Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 20 of 100
Found at i:3892554 original size:22 final size:23
Alignment explanation
Indices: 3892519--3892563 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
3892509 AATCGAATTT
*
3892519 ATGCCCTGAGGTCTTACA-AATC
1 ATGCCCGGAGGTCTTACAGAATC
*
3892541 ATGCCCGGATGTCTTACAGAATC
1 ATGCCCGGAGGTCTTACAGAATC
3892564 GATTAGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (23 bp):
ATGCCCGGAGGTCTTACAGAATC
Found at i:3892652 original size:110 final size:110
Alignment explanation
Indices: 3892464--3893084 Score: 633
Period size: 110 Copynumber: 5.7 Consensus size: 110
3892454 GATTGAGATG
* * * *
3892464 ACACCGCAAGTCAAAAAATAATGAATTGATCAAGATAACATCGCGAATCGAATTTATGCCCTG-A
1 ACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACACCGCGAATCGAATTTATGCCC-GAA
* * *
3892528 GGTCTTACAAATCATGCCCGGATGTCTTACAGAATCGATTAGGATA
65 GGTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATA
* * * *
3892574 ACATCGCAAGTTAAAAAATAAGGAATCGATCGAGATAACACCGCGAATC-AATTTTATGCTCGAA
1 ACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACACCGCGAATCGAA-TTTATGCCCGAA
* * * *
3892638 GGTCTTAGACATCATGCCCGAAGGTCTTACAGAATCGACTAGGATA
65 GGTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATA
* * * * * ** * *
3892684 ACACTGAAAGTCGAAAGATAAAGAATCGATCGAGATAACACCGTGAATTAAAATTATGCCCAAAG
1 ACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACACCGCGAATCGAATTTATGCCCGAAG
*
3892749 GTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATA
66 GTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATA
* * * * * * * * *
3892794 ACACCACAAGTCAAAAGATAAAGAATCGATCGGGATAACATCACGAATCGAAATTATACCTGGAG
1 ACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACACCGCGAATCGAATTTATGCCCGAAG
* * * *
3892859 GTTTTACAAATCATGCCCGAAGGTCTTTCAAAATCGACTGGGATA
66 GTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATA
* * ** * * * *
3892904 ACATCACAAGTTGAAAAATAAAGAATTGGTC-AGGATAACATCGCGAATCGAATTTATGCTCGAA
1 ACACCGCAAGTCAAAAAATAAAGAATCGATCGA-GATAACACCGCGAATCGAATTTATGCCCGAA
* * * * *
3892968 GGTCTTAAAAATTATGTCCGGAGGTCTTATAGAATTGA-TCGGGATA
65 GGTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGACT-GGGATA
* * ** * * * *
3893014 ACACCGCAAGTC-AAAAATAAAGAATCAATCG-GATAATACCGTAAATCAAAATTATACCCGGAG
1 ACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACACCGCGAATCGAATTTATGCCCGAAG
3893077 GTCTTACA
66 GTCTTACA
3893085 GAATTGATTG
Statistics
Matches: 421, Mismatches: 84, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
108 30 0.07
109 19 0.05
110 370 0.88
111 2 0.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (110 bp):
ACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACACCGCGAATCGAATTTATGCCCGAAG
GTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATA
Found at i:3892764 original size:22 final size:22
Alignment explanation
Indices: 3892734--3892776 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3892724 CCGTGAATTA
*
3892734 AAATTATGCCCAAAGGTCTTAG
1 AAATCATGCCCAAAGGTCTTAG
**
3892756 AAATCATGCCCGGAGGTCTTA
1 AAATCATGCCCAAAGGTCTTA
3892777 CAGAATCGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (22 bp):
AAATCATGCCCAAAGGTCTTAG
Found at i:3893203 original size:23 final size:23
Alignment explanation
Indices: 3893155--3893221 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
3893145 AATCAAATTT
* *
3893155 ATGCCGGGAGGTCTTAGA-AATC
1 ATGCCTGGAGGTCTTACAGAATC
*
3893177 ATG-CTCGGAGGTCTTATAGAATC
1 ATGCCT-GGAGGTCTTACAGAATC
*
3893200 ATGCCTAGAGGTCTTACAGAAT
1 ATGCCTGGAGGTCTTACAGAAT
3893222 TGATCGGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 14 0.37
23 21 0.55
24 2 0.05
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (23 bp):
ATGCCTGGAGGTCTTACAGAATC
Found at i:3893312 original size:22 final size:22
Alignment explanation
Indices: 3893282--3893376 Score: 102
Period size: 22 Copynumber: 4.2 Consensus size: 22
3893272 TCACGAATCG
* *
3893282 AAATTATGCCCGGAAGTCTTAT
1 AAATCATGCCCGGAAGTCTTAC
* *
3893304 AAATCATGCCCGAAAGTCTTAG
1 AAATCATGCCCGGAAGTCTTAC
3893326 AAATCATGCCC-GAAGGTCTTAC
1 AAATCATGCCCGGAA-GTCTTAC
* *
3893348 AGAATCATGTCCGGAGGTCTTAC
1 A-AATCATGCCCGGAAGTCTTAC
3893371 AGAATC
1 A-AATC
3893377 GACTGGGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
21 2 0.03
22 37 0.59
23 22 0.35
24 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (22 bp):
AAATCATGCCCGGAAGTCTTAC
Found at i:3893323 original size:132 final size:131
Alignment explanation
Indices: 3893074--3893352 Score: 355
Period size: 132 Copynumber: 2.1 Consensus size: 131
3893064 ATTATACCCG
* *
3893074 GAGGTCTTACAGAATTGATTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGAGAAAAT
1 GAGGTCTTACAGAATTGATCGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGAGAAAAC
** * * * * * *
3893139 ATCGTGAATCAAATTTATGCCGGGAGGTCTTAGAAATCATGCTCGGAGGTCTTATAGAATCATGC
66 ATCACGAATCAAATTTATGCCCGGAAGTCTTAGAAATCATGCCCGAAAGTCTTAGA-AATCATGC
3893204 CTA
130 C-A
** * * *
3893207 GAGGTCTTACAGAATTGATCGGGATAACACCGTAAGTCAAAA-ATAAAGAATCGATTGGGACAAC
1 GAGGTCTTACAGAATTGATCGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGAGAAAAC
*
3893271 ATCACGAATCGAAA-TTATGCCCGGAAGTCTTATAAATCATGCCCGAAAGTCTTAGAAATCATGC
66 ATCACGAATC-AAATTTATGCCCGGAAGTCTTAGAAATCATGCCCGAAAGTCTTAGAAATCATGC
*
3893335 CC
130 CA
3893337 GAAGGTCTTACAGAAT
1 G-AGGTCTTACAGAAT
3893353 CATGTCCGGA
Statistics
Matches: 127, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
130 1 0.01
131 23 0.18
132 61 0.48
133 42 0.33
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (131 bp):
GAGGTCTTACAGAATTGATCGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGAGAAAAC
ATCACGAATCAAATTTATGCCCGGAAGTCTTAGAAATCATGCCCGAAAGTCTTAGAAATCATGCC
A
Found at i:3893402 original size:154 final size:155
Alignment explanation
Indices: 3893165--3893479 Score: 397
Period size: 154 Copynumber: 2.0 Consensus size: 155
3893155 ATGCCGGGAG
* * * *
3893165 GTCTTAGAAATCATGCTCGGAGGTCTTATAGAATCATGCCTAGAGGTCTTACAGAATTGATCGGG
1 GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCATGCCTAGAGGTCTTACAGAATCGATCGGG
* ** *
3893230 ATAACACCGTAAGTC-AAAAATAA-AGAATCGATTGGGACAACATCACGAATCGAAATTATGCCC
66 ATAACACCGAAAGTCAAAAAATAAGA-AATCGATCAGGACAACACCACGAATCGAAATTATGCCC
*
3893293 GGAAG-TCTTATAAATCATGCCCGAAA
130 GG-AGCTCTTAGAAATCATGCCCGAAA
*
3893319 GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCATGTCC-GGAGGTCTTACAGAATCGA-CTG
1 GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCATG-CCTAGAGGTCTTACAGAATCGATC-G
* * * * * *
3893382 GGATAATATCGAAAGTCAAAAAATAAGAAATCGATCAGGATAACACCGCGAATCGAATTTATGTC
64 GGATAACACCGAAAGTCAAAAAATAAGAAATCGATCAGGACAACACCACGAATCGAAATTATGCC
* *
3893447 CGGAGCTCTTAGAGATCATGCCCGAAG
129 CGGAGCTCTTAGAAATCATGCCCGAAA
3893474 GTCTTA
1 GTCTTA
3893480 CAAAATCGAC
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
153 1 0.01
154 69 0.50
155 67 0.49
156 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (155 bp):
GTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCATGCCTAGAGGTCTTACAGAATCGATCGGG
ATAACACCGAAAGTCAAAAAATAAGAAATCGATCAGGACAACACCACGAATCGAAATTATGCCCG
GAGCTCTTAGAAATCATGCCCGAAA
Found at i:3893545 original size:109 final size:111
Alignment explanation
Indices: 3893342--3893553 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 111
3893332 TGCCCGAAGG
* * * *
3893342 TCTTACAGAATCATGTCCGGAGGTCTTACAGAATCGACTGGGATAATATCGAAAGTCAAAAAATA
1 TCTTACAGAATCATGCCCGAAGGTCTTACAAAATCGACTGGGATAACATCGAAAGTCAAAAAATA
* * *
3893407 AGAAATCGATCAGGATAACACCGCGAATCGAATTTATGTCCGGAGC
66 AGAAATCGATCAGGATAACACCACAAATCGAAATTATGTCCGGAGC
* * * * *
3893453 TCTTAGAG-ATCATGCCCGAAGGTCTTACAAAATCGACTGGGCTAACATCG-CAGTCGAAAGATA
1 TCTTACAGAATCATGCCCGAAGGTCTTACAAAATCGACTGGGATAACATCGAAAGTCAAAAAATA
* *
3893516 AGAAATCGATCGGGATAACACCATAAATCGAAATTATG
66 AGAAATCGATCAGGATAACACCACAAATCGAAATTATG
3893554 CCCAGAGGTC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
109 43 0.49
110 37 0.43
111 7 0.08
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (111 bp):
TCTTACAGAATCATGCCCGAAGGTCTTACAAAATCGACTGGGATAACATCGAAAGTCAAAAAATA
AGAAATCGATCAGGATAACACCACAAATCGAAATTATGTCCGGAGC
Found at i:3893585 original size:109 final size:109
Alignment explanation
Indices: 3893325--3893588 Score: 264
Period size: 109 Copynumber: 2.4 Consensus size: 109
3893315 GAAAGTCTTA
* * * * * *
3893325 GAAATCATGCCC-GAAGGTCTTACAGAATCATGTCCGGAGGTCTTACAGAATCGACTGGGATAAT
1 GAAATTATGCCCAG-AGCTCTTAAAG-ATCATG-CCAGAGGTCTTACAAAATCGACTGGGATAAC
* *
3893389 ATCGAAAGTCAAAAAATAAGAAATCGATCAGGATAACACCGCGAATC
63 ATCGAAAGTCAAAAAATAAGAAATCGATCAGGATAACACCACAAATC
* * * * * *
3893436 GAATTTATGTCCGGAGCTCTTAGAGATCATGCCCGAAGGTCTTACAAAATCGACTGGGCTAACAT
1 GAAATTATGCCCAGAGCTCTTAAAGATCATGCCAG-AGGTCTTACAAAATCGACTGGGATAACAT
* * * * *
3893501 CG-CAGTCGAAAGATAAGAAATCGATCGGGATAACACCATAAATC
65 CGAAAGTCAAAAAATAAGAAATCGATCAGGATAACACCACAAATC
* *
3893545 GAAATTATGCCCAGAGGTCTTGAAAG-TTATGCTCAGAGGTCTTA
1 GAAATTATGCCCAGAGCTCTT-AAAGATCATGC-CAGAGGTCTTA
3893589 AAGATTATGC
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
109 68 0.54
110 39 0.31
111 18 0.14
112 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (109 bp):
GAAATTATGCCCAGAGCTCTTAAAGATCATGCCAGAGGTCTTACAAAATCGACTGGGATAACATC
GAAAGTCAAAAAATAAGAAATCGATCAGGATAACACCACAAATC
Found at i:3893610 original size:22 final size:22
Alignment explanation
Indices: 3893548--3893610 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
3893538 ATAAATCGAA
3893548 ATTATGCCCAGAGGTCTTGAAAG
1 ATTATGCCCAGAGGTCTT-AAAG
*
3893571 -TTATGCTCAGAGGTCTTAAAG
1 ATTATGCCCAGAGGTCTTAAAG
3893592 ATTATGCCCAGAGGTCTTA
1 ATTATGCCCAGAGGTCTTA
3893611 CAAATCTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 4 0.11
22 33 0.89
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (22 bp):
ATTATGCCCAGAGGTCTTAAAG
Found at i:3893803 original size:122 final size:123
Alignment explanation
Indices: 3893586--3893832 Score: 442
Period size: 122 Copynumber: 2.0 Consensus size: 123
3893576 CTCAGAGGTC
*
3893586 TTAAAGATTATGCCCAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGAC
1 TTAAAGATTATACCCAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGAC
*
3893651 AATGAAACTTTAAAAATTTTAAAATCTTTTAATCTTGAAAGTCGTGCACAAA-GGCTT
66 AATGAAACTTTAAAAATTTTAAAATCTTTTAATCTTGAAAATCGTGCACAAATGGCTT
* * *
3893708 TTAAAGATTATACCCGGAGGTTTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGC
1 TTAAAGATTATACCCAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGAC
3893773 AATGAAACTTTAAAAATTTTAAAATCTTTTAATCTTGAAAATCGTGCACAAATGGCTT
66 AATGAAACTTTAAAAATTTTAAAATCTTTTAATCTTGAAAATCGTGCACAAATGGCTT
3893831 TT
1 TT
3893833 TAAAAATGCA
Statistics
Matches: 119, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
122 112 0.94
123 7 0.06
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (123 bp):
TTAAAGATTATACCCAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGAC
AATGAAACTTTAAAAATTTTAAAATCTTTTAATCTTGAAAATCGTGCACAAATGGCTT
Found at i:3894129 original size:41 final size:41
Alignment explanation
Indices: 3894063--3894167 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
3894053 TTCTGAGAAA
*
3894063 GGTTCC-CTCTAAACAGAGGCTTTGAAATCTTGATTGAAATT
1 GGTTCCTCT-TAAACAGAGACTTTGAAATCTTGATTGAAATT
*
3894104 GGTTTCTCTTAAACAGAGACTTTGAAATCTTGATTGAAATT
1 GGTTCCTCTTAAACAGAGACTTTGAAATCTTGATTGAAATT
3894145 GGTTCCTCTTAAACAGAGACTTT
1 GGTTCCTCTTAAACAGAGACTTT
3894168 AAAACTTTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 58 0.97
42 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (41 bp):
GGTTCCTCTTAAACAGAGACTTTGAAATCTTGATTGAAATT
Found at i:3896472 original size:18 final size:18
Alignment explanation
Indices: 3896440--3896491 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
3896430 CAAAATAAAA
* *
3896440 CTTTTTTTCTCTTTTTCT
1 CTTTTTTTTTTTTTTTCT
*
3896458 CTTTTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTTTTCT
* *
3896476 ATTTTTTATTTTTTTT
1 CTTTTTTTTTTTTTTT
3896492 GAAAGTTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.87
Consensus pattern (18 bp):
CTTTTTTTTTTTTTTTCT
Found at i:3900788 original size:13 final size:13
Alignment explanation
Indices: 3900754--3900790 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3900744 CAAGTAAGAG
3900754 AAATAATATAAC-
1 AAATAATATAACA
*
3900766 AAA-CATATAACA
1 AAATAATATAACA
3900778 AAATAATATAACA
1 AAATAATATAACA
3900791 TATAAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAATATAACA
Found at i:3902450 original size:51 final size:51
Alignment explanation
Indices: 3902388--3902497 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
3902378 AGGATATAGA
* * * *
3902388 AGGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTA-GGA-TTTGGCTTTTG
1 AGGTTTGGGGTTTTGAATTAAGAGTTT-G-GATTTTAGGGATTTTGGATTTTG
*
3902439 AGGTTTGGGGTTTTGAATTAAGGGTTTGGATTTTAGGGATTTTGGATTTTG
1 AGGTTTGGGGTTTTGAATTAAGAGTTTGGATTTTAGGGATTTTGGATTTTG
*
3902490 GGGTTTGG
1 AGGTTTGG
3902498 ATTTAAGAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
49 7 0.14
50 4 0.08
51 40 0.78
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.47
Consensus pattern (51 bp):
AGGTTTGGGGTTTTGAATTAAGAGTTTGGATTTTAGGGATTTTGGATTTTG
Found at i:3902494 original size:30 final size:30
Alignment explanation
Indices: 3902460--3902554 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
3902450 TTTGAATTAA
3902460 GGGTTTGGATTTTAGGGATTTTGGATTTTG
1 GGGTTTGGATTTTAGGGATTTTGGATTTTG
* * *
3902490 GGGTTTGGATTTAAGAG-TTTAAAGG--TTTG
1 GGGTTTGGATTTTAGGGATTT--TGGATTTTG
*
3902519 GGATTTCGGATTTTA-GGATTTTGGATTTTAG
1 GGGTTT-GGATTTTAGGGATTTTGGATTTT-G
3902550 GGGTT
1 GGGTT
3902555 GTAGAAACTT
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
28 2 0.04
29 13 0.26
30 28 0.56
31 7 0.14
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.46
Consensus pattern (30 bp):
GGGTTTGGATTTTAGGGATTTTGGATTTTG
Found at i:3902539 original size:15 final size:15
Alignment explanation
Indices: 3902519--3902550 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3902509 TAAAGGTTTG
3902519 GGATTTCGGATTTTA
1 GGATTTCGGATTTTA
*
3902534 GGATTTTGGATTTTA
1 GGATTTCGGATTTTA
3902549 GG
1 GG
3902551 GGTTGTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (15 bp):
GGATTTCGGATTTTA
Found at i:3903643 original size:15 final size:14
Alignment explanation
Indices: 3903623--3903655 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
3903613 GTTTGTCTCT
3903623 TTTTTCTTGTTTCTA
1 TTTTTC-TGTTTCTA
3903638 TTTTTCTGTTTCTA
1 TTTTTCTGTTTCTA
3903652 TTTT
1 TTTT
3903656 CGTGGTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTTCTGTTTCTA
Found at i:3906170 original size:30 final size:30
Alignment explanation
Indices: 3906135--3906199 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
3906125 CTTTTAGTTA
*
3906135 CTTTAGCATTTGTACAAGTTTTTAGCATTT
1 CTTTAGCATTTGTACAAGTTTCTAGCATTT
* *
3906165 CTTTAGCATTTGTACGAGTTTCTGGCATTT
1 CTTTAGCATTTGTACAAGTTTCTAGCATTT
3906195 CTTTA
1 CTTTA
3906200 AATTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (30 bp):
CTTTAGCATTTGTACAAGTTTCTAGCATTT
Found at i:3909113 original size:29 final size:28
Alignment explanation
Indices: 3909077--3909131 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
3909067 TTATATGAAT
*
3909077 TTTATTAAAATAAATATATGTTTAATTTA
1 TTTATTAAAATAAACATATG-TTAATTTA
* *
3909106 TTTATTAACATTAACATATGTTAATT
1 TTTATTAAAATAAACATATGTTAATT
3909132 ACAGACACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (28 bp):
TTTATTAAAATAAACATATGTTAATTTA
Found at i:3916941 original size:39 final size:40
Alignment explanation
Indices: 3916887--3916965 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
3916877 GTATCTGAAG
*
3916887 CTGGGAATGTATCACTTCCCAT-TAAAAACCAGCTGTTTC
1 CTGGGAATGTATCACTTCCCATAAAAAAACCAGCTGTTTC
*
3916926 CTGGGAATGTATCACTTCCTATAAAAAAAACCAGCTGTTT
1 CTGGGAATGTATCACTTCCCAT-AAAAAAACCAGCTGTTT
3916966 TTCTATCAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 21 0.58
41 15 0.42
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (40 bp):
CTGGGAATGTATCACTTCCCATAAAAAAACCAGCTGTTTC
Found at i:3917237 original size:19 final size:19
Alignment explanation
Indices: 3917213--3917250 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3917203 ATAAAAATAT
*
3917213 TTTATT-TATTTTTATTAAA
1 TTTATTATAATTTT-TTAAA
3917232 TTTATTATAATTTTTTAAA
1 TTTATTATAATTTTTTAAA
3917251 ATTTTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTATAATTTTTTAAA
Found at i:3918698 original size:23 final size:24
Alignment explanation
Indices: 3918663--3918707 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3918653 GTTAAAAAAC
3918663 TAAAAAAATAATTTTAAAATATAA
1 TAAAAAAATAATTTTAAAATATAA
* *
3918687 TAAAATAA-AATTTTTAAATAT
1 TAAAAAAATAATTTTAAAATAT
3918708 TCAAGAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAAAAATAATTTTAAAATATAA
Found at i:3920866 original size:3 final size:3
Alignment explanation
Indices: 3920848--3920905 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
3920838 CTGTTACTAA
3920848 TAT TA- TAT TA- 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
*
3920894 TA- TGT TAT TAT T
1 TAT TAT TAT TAT T
3920906 TTTTTTATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 5 0.10
3 45 0.90
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3921376 original size:11 final size:10
Alignment explanation
Indices: 3921358--3921400 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
3921348 TTTTTCAAGC
3921358 TTTTT-TGGG
1 TTTTTCTGGG
*
3921367 TTTTTCTTGGA
1 TTTTTC-TGGG
*
3921378 TTTTTCTAGG
1 TTTTTCTGGG
3921388 TTTTTCTGGG
1 TTTTTCTGGG
3921398 TTT
1 TTT
3921401 GAGAAGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 5 0.18
10 14 0.50
11 9 0.32
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (10 bp):
TTTTTCTGGG
Found at i:3921792 original size:20 final size:19
Alignment explanation
Indices: 3921764--3921808 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
3921754 CAATCACAGG
3921764 TTTTTTTTTTTTCATTTTA
1 TTTTTTTTTTTTCATTTTA
*
3921783 TTTTTATTTTTTTGATTTTA
1 TTTTT-TTTTTTTCATTTTA
3921803 TTTTTT
1 TTTTTT
3921809 AACTCATTTT
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:0.11, C:0.02, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTTTTCATTTTA
Found at i:3923209 original size:21 final size:21
Alignment explanation
Indices: 3923185--3923224 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3923175 TCTTTCTCTC
* *
3923185 TTGATTTTTTTTTATTGATTT
1 TTGATTTTTTCTAATTGATTT
3923206 TTGATTTTTTCTAATTGAT
1 TTGATTTTTTCTAATTGAT
3923225 CATAATGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.10, T:0.70
Consensus pattern (21 bp):
TTGATTTTTTCTAATTGATTT
Found at i:3923783 original size:43 final size:43
Alignment explanation
Indices: 3923733--3923899 Score: 167
Period size: 43 Copynumber: 3.8 Consensus size: 43
3923723 CAAAAGAGAC
* *
3923733 TCAACAAAGGCTCAACAACTTTTTAAAATATAAAAAGCTTTTT
1 TCAACAAAGGCTCAACAACTTTTAAAAATATAAAAAGCTTATT
* * * * * *
3923776 TCAACAAAGACTTAATAACTTTTGAAAACTATAAAGA-CTCATT
1 TCAACAAAGGCTCAACAACTTTT-AAAAATATAAAAAGCTTATT
* * *
3923819 TCAACAAAGGCTCAATAATCTTTGAAAAATATAAAAGGCTTATT
1 TCAACAAAGGCTCAACAA-CTTTTAAAAATATAAAAAGCTTATT
* *
3923863 TCAACAGAA-GTTCAACAACTTCTAAAAAATATAAAAA
1 TCAACA-AAGGCTCAACAACTT-TTAAAAATATAAAAA
3923900 TATTCTTACT
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
43 53 0.53
44 45 0.45
45 2 0.02
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.29
Consensus pattern (43 bp):
TCAACAAAGGCTCAACAACTTTTAAAAATATAAAAAGCTTATT
Found at i:3923883 original size:87 final size:85
Alignment explanation
Indices: 3923733--3923897 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 85
3923723 CAAAAGAGAC
** * * *
3923733 TCAACAAAGGCTCAACAACTTTTTAAAATATAAAAAGCTTTTTTCAACAAAGACTTAATAACTTT
1 TCAACAAAGGCTCAACAACTTTGAAAAATATAAAAAGCTTATTTCAACAAAGA-TTAACAACTTC
* *
3923798 TGAAAACTATAAAGACTCATT
65 TAAAAAATATAAAGACTCATT
* *
3923819 TCAACAAAGGCTCAATAATCTTTGAAAAATATAAAAGGCTTATTTCAACAGAAG-TTCAACAACT
1 TCAACAAAGGCTCAACAA-CTTTGAAAAATATAAAAAGCTTATTTCAACA-AAGATT-AACAACT
3923883 TCTAAAAAATATAAA
63 TCTAAAAAATATAAA
3923898 AATATTCTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
86 19 0.28
87 45 0.67
88 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (85 bp):
TCAACAAAGGCTCAACAACTTTGAAAAATATAAAAAGCTTATTTCAACAAAGATTAACAACTTCT
AAAAAATATAAAGACTCATT
Found at i:3924673 original size:22 final size:22
Alignment explanation
Indices: 3924647--3924743 Score: 90
Period size: 22 Copynumber: 4.4 Consensus size: 22
3924637 GAGACCTTAC
3924647 AAATTATGTTCGGAGGTCTTGA
1 AAATTATGTTCGGAGGTCTTGA
* * *
3924669 GAATTATATTCGAAGGTCTT-A
1 AAATTATGTTCGGAGGTCTTGA
** *
3924690 CAAATTATCCTCGGAGGTCATGA
1 -AAATTATGTTCGGAGGTCTTGA
* *
3924713 AAATTATGTTTGGAGG-CTTTA
1 AAATTATGTTCGGAGGTCTTGA
3924734 CAAATTATGT
1 -AAATTATGT
3924744 CCGAAAATCT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
21 4 0.07
22 54 0.92
23 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (22 bp):
AAATTATGTTCGGAGGTCTTGA
Found at i:3924690 original size:44 final size:43
Alignment explanation
Indices: 3924642--3924743 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 43
3924632 GCCTAGAGAC
* *
3924642 CTTACAAATTATGTTCGGAGGTCTTGAGAATTATATTCGAAGG
1 CTTACAAATTATGTTCGGAGGTCATGAAAATTATATTCGAAGG
** * * *
3924685 TCTTACAAATTATCCTCGGAGGTCATGAAAATTATGTTTGGAGG
1 -CTTACAAATTATGTTCGGAGGTCATGAAAATTATATTCGAAGG
3924729 CTTTACAAATTATGT
1 C-TTACAAATTATGT
3924744 CCGAAAATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 47 0.98
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (43 bp):
CTTACAAATTATGTTCGGAGGTCATGAAAATTATATTCGAAGG
Found at i:3925033 original size:15 final size:17
Alignment explanation
Indices: 3925003--3925042 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
3924993 CGATCGAGAG
3925003 TCAAAATCTCATA-TTT
1 TCAAAATCTCATATTTT
*
3925019 TCAAATTCTCA-ATTTT
1 TCAAAATCTCATATTTT
3925035 TCAAAATC
1 TCAAAATC
3925043 AAAATTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (17 bp):
TCAAAATCTCATATTTT
Found at i:3926098 original size:12 final size:12
Alignment explanation
Indices: 3926081--3926108 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3926071 AGATAAAGTA
3926081 AAATTTAGTCAT
1 AAATTTAGTCAT
3926093 AAATTTAGTCAT
1 AAATTTAGTCAT
3926105 AAAT
1 AAAT
3926109 ACGATAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (12 bp):
AAATTTAGTCAT
Found at i:3929158 original size:59 final size:59
Alignment explanation
Indices: 3929087--3929691 Score: 771
Period size: 59 Copynumber: 10.2 Consensus size: 59
3929077 ATGATTGTTC
* *
3929087 TTTTACAGGAAAAATTGATACTTTCAACTTTTCTTCAAAAA-TATTTTTTGGAAACTTTTAT
1 TTTTA-AGG-AAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTGAAA-TTTTAT
* * * * *
3929148 TTTCAAGAAAAATTGATATTTTTAACTTTTCCTCCAAAAATTGA-TTTTTTGAAGA-TTTAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAACT-ATTTTTTTGAA-ATTTTAT
** * *
3929208 TTTTAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATTGA-TTTTTTGAAAATTTAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACT-ATTTTTTTGAAATTTTAT
* *
3929267 TTTTAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAA-TATTTTTTTGAAAATTTAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTGAAATTTTAT
* * *
3929325 TTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGGAAACTTGAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTT-GAAATTTTAT
* * *
3929384 TTTCAAGGACAATTAATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTTGAAATTTTAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTATTTTTTTGAAATTTTAT
*
3929443 TTTTAAGGAAAATTGATACCTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAAATTTTGAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTG-AAATTTT-AT
* * *
3929503 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTGAAATTTTAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTGAAATTTTAT
* *
3929562 TTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGGAAACTTTGAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTT-GAAA-TTTTAT
* *
3929622 TTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAACCT-TTTTTTTGAAATTTTAT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTATTTTTTTGAAATTTTAT
3929681 TTTTAAGGAAA
1 TTTTAAGGAAA
3929692 TAGAATAATA
Statistics
Matches: 486, Mismatches: 41, Indels: 36
0.86 0.07 0.06
Matches are distributed among these distances:
57 2 0.00
58 80 0.16
59 232 0.48
60 139 0.29
61 30 0.06
62 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (59 bp):
TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTGAAATTTTAT
Found at i:3929236 original size:119 final size:117
Alignment explanation
Indices: 3929087--3929691 Score: 844
Period size: 119 Copynumber: 5.1 Consensus size: 117
3929077 ATGATTGTTC
*
3929087 TTTTACAGGAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTGGAAACTTTTATTTTC
1 TTTTA-AGG-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTATTTTC
* * *
3929152 AAGAAAAATTGATATTTTTAACTTTTCCTCCAAAAA-TTGATTTTTTGAAGA-TTTAT
64 AAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAACTT--TTTTTTGAA-ATTTTAT
** * *
3929208 TTTTAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTT-GAAA-ATTTATTTTT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTGGAAACTTTTATTTTC
* *
3929271 AAGGAAAATTGATACTTTCAACTTTTTCTCAAAAA-TATTTTTTTGAAAATTTAT
64 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTTGAAATTTTAT
* *
3929325 TTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAAC-TTGATTTTCA
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGGAAACTTTTATTTTCA
* *
3929389 AGGACAATTAATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTTAT
65 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTTGAAATTTTAT
* * *
3929443 TTTTAAGGAAAATTGATACCTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCA
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTT-ATTTTCA
*
3929508 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTGAAATTTTAT
65 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAAC-TTTTTTTTGAAATTTTAT
* *
3929562 TTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTGATTTTCA
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGGAAACTTTTATTTTCA
*
3929627 AGGAAAATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTTTGAAATTTTAT
65 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTTGAAATTTTAT
3929681 TTTTAAGGAAA
1 TTTTAAGGAAA
3929692 TAGAATAATA
Statistics
Matches: 437, Mismatches: 33, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
115 1 0.00
116 8 0.02
117 103 0.24
118 65 0.15
119 228 0.52
120 20 0.05
121 12 0.03
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (117 bp):
TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTATTTTCAA
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAATTTTAT
Found at i:3929305 original size:27 final size:27
Alignment explanation
Indices: 3929215--3929306 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
3929205 TATTTTTAAA
*
3929215 AAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
** * * * *
3929242 AAAAATTGATTTTTTGAAAATTTATTTTTA
1 AAAAATTGATACTTT--CAACTT-TTTCTC
3929272 AGGAAAATTGATACTTTCAACTTTTTCTC
1 A--AAAATTGATACTTTCAACTTTTTCTC
3929301 AAAAAT
1 AAAAAT
3929307 ATTTTTTTGA
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
27 18 0.38
29 9 0.19
30 8 0.17
32 12 0.26
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:3929740 original size:8 final size:8
Alignment explanation
Indices: 3929727--3929868 Score: 63
Period size: 8 Copynumber: 16.5 Consensus size: 8
3929717 GAAAATAAAT
3929727 TAAAAAAA
1 TAAAAAAA
3929735 TAAAAAAA
1 TAAAAAAA
*
3929743 TAGAGAAAAG
1 TA-A-AAAAA
3929753 TAAAACAAA
1 TAAAA-AAA
3929762 -AATAAAAA
1 TAA-AAAAA
3929770 TAAAATAAAGA
1 T-AAA-AAA-A
3929781 TAAAAAAA
1 TAAAAAAA
**
3929789 T-ATTAAA
1 TAAAAAAA
**
3929796 TAAACCTAA
1 TAAA-AAAA
*
3929805 TATAATAAA
1 TA-AAAAAA
3929814 TAAAAAGAA
1 TAAAAA-AA
3929823 TAAAAATAAA
1 T-AAAA-AAA
*
3929833 TAAAATAA
1 TAAAAAAA
*
3929841 TAAATAAA
1 TAAAAAAA
* *
3929849 CAAATAAA
1 TAAAAAAA
*
3929857 TAAATAAA
1 TAAAAAAA
3929865 TAAA
1 TAAA
3929869 CGTGGAGCGG
Statistics
Matches: 105, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
7 5 0.05
8 49 0.47
9 25 0.24
10 23 0.22
11 3 0.03
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.19
Consensus pattern (8 bp):
TAAAAAAA
Found at i:3929743 original size:17 final size:18
Alignment explanation
Indices: 3929718--3929867 Score: 63
Period size: 18 Copynumber: 8.6 Consensus size: 18
3929708 AATAAAAGTG
3929718 AAAATAAATTAA-AAAAAT
1 AAAATAAA-TAAGAAAAAT
*
3929736 AAAA-AAATAGAGAAAAGT
1 AAAATAAATA-AGAAAAAT
* *
3929754 AAAACAAA-AATAAAAAT
1 AAAATAAATAAGAAAAAT
3929771 AAAATAAAGATAA-AAAAAT
1 AAAAT-AA-ATAAGAAAAAT
* **
3929790 --ATTAAATAA-ACCTAAT
1 AAAATAAATAAGA-AAAAT
*
3929806 ATAATAAATAA-AAAGAAT
1 AAAATAAATAAGAAA-AAT
*
3929824 AAAAATAAATAA-AATAAT
1 -AAAATAAATAAGAAAAAT
* *
3929842 -AAATAAACAA-ATAAAT
1 AAAATAAATAAGAAAAAT
3929858 -AAATAAATAA
1 AAAATAAATAA
3929868 ACGTGGAGCG
Statistics
Matches: 105, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
15 5 0.05
16 29 0.28
17 16 0.15
18 31 0.30
19 22 0.21
20 2 0.02
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAATAAATAAGAAAAAT
Found at i:3929757 original size:6 final size:5
Alignment explanation
Indices: 3929698--3929840 Score: 53
Period size: 5 Copynumber: 27.0 Consensus size: 5
3929688 GAAATAGAAT
* * * *
3929698 AATAA AACAA AATAA AAGTGAA AAT-A AATTA AA-AA AATAA AAAAA TAGAGAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA -A-ATAA
* *
3929750 AAGTAA AACAAA AATAAA AATAA AATAA AGATAA AA-AA ATATTA AATAA
1 AA-TAA AA-TAA AAT-AA AATAA AATAA A-ATAA AATAA A-ATAA AATAA
* * *
3929799 ACCTAA TATAATA AATAA AA-AG AATAA AA-ATA AATAA AATAA
1 A-ATAA AAT-A-A AATAA AATAA AATAA AATA-A AATAA AATAA
3929841 TAAATAAACA
Statistics
Matches: 104, Mismatches: 17, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
4 14 0.13
5 50 0.48
6 30 0.29
7 10 0.10
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:3929815 original size:4 final size:4
Alignment explanation
Indices: 3929803--3929868 Score: 66
Period size: 4 Copynumber: 16.5 Consensus size: 4
3929793 AAATAAACCT
* *
3929803 AATA TAATA AATA AAAA GAAT- AA-A AATA AATA AA-A TAATA AATA AACA
1 AATA -AATA AATA AATA -AATA AATA AATA AATA AATA -AATA AATA AATA
3929851 AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AA
3929869 CGTGGAGCGG
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
3 5 0.10
4 40 0.77
5 7 0.13
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:3929825 original size:16 final size:15
Alignment explanation
Indices: 3929732--3929864 Score: 94
Period size: 16 Copynumber: 8.5 Consensus size: 15
3929722 TAAATTAAAA
*
3929732 AAATAAAAAAATAGAGA
1 AAATAAAAAAATA-A-T
3929749 AAAGTAAAACAAA-AAT
1 AAA-TAAAA-AAATAAT
*
3929765 AAA-AATAAAATAA-
1 AAATAAAAAAATAAT
* *
3929778 AGATAAAAAAATATT
1 AAATAAAAAAATAAT
*
3929793 AAATAAACCTAATATAAT
1 AAATAAA---AAAATAAT
3929811 AAATAAAAAGAATAA-
1 AAATAAAAA-AATAAT
3929826 AAATAAATAAAATAAT
1 AAATAAA-AAAATAAT
*
3929842 AAATAAACAAATAAAT
1 AAATAAAAAAAT-AAT
3929858 AAATAAA
1 AAATAAA
3929865 TAAACGTGGA
Statistics
Matches: 94, Mismatches: 10, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.05
14 13 0.14
15 24 0.26
16 26 0.28
17 4 0.04
18 19 0.20
19 3 0.03
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (15 bp):
AAATAAAAAAATAAT
Found at i:3929865 original size:12 final size:11
Alignment explanation
Indices: 3929759--3929868 Score: 68
Period size: 12 Copynumber: 9.8 Consensus size: 11
3929749 AAAGTAAAAC
3929759 AAAAATAAA-A
1 AAAAATAAATA
*
3929769 ATAAAATAAAGA
1 A-AAAATAAATA
*
3929781 TAAAA-AAATA
1 AAAAATAAATA
**
3929791 TTAAATAAACCTA
1 AAAAATAAA--TA
*
3929804 ATATAATAAAT-
1 A-AAAATAAATA
*
3929815 AAAAA-GAAT-
1 AAAAATAAATA
3929824 AAAAATAAATA
1 AAAAATAAATA
3929835 AAATAATAAATA
1 AAA-AATAAATA
3929847 AACAAATAAATA
1 AA-AAATAAATA
3929859 AATAAATAAA
1 AA-AAATAAA
3929869 CGTGGAGCGG
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
9 8 0.10
10 15 0.19
11 19 0.24
12 29 0.36
13 3 0.04
14 6 0.08
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:3929866 original size:24 final size:24
Alignment explanation
Indices: 3929792--3929868 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
3929782 AAAAAAATAT
*
3929792 TAAATAAACCTAATATAATAAATAAA
1 TAAATAAA-CAAATA-AATAAATAAA
*
3929818 AAGAAT-AA-AAATAAATAAA-ATAA
1 TA-AATAAACAAATAAATAAATA-AA
3929841 TAAATAAACAAATAAATAAATAAA
1 TAAATAAACAAATAAATAAATAAA
3929865 TAAA
1 TAAA
3929869 CGTGGAGCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
22 4 0.09
23 11 0.26
24 21 0.49
25 1 0.02
26 3 0.07
27 3 0.07
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (24 bp):
TAAATAAACAAATAAATAAATAAA
Found at i:3930658 original size:21 final size:21
Alignment explanation
Indices: 3930634--3930680 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3930624 TCAAACAAAA
3930634 ATAAATCAAAA-AAATTAACAG
1 ATAAATCAAAATAAA-TAACAG
*
3930655 ATAAATTAAAATTAAATAACAG
1 ATAAATCAAAA-TAAATAACAG
3930677 ATAA
1 ATAA
3930681 TTACATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 10 0.43
23 3 0.13
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
ATAAATCAAAATAAATAACAG
Found at i:3930720 original size:17 final size:17
Alignment explanation
Indices: 3930698--3930730 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3930688 AATAGTAACA
3930698 AGAAAAAAAAGAATAAG
1 AGAAAAAAAAGAATAAG
*
3930715 AGAAAAAAAATAATAA
1 AGAAAAAAAAGAATAA
3930731 TAAAGATATA
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:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
AGAAAAAAAAGAATAAG
Found at i:3930791 original size:20 final size:19
Alignment explanation
Indices: 3930771--3930878 Score: 62
Period size: 20 Copynumber: 5.3 Consensus size: 19
3930761 AATACCTAAG
3930771 ATAAAAAATAATAATAAAA
1 ATAAAAAATAATAATAAAA
3930790 GA-AAAGAAA-AATATATATACATA
1 -ATAAA-AAATAATA-ATA-A-A-A
3930813 TATAAAATAATAATAATAAAA
1 -ATAAAA-AATAATAATAAAA
* *
3930834 AT--AAAATAAAAATGTAAA
1 ATAAAAAATAATAAT-AAAA
*
3930852 ATACAAAAATTAAAAATAAAA
1 ATA-AAAAA-TAATAATAAAA
3930873 ATAAAA
1 ATAAAA
3930879 TGAAGAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
17 8 0.11
18 7 0.10
19 7 0.10
20 12 0.17
21 12 0.17
22 9 0.13
23 4 0.06
24 8 0.11
25 4 0.06
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (19 bp):
ATAAAAAATAATAATAAAA
Found at i:3930859 original size:7 final size:6
Alignment explanation
Indices: 3930821--3930878 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
3930811 TATATAAAAT
* *
3930821 AATAAT AATAAA AAT-AA AATAAA AATGTAAA ATACAAA AATTAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AA--TAAA A-ATAAA AA-TAAA AATAAA
3930872 AATAAA A
1 AATAAA A
3930879 TGAAGAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
5 5 0.11
6 24 0.55
7 9 0.20
8 5 0.11
9 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:3931710 original size:44 final size:44
Alignment explanation
Indices: 3931543--3931710 Score: 178
Period size: 44 Copynumber: 3.8 Consensus size: 44
3931533 TCAATAAAGA
* * * * *
3931543 CTCAATAGAAGCTCAACAACTTTT-AAAAATACAATAGACTTCT
1 CTCAACAGAGGCTCAACAACTTTTGAAAAATATAAAAGACTTAT
* * *
3931586 CTCAACAGAGACTTAACAACTTTTGAAAAATAT-AAAGACTTTTT
1 CTCAACAGAGGCTCAACAACTTTTGAAAAATATAAAAGAC-TTAT
* * ** *
3931630 TTCAACCGAGGCTCAACAACTTTCAAAAAATATAAAAGGCTTAT
1 CTCAACAGAGGCTCAACAACTTTTGAAAAATATAAAAGACTTAT
* *
3931674 CTCAACAAAGGCTCAATAACTTTTGAAAAATATAAAA
1 CTCAACAGAGGCTCAACAACTTTTGAAAAATATAAAA
3931711 ATATTCTAAC
Statistics
Matches: 101, Mismatches: 21, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
43 25 0.25
44 71 0.70
45 5 0.05
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (44 bp):
CTCAACAGAGGCTCAACAACTTTTGAAAAATATAAAAGACTTAT
Found at i:3932433 original size:44 final size:44
Alignment explanation
Indices: 3932380--3932501 Score: 163
Period size: 44 Copynumber: 2.8 Consensus size: 44
3932370 ATCTAGAGGC
* *
3932380 TTTAAAAATTATGCTCGGAGGTTTTGAAAATTATGCCTAAAAGT
1 TTTACAAATTATGCTCGGAGGTCTTGAAAATTATGCCTAAAAGT
* * * * * *
3932424 TTTACAAATTATGCTCGAAAGTCATGAGAATTATGCTTGAAAGT
1 TTTACAAATTATGCTCGGAGGTCTTGAAAATTATGCCTAAAAGT
*
3932468 TTTACAAATTATGCTCAGAGGTCTTGAAAATTAT
1 TTTACAAATTATGCTCGGAGGTCTTGAAAATTAT
3932502 ACTCAGAGGC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (44 bp):
TTTACAAATTATGCTCGGAGGTCTTGAAAATTATGCCTAAAAGT
Found at i:3932482 original size:22 final size:21
Alignment explanation
Indices: 3932384--3932483 Score: 85
Period size: 22 Copynumber: 4.6 Consensus size: 21
3932374 AGAGGCTTTA
* *
3932384 AAAATTATGCTCGGAGGTTTT
1 AAAATTATGCTCGAAAGTTTT
*
3932405 GAAAATTATGC-CTAAAAGTTTT
1 -AAAATTATGCTC-GAAAGTTTT
* *
3932427 ACAAATTATGCTCGAAAGTCATG
1 A-AAATTATGCTCGAAAGT-TTT
* *
3932450 AGAATTATGCTTGAAAGTTTT
1 AAAATTATGCTCGAAAGTTTT
3932471 ACAAATTATGCTC
1 A-AAATTATGCTC
3932484 AGAGGTCTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
21 4 0.07
22 54 0.89
23 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (21 bp):
AAAATTATGCTCGAAAGTTTT
Found at i:3932498 original size:22 final size:22
Alignment explanation
Indices: 3932469--3932524 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
3932459 CTTGAAAGTT
*
3932469 TTACAAATTATGCTCAGAGGTC
1 TTACAAATTATGCTCAGAGGCC
*
3932491 TTGA-AAATTATACTCAGAGGCC
1 TT-ACAAATTATGCTCAGAGGCC
3932513 TTACAAATTATG
1 TTACAAATTATG
3932525 TTCGAAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (22 bp):
TTACAAATTATGCTCAGAGGCC
Found at i:3934032 original size:9 final size:9
Alignment explanation
Indices: 3934018--3934051 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3934008 TTCTTTCCCT
3934018 TTTTTTTCA
1 TTTTTTTCA
*
3934027 TTTTTTTCCT
1 TTTTTTT-CA
3934037 TTTTTTTCA
1 TTTTTTTCA
3934046 TTTTTT
1 TTTTTT
3934052 CACATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:3934032 original size:10 final size:10
Alignment explanation
Indices: 3934017--3934051 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
3934007 CTTCTTTCCC
3934017 TTTTTTTTCA
1 TTTTTTTTCA
*
3934027 -TTTTTTTCC
1 TTTTTTTTCA
3934036 TTTTTTTTCA
1 TTTTTTTTCA
3934046 TTTTTT
1 TTTTTT
3934052 CACATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:3934039 original size:19 final size:19
Alignment explanation
Indices: 3934015--3934051 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3934005 TTCTTCTTTC
3934015 CCTTTTTTTTCATTTTTTT
1 CCTTTTTTTTCATTTTTTT
3934034 CCTTTTTTTTCATTTTTT
1 CCTTTTTTTTCATTTTTT
3934052 CACATTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (19 bp):
CCTTTTTTTTCATTTTTTT
Found at i:3934423 original size:18 final size:18
Alignment explanation
Indices: 3934400--3934434 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3934390 ATCAATTCTT
3934400 TTTTTTGTCTTTGTTTTG
1 TTTTTTGTCTTTGTTTTG
* *
3934418 TTTTTTTTTTTTGTTTT
1 TTTTTTGTCTTTGTTTT
3934435 TTGCAACTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (18 bp):
TTTTTTGTCTTTGTTTTG
Found at i:3936923 original size:41 final size:41
Alignment explanation
Indices: 3936875--3936962 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 41
3936865 AATGACTACT
* *
3936875 TGAATGGATACATGAGTTAATGTTT-ATCTCATAATGATGCA
1 TGAATGGATACATAAGTTAATGTTTGCT-TCATAATGATGCA
*
3936916 TGAATGGATACATAAGTTAATGTTTGCTTCATAATTATGCA
1 TGAATGGATACATAAGTTAATGTTTGCTTCATAATGATGCA
*
3936957 TAAATG
1 TGAATG
3936963 ATGAATGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 41 0.98
42 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (41 bp):
TGAATGGATACATAAGTTAATGTTTGCTTCATAATGATGCA
Found at i:3939149 original size:17 final size:17
Alignment explanation
Indices: 3939126--3939166 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
3939116 TAGTTCTTAA
*
3939126 AATTTTTTATAATATTT
1 AATTTTTTATAACATTT
*
3939143 TA-TTTTTATAACATTT
1 AATTTTTTATAACATTT
3939159 AATTTTTT
1 AATTTTTT
3939167 TATCTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTTTATAACATTT
Found at i:3942714 original size:1 final size:1
Alignment explanation
Indices: 3942703--3942733 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
3942693 ACAGAAGAGG
*
3942703 AAAACAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3942734 CCCTTCATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3943803 original size:149 final size:149
Alignment explanation
Indices: 3943615--3944347 Score: 1286
Period size: 149 Copynumber: 4.9 Consensus size: 149
3943605 TATTTTTTAA
* *
3943615 ATATAGAATTATCTTATCTTGCTAGCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
1 ATATATAATTATCTTATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
3943680 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
3943745 TTTGAATTGTTATAAATAT
131 TTTGAATTGTTATAAATAT
*
3943764 ATATATAATTATCTCATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
1 ATATATAATTATCTTATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
3943829 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
3943894 TTTGAATTGTTATATATATATATAT
131 TTTGAATTG---T-TATA-A-ATAT
*
3943919 ATATATAATTATCTTATCTTGCTATCTACTAGTCCAATCCGTAGTATAAATAGTAATCTTTACAA
1 ATATATAATTATCTTATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
3943984 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
3944049 TTTGAATTGTTATAAATAT
131 TTTGAATTGTTATAAATAT
* *
3944068 ATATATGATTATCTCATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
1 ATATATAATTATCTTATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
3944133 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
3944198 TTTGAATTGTTATAAATAT
131 TTTGAATTGTTATAAATAT
* * * * *
3944217 ATATAGAATTATCTTATCTTGCTAGCTATTAATCCAATCCGCAGTATAAATAGTAATCTTTACAG
1 ATATATAATTATCTTATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
* * *
3944282 CAAAATTAGAGTCCTAATAGATTTTGATTTGTTATTAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
3944347 T
131 T
3944348 ATTATTTTCA
Statistics
Matches: 560, Mismatches: 18, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
149 407 0.73
150 1 0.00
151 4 0.01
152 2 0.00
153 4 0.01
154 1 0.00
155 141 0.25
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (149 bp):
ATATATAATTATCTTATCTTGCTATCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
TTTGAATTGTTATAAATAT
Found at i:3944372 original size:304 final size:302
Alignment explanation
Indices: 3943615--3944347 Score: 1330
Period size: 304 Copynumber: 2.4 Consensus size: 302
3943605 TATTTTTTAA
3943615 ATATAGAATTATCTTATCTTGCTAGCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
1 ATATAGAATTATCTTATCTTGCTAGCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
3943680 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
3943745 TTTGAATTGTTATAAATATATATATAATTATCTCATCTTGCTATCTACTAATCCAATCCGTAGTA
131 TTTGAATTGTTATAAATATATATATAATTATCTCATCTTGCTATCTACTAATCCAATCCGTAGTA
3943810 TAAATAGTAATCTTTACAATAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTA
196 TAAATAGTAATCTTTACAATAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTA
3943875 TAACACTTATTATTATTATTTTGAATTGTTATATATATATATAT
261 TAACACTTATTATTATTATTTTGAATTG-T-TATATATATATAT
* * *
3943919 ATATATAATTATCTTATCTTGCTATCTACTAGTCCAATCCGTAGTATAAATAGTAATCTTTACAA
1 ATATAGAATTATCTTATCTTGCTAGCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
3943984 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
*
3944049 TTTGAATTGTTATAAATATATATATGATTATCTCATCTTGCTATCTACTAATCCAATCCGTAGTA
131 TTTGAATTGTTATAAATATATATATAATTATCTCATCTTGCTATCTACTAATCCAATCCGTAGTA
3944114 TAAATAGTAATCTTTACAATAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTA
196 TAAATAGTAATCTTTACAATAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTA
3944179 TAACACTTATTATTATTATTTTGAATTG-T-TATA-A-ATAT
261 TAACACTTATTATTATTATTTTGAATTGTTATATATATATAT
* * *
3944217 ATATAGAATTATCTTATCTTGCTAGCTATTAATCCAATCCGCAGTATAAATAGTAATCTTTACAG
1 ATATAGAATTATCTTATCTTGCTAGCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
* * *
3944282 CAAAATTAGAGTCCTAATAGATTTTGATTTGTTATTAATATTGCTATAACACTTATTATTATTAT
66 TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
3944347 T
131 T
3944348 ATTATTTTCA
Statistics
Matches: 416, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
298 126 0.30
299 1 0.00
300 4 0.01
301 1 0.00
304 284 0.68
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (302 bp):
ATATAGAATTATCTTATCTTGCTAGCTACTAATCCAATCCGTAGTATAAATAGTAATCTTTACAA
TAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTATAACACTTATTATTATTAT
TTTGAATTGTTATAAATATATATATAATTATCTCATCTTGCTATCTACTAATCCAATCCGTAGTA
TAAATAGTAATCTTTACAATAAAATTAGAGTCCTAATAGATTTTGAATTGTTATAAATATTGCTA
TAACACTTATTATTATTATTTTGAATTGTTATATATATATAT
Found at i:3945140 original size:3 final size:3
Alignment explanation
Indices: 3945134--3945161 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3945124 ATGGAAGAAC
3945134 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3945162 AAAACTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3945455 original size:166 final size:154
Alignment explanation
Indices: 3945177--3945646 Score: 608
Period size: 150 Copynumber: 3.0 Consensus size: 154
3945167 TTTGCACCAA
*
3945177 CCAACATTCCCTTGACATCAACGGTACTCATTTCTACAAATTCTGACGTGGCTGGCTTAAAAAAA
1 CCAACATTCCCTTGACATCAACGGTCCTCATTTCTACAAATTCTGACGTGGCTGGCTT-AAAAAA
*
3945242 GAAAAACATTAAAATAAAAT-CCCAAAAATTAATAAAAAACTATAAATAAAAAATTTCGAATTCC
65 GAAAAACATTAAAATAAAATCCCCAAAAATCAATAAAAAACTATAAATAAAAAATTTCGAATTCC
*
3945306 TTTACCTTTCCAACCAAACATCCCATTTC
130 TTTACCTTTCAAACCAAACATCCC----C
3945335 TACGTCAGAAAACATTCCCTTGACATCAACGGTCCTCATTTCTACAAATTCTGACGTGGCTGGCT
1 --C--C----AACATTCCCTTGACATCAACGGTCCTCATTTCTACAAATTCTGACGTGGCTGGCT
* * *
3945400 TAAAAACGAAAAACATTGAAATAAAATCCCCAAAAATCAATAAAAAACCATAAATAAAAAATTTC
58 TAAAAAAGAAAAACATTAAAATAAAATCCCCAAAAATCAATAAAAAACTATAAATAAAAAATTTC
* *
3945465 GAAGTCCTTTTCCTTTCAAACCAAACA---CC
123 GAATTCCTTTACCTTTCAAACCAAACATCCCC
* * * * **
3945494 CCAACGTTCCC-GGAAATCGACGGTCCTCATTTCTACAAATTCTGACGTGGCTGGCTTAAAATGG
1 CCAACATTCCCTTGACATCAACGGTCCTCATTTCTACAAATTCTGACGTGGCTGGCTTAAAAAAG
* * * *
3945558 AAAAACATTAAAATAAAATCCCCAAAAATCAATAAAAAATTAGAAATAAAAAATTTCGCATACCT
66 AAAAACATTAAAATAAAATCCCCAAAAATCAATAAAAAACTATAAATAAAAAATTTCGAATTCCT
* *
3945623 TTACATTTCAAACCAAACGTCCCC
131 TTACCTTTCAAACCAAACATCCCC
3945647 ATGTGAAAAA
Statistics
Matches: 276, Mismatches: 24, Indels: 27
0.84 0.07 0.08
Matches are distributed among these distances:
150 122 0.44
151 8 0.03
153 2 0.01
155 1 0.00
157 1 0.00
159 1 0.00
160 1 0.00
162 1 0.00
163 1 0.00
165 24 0.09
166 114 0.41
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.25
Consensus pattern (154 bp):
CCAACATTCCCTTGACATCAACGGTCCTCATTTCTACAAATTCTGACGTGGCTGGCTTAAAAAAG
AAAAACATTAAAATAAAATCCCCAAAAATCAATAAAAAACTATAAATAAAAAATTTCGAATTCCT
TTACCTTTCAAACCAAACATCCCC
Found at i:3946444 original size:20 final size:20
Alignment explanation
Indices: 3946419--3946459 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3946409 TTAGTTCTAT
3946419 ACATTTTCTTTAAAAGGAAA
1 ACATTTTCTTTAAAAGGAAA
3946439 ACATTTTCTTTAAAAGGAAA
1 ACATTTTCTTTAAAAGGAAA
3946459 A
1 A
3946460 TGTTAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
ACATTTTCTTTAAAAGGAAA
Found at i:3947001 original size:20 final size:20
Alignment explanation
Indices: 3946984--3947023 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3946974 GGTGCTTGTG
3946984 CATAATTGCAATTGCTTGCT
1 CATAATTGCAATTGCTTGCT
3947004 CATAATTGCAATTGCTTGCT
1 CATAATTGCAATTGCTTGCT
3947024 TAAACATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
CATAATTGCAATTGCTTGCT
Found at i:3953332 original size:15 final size:16
Alignment explanation
Indices: 3953312--3953344 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3953302 TTTTAACAAT
*
3953312 TATTTTTTATA-TTAA
1 TATTTTATATATTTAA
3953327 TATTTTATATATTTAA
1 TATTTTATATATTTAA
3953343 TA
1 TA
3953345 ATTATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTATATATTTAA
Found at i:3954593 original size:52 final size:52
Alignment explanation
Indices: 3954526--3954661 Score: 179
Period size: 52 Copynumber: 2.6 Consensus size: 52
3954516 ACTTGCCCAC
*
3954526 ATTAAGAA-TCATTTTCTTCTTAAAATTCTTCTCCTGTAAGTCAAACTTACCT
1 ATTAAGAATTC-TTTTCTTCTTAAAATTCTTCTCCTGCAAGTCAAACTTACCT
* *
3954578 ATTAAGAATTCTTTTCCTT-TTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
1 ATTAAGAATTCTTTT-CTTCTTAAAATTCTTCTCCTGCAAGTCAAACTTACCT
* *
3954630 ATTAAGAATT-TTCTTTTTCTTAAAATTTTTCT
1 ATTAAGAATTCTT-TTCTTCTTAAAATTCTTCT
3954662 TTTACAAATC
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
51 4 0.05
52 65 0.88
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (52 bp):
ATTAAGAATTCTTTTCTTCTTAAAATTCTTCTCCTGCAAGTCAAACTTACCT
Found at i:3955649 original size:27 final size:26
Alignment explanation
Indices: 3955619--3955678 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
3955609 AGATATGATG
3955619 ATATTATTTAAT-CTAATCTTATTTATA
1 ATATTATTTAATCCTAA-CTTA-TTATA
* *
3955646 ATATCATTTTATCCTAACTTATTATA
1 ATATTATTTAATCCTAACTTATTATA
*
3955672 ATCTTAT
1 ATATTAT
3955679 GTACCAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 10 0.36
27 14 0.50
28 4 0.14
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (26 bp):
ATATTATTTAATCCTAACTTATTATA
Found at i:3956026 original size:40 final size:41
Alignment explanation
Indices: 3955951--3956032 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
3955941 TGCCAAAACC
*
3955951 ATTACTTGAGTAGGATACTATTTATATCATCTATAATTTCAT
1 ATTACTTGAGTAGGATAC-ATTTATATCATCTATAATCTCAT
*
3955993 ATTACTTGAGTAGGATAC-TTTATATCCTCTATAATCTCAT
1 ATTACTTGAGTAGGATACATTTATATCATCTATAATCTCAT
3956033 GTTTCATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 20 0.53
42 18 0.47
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (41 bp):
ATTACTTGAGTAGGATACATTTATATCATCTATAATCTCAT
Found at i:3958290 original size:26 final size:26
Alignment explanation
Indices: 3958243--3958308 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
3958233 TTAATATAAC
3958243 TATT-AAAATATTAAAAATTATTTAT
1 TATTAAAAATATTAAAAATTATTTAT
3958268 TATTAAAACATATT-AAAATTATTTAT
1 TATTAAAA-ATATTAAAAATTATTTAT
*
3958294 TATTAAAATTATTAA
1 TATTAAAAATATTAA
3958309 TATTAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 8 0.22
26 24 0.65
27 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTAAAAATATTAAAAATTATTTAT
Found at i:3958297 original size:16 final size:15
Alignment explanation
Indices: 3958277--3958316 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
3958267 TTATTAAAAC
3958277 ATATTAAAATTATTTA
1 ATATTAAAATTA-TTA
*
3958293 TTATTAAAATTATTA
1 ATATTAAAATTATTA
3958308 ATATTAAAA
1 ATATTAAAA
3958317 AATAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:3958314 original size:15 final size:16
Alignment explanation
Indices: 3958277--3958354 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
3958267 TTATTAAAAC
3958277 ATATTAAAATTATTTA
1 ATATTAAAATTATTTA
*
3958293 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
* *
3958308 ATATTAAAAAATAATTA
1 ATATT-AAAATTATTTA
*
3958325 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TATTTA
3958345 ATATTAAAAT
1 ATATTAAAAT
3958355 ATTATGTTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 7 0.14
16 17 0.35
17 5 0.10
18 9 0.18
19 6 0.12
20 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:3958317 original size:16 final size:16
Alignment explanation
Indices: 3958277--3958359 Score: 53
Period size: 17 Copynumber: 4.9 Consensus size: 16
3958267 TTATTAAAAC
3958277 ATATT-AAAATTATTTA
1 ATATTAAAAATTA-TTA
*
3958293 TTATT-AAAATTATTA
1 ATATTAAAAATTATTA
*
3958308 ATATTAAAAAATAATTA
1 ATATT-AAAAATTATTA
* *
3958325 TATTTTAATAATAATATTTA
1 -ATATTAA-AA-ATTA-TTA
3958345 ATATTAAAATATTAT
1 ATATTAAAA-ATTAT
3958360 GTTACTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
15 7 0.13
16 11 0.21
17 12 0.23
18 12 0.23
19 8 0.15
20 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAAAAATTATTA
Found at i:3958447 original size:13 final size:13
Alignment explanation
Indices: 3958408--3958569 Score: 65
Period size: 13 Copynumber: 12.5 Consensus size: 13
3958398 TTCTTTATGT
3958408 TATTTATTAAT-A
1 TATTTATTAATAA
* *
3958420 T-GTTA-TAATAC
1 TATTTATTAATAA
3958431 TATTTATTAATAA
1 TATTTATTAATAA
3958444 TATTTATTAAT--
1 TATTTATTAATAA
*
3958455 TA--AATTAATAA
1 TATTTATTAATAA
* *
3958466 TACTTATTATTACA
1 TATTTATTAATA-A
*
3958480 TTGTTTATTAATATAA
1 -TATTTATT-A-ATAA
3958496 TAATATTATT--TAA
1 T-AT-TTATTAATAA
*
3958509 TATATTA-TAATAT
1 TAT-TTATTAATAA
* *
3958522 TACTTATTAATAT
1 TATTTATTAATAA
*
3958535 TATTTAATAATATA
1 TATTTATTAATA-A
*
3958549 TTATTTATATAATAT
1 -TATTTAT-TAATAA
3958564 TATTTA
1 TATTTA
3958570 CAAGTAAAAT
Statistics
Matches: 113, Mismatches: 18, Indels: 36
0.68 0.11 0.22
Matches are distributed among these distances:
9 6 0.05
10 4 0.04
11 9 0.08
12 13 0.12
13 46 0.41
14 7 0.06
15 13 0.12
16 8 0.07
17 7 0.06
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (13 bp):
TATTTATTAATAA
Found at i:3958511 original size:10 final size:10
Alignment explanation
Indices: 3958496--3958569 Score: 64
Period size: 10 Copynumber: 7.2 Consensus size: 10
3958486 ATTAATATAA
3958496 TAATATTATT
1 TAATATTATT
3958506 TAATA-TATT
1 TAATATTATT
3958515 ATAATATTACTTAT
1 -TAATATTA--T-T
3958529 TAATATTATT
1 TAATATTATT
*
3958539 TAATAATATAT
1 TAATATTAT-T
*
3958550 T-AT-TTATA
1 TAATATTATT
3958558 TAATATTATT
1 TAATATTATT
3958568 TA
1 TA
3958570 CAAGTAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
8 1 0.02
9 9 0.17
10 27 0.52
11 5 0.10
13 9 0.17
14 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATATTATT
Found at i:3958549 original size:15 final size:16
Alignment explanation
Indices: 3958484--3958563 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 16
3958474 ATTACATTGT
*
3958484 TTATTAATATAATAATA
1 TTATTTATATAAT-ATA
3958501 TTATTTAATATATTATAATA
1 TTATTT-ATATA--AT-ATA
*
3958521 TTACTTAT-T-A-ATA
1 TTATTTATATAATATA
3958534 TTATTTA-ATAATATA
1 TTATTTATATAATATA
3958549 TTATTTATATAATAT
1 TTATTTATATAATAT
3958564 TATTTACAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
15 11 0.21
16 7 0.13
17 5 0.09
18 6 0.11
19 2 0.04
20 11 0.21
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATTTATATAATATA
Found at i:3959119 original size:24 final size:24
Alignment explanation
Indices: 3959088--3959135 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3959078 AAATTAAAAG
3959088 TCCAACACATAGATTACAATTGTA
1 TCCAACACATAGATTACAATTGTA
3959112 TCCAACACATAGATTACAATTGTA
1 TCCAACACATAGATTACAATTGTA
3959136 CAACTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (24 bp):
TCCAACACATAGATTACAATTGTA
Found at i:3977689 original size:24 final size:24
Alignment explanation
Indices: 3977632--3977689 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
3977622 ATTTTATTAA
*
3977632 AATTT-TTATTTTAATCGTAATTAT
1 AATTTATT-TTTTAATCGTAACTAT
*
3977656 AA-TAATTTTTTTAATCGTAACTAT
1 AATTTA-TTTTTTAATCGTAACTAT
3977680 AATTTATTTT
1 AATTTATTTT
3977690 GTTATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.04
24 23 0.82
25 4 0.14
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
AATTTATTTTTTAATCGTAACTAT
Found at i:3984831 original size:51 final size:51
Alignment explanation
Indices: 3984771--3984868 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
3984761 CTACACCCTC
* * * *
3984771 TTGTCTTATTTGGTTTTAATCTATAGTGAAGTAGCTTGTTAACATAAGTTG
1 TTGTCTTATTTGGTTTCAATATACAGTGAACTAGCTTGTTAACATAAGTTG
*
3984822 TTGTCTTATTTGGTTTCAATATACAGTGAACTAGCTTGTTGACATAA
1 TTGTCTTATTTGGTTTCAATATACAGTGAACTAGCTTGTTAACATAA
3984869 CTAAGTACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGTCTTATTTGGTTTCAATATACAGTGAACTAGCTTGTTAACATAAGTTG
Found at i:3991988 original size:24 final size:24
Alignment explanation
Indices: 3991956--3992021 Score: 132
Period size: 24 Copynumber: 2.8 Consensus size: 24
3991946 AGGGTTTTGT
3991956 GATGGTGAATCAAATGAGGAATTA
1 GATGGTGAATCAAATGAGGAATTA
3991980 GATGGTGAATCAAATGAGGAATTA
1 GATGGTGAATCAAATGAGGAATTA
3992004 GATGGTGAATCAAATGAG
1 GATGGTGAATCAAATGAG
3992022 TGGTAAAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.24
Consensus pattern (24 bp):
GATGGTGAATCAAATGAGGAATTA
Found at i:3991989 original size:12 final size:12
Alignment explanation
Indices: 3991956--3992015 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
3991946 AGGGTTTTGT
3991956 GATGGTGAATCA
1 GATGGTGAATCA
* *
3991968 AATGAG-GAATTA
1 GATG-GTGAATCA
3991980 GATGGTGAATCA
1 GATGGTGAATCA
* *
3991992 AATGAG-GAATTA
1 GATG-GTGAATCA
3992004 GATGGTGAATCA
1 GATGGTGAATCA
3992016 AATGAGTGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
11 2 0.06
12 32 0.89
13 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (12 bp):
GATGGTGAATCA
Found at i:3994261 original size:21 final size:21
Alignment explanation
Indices: 3994236--3994292 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
3994226 GTTGCTATTG
3994236 TTTAAGTTTCGATGTTGAAGT
1 TTTAAGTTTCGATGTTGAAGT
*
3994257 TTTAAG-TTCTAATGTTGAAGT
1 TTTAAGTTTC-GATGTTGAAGT
* *
3994278 TGTGAAGTTTTGATG
1 T-TTAAGTTTCGATG
3994293 CTGTTATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.10
21 17 0.59
22 7 0.24
23 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.47
Consensus pattern (21 bp):
TTTAAGTTTCGATGTTGAAGT
Found at i:3994827 original size:18 final size:19
Alignment explanation
Indices: 3994804--3994842 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
3994794 AAAAGAATTA
3994804 TTTTATTTTACTT-TTTAT
1 TTTTATTTTACTTATTTAT
*
3994822 TTTTATTTTATTTATTTAT
1 TTTTATTTTACTTATTTAT
3994841 TT
1 TT
3994843 ATAAAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTACTTATTTAT
Found at i:3996118 original size:39 final size:39
Alignment explanation
Indices: 3996047--3996295 Score: 157
Period size: 40 Copynumber: 6.3 Consensus size: 39
3996037 AGAAGCAATG
* * *
3996047 AAACTTTAAATGTTAAAAGGCTTTTCTAACCAGAGATAAC
1 AAACTTTAAAT-TTAAAAAGCTCTTCTAACCAGAGACAAC
* * *
3996087 GAACTTTAAATTTAAAAAGCTCTTCTCACCAGAGGCAAC
1 AAACTTTAAATTTAAAAAGCTCTTCTAACCAGAGACAAC
** * * * * *
3996126 AAACTTTAAATTTAAAATTCTCTTTTAACTAAAGGCAAT
1 AAACTTTAAATTTAAAAAGCTCTTCTAACCAGAGACAAC
* * * *
3996165 AAATTTTAAATATTAAAATG-TGCCTT-TAACCAAAGGCAAC
1 AAACTTTAAAT-TTAAAAAGCT--CTTCTAACCAGAGACAAC
* * *
3996205 AAAATTTAAATGTTAAAATGCTCCTT-TAACCA-AGGGCAAC
1 AAACTTTAAAT-TTAAAAAGCT-CTTCTAACCAGA-GACAAC
* * * *
3996245 AAACTTTAAATGTT-AAAAGTCTCCTCTGACCAAAGACAAT
1 AAACTTTAAAT-TTAAAAAG-CTCTTCTAACCAGAGACAAC
*
3996285 GAACTTTAAAT
1 AAACTTTAAAT
3996296 AGTTATTTTA
Statistics
Matches: 174, Mismatches: 27, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
39 72 0.41
40 97 0.56
41 5 0.03
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (39 bp):
AAACTTTAAATTTAAAAAGCTCTTCTAACCAGAGACAAC
Found at i:3996293 original size:80 final size:79
Alignment explanation
Indices: 3996047--3996300 Score: 230
Period size: 80 Copynumber: 3.2 Consensus size: 79
3996037 AGAAGCAATG
* ** *
3996047 AAACTTTAAATGTTAAAAGGCT-TTTCTAACC-AGAGATAACGAACTTTAAATTTAAAAAG-CTC
1 AAACTTTAAATGTTAAAATGCTCTTT-TAACCAAG-GGCAACAAACTTTAAATTT-AAAAGTCTC
* * *
3996109 TTCTCACCAGAGGCAAC
63 CTCTAACCAAAGGCAAC
* * * * * *
3996126 AAACTTTAAAT-TTAAAATTCTCTTTTAACTAAAGGCAATAAATTTTAAATATTAAAATGT-GCC
1 AAACTTTAAATGTTAAAATGCTCTTTTAACCAAGGGCAACAAACTTTAAAT-TTAAAA-GTCTCC
*
3996189 TTTAACCAAAGGCAAC
64 TCTAACCAAAGGCAAC
* *
3996205 AAAATTTAAATGTTAAAATGCTCCTTTAACCAAGGGCAACAAACTTTAAATGTTAAAAGTCTCCT
1 AAACTTTAAATGTTAAAATGCTCTTTTAACCAAGGGCAACAAACTTTAAAT-TTAAAAGTCTCCT
* * *
3996270 CTGACCAAAGACAAT
65 CTAACCAAAGGCAAC
*
3996285 GAACTTTAAATAGTTA
1 AAACTTTAAAT-GTTA
3996301 TTTTAACCAA
Statistics
Matches: 138, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
78 28 0.20
79 44 0.32
80 62 0.45
81 4 0.03
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (79 bp):
AAACTTTAAATGTTAAAATGCTCTTTTAACCAAGGGCAACAAACTTTAAATTTAAAAGTCTCCTC
TAACCAAAGGCAAC
Found at i:3996535 original size:39 final size:39
Alignment explanation
Indices: 3996490--3996584 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
3996480 AGAGGTAATG
3996490 AACTTTAAATTCAAAATA-CTCCTT-TAACCAAAGGCAACA
1 AACTTTAAATTCAAAA-AGCT-CTTCTAACCAAAGGCAACA
* * * * *
3996529 AACTTTAAATGTTAAAAAGCTCTTCTGACCACATGTAACA
1 AACTTTAAAT-TCAAAAAGCTCTTCTAACCAAAGGCAACA
3996569 AACTTTAAATTCAAAA
1 AACTTTAAATTCAAAA
3996585 GGTTGAGAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
39 19 0.40
40 28 0.60
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.28
Consensus pattern (39 bp):
AACTTTAAATTCAAAAAGCTCTTCTAACCAAAGGCAACA
Found at i:3996555 original size:79 final size:80
Alignment explanation
Indices: 3996436--3996584 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 80
3996426 AGCTCCTCTG
* ** * * * **
3996436 ACCAAAGGCTATAAAATTTTAAATGTTAAAGGGCTTTTCTGACGAGAGGTAATGAACTTTAAATT
1 ACCAAAGGCTATAAAACTTTAAATGTTAAAAAGCTCTTCTGACCACAGGTAACAAACTTTAAATT
3996501 CAAAATACTCCTTTA
66 CAAAATACTCCTTTA
*
3996516 ACCAAAGGC-A-ACAAACTTTAAATGTTAAAAAGCTCTTCTGACCACATGTAACAAACTTTAAAT
1 ACCAAAGGCTATA-AAACTTTAAATGTTAAAAAGCTCTTCTGACCACAGGTAACAAACTTTAAAT
3996579 TCAAAA
65 TCAAAA
3996585 GGTTGAGAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.02
79 49 0.83
80 9 0.15
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (80 bp):
ACCAAAGGCTATAAAACTTTAAATGTTAAAAAGCTCTTCTGACCACAGGTAACAAACTTTAAATT
CAAAATACTCCTTTA
Found at i:4009167 original size:6 final size:6
Alignment explanation
Indices: 4009130--4009183 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
4009120 AATAAACATA
* *
4009130 AAAATC AACA-C AAAAT- AAAAT- AATAT- AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
*
4009174 AAAATT AAAA
1 AAAATC AAAA
4009184 AAAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 17 0.41
6 24 0.59
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATC
Found at i:4009173 original size:12 final size:11
Alignment explanation
Indices: 4009118--4009183 Score: 55
Period size: 12 Copynumber: 5.8 Consensus size: 11
4009108 AATATCATAA
*
4009118 AAAATAAACATA
1 AAAATAAA-ATC
*
4009130 AAAATCAACA-C
1 AAAAT-AAAATC
4009141 AAAATAAAAT-
1 AAAATAAAATC
*
4009151 AATATAAAATC
1 AAAATAAAATC
4009162 AAAATCAAAATC
1 AAAAT-AAAATC
4009174 AAAATTAAAA
1 AAAA-TAAAA
4009184 AAAAAAGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 12 0.27
11 9 0.20
12 20 0.45
13 3 0.07
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:4009549 original size:18 final size:19
Alignment explanation
Indices: 4009501--4009539 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4009491 CCTAGATTTC
4009501 AGTTG-CCAGAAAATTCAAA
1 AGTTGCCCA-AAAATTCAAA
4009520 AGTTGCCCAAAAATTCAAA
1 AGTTGCCCAAAAATTCAAA
4009539 A
1 A
4009540 TTTTCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.21
Consensus pattern (19 bp):
AGTTGCCCAAAAATTCAAA
Found at i:4009984 original size:3 final size:3
Alignment explanation
Indices: 4009978--4010003 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4009968 TTAAATTAAT
4009978 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
4010004 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4016715 original size:64 final size:66
Alignment explanation
Indices: 4016606--4016740 Score: 175
Period size: 64 Copynumber: 2.1 Consensus size: 66
4016596 TGTTTCTCTT
* *
4016606 TGTTCTTGCTGCTTTATTGACCAACACAAAATTTTTGCTCAAAAACAAATGGACCAAGACAATTG
1 TGTTCTTGCTGCTTTATAGACCAACACAAAATTTTTACTCAAAAACAAATGGACCAAGACAATTG
4016671 A
66 A
* ** * * *
4016672 TGTTCTTG-TGCTTTATAGACCAAGAC-ATTTTTTTACTCAAAAACAAGTTGACCAAGACGATTG
1 TGTTCTTGCTGCTTTATAGACCAACACAAAATTTTTACTCAAAAACAAATGGACCAAGACAATTG
4016735 A
66 A
*
4016736 AGTTC
1 TGTTC
4016741 CATGGCATCT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
64 36 0.60
65 16 0.27
66 8 0.13
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (66 bp):
TGTTCTTGCTGCTTTATAGACCAACACAAAATTTTTACTCAAAAACAAATGGACCAAGACAATTG
A
Found at i:4019052 original size:24 final size:24
Alignment explanation
Indices: 4019020--4019066 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4019010 TTATACTTTA
*
4019020 TGTGAAAAAATTAACAAA-TAAAAT
1 TGTGAAAAAAATAA-AAAGTAAAAT
*
4019044 TGTGTAAAAAATAAAAAGTAAAA
1 TGTGAAAAAAATAAAAAGTAAAA
4019067 CTGAATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (24 bp):
TGTGAAAAAAATAAAAAGTAAAAT
Found at i:4019693 original size:129 final size:130
Alignment explanation
Indices: 4019448--4019707 Score: 486
Period size: 130 Copynumber: 2.0 Consensus size: 130
4019438 CCATTATCTA
4019448 ATTTTTTTAGAGAGAGAGGGGAAAGAAGAAAATAAGAAAAAAAAATGATTTTGGCCTATTTGTAA
1 ATTTTTTTAGAGAGAGAGGGGAAAGAAGAAAATAAGAAAAAAAAATGATTTTGGCCTATTTGTAA
4019513 GCATTCCAAAATGACGCCGTTTTAGGCATCCAACCCGTGCTCGACCCGCGCAAGATCCGCATGTC
66 GCATTCCAAAATGACGCCGTTTTAGGCATCCAACCCGTGCTCGACCCGCGCAAGATCCGCATGTC
*
4019578 ATTTTTTTAGAGAGAGAGGGGAAAGAAGAAAATAAGCAAAAAAAATGATTTTGGCCTATTTGTAA
1 ATTTTTTTAGAGAGAGAGGGGAAAGAAGAAAATAAGAAAAAAAAATGATTTTGGCCTATTTGTAA
* *
4019643 GCATTCC-AAATGACGCCGTTTTGGGCATCCAACCCGTGCTCGACCTGCGCAAGATCCGCATGTC
66 GCATTCCAAAATGACGCCGTTTTAGGCATCCAACCCGTGCTCGACCCGCGCAAGATCCGCATGTC
4019707 A
1 A
4019708 ACCTGCACCC
Statistics
Matches: 127, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
129 56 0.44
130 71 0.56
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (130 bp):
ATTTTTTTAGAGAGAGAGGGGAAAGAAGAAAATAAGAAAAAAAAATGATTTTGGCCTATTTGTAA
GCATTCCAAAATGACGCCGTTTTAGGCATCCAACCCGTGCTCGACCCGCGCAAGATCCGCATGTC
Found at i:4019807 original size:26 final size:27
Alignment explanation
Indices: 4019761--4019819 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
4019751 TTTTGTTTTG
* *
4019761 ATTTTTGATTTTATTTATTTTATGTTA
1 ATTTTTGATTTTATCTATTTTATATTA
*
4019788 ATTTTT-ATGTTTATCT-TTTTATATTG
1 ATTTTTGAT-TTTATCTATTTTATATTA
4019814 ATTTTT
1 ATTTTT
4019820 TATGATGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (27 bp):
ATTTTTGATTTTATCTATTTTATATTA
Found at i:4019820 original size:27 final size:28
Alignment explanation
Indices: 4019758--4019823 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
4019748 TTTTTTTGTT
* * *
4019758 TTGATTTTTGAT-TTTATTTATTTTATG
1 TTGATTTTTTATGTTTATCTATTTTATA
*
4019785 TT-AATTTTTATGTTTATCT-TTTTATA
1 TTGATTTTTTATGTTTATCTATTTTATA
4019811 TTGATTTTTTATG
1 TTGATTTTTTATG
4019824 ATGTTATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.70
Consensus pattern (28 bp):
TTGATTTTTTATGTTTATCTATTTTATA
Found at i:4020066 original size:21 final size:21
Alignment explanation
Indices: 4020042--4020084 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
4020032 AATTTTTGCT
4020042 AAATAA-ATAATAAAAAAATAA
1 AAATAATA-AATAAAAAAATAA
4020063 AAATAATAAATAAAAAAATAA
1 AAATAATAAATAAAAAAATAA
4020084 A
1 A
4020085 TTGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAATAAATAAAAAAATAA
Found at i:4020438 original size:23 final size:22
Alignment explanation
Indices: 4020399--4020444 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
4020389 TTTTTTTTAT
4020399 AATAAAAAAATAATTAAAGAATA
1 AATAAAAAAATAATTAAA-AATA
*
4020422 AATAACAAAAAT-TTTAAAAATA
1 AATAA-AAAAATAATTAAAAATA
4020444 A
1 A
4020445 TAATAGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 10 0.48
24 6 0.29
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAAAAAAATAATTAAAAATA
Found at i:4020597 original size:50 final size:50
Alignment explanation
Indices: 4020503--4020606 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 50
4020493 TGGTTTTTTA
* * *
4020503 TTTAAGATCTTATCAAAAGTTGAGATAATCTTAAAACTTATTTAA-AATT
1 TTTAAGATCTTACCAAAAGTCGAGATAATCTTAAAACTTATTTAAGAAAT
* * * * *
4020552 TTTAAGATTTTACCAAAGAGTCGAGTTAATTTTAAAATTTGTTTAAGAAAT
1 TTTAAGATCTTACCAAA-AGTCGAGATAATCTTAAAACTTATTTAAGAAAT
4020603 TTTA
1 TTTA
4020607 GGAACTCATC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
49 15 0.33
50 23 0.51
51 7 0.16
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (50 bp):
TTTAAGATCTTACCAAAAGTCGAGATAATCTTAAAACTTATTTAAGAAAT
Found at i:4020788 original size:3 final size:3
Alignment explanation
Indices: 4020780--4020811 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4020770 AGAATACAAG
4020780 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4020812 GATTTCACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4021760 original size:62 final size:63
Alignment explanation
Indices: 4021581--4021855 Score: 320
Period size: 63 Copynumber: 4.4 Consensus size: 63
4021571 GCTTTTTAGC
* * * * * * * *
4021581 ACTAGCCATTTCAAAACGAATTATGTCCTCTATCACTTGGTCATTATTCATAGGCTTCTCAGT
1 ACTAACCATTTCAAAACAAATTTTATCCTCCATCACTTGGTCATCAATCATAGGTTTCTCAGT
* * * * *
4021644 ATTAGCCATTTCAAAACAAATTTTGTCCCCCATCACTTGGTCACCAATCATAGGTTTCTCAGT
1 ACTAACCATTTCAAAACAAATTTTATCCTCCATCACTTGGTCATCAATCATAGGTTTCTCAGT
* * * * *
4021707 ACTAACCATTTCAGAATAAA-TTTATCTTCCATCACTTGGTTATCAATCATAGGTTTCTCAGC
1 ACTAACCATTTCAAAACAAATTTTATCCTCCATCACTTGGTCATCAATCATAGGTTTCTCAGT
* * * * *
4021769 ATTAACCATTTTAAAACAAATTTTATCCTCCATTACTTGGTTA-CTAATCATAGTTTTCTCAGT
1 ACTAACCATTTCAAAACAAATTTTATCCTCCATCACTTGGTCATC-AATCATAGGTTTCTCAGT
4021832 ACTAACCATTTCAAAACAAATTTT
1 ACTAACCATTTCAAAACAAATTTT
4021856 GCCCATTGAT
Statistics
Matches: 181, Mismatches: 29, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
62 53 0.29
63 128 0.71
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (63 bp):
ACTAACCATTTCAAAACAAATTTTATCCTCCATCACTTGGTCATCAATCATAGGTTTCTCAGT
Found at i:4021834 original size:125 final size:125
Alignment explanation
Indices: 4021581--4021854 Score: 359
Period size: 125 Copynumber: 2.2 Consensus size: 125
4021571 GCTTTTTAGC
* * * * * * * *
4021581 ACTAGCCATTTCAAAACGAATTATGTCCTCTATCACTTGGTCATTATTCATAGGCTTCTCAGTAT
1 ACTAACCATTTCAAAACAAATT-TATCTTCCATCACTTGGTCATCAATCATAGGCTTCTCAGCAT
* *
4021646 TAGCCATTTCAAAACAAATTTTGTCCCCCATCACTTGGTCACCAATCATAGGTTTCTCAGT
65 TAACCATTTCAAAACAAATTTTATCCCCCATCACTTGGTCACCAATCATAGGTTTCTCAGT
* * * *
4021707 ACTAACCATTTCAGAATAAATTTATCTTCCATCACTTGGTTATCAATCATAGGTTTCTCAGCATT
1 ACTAACCATTTCAAAACAAATTTATCTTCCATCACTTGGTCATCAATCATAGGCTTCTCAGCATT
* * * * * *
4021772 AACCATTTTAAAACAAATTTTATCCTCCATTACTTGGTTACTAATCATAGTTTTCTCAGT
66 AACCATTTCAAAACAAATTTTATCCCCCATCACTTGGTCACCAATCATAGGTTTCTCAGT
4021832 ACTAACCATTTCAAAACAAATTT
1 ACTAACCATTTCAAAACAAATTT
4021855 TGCCCATTGA
Statistics
Matches: 126, Mismatches: 22, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
125 108 0.86
126 18 0.14
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (125 bp):
ACTAACCATTTCAAAACAAATTTATCTTCCATCACTTGGTCATCAATCATAGGCTTCTCAGCATT
AACCATTTCAAAACAAATTTTATCCCCCATCACTTGGTCACCAATCATAGGTTTCTCAGT
Found at i:4022595 original size:20 final size:19
Alignment explanation
Indices: 4022565--4022611 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
4022555 GTCTTCTTTT
4022565 TCTTTTTTCTTTTGTTCTC
1 TCTTTTTTCTTTTGTTCTC
*
4022584 TCTTTCTTTCTTTTTTTCT-
1 TCTTT-TTTCTTTTGTTCTC
*
4022603 TTTTTTTTC
1 TCTTTTTTC
4022612 CATCCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (19 bp):
TCTTTTTTCTTTTGTTCTC
Found at i:4022608 original size:8 final size:8
Alignment explanation
Indices: 4022556--4022608 Score: 54
Period size: 8 Copynumber: 6.1 Consensus size: 8
4022546 TCAATTTAAG
4022556 TCTTCTTTT
1 TCTT-TTTT
4022565 TC-TTTTT
1 TCTTTTTT
4022572 TCTTTTGTT
1 TCTTTT-TT
4022581 CTCTCTTTCTT
1 -TCT-TTT-TT
4022592 TCTTTTTT
1 TCTTTTTT
4022600 TCTTTTTT
1 TCTTTTTT
4022608 T
1 T
4022609 TTCCATCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
7 6 0.15
8 15 0.38
9 7 0.18
10 6 0.15
11 5 0.13
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (8 bp):
TCTTTTTT
Found at i:4022609 original size:12 final size:12
Alignment explanation
Indices: 4022558--4022610 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 12
4022548 AATTTAAGTC
4022558 TTCTTTTTCTTTT
1 TTCTTTTT-TTTT
4022571 TTCTTTTGTTCTCTCT
1 TTCTTTT-TT-T-T-T
*
4022587 TTCTTTCTTTTT
1 TTCTTTTTTTTT
4022599 TTCTTTTTTTTT
1 TTCTTTTTTTTT
4022611 CCATCCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 12 0.35
13 9 0.26
14 3 0.09
15 3 0.09
16 7 0.21
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:4026664 original size:56 final size:55
Alignment explanation
Indices: 4026540--4026655 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 55
4026530 TTGGGTTAAA
* * *
4026540 TTAAAAATA-TTT-TTACTTTTGAAATTTCTAAAGTTTTTCACCATTTGGGCCTAT
1 TTAAAAATACTTTCTT-TTTTTGAAATTTCTAAAGATTTTCACCATTTGGACCTAT
* *
4026594 TTAGAAATACTTTCTTTTTTTCGAAATTTCTAAA-ATTTTCGCCATTTGGACCTAT
1 TTAAAAATACTTTCTTTTTTT-GAAATTTCTAAAGATTTTCACCATTTGGACCTAT
4026649 TTAAAAA
1 TTAAAAA
4026656 ATTTTTTCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 8 0.15
55 31 0.58
56 14 0.26
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (55 bp):
TTAAAAATACTTTCTTTTTTTGAAATTTCTAAAGATTTTCACCATTTGGACCTAT
Found at i:4027064 original size:8 final size:8
Alignment explanation
Indices: 4027042--4027075 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
4027032 TCTAAAAAAA
4027042 TATTTTATT
1 TATTTTA-T
*
4027051 TTTTTTAT
1 TATTTTAT
4027059 TATTTTAT
1 TATTTTAT
4027067 TATTTTAT
1 TATTTTAT
4027075 T
1 T
4027076 TAATATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TATTTTAT
Found at i:4027176 original size:16 final size:17
Alignment explanation
Indices: 4027105--4027178 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 17
4027095 CCATAAAACA
4027105 AAATGAATAAATAAACAAT
1 AAATGAATAAA-AAA-AAT
* * *
4027124 -TATGCATAAAACAAAAC
1 AAATGAATAAAA-AAAAT
4027141 AAATGAATAAACAATCAAAT
1 AAATGAATAAA-AA--AAAT
4027161 AAA-GAATAAAAAAAAT
1 AAATGAATAAAAAAAAT
4027177 AA
1 AA
4027179 GAAAAAATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
16 6 0.14
17 3 0.07
18 21 0.48
19 8 0.18
20 6 0.14
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (17 bp):
AAATGAATAAAAAAAAT
Found at i:4027855 original size:7 final size:7
Alignment explanation
Indices: 4027832--4027878 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
4027822 AACTTAACAC
4027832 TTATTTT
1 TTATTTT
4027839 TTCATTTT
1 TT-ATTTT
4027847 TT-TTATT
1 TTATT-TT
*
4027854 TT-TTAT
1 TTATTTT
4027860 TTATTTT
1 TTATTTT
4027867 TTATTTT
1 TTATTTT
4027874 TTATT
1 TTATT
4027879 AACAAAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.14
7 23 0.66
8 7 0.20
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (7 bp):
TTATTTT
Found at i:4027866 original size:18 final size:17
Alignment explanation
Indices: 4027832--4027878 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
4027822 AACTTAACAC
4027832 TTATTTTTTCA-TTTTTT
1 TTATTTTTT-ATTTTTTT
4027849 TTATTTTTTATTTATTTT
1 TTATTTTTTATTT-TTTT
4027867 TTATTTTTTATT
1 TTATTTTTTATT
4027879 AACAAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 16 0.57
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTTTATTTTTTT
Found at i:4027955 original size:26 final size:26
Alignment explanation
Indices: 4027926--4027982 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
4027916 GTATTTGCAA
4027926 TAATAATAAATAATTTTAATATACTT
1 TAATAATAAATAATTTTAATATACTT
* ** *
4027952 TAATTATAAATAATTTTTTTATATTT
1 TAATAATAAATAATTTTAATATACTT
4027978 TAATA
1 TAATA
4027983 GGTATATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATAATAAATAATTTTAATATACTT
Found at i:4028038 original size:31 final size:31
Alignment explanation
Indices: 4028003--4028070 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
4027993 TATTATTTGA
4028003 AAAAAATAAATTT-TTAAAAAAACTAAATAAT
1 AAAAAA-AAATTTATTAAAAAAACTAAATAAT
* *** *
4028034 AAAAAAAATTTTATTAATTCATCTAAATAAT
1 AAAAAAAAATTTATTAAAAAAACTAAATAAT
4028065 AAAAAA
1 AAAAAA
4028071 CTTATAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (31 bp):
AAAAAAAAATTTATTAAAAAAACTAAATAAT
Found at i:4028294 original size:21 final size:21
Alignment explanation
Indices: 4028268--4028311 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4028258 TAACGAGTCC
*
4028268 GAGCAAAAACCCAAGGCAGAG
1 GAGCAAAAACCCAAGGAAGAG
*
4028289 GAGCAAGAACCCAAGGAAGAG
1 GAGCAAAAACCCAAGGAAGAG
4028310 GA
1 GA
4028312 ACGATCGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.20, G:0.32, T:0.00
Consensus pattern (21 bp):
GAGCAAAAACCCAAGGAAGAG
Found at i:4041842 original size:22 final size:22
Alignment explanation
Indices: 4041817--4041861 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4041807 CATCTCTCTA
*
4041817 ATTATATTTATCTATCTAATTG
1 ATTATATTTATCTATATAATTG
*
4041839 ATTATATTTATTTATATAATTG
1 ATTATATTTATCTATATAATTG
4041861 A
1 A
4041862 ATTGGATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (22 bp):
ATTATATTTATCTATATAATTG
Found at i:4043517 original size:2 final size:2
Alignment explanation
Indices: 4043512--4043537 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4043502 GAAAAAAAAA
4043512 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4043538 TATCCCCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4049293 original size:115 final size:115
Alignment explanation
Indices: 4049023--4049293 Score: 366
Period size: 115 Copynumber: 2.4 Consensus size: 115
4049013 TTTTATGCAG
* * *
4049023 GAAAAATTGATACTTTCAACTTTTCCCC-AAAATATTTTTTAGAAATTTTAATCTCGAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAATCTCAAGAAAAAT
* * *
4049087 TGACACTTTCAACTTTTCTTCAAAAATATTTTTAGAAAATTTATTTTTAA
66 TAACACTTTCAACTTTTCCTCAAAAATATTTTTAGAAAAATTATTTTTAA
* ** ** * * *
4049137 GGAAAATTGATACTTTCAACTTTTCTTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAATCTCAAGAAAAAT
* *
4049202 TAATACTTTCAACTTTTCCTCAAAAACT-TTTTTTGAAAAATTATTTTTAA
66 TAACACTTTCAACTTTTCCTCAAAAA-TATTTTTAGAAAAATTATTTTTAA
*
4049252 GAAAAATTGATACTTTCAGCTTTTCCCCAAAAATATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
4049294 TGGATTTTAT
Statistics
Matches: 133, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
114 25 0.19
115 107 0.80
116 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (115 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAATCTCAAGAAAAAT
TAACACTTTCAACTTTTCCTCAAAAATATTTTTAGAAAAATTATTTTTAA
Found at i:4049313 original size:57 final size:58
Alignment explanation
Indices: 4049023--4049293 Score: 350
Period size: 57 Copynumber: 4.7 Consensus size: 58
4049013 TTTTATGCAG
* * * * * **
4049023 GAAAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTAGAAATTTTAATCTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * *
4049080 GAAAAATTGACACTTTCAACTTTTCTTCAAAAATA-TTTTTAGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * **
4049137 GGAAAATTGATACTTTCAACTTTTCTTCAAAAACCTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * *
4049195 GAAAAATTAATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAAAATTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* *
4049252 GAAAAATTGATACTTTCAGCTTTTCCCCAAAAATATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
4049294 TGGATTTTAT
Statistics
Matches: 190, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
57 125 0.66
58 65 0.34
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:4049317 original size:9 final size:8
Alignment explanation
Indices: 4049305--4049393 Score: 65
Period size: 9 Copynumber: 10.8 Consensus size: 8
4049295 GGATTTTATT
4049305 TAAAGAAAA
1 TAAA-AAAA
*
4049314 TAAAATAA
1 TAAAAAAA
*
4049322 TAAAACAA
1 TAAAAAAA
*
4049330 -AATAAAA
1 TAAAAAAA
* *
4049337 -GAGAAAA
1 TAAAAAAA
4049344 TAAAAAAA
1 TAAAAAAA
4049352 TTAAAAAAA
1 -TAAAAAAA
4049361 TAAAGAAAA
1 TAAA-AAAA
4049370 TAAAAACAA
1 TAAAAA-AA
*
4049379 AAATAAAAA
1 TAA-AAAAA
4049388 TAAAAA
1 TAAAAA
4049394 TAAAGATAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
7 10 0.15
8 24 0.37
9 28 0.43
10 3 0.05
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:4049343 original size:30 final size:29
Alignment explanation
Indices: 4049308--4049409 Score: 106
Period size: 30 Copynumber: 3.6 Consensus size: 29
4049298 TTTTATTTAA
*
4049308 AGAAAATAAAATAATAAAACAAAATAAAAG
1 AGAAAATAAAAAAATAAAA-AAAATAAAAG
*
4049338 AGAAAATAAAAAAATTAAAAAAAT--AA-
1 AGAAAATAAAAAAATAAAAAAAATAAAAG
4049364 AGAAAATAAAAACAA-AAATAAAAATAAAA-
1 AGAAAATAAAAA-AATAAA-AAAAATAAAAG
*
4049393 ATAAAGATAAAAAAATA
1 AGAAA-ATAAAAAAATA
4049410 TTTAATAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
26 14 0.23
27 10 0.16
29 13 0.21
30 25 0.40
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (29 bp):
AGAAAATAAAAAAATAAAAAAAATAAAAG
Found at i:4049360 original size:12 final size:11
Alignment explanation
Indices: 4049310--4049397 Score: 68
Period size: 12 Copynumber: 7.2 Consensus size: 11
4049300 TTATTTAAAG
*
4049310 AAAATAAAATA
1 AAAAAAAAATA
4049321 ATAAAACAAAATA
1 A-AAAA-AAAATA
*
4049334 AAAGAGAAAATA
1 AAA-AAAAAATA
*
4049346 AAAAAATTAAAAA
1 AAAAAA--AAATA
4049359 AATAAAGAAAATA
1 AA-AAA-AAAATA
4049372 AAAACAAAAATA
1 AAAA-AAAAATA
4049384 AAAATAAAAATA
1 AAAA-AAAAATA
4049396 AA
1 AA
4049398 GATAAAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
11 3 0.05
12 35 0.56
13 21 0.33
14 3 0.05
15 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:4049370 original size:38 final size:38
Alignment explanation
Indices: 4049305--4049404 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 38
4049295 GGATTTTATT
* *
4049305 TAAAGAAAATAAAATAATAAAACAAAATAAAAGA-GAAAA
1 TAAA-AAAATAAAAAAATAAAACAAAATAAAA-ACAAAAA
*
4049344 TAAAAAAATTAAAAAAAT-AAAGAAAATAAAAACAAAAA
1 TAAAAAAA-TAAAAAAATAAAACAAAATAAAAACAAAAA
4049382 TAAAAATAA-AAATAAAGATAAAA
1 TAAAAA-AATAAA-AAA-ATAAAA
4049405 AAATATTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
37 4 0.08
38 29 0.56
39 16 0.31
40 3 0.06
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (38 bp):
TAAAAAAATAAAAAAATAAAACAAAATAAAAACAAAAA
Done.