
1 ATATAATAAATTTAAA
32482055 CTGTACGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATAAATTTAAAA
Found at i:32498654 original size:12 final size:12
Alignment explanation
Indices: 32498637--32498662 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32498627 TAGAGCTTCG
32498637 AAAGCTCAATTT
1 AAAGCTCAATTT
32498649 AAAGCTCAATTT
1 AAAGCTCAATTT
32498661 AA
1 AA
32498663 GCTTAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AAAGCTCAATTT
Found at i:32505880 original size:28 final size:28
Alignment explanation
Indices: 32505846--32505904 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
32505836 GTAACAGTAC
32505846 AGTGTGGGCCTTAGCCCAATATAGTAAT
1 AGTGTGGGCCTTAGCCCAATATAGTAAT
32505874 AGTGTGGGCCTTAGCCCAATATAGTAAT
1 AGTGTGGGCCTTAGCCCAATATAGTAAT
32505902 AGT
1 AGT
32505905 ACAGTACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATATAGTAAT
Found at i:32506036 original size:26 final size:26
Alignment explanation
Indices: 32506007--32506057 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
32505997 AACACACCAA
32506007 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
32506033 TATCGCAGCAAAGCTGCCAGTAACA
1 TATCGCAGCAAAGCTGCCAGTAACA
32506058 TTATACTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:32506244 original size:27 final size:27
Alignment explanation
Indices: 32506214--32506447 Score: 261
Period size: 27 Copynumber: 8.7 Consensus size: 27
32506204 TCATCTTCTA
**
32506214 GGGGTATAACAATCATTTTACCCTATG
1 GGGGTATTTCAATCATTTTACCCTATG
*
32506241 GGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCAATCATTTTACCCTATG
* *
32506268 GGGGTATCTCGATCATTTTACCCTATG
1 GGGGTATTTCAATCATTTTACCCTATG
** * *
32506295 GGGGTATCGCAGTCATTTTATCCTATG
1 GGGGTATTTCAATCATTTTACCCTATG
* ** *
32506322 AGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAATCATTTTACCCTATG
* * *
32506349 GGGGTATTTCAGTCATTTTACCTTATT
1 GGGGTATTTCAATCATTTTACCCTATG
* *
32506376 GGGGTATTTCAGTCATTTTACCCTATA
1 GGGGTATTTCAATCATTTTACCCTATG
* * *
32506403 GGGGTATCTCGATCATTTTACCCTATA
1 GGGGTATTTCAATCATTTTACCCTATG
* *
32506430 AGGGTATTTCGATCATTT
1 GGGGTATTTCAATCATTT
32506448 ATTGACCTCT
Statistics
Matches: 182, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCAATCATTTTACCCTATG
Found at i:32506338 original size:81 final size:81
Alignment explanation
Indices: 32506226--32506447 Score: 313
Period size: 81 Copynumber: 2.7 Consensus size: 81
32506216 GGTATAACAA
* * *
32506226 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATCTCGATCATTTTACCC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTTTACCC
32506291 TATGGGGGTATCGCAG
66 TATGGGGGTATCGCAG
* *
32506307 TCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTC-AGTCATTTTACC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGA-TCATTTTACC
* * **
32506371 TTATTGGGGTATTTCAG
65 CTATGGGGGTATCGCAG
* *
32506388 TCATTTTACCCTAT-AGGGGTATCTCGATCATTTTACCCTATAAGGGTATTTCGATCATTT
1 TCATTTTACCCTATGA-GGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTT
32506448 ATTGACCTCT
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 2 0.02
81 122 0.98
82 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (81 bp):
TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTTTACCC
TATGGGGGTATCGCAG
Found at i:32508625 original size:16 final size:18
Alignment explanation
Indices: 32508604--32508642 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
32508594 TTATTGTGTA
*
32508604 TAAAATAAA-ATAT-TCT
1 TAAAATAAATAAATGTCT
32508620 TAAAATAAATAAATGTCT
1 TAAAATAAATAAATGTCT
32508638 TAAAA
1 TAAAA
32508643 GTAATACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAAATAAATAAATGTCT
Found at i:32514393 original size:19 final size:19
Alignment explanation
Indices: 32514366--32514402 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32514356 TGTATTGTGT
*
32514366 TGCTGTTAAATTAAATTAG
1 TGCTATTAAATTAAATTAG
*
32514385 TGCTATTAAATTACATTA
1 TGCTATTAAATTAAATTA
32514403 TGTTGGATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (19 bp):
TGCTATTAAATTAAATTAG
Found at i:32514432 original size:19 final size:20
Alignment explanation
Indices: 32514389--32514425 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
32514379 AATTAGTGCT
32514389 ATTAAATTACATTATGTTGG
1 ATTAAATTACATTATGTTGG
32514409 ATT-AATTACATTATGTT
1 ATTAAATTACATTATGTT
32514426 TTCTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (20 bp):
ATTAAATTACATTATGTTGG
Found at i:32517341 original size:17 final size:17
Alignment explanation
Indices: 32517319--32517352 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32517309 AAAGATAGAT
32517319 TCGTCAATTGGAGTGTC
1 TCGTCAATTGGAGTGTC
32517336 TCGTCAATTGGAGTGTC
1 TCGTCAATTGGAGTGTC
32517353 ACAGTTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (17 bp):
TCGTCAATTGGAGTGTC
Found at i:32519467 original size:25 final size:25
Alignment explanation
Indices: 32519439--32519527 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
32519429 TAACCCACAT
32519439 CTCGTATGAGCATATCGATTTACAA
1 CTCGTATGAGCATATCGATTTACAA
* * * *
32519464 CTCGTAAGAGCATACCAATTTACAG
1 CTCGTATGAGCATATCGATTTACAA
* *
32519489 CTCG-AGTGAGCATATAGATTCACAA
1 CTCGTA-TGAGCATATCGATTTACAA
32519514 CTCGTATGAGCATA
1 CTCGTATGAGCATA
32519528 CATGTACAGG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 50 0.96
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (25 bp):
CTCGTATGAGCATATCGATTTACAA
Found at i:32524273 original size:13 final size:13
Alignment explanation
Indices: 32524255--32524279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32524245 TTCGTTAGTT
32524255 TTTATTTATTTTA
1 TTTATTTATTTTA
32524268 TTTATTTATTTT
1 TTTATTTATTTT
32524280 GATTAATATT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:32524535 original size:20 final size:21
Alignment explanation
Indices: 32524501--32524549 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
32524491 CACTTCTTCT
* *
32524501 TTTTCTTATTTTTAT-TTTTA
1 TTTTCTTATTATTATATTTCA
*
32524521 TTTTCTTCTTATTATATTTCA
1 TTTTCTTATTATTATATTTCA
32524542 TATTTCTT
1 T-TTTCTT
32524550 GTAGTAGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 5 0.21
22 6 0.25
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCTTATTATTATATTTCA
Found at i:32530643 original size:12 final size:12
Alignment explanation
Indices: 32530626--32530655 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32530616 CCCCACATGC
*
32530626 CCATGTGCTAGG
1 CCATGTGCTAGA
32530638 CCATGTGCTAGA
1 CCATGTGCTAGA
32530650 CCATGT
1 CCATGT
32530656 AACTAACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (12 bp):
CCATGTGCTAGA
Found at i:32532488 original size:18 final size:18
Alignment explanation
Indices: 32532465--32532503 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
32532455 ACCTTCCCAA
*
32532465 TAACATTCACTAATACCT
1 TAACATCCACTAATACCT
32532483 TAACATCCACTAATACCT
1 TAACATCCACTAATACCT
32532501 TAA
1 TAA
32532504 GTCCATTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (18 bp):
TAACATCCACTAATACCT
Found at i:32536039 original size:9 final size:9
Alignment explanation
Indices: 32536026--32536101 Score: 100
Period size: 9 Copynumber: 8.4 Consensus size: 9
32536016 TTTGGATAAA
*
32536026 AATTAACCA
1 AATTAACCG
* *
32536035 AATTACCCA
1 AATTAACCG
32536044 AATTAACCG
1 AATTAACCG
32536053 AATT-ACCTG
1 AATTAACC-G
32536062 AATTAACCG
1 AATTAACCG
32536071 AATTAACCG
1 AATTAACCG
*
32536080 AATTACCCG
1 AATTAACCG
32536089 AATTAACCG
1 AATTAACCG
32536098 AATT
1 AATT
32536102 GAATCACTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
8 3 0.05
9 54 0.90
10 3 0.05
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:32538942 original size:56 final size:56
Alignment explanation
Indices: 32538865--32539151 Score: 263
Period size: 56 Copynumber: 5.1 Consensus size: 56
32538855 ATTTTTCAAT
* * * * * * *
32538865 AGCAT-AATAATGCTTACTTTGAGACACTGAAGCAACACTTTAATTTAATTTAGTAC
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAGCACTTTAATTCAATTTAGTAC
* * *
32538921 AGCAT-AATAATACTCAATTTGAAACA-TTAAACAGCAGC-TTAATTTAATTTAAG-AC
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAGCA-CTTTAATTCAATTT-AGTAC
32538976 AGCATGAAAATGCTCAATTT-AATACACTAAAACAGCAACTTTAATTCAATTTA-TGAC
1 AGCATGAAAATGCTCAATTTGAA-ACACTAAAACAGC-ACTTTAATTCAATTTAGT-AC
32539033 AGCATGAAAATGCTCAATTTGAAACACTAAAACAGCAGC-TTAATTCAATTTAAGATA-
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA-CTTTAATTCAATTT-AG-TAC
* * * *
32539090 A-TATGAAAATGCTCAATTTGAGACACTCAAACAACAACTTTAATTCAATTTA-TGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAGC-ACTTTAATTCAATTTAGT-AC
32539146 AGCATG
1 AGCATG
32539152 CAAACAGTAA
Statistics
Matches: 197, Mismatches: 15, Indels: 37
0.79 0.06 0.15
Matches are distributed among these distances:
54 3 0.02
55 41 0.21
56 83 0.42
57 66 0.34
58 3 0.02
59 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (56 bp):
AGCATGAAAATGCTCAATTTGAAACACTAAAACAGCACTTTAATTCAATTTAGTAC
Found at i:32539034 original size:57 final size:57
Alignment explanation
Indices: 32538901--32539151 Score: 307
Period size: 57 Copynumber: 4.5 Consensus size: 57
32538891 CTGAAGCAAC
* * *
32538901 ACTTTAATTTAATTT-AGTACAGCAT-AATAATACTCAATTTGAAACA-TTAAACAGCA
1 ACTTTAATTCAATTTAAG-ACAGCATGAA-AATGCTCAATTTGAAACACTAAAACAGCA
* *
32538957 GC-TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTT-AATACACTAAAACAGCA
1 ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAA-ACACTAAAACAGCA
*
32539013 ACTTTAATTCAATTTATGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA
1 ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA
* * ** * * *
32539070 GC-TTAATTCAATTTAAGATAATATGAAAATGCTCAATTTGAGACACTCAAACAACA
1 ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA
*
32539126 ACTTTAATTCAATTTATGACAGCATG
1 ACTTTAATTCAATTTAAGACAGCATG
32539152 CAAACAGTAA
Statistics
Matches: 169, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
54 2 0.01
55 33 0.20
56 63 0.37
57 69 0.41
58 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (57 bp):
ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA
Found at i:32539102 original size:113 final size:113
Alignment explanation
Indices: 32538886--32539151 Score: 369
Period size: 113 Copynumber: 2.4 Consensus size: 113
32538876 GCTTACTTTG
* * *
32538886 AGACACTGAAGCAAC-ACTTTAATTTAATTTA-GTACAGCAT-AATAATACTCAATTTGAAACAT
1 AGACACTAAAACAACAACTTTAATTCAATTTATG-ACAGCATGAATAATACTCAATTTGAAACAT
* * *
32538948 TAAACAGCAGCTTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTA
65 AAAACAGCAGCTTAATTCAATTTAAGACAACATGAAAATGCTCAATTTA
* * *
32538997 ATACACTAAAACAGCAACTTTAATTCAATTTATGACAGCATGAA-AATGCTCAATTTGAAACACT
1 AGACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTCAATTTGAAACA-T
* * *
32539061 AAAACAGCAGCTTAATTCAATTTAAGATAATATGAAAATGCTCAATTTG
65 AAAACAGCAGCTTAATTCAATTTAAGACAACATGAAAATGCTCAATTTA
*
32539110 AGACACTCAAACAACAACTTTAATTCAATTTATGACAGCATG
1 AGACACTAAAACAACAACTTTAATTCAATTTATGACAGCATG
32539152 CAAACAGTAA
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
111 11 0.08
112 39 0.29
113 86 0.63
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.29
Consensus pattern (113 bp):
AGACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTCAATTTGAAACATA
AAACAGCAGCTTAATTCAATTTAAGACAACATGAAAATGCTCAATTTA
Found at i:32549893 original size:43 final size:44
Alignment explanation
Indices: 32549786--32549907 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 44
32549776 CTCGTACAAC
* ***
32549786 GCCAACGTCCTAGACGTGGTCTTACA-TGTAATCACTAATCGAT
1 GCCAACATCCTAGACGTGGTCTTACACAAAAATCACTAATCGAT
* *
32549829 GCC-ACTATCCCAAACAG-GGTCTTACACAAAAAT-A-TAAATCGAT
1 GCCAAC-ATCCTAGAC-GTGGTCTTACACAAAAATCACT-AATCGAT
*
32549872 GCCAACATCCTAGACGTGGTCTTACACGAAAA-CACT
1 GCCAACATCCTAGACGTGGTCTTACACAAAAATCACT
32549908 TATCAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
42 4 0.06
43 51 0.82
44 7 0.11
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (44 bp):
GCCAACATCCTAGACGTGGTCTTACACAAAAATCACTAATCGAT
Found at i:32551379 original size:27 final size:27
Alignment explanation
Indices: 32551348--32551567 Score: 239
Period size: 27 Copynumber: 8.1 Consensus size: 27
32551338 AAAGGTTGTT
* *
32551348 AAATTACCAAAATACCTTTGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* * *
32551375 AAATTATCGAAATACCCTCAAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* *** *
32551402 AATTTATTGAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
32551429 AAATTACCAAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
32551456 AAATTACCAAAATACCCTCGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
32551483 AAATTATCAAAATACCCTC-AATGGGTA
1 AAATTACCAAAATACCCTCGAA-GGGTA
* *
32551510 AAATTACTAAAATA-CCTCCGATGGGTA
1 AAATTACCAAAATACCCT-CGAAGGGTA
* * *
32551537 AAATTATCGAAATACCC-CTATAGGGTA
1 AAATTACCAAAATACCCTCGA-AGGGTA
32551564 AAAT
1 AAAT
32551568 GACCGTTATA
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.04
27 155 0.94
28 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGAAGGGTA
Found at i:32551428 original size:54 final size:54
Alignment explanation
Indices: 32551348--32551567 Score: 273
Period size: 54 Copynumber: 4.1 Consensus size: 54
32551338 AAAGGTTGTT
* * * * * *
32551348 AAATTACCAAAATACCTTTGAAGGGTAAAATTATCGAAATACCCTCAAAGGGTA
1 AAATTACTAAAATACCCTCGATGGGTAAAATTATCAAAATACCCTCAATGGGTA
* * * * *
32551402 AATTTATTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTA
1 AAATTACTAAAATACCCTCGATGGGTAAAATTATCAAAATACCCTCAATGGGTA
* *
32551456 AAATTACCAAAATACCCTCGAAGGGTAAAATTATCAAAATACCCTCAATGGGTA
1 AAATTACTAAAATACCCTCGATGGGTAAAATTATCAAAATACCCTCAATGGGTA
* *
32551510 AAATTACTAAAATA-CCTCCGATGGGTAAAATTATCGAAATACCC-CTATAGGGTA
1 AAATTACTAAAATACCCT-CGATGGGTAAAATTATCAAAATACCCTCAAT-GGGTA
32551564 AAAT
1 AAAT
32551568 GACCGTTATA
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 6 0.04
54 136 0.96
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATGGGTAAAATTATCAAAATACCCTCAATGGGTA
Found at i:32551483 original size:81 final size:81
Alignment explanation
Indices: 32551348--32551567 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 81
32551338 AAAGGTTGTT
* * * * **
32551348 AAATTACCAAAATACCTTTGAAGGGTAAAATTATCGAAATACCCTCAAAGGGTAAATTTATTGAA
1 AAATTACCAAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATCAAA
*
32551413 ATACCCTCGATGGGTA
66 ATACCCTCAATGGGTA
* * *
32551429 AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGAAGGGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATCAAA
32551494 ATACCCTCAATGGGTA
66 ATACCCTCAATGGGTA
* *
32551510 AAATTACTAAAATA-CCTCCGATGGGTAAAATTATCGAAATACCC-CTATAGGGTAAAAT
1 AAATTACCAAAATACCCT-CGATGGGTAAAATTATCGAAATACCCTC-AAAGGGTAAAAT
32551568 GACCGTTATA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
80 4 0.03
81 118 0.97
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATCAAA
ATACCCTCAATGGGTA
Found at i:32556727 original size:5 final size:5
Alignment explanation
Indices: 32556717--32556742 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32556707 TGAGTATTCG
32556717 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
32556743 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:32557536 original size:30 final size:31
Alignment explanation
Indices: 32557497--32557556 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
32557487 GGAGGTGGGA
*
32557497 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
32557528 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
32557557 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:32568661 original size:18 final size:18
Alignment explanation
Indices: 32568638--32568677 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
32568628 AATTTTTTAA
32568638 AATTGTAACTTAAAT-TCT
1 AATTGT-ACTTAAATGTCT
*
32568656 AATTGTTCTTAAATGTCT
1 AATTGTACTTAAATGTCT
32568674 AATT
1 AATT
32568678 ATCACAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (18 bp):
AATTGTACTTAAATGTCT
Found at i:32568906 original size:44 final size:44
Alignment explanation
Indices: 32568852--32568935 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
32568842 ATAAAATAAA
* *
32568852 AGTTGCGATAACTATACATTTAAAAATAATTATAATTTAATATC
1 AGTTGCGATAACTACACATTTAAAAATAATTAGAATTTAATATC
* *
32568896 AGTTGTGATAATTACACATTTAAAAATAATTAGAATTTAA
1 AGTTGCGATAACTACACATTTAAAAATAATTAGAATTTAA
32568936 ATTACAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.38
Consensus pattern (44 bp):
AGTTGCGATAACTACACATTTAAAAATAATTAGAATTTAATATC
Found at i:32568935 original size:17 final size:18
Alignment explanation
Indices: 32568903--32568936 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32568893 ATCAGTTGTG
32568903 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
32568921 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
32568937 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:32570009 original size:17 final size:17
Alignment explanation
Indices: 32569970--32570011 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
32569960 TTTAGTATAG
*
32569970 TTTTTT-TTATATAAAT
1 TTTTTTATTATACAAAT
* *
32569986 ATATTTATTATACAAAT
1 TTTTTTATTATACAAAT
32570003 TTTTTTATT
1 TTTTTTATT
32570012 TATATTTGTA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTATTATACAAAT
Found at i:32573040 original size:15 final size:15
Alignment explanation
Indices: 32573022--32573052 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32573012 CAGTTATAGG
32573022 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
*
32573037 AAAAAGAAAAAGAAA
1 AAAAAAAAAAAGAAA
32573052 A
1 A
32573053 GAGAAAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:32579576 original size:25 final size:23
Alignment explanation
Indices: 32579541--32579626 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 23
32579531 ATATATACAA
32579541 AATATATAAATGTTTTCAAAAAATAT
1 AATA-ATAAAT-TTTT-AAAAAATAT
* *
32579567 AATAATAAATTTATAAAATATAT
1 AATAATAAATTTTTAAAAAATAT
*
32579590 AAAAATAAATATTTTTAAAAAATAT
1 AATAAT-AA-ATTTTTAAAAAATAT
32579615 AATAATAAATTT
1 AATAATAAATTT
32579627 AAATTTTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
23 17 0.33
24 7 0.13
25 24 0.46
26 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (23 bp):
AATAATAAATTTTTAAAAAATAT
Found at i:32579610 original size:48 final size:52
Alignment explanation
Indices: 32579524--32579629 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 52
32579514 TTTAAAATTT
32579524 TTTAAAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
1 TTTAAAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
*
32579576 TTTATAAAATATATA-AAAATA-A-ATAT-TTTT-AAAAAATATAATAATAAA
1 TTTA-AAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
32579624 TTTAAA
1 TTTAAA
32579630 TTTTATATTG
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
47 2 0.04
48 22 0.42
49 4 0.08
50 3 0.06
51 1 0.02
52 10 0.19
53 10 0.19
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (52 bp):
TTTAAAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
Found at i:32582167 original size:27 final size:24
Alignment explanation
Indices: 32582124--32582176 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
32582114 CAAGTTTGAG
*
32582124 TTTATAAAGTTTGTTTGTAATTATT
1 TTTATAAACTTTGTTTGT-ATTATT
*
32582149 TTTATATAACTTTGTTTTGTTTTATT
1 TTTATA-AACTTTG-TTTGTATTATT
32582175 TT
1 TT
32582177 ATTTTGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 13 0.54
27 5 0.21
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (24 bp):
TTTATAAACTTTGTTTGTATTATT
Found at i:32585813 original size:21 final size:21
Alignment explanation
Indices: 32585788--32585830 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
32585778 ACATGAACCA
32585788 AATTTAA-TGTTAAGTGTGAAC
1 AATTTAATTGTT-AGTGTGAAC
32585809 AATTTAATTGTTAGTGTGAAC
1 AATTTAATTGTTAGTGTGAAC
32585830 A
1 A
32585831 CATCTAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
AATTTAATTGTTAGTGTGAAC
Found at i:32587269 original size:20 final size:22
Alignment explanation
Indices: 32587241--32587280 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
32587231 TGGAAAATTA
32587241 TTTTAAGAA-TA-AATTCTATT
1 TTTTAAGAATTACAATTCTATT
*
32587261 TTTTGAGAATTACAATTCTA
1 TTTTAAGAATTACAATTCTA
32587281 CCGGTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTTAAGAATTACAATTCTATT
Found at i:32587919 original size:36 final size:36
Alignment explanation
Indices: 32587879--32587949 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
32587869 ATCAAGGGCT
*
32587879 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
32587915 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
32587950 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:32587920 original size:19 final size:19
Alignment explanation
Indices: 32587896--32587949 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
32587886 AAAGTTGTAT
32587896 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
32587915 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
32587932 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
32587950 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:32587937 original size:17 final size:17
Alignment explanation
Indices: 32587878--32587941 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
32587868 CATCAAGGGC
* *
32587878 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
32587895 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
32587914 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
32587931 TACAATTAGAA
1 TACAATTAGAA
32587942 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:32597141 original size:21 final size:22
Alignment explanation
Indices: 32597099--32597140 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32597089 TAGTATACAC
*
32597099 TGGTTGAACCAAGTTAAAAAAT
1 TGGTTGAACCAAGCTAAAAAAT
*
32597121 TGGTTGAACCGAGCTAAAAA
1 TGGTTGAACCAAGCTAAAAA
32597141 TCAATTGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (22 bp):
TGGTTGAACCAAGCTAAAAAAT
Found at i:32605082 original size:234 final size:235
Alignment explanation
Indices: 32604671--32605139 Score: 762
Period size: 234 Copynumber: 2.0 Consensus size: 235
32604661 AATGATAGTA
* * * *
32604671 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGAT
1 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCCGAC
* *
32604736 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG
*
32604801 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
130 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
32604866 TAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGAT
195 TAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGAT
*
32604907 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATGTGTGATAAGGCCTAATAGCCGACG
1 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGACG
**
32604971 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGT
66 TGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGT
* **
32605036 ATGTGTGTGATAAGGCCTAATAGG-CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
131 ATATACGTGATAAGGCCTAAT-GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
32605100 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
195 TAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
32605140 CAAGGCCGAG
Statistics
Matches: 216, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
234 181 0.84
235 2 0.01
236 33 0.15
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (235 bp):
AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGACG
TGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGT
ATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGAT
Found at i:32605169 original size:47 final size:47
Alignment explanation
Indices: 32604669--32605146 Score: 762
Period size: 47 Copynumber: 10.1 Consensus size: 47
32604659 GAAATGATAG
32604669 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
32604718 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
32604765 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
32604812 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
32604859 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
32604906 T-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
32604952 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
32604999 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32605046 TAAGGCCTAATAGG-CGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAAT-GGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32605093 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
32605140 CAAGGCC
1 TAAGGCC
32605147 GAGTGGCCAA
Statistics
Matches: 411, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
46 47 0.11
47 328 0.80
48 1 0.00
49 35 0.09
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:32605365 original size:37 final size:37
Alignment explanation
Indices: 32605309--32605387 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
32605299 CCGAGCTCTA
* * *
32605309 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
32605346 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32605383 AAGAC
1 AAGAC
32605388 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Done.