Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 71 of 105
Found at i:12643223 original size:50 final size:48
Alignment explanation
Indices: 12643163--12643273 Score: 168
Period size: 50 Copynumber: 2.3 Consensus size: 48
12643153 AAATAAAGAG
*
12643163 AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAAAAATCTAACAA
1 AAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAAAAAT-TAA-AA
* * *
12643213 AAAAAATTTCTAAATAGTCCCAAATGGTGAAAATTTTAAAAATTAAAA
1 AAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAAAAATTAAAA
12643261 AAAATATTTCTAA
1 AAAATATTTCTAA
12643274 TTCGATCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 14 0.25
49 3 0.05
50 39 0.70
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (48 bp):
AAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAAAAATTAAAA
Found at i:12644297 original size:6 final size:6
Alignment explanation
Indices: 12644282--12644328 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
12644272 ATCATAGGTT
*
12644282 TTTTTA -TTTTA TTTTTA TTTTTTA TTCTTA TTTTT- TGTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA T-TTTTA TTTTT
12644329 TCTTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 6 0.17
6 22 0.63
7 7 0.20
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:12644304 original size:13 final size:13
Alignment explanation
Indices: 12644288--12644329 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
12644278 GGTTTTTTTA
12644288 TTTTATTTTTATT
1 TTTTATTTTTATT
*
12644301 TTTTATTCTTATT
1 TTTTATTTTTATT
*
12644314 TTTT-GTTTTATT
1 TTTTATTTTTATT
12644326 TTTT
1 TTTT
12644330 CTTATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:12644334 original size:22 final size:22
Alignment explanation
Indices: 12644280--12644345 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
12644270 CAATCATAGG
*
12644280 TTTTT-TTATTTTATT-TTTATTT
1 TTTTTCTTATTTT-TTGTTT-TAT
12644302 TTTATTCTTATTTTTTGTTTTAT
1 TTT-TTCTTATTTTTTGTTTTAT
12644325 TTTTTCTTATTTTTTGTTTTA
1 TTTTTCTTATTTTTTGTTTTA
12644346 GTACTTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 21 0.52
23 9 0.22
24 10 0.25
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTTTCTTATTTTTTGTTTTAT
Found at i:12644457 original size:24 final size:25
Alignment explanation
Indices: 12644421--12644484 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 25
12644411 TGGTAGGATT
**
12644421 TTTATTATTATATTTATTTGTGTGA
1 TTTATTATTATATTTATTTGCATGA
12644446 TTT-TTATTATATTTATTTGCATGA
1 TTTATTATTATATTTATTTGCATGA
*
12644470 TTTATTATGATATTT
1 TTTATTATTATATTT
12644485 TTACATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 22 0.63
25 13 0.37
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (25 bp):
TTTATTATTATATTTATTTGCATGA
Found at i:12644547 original size:14 final size:13
Alignment explanation
Indices: 12644530--12644597 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
12644520 ATTATTTATT
12644530 ATGATTCATTTTGC
1 ATGATT-ATTTTGC
12644544 ATGATTATTTTGGC
1 ATGATTATTTT-GC
* *
12644558 AT-AATATTTCT-T
1 ATGATTATTT-TGC
12644570 ATGA-TA-TTTGC
1 ATGATTATTTTGC
12644581 ATGATCTATTTTGC
1 ATGAT-TATTTTGC
12644595 ATG
1 ATG
12644598 TTTTAATTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 1 0.02
11 6 0.14
12 4 0.09
13 14 0.32
14 19 0.43
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (13 bp):
ATGATTATTTTGC
Found at i:12645675 original size:24 final size:23
Alignment explanation
Indices: 12645648--12645701 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
12645638 TATTTTATAG
* *
12645648 TTTATGATTTTTTATGTGTACTGA
1 TTTATGA-TTTTGATGTGTACTAA
12645672 TTTATTTGATTTTGATGTGTACTAA
1 TTTA--TGATTTTGATGTGTACTAA
12645697 TTTAT
1 TTTAT
12645702 CTGATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 4 0.15
25 18 0.69
26 3 0.12
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (23 bp):
TTTATGATTTTGATGTGTACTAA
Found at i:12645690 original size:25 final size:25
Alignment explanation
Indices: 12645656--12645707 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
12645646 AGTTTATGAT
* * *
12645656 TTTTTATGTGTACTGATTTATTTGA
1 TTTTGATGTGTACTAATTTATCTGA
12645681 TTTTGATGTGTACTAATTTATCTGA
1 TTTTGATGTGTACTAATTTATCTGA
12645706 TT
1 TT
12645708 ATTTAGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (25 bp):
TTTTGATGTGTACTAATTTATCTGA
Found at i:12648803 original size:12 final size:12
Alignment explanation
Indices: 12648780--12648812 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12648770 ATGAGATGGA
12648780 ATGAAAAAAAAG
1 ATGAAAAAAAAG
12648792 A-GAAAAACAAAG
1 ATGAAAAA-AAAG
12648804 ATGAAAAAA
1 ATGAAAAAA
12648813 TATGGAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.32
12 7 0.37
13 6 0.32
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (12 bp):
ATGAAAAAAAAG
Found at i:12649726 original size:18 final size:19
Alignment explanation
Indices: 12649703--12649740 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12649693 CAATATCATA
*
12649703 AAAATGACT-ATTTTAAGG
1 AAAATGACTAAGTTTAAGG
*
12649721 AAAATGTCTAAGTTTAAGG
1 AAAATGACTAAGTTTAAGG
12649740 A
1 A
12649741 TTTGAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (19 bp):
AAAATGACTAAGTTTAAGG
Found at i:12650413 original size:109 final size:108
Alignment explanation
Indices: 12650150--12650419 Score: 321
Period size: 110 Copynumber: 2.5 Consensus size: 108
12650140 GAGATTTTTC
* * * *
12650150 TAAGTTTCAAAACCTCTATTAAGAATGAGCTTTTTCAAATATGAAAATAATCTATAAGATCCCAG
1 TAAGTTTCAAAACCTCTATTAA-AAGGAGCTTTTTCAAATATGAGAATGATCTATAAGAACCCAG
* * ***
12650215 GACATGATTCTTAAGACCTCTGGGTACCTTTTTAGATTTGATTT
65 GACATGATCCTTAAAACCTCTAAATACCTTTTTAGATTTGATTT
*
12650259 TAAAGTTTCAAAACATCTATTAAAGAGGAGCTTTTTCAAATATGAGAATGATCTATAA-AACCTC
1 T-AAGTTTCAAAACCTCTATTAAA-AGGAGCTTTTTCAAATATGAGAATGATCTATAAGAACC-C
*
12650323 AGTG-CATGATCCTTAAAACCTCTAAAT-GCTTTTTAGATTTGATGTT
63 AG-GACATGATCCTTAAAACCTCTAAATACCTTTTTAGATTTGAT-TT
* * * *
12650369 TAAGTTTCAAAGCCTTTATTACAAAGGAGCTTTTTTAAAGATGAGAATGAT
1 TAAGTTTCAAAACCTCTATTA-AAAGGAGCTTTTTCAAATATGAGAATGAT
12650420 TTATTAGACC
Statistics
Matches: 139, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
109 62 0.45
110 76 0.55
111 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (108 bp):
TAAGTTTCAAAACCTCTATTAAAAGGAGCTTTTTCAAATATGAGAATGATCTATAAGAACCCAGG
ACATGATCCTTAAAACCTCTAAATACCTTTTTAGATTTGATTT
Found at i:12650492 original size:22 final size:22
Alignment explanation
Indices: 12650467--12650515 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
12650457 GTATGATTTA
12650467 TAAGACCTCCGAGA-ATAATCTC
1 TAAGACCTCCGA-ACATAATCTC
*
12650489 TAAGACCTCCTAACATAATCTC
1 TAAGACCTCCGAACATAATCTC
12650511 TAAGA
1 TAAGA
12650516 TCTCAAAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (22 bp):
TAAGACCTCCGAACATAATCTC
Found at i:12650531 original size:22 final size:22
Alignment explanation
Indices: 12650467--12650538 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
12650457 GTATGATTTA
*
12650467 TAAGACCTCCGAGA-ATAATCTC
1 TAAGACCTCC-AAACATAATCTC
*
12650489 TAAGACCTCCTAACATAATCTC
1 TAAGACCTCCAAACATAATCTC
* * *
12650511 TAAGATCT-CAAAGCATGATCTA
1 TAAGACCTCCAAA-CATAATCTC
12650533 TAAGAC
1 TAAGAC
12650539 TTTAGGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.10
22 37 0.90
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (22 bp):
TAAGACCTCCAAACATAATCTC
Found at i:12650661 original size:24 final size:24
Alignment explanation
Indices: 12650634--12650696 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
12650624 AAAACCTTCG
12650634 GGTATCATTTCAAAACTACCTC-TA
1 GGTATCATTTCAAAAC-ACCTCTTA
*
12650658 GGTATCATTTTTAAAA-ACCTCTTA
1 GGTATCA-TTTCAAAACACCTCTTA
12650682 -GTATCATTTCAAAAC
1 GGTATCATTTCAAAAC
12650697 CTCCAAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 7 0.21
23 11 0.32
24 9 0.26
25 7 0.21
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (24 bp):
GGTATCATTTCAAAACACCTCTTA
Found at i:12650697 original size:21 final size:21
Alignment explanation
Indices: 12650635--12650711 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 21
12650625 AAACCTTCGG
12650635 GTATCATTTCAAAA-CTACCTCTA
1 GTATCATTTCAAAACCT--CT-TA
*
12650658 GGTATCATTTTTAAAAACCTCTTA
1 -GTATCA--TTTCAAAACCTCTTA
**
12650682 GTATCATTTCAAAACCTCCAA
1 GTATCATTTCAAAACCTCTTA
12650703 GTATCATTT
1 GTATCATTT
12650712 TTAAAAACCT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
21 21 0.46
23 6 0.13
24 8 0.17
25 2 0.04
26 7 0.15
27 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (21 bp):
GTATCATTTCAAAACCTCTTA
Found at i:12650714 original size:44 final size:46
Alignment explanation
Indices: 12650635--12650723 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
12650625 AAACCTTCGG
* *
12650635 GTATCATTTCAAAACTACCTCTAGGTATCATTTTTAAAAACCTCTTA
1 GTATCATTTCAAAAC-ACCTCCAAGTATCATTTTTAAAAACCTCTTA
12650682 GTATCATTTC-AAA-ACCTCCAAGTATCATTTTTAAAAACCTCT
1 GTATCATTTCAAAACACCTCCAAGTATCATTTTTAAAAACCTCT
12650724 AAATGTCATC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 27 0.68
46 3 0.08
47 10 0.25
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (46 bp):
GTATCATTTCAAAACACCTCCAAGTATCATTTTTAAAAACCTCTTA
Found at i:12650732 original size:23 final size:23
Alignment explanation
Indices: 12650651--12650740 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 23
12650641 TTTCAAAACT
*
12650651 ACCTCTAGGTATCATTTTTAAAA
1 ACCTCTAAGTATCATTTTTAAAA
* *
12650674 ACCTCTTAGTATCA--TTTCAAA
1 ACCTCTAAGTATCATTTTTAAAA
*
12650695 ACCTCCAAGTATCATTTTTAAAA
1 ACCTCTAAGTATCATTTTTAAAA
* * *
12650718 ACCTCTAAATGTCATCTTTAAAA
1 ACCTCTAAGTATCATTTTTAAAA
12650741 CCTTCAGGCA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 18 0.33
23 37 0.67
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (23 bp):
ACCTCTAAGTATCATTTTTAAAA
Found at i:12651646 original size:20 final size:19
Alignment explanation
Indices: 12651603--12651663 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
12651593 ATAGATTTTC
12651603 TTTTTATTTTTTA-TT-TT
1 TTTTTATTTTTTAGTTCTT
12651620 TAATTTTAATTTTTTAGTTCTTT
1 T--TTTT-ATTTTTTAGTTC-TT
* *
12651643 TTTTTATGTTTTAGTACTT
1 TTTTTATTTTTTAGTTCTT
12651662 TT
1 TT
12651664 AATTGTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 1 0.03
19 8 0.22
20 18 0.50
21 6 0.17
23 3 0.08
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTTAGTTCTT
Found at i:12651776 original size:22 final size:23
Alignment explanation
Indices: 12651748--12651793 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
12651738 TTATGTGGTT
12651748 TTTATTAT-AT-TTATTTGCATGA
1 TTTATTATGATATT-TTTGCATGA
12651770 TTTATTATGATATTTTTGCATGA
1 TTTATTATGATATTTTTGCATGA
12651793 T
1 T
12651794 ATTTTGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.36
23 12 0.55
24 2 0.09
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (23 bp):
TTTATTATGATATTTTTGCATGA
Found at i:12651924 original size:38 final size:38
Alignment explanation
Indices: 12651840--12651930 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 38
12651830 TATGATTTAT
*
12651840 TTTTGCATGATTATTTTGGCATAATATTTATTATGATA
1 TTTTGCATGATTATTTTGGCATAATATTTATTATAATA
*
12651878 TTTT-CATGATCTATTTT-GCAT-GT-TTTAATTATAATA
1 TTTTGCATGAT-TATTTTGGCATAATATTT-ATTATAATA
12651914 TTATTGCATGATT-TTTT
1 TT-TTGCATGATTATTTT
12651931 CTATGGTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
35 3 0.06
36 15 0.32
37 13 0.28
38 16 0.34
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (38 bp):
TTTTGCATGATTATTTTGGCATAATATTTATTATAATA
Found at i:12655803 original size:10 final size:10
Alignment explanation
Indices: 12655788--12655816 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
12655778 GGATTTGATC
12655788 AAAATTTTCA
1 AAAATTTTCA
12655798 AAAATTTTCA
1 AAAATTTTCA
12655808 AAAATTTTC
1 AAAATTTTC
12655817 TAGTATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTTTCA
Found at i:12657095 original size:39 final size:42
Alignment explanation
Indices: 12657015--12657096 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 42
12657005 ATTCAAAAGA
* * *
12657015 AATTGCACTAAAAAGATAAAATACTAAAATTTTAATGCAATC
1 AATTACACTAAAAAGATAAAATACTAAAAATTTAAAGCAATC
12657057 AATTACAC-AAAAA-ATAAAA-A-TAAAAATTTAAAGACAATC
1 AATTACACTAAAAAGATAAAATACTAAAAATTTAAAG-CAATC
12657096 A
1 A
12657097 CATTTGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 11 0.31
39 7 0.19
40 6 0.17
41 5 0.14
42 7 0.19
ACGTcount: A:0.60, C:0.11, G:0.05, T:0.24
Consensus pattern (42 bp):
AATTACACTAAAAAGATAAAATACTAAAAATTTAAAGCAATC
Found at i:12659879 original size:34 final size:35
Alignment explanation
Indices: 12659834--12659900 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
12659824 TTAATACTCA
** * *
12659834 AAAATAATTATATTTTTATAATAATATTTAATATT
1 AAAATAATTATATTAATATAAAAATATTAAATATT
12659869 AAAAT-ATTATATTAATATAAAAATATTAAATA
1 AAAATAATTATATTAATATAAAAATATTAAATA
12659901 AAACTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
AAAATAATTATATTAATATAAAAATATTAAATATT
Found at i:12659937 original size:12 final size:12
Alignment explanation
Indices: 12659920--12659995 Score: 54
Period size: 12 Copynumber: 6.4 Consensus size: 12
12659910 ATTGTTCTTT
12659920 ATATATTTATTA
1 ATATATTTATTA
*
12659932 ATATATTAATATA
1 ATATATTTAT-TA
* *
12659945 TTATATTTACTA
1 ATATATTTATTA
12659957 GTATATTATTTATTA
1 --ATA-TATTTATTA
12659972 ATA-A-TTA-T-
1 ATATATTTATTA
12659980 AT-TATTTATTA
1 ATATATTTATTA
12659991 ATATA
1 ATATA
12659996 ATATTATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 4 0.08
11 3 0.06
12 13 0.27
13 12 0.24
14 2 0.04
15 8 0.16
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (12 bp):
ATATATTTATTA
Found at i:12659970 original size:19 final size:17
Alignment explanation
Indices: 12659919--12660006 Score: 79
Period size: 19 Copynumber: 4.7 Consensus size: 17
12659909 TATTGTTCTT
12659919 TATA-TATTTATTAATA
1 TATATTATTTATTAATA
*
12659935 TATTAATATATTATATTTACTA
1 TA-T-AT-TATT-TA-TTAATA
12659957 GTATATTATTTATTAATAA
1 -TATATTATTTATTAAT-A
12659976 TTATATTATTTATTAATA
1 -TATATTATTTATTAATA
12659994 TAATATTATTTAT
1 T-ATATTATTTAT
12660007 AAGTAAAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 17 0.28
19 19 0.32
20 8 0.13
21 4 0.07
22 6 0.10
23 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:12659984 original size:15 final size:15
Alignment explanation
Indices: 12659935--12660008 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 15
12659925 TTTATTAATA
12659935 TATTAATATATTATATT
1 TATTAATA-ATTATA-T
* *
12659952 TACTAGTATATTAT-T
1 TATTAATA-ATTATAT
12659967 TATTAATAATTATAT
1 TATTAATAATTATAT
*
12659982 TATTTATTAATATAATAT
1 TA-TTAATAAT-T-ATAT
*
12660000 TATTTATAA
1 TATTAATAA
12660009 GTAAAATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
14 5 0.11
15 10 0.22
16 7 0.15
17 18 0.39
18 6 0.13
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
TATTAATAATTATAT
Found at i:12660161 original size:22 final size:21
Alignment explanation
Indices: 12660120--12660165 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
12660110 AATAACTTTA
*
12660120 TTTTTGTTGACTATTAAATTAT
1 TTTTTATTGACTATTAAATT-T
12660142 TTTTTATTGACTAATT-AATTT
1 TTTTTATTGACT-ATTAAATTT
12660163 TTT
1 TTT
12660166 GTCAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 15 0.68
23 3 0.14
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (21 bp):
TTTTTATTGACTATTAAATTT
Found at i:12667466 original size:16 final size:16
Alignment explanation
Indices: 12667430--12667468 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
12667420 TTTTCTTAAA
*
12667430 ATTTTA-AATTATATT
1 ATTTTATAATTATATG
*
12667445 AGTTTATAATTATATG
1 ATTTTATAATTATATG
12667461 ATTTTATA
1 ATTTTATA
12667469 TTTTAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
ATTTTATAATTATATG
Found at i:12667478 original size:22 final size:24
Alignment explanation
Indices: 12667447--12667493 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
12667437 ATTATATTAG
12667447 TTTATAATT-ATATGATTTTATAT
1 TTTATAATTAATATGATTTTATAT
* *
12667470 TTTA-AATTAATATGTTTTTTTAT
1 TTTATAATTAATATGATTTTATAT
12667493 T
1 T
12667494 AATTTACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTATAATTAATATGATTTTATAT
Found at i:12667499 original size:26 final size:25
Alignment explanation
Indices: 12667462--12667511 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
12667452 AATTATATGA
*
12667462 TTTTATATTTTAAATTAATATGTTT
1 TTTTATAATTTAAATTAATATGTTT
* *
12667487 TTTTATTAATTTACATTAATTTGTT
1 TTTTA-TAATTTAAATTAATATGTT
12667512 AGATTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTATAATTTAAATTAATATGTTT
Found at i:12667589 original size:13 final size:13
Alignment explanation
Indices: 12667571--12667595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12667561 TCTATTATAC
12667571 TATTTTAATTTAA
1 TATTTTAATTTAA
12667584 TATTTTAATTTA
1 TATTTTAATTTA
12667596 TTTATTTATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTAATTTAA
Found at i:12667605 original size:18 final size:17
Alignment explanation
Indices: 12667571--12667635 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 17
12667561 TCTATTATAC
*
12667571 TATTTTAATTTAATATTT
1 TATTTTAATTTATTA-TT
*
12667589 TAATTT-ATTTATTTATT
1 TATTTTAATTTA-TTATT
*
12667606 TATATTAATTTATTATAT
1 TATTTTAATTTATTAT-T
12667624 TATTTTAATTTA
1 TATTTTAATTTA
12667636 ATCTAATGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 15 0.38
18 24 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTAATTTATTATT
Found at i:12672352 original size:104 final size:104
Alignment explanation
Indices: 12672244--12672444 Score: 330
Period size: 104 Copynumber: 1.9 Consensus size: 104
12672234 AACTTCATGA
* * *
12672244 ACAAAGCTAAGATGATGATGCATTTTCTTTAATATATTTTTAAAAAATTAAAAAAAAAACTAATT
1 ACAAAGCTAAGATAATGATACATTTTCTTCAATATATTTTTAAAAAATTAAAAAAAAAACTAATT
** *
12672309 TAAAAATAATGGATATGTGTCACAATTTTAATACTGTTT
66 TAAAAATAATAAACATGTGTCACAATTTTAATACTGTTT
* *
12672348 ACAAAGTTAAGATAATGATACATTTTCTTCAGTATATTTTTAAAAAATTAAAAAAAAAACTAATT
1 ACAAAGCTAAGATAATGATACATTTTCTTCAATATATTTTTAAAAAATTAAAAAAAAAACTAATT
12672413 TAAAAATAATAAACATGTGTCACAATTTTAAT
66 TAAAAATAATAAACATGTGTCACAATTTTAAT
12672445 CATATTCATG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 89 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (104 bp):
ACAAAGCTAAGATAATGATACATTTTCTTCAATATATTTTTAAAAAATTAAAAAAAAAACTAATT
TAAAAATAATAAACATGTGTCACAATTTTAATACTGTTT
Found at i:12675622 original size:3 final size:3
Alignment explanation
Indices: 12675616--12675680 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
12675606 CTTTTTTTAT
* * * *
12675616 TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA AAA TAA TAA TAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
12675664 CAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
12675681 GTAGTAGTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:12675639 original size:18 final size:18
Alignment explanation
Indices: 12675616--12675680 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
12675606 CTTTTTTTAT
12675616 TAATAATAATAAAAATAA
1 TAATAATAATAAAAATAA
12675634 TAATAATAATAAAAATAA
1 TAATAATAATAAAAATAA
* * *
12675652 TAATAACAACAACAATAA
1 TAATAATAATAAAAATAA
12675670 TAATAATAATA
1 TAATAATAATA
12675681 GTAGTAGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
TAATAATAATAAAAATAA
Found at i:12675685 original size:3 final size:3
Alignment explanation
Indices: 12675679--12675722 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
12675669 ATAATAATAA
* *
12675679 TAG TAG TAG TAG TCG TAG TAG TAG TAG TAG TAG TAG CAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
12675723 AATACTTGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (3 bp):
TAG
Found at i:12676074 original size:64 final size:64
Alignment explanation
Indices: 12676027--12676243 Score: 240
Period size: 64 Copynumber: 3.4 Consensus size: 64
12676017 GAGTGATTGG
* * * *
12676027 GATTGAACCGCAGATCTAAAAATAAAATGATTTGGACTGAGCTAAGATCAAAATAAAGGATCGA
1 GATTGAACCGCAGATCTAAAAATAAAATGATCTGGACTGAGCTAAGATCAAAATGAATGATCAA
* * * * * *
12676091 GATTGAACCGTAGGTGTGAAAATAAAATGATCTGGACTAAGCTGAGATCAAAATGAATGATCAA
1 GATTGAACCGCAGATCTAAAAATAAAATGATCTGGACTGAGCTAAGATCAAAATGAATGATCAA
* * * * * * * *
12676155 GATTGAACCGTAGATCTAAAAATAAAATGATCTAGATTGAG-T-CGAGTCGAAATGAATAATTAG
1 GATTGAACCGCAGATCTAAAAATAAAATGATCTGGACTGAGCTAAGA-TCAAAATGAATGATCAA
*
12676218 GATTGAACCGCAGGTCTAAAAATAAA
1 GATTGAACCGCAGATCTAAAAATAAA
12676244 TTTTAAATTT
Statistics
Matches: 129, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
62 2 0.02
63 38 0.29
64 89 0.69
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (64 bp):
GATTGAACCGCAGATCTAAAAATAAAATGATCTGGACTGAGCTAAGATCAAAATGAATGATCAA
Found at i:12676186 original size:34 final size:33
Alignment explanation
Indices: 12676027--12676194 Score: 109
Period size: 34 Copynumber: 5.2 Consensus size: 33
12676017 GAGTGATTGG
* * *
12676027 GATTGAACCGCAGATCTAAAAATAAAATGATTTG
1 GATTGAACCGTAGATCT-AAAATAAAATGATCTA
* * * *
12676061 GACTG-AGC-TAAGATC-AAAAT-AAAGGATCGA
1 GATTGAACCGT-AGATCTAAAATAAAATGATCTA
* * *
12676091 GATTGAACCGTAGGTGTGAAAATAAAATGATCTG
1 GATTGAACCGTAGATCT-AAAATAAAATGATCTA
* * * *
12676125 GACT-AAGC-TGAGATC-AAAAT-GAATGATCAA
1 GATTGAACCGT-AGATCTAAAATAAAATGATCTA
12676155 GATTGAACCGTAGATCTAAAAATAAAATGATCTA
1 GATTGAACCGTAGATCT-AAAATAAAATGATCTA
12676189 GATTGA
1 GATTGA
12676195 GTCGAGTCGA
Statistics
Matches: 97, Mismatches: 25, Indels: 24
0.66 0.17 0.16
Matches are distributed among these distances:
30 20 0.21
31 23 0.24
32 3 0.03
33 23 0.24
34 28 0.29
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (33 bp):
GATTGAACCGTAGATCTAAAATAAAATGATCTA
Found at i:12681521 original size:12 final size:12
Alignment explanation
Indices: 12681504--12681543 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
12681494 TAAATGAATG
*
12681504 ATAAATATATGA
1 ATAAATATATAA
*
12681516 ATAAATAAATAA
1 ATAAATATATAA
*
12681528 ATAAATATACAA
1 ATAAATATATAA
12681540 ATAA
1 ATAA
12681544 GGAAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (12 bp):
ATAAATATATAA
Found at i:12681864 original size:11 final size:11
Alignment explanation
Indices: 12681848--12681877 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
12681838 GAAGAAGGTA
12681848 ATAGCACCCAC
1 ATAGCACCCAC
12681859 ATAGCACCCAC
1 ATAGCACCCAC
12681870 ATAGCACC
1 ATAGCACC
12681878 ATCTAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.43, G:0.10, T:0.10
Consensus pattern (11 bp):
ATAGCACCCAC
Found at i:12683441 original size:3 final size:3
Alignment explanation
Indices: 12683433--12683459 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12683423 AACCCTTTTT
12683433 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
12683460 ATTATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12684566 original size:18 final size:19
Alignment explanation
Indices: 12684542--12684597 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 19
12684532 TTTATTAAAT
*
12684542 TACATATTAAATTTTAACA
1 TACATATTAAATATTAACA
12684561 TA-ATA-TAAA-ATTAAC-
1 TACATATTAAATATTAACA
12684576 TACATATTAAATATTAACA
1 TACATATTAAATATTAACA
12684595 TAC
1 TAC
12684598 CCTTTCATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 2 0.06
16 8 0.25
17 8 0.25
18 9 0.28
19 5 0.16
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
TACATATTAAATATTAACA
Found at i:12684677 original size:127 final size:127
Alignment explanation
Indices: 12684380--12684806 Score: 445
Period size: 127 Copynumber: 3.4 Consensus size: 127
12684370 ATGTGATATT
*
12684380 TTATTTAAAAATTACTATAATA-CCCTATTAAATTACGA-ATTAAATTTTAATATAATATAAAAT
1 TTATTTGAAAATTACTATAATATCCCTATTAAATTAC-ATATTAAATTTTAATATAATATAAAAT
* * * * * * * * *
12684443 TAATCACATACTAAATTATTAAAATATCTTTTCTATCACTTCATAAAAATTTAATATGTGACATC
65 TAAT-ACATATTAAATTATTAAAATATCCTTTC-ATTATTTAATAGAAATTTGACATGTGGCATC
* * ** *
12684508 TTATTTTAAAATTATTATAATATCTTTATTAAATTACATATTAAATTTTAACATAATATAAAATT
1 TTATTTGAAAATTACTATAATATCCCTATTAAATTACATATTAAATTTTAATATAATATAAAATT
* * * *
12684573 AACTACATATTAAA-TATTAACATACCCTTTCATTGTTTAATAGAAATTTGACATGTGGCATG
66 AA-TACATATTAAATTATTAAAATATCCTTTCATTATTTAATAGAAATTTGACATGTGGCATC
* * *
12684635 TTGTTTGAAATTTACTATAATATCCCTATTAAATTACATATTAAATTTTGATATAATATAAAATT
1 TTATTTGAAAATTACTATAATATCCCTATTAAATTACATATTAAATTTTAATATAATATAAAATT
* * * *
12684700 AATTATATATTAAATTATTAAAATATACTTGCCATTATTTTAT-GAAAATTTGACATGTGGCAT-
66 AA-TACATATTAAATTATTAAAATATCCTT-TCATTATTTAATAG-AAATTTGACATGTGGCATC
* * * * * * *
12684763 TT-TATAAAAATTTCCATAAGAT-CTTTTTAAATTACATATTAAAT
1 TTATTTGAAAATTACTATAATATCCCTATTAAATTACATATTAAAT
12684807 CAATTATATG
Statistics
Matches: 251, Mismatches: 42, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
126 20 0.08
127 105 0.42
128 50 0.20
129 75 0.30
130 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (127 bp):
TTATTTGAAAATTACTATAATATCCCTATTAAATTACATATTAAATTTTAATATAATATAAAATT
AATACATATTAAATTATTAAAATATCCTTTCATTATTTAATAGAAATTTGACATGTGGCATC
Found at i:12685168 original size:3 final size:3
Alignment explanation
Indices: 12685162--12685199 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12685152 AAAATTCATA
12685162 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12685200 ATTTTGATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12686612 original size:21 final size:21
Alignment explanation
Indices: 12686577--12686624 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
12686567 ATATTTTTTG
*
12686577 TTTTAAAAATGATATGAA-AT
1 TTTTAAAAAGGATATGAACAT
12686597 TTTTAAAAAGGAATATGAACAT
1 TTTTAAAAAGG-ATATGAACAT
*
12686619 GTTTAA
1 TTTTAA
12686625 CTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 7 0.29
22 7 0.29
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TTTTAAAAAGGATATGAACAT
Found at i:12688528 original size:25 final size:24
Alignment explanation
Indices: 12688500--12688546 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
12688490 ATTGTGACAT
*
12688500 TATTCCATGATTTTGACTATGATAG
1 TATTACATGATTTT-ACTATGATAG
* *
12688525 TATTACATGGTTTTATTATGAT
1 TATTACATGATTTTACTATGAT
12688547 TTTTTTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (24 bp):
TATTACATGATTTTACTATGATAG
Found at i:12688551 original size:13 final size:12
Alignment explanation
Indices: 12688535--12688623 Score: 56
Period size: 13 Copynumber: 7.3 Consensus size: 12
12688525 TATTACATGG
*
12688535 TTTTATTATGAT
1 TTTTTTTATGAT
*
12688547 TTTTTTAATGAT
1 TTTTTTTATGAT
*
12688559 ATTTTTTATGAT
1 TTTTTTTATGAT
** *
12688571 ATTTTTGCATTA-
1 -TTTTTTTATGAT
* *
12688583 TATTTTTAT-AA
1 TTTTTTTATGAT
*
12688594 TATTTTTATGAT
1 TTTTTTTATGAT
12688606 ATTTTTTTATGAT
1 -TTTTTTTATGAT
12688619 ATTTT
1 -TTTT
12688624 GTACGAAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
10 1 0.02
11 15 0.25
12 21 0.35
13 23 0.38
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.66
Consensus pattern (12 bp):
TTTTTTTATGAT
Found at i:12688563 original size:11 final size:11
Alignment explanation
Indices: 12688540--12688623 Score: 87
Period size: 11 Copynumber: 7.1 Consensus size: 11
12688530 CATGGTTTTA
*
12688540 TTATGATTTTT
1 TTATGATATTT
12688551 TTAATGATATTTT
1 TT-ATGATA-TTT
12688564 TTATGATATTT
1 TTATGATATTT
*
12688575 TTGCATTATATTT
1 TT--ATGATATTT
*
12688588 TTATAATATTT
1 TTATGATATTT
12688599 TTATGATATTTTT
1 TTATGATA--TTT
12688612 TTATGATATTT
1 TTATGATATTT
12688623 T
1 T
12688624 GTACGAAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
11 26 0.41
12 11 0.17
13 26 0.41
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.65
Consensus pattern (11 bp):
TTATGATATTT
Found at i:12688567 original size:24 final size:23
Alignment explanation
Indices: 12688535--12688623 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 23
12688525 TATTACATGG
*
12688535 TTTTATTATGATTTTTTTAATGATA
1 TTTT-TTATGATATTTTT-ATGATA
*
12688560 TTTTTTATGATATTTTTGCATTATA
1 TTTTTTATGATATTTTT--ATGATA
*
12688585 -TTTTTATAATATTTTTATGATA
1 TTTTTTATGATATTTTTATGATA
12688607 TTTTTTTATGATATTTT
1 -TTTTTTATGATATTTT
12688624 GTACGAAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
22 5 0.09
24 41 0.75
25 9 0.16
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.66
Consensus pattern (23 bp):
TTTTTTATGATATTTTTATGATA
Found at i:12688569 original size:48 final size:48
Alignment explanation
Indices: 12688517--12688619 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
12688507 TGATTTTGAC
* * *
12688517 TATGATAGTATTACATGGT-TTTATTATGATTTTTTTAATGATA-TTTTT
1 TATGATAGTATTACATGATATTT-TTATAATATTTTT-ATGATATTTTTT
* * * *
12688565 TATGATATTTTTGCATTATATTTTTATAATATTTTTATGATATTTTTT
1 TATGATAGTATTACATGATATTTTTATAATATTTTTATGATATTTTTT
12688613 TATGATA
1 TATGATA
12688620 TTTTGTACGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 6 0.13
48 37 0.80
49 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.60
Consensus pattern (48 bp):
TATGATAGTATTACATGATATTTTTATAATATTTTTATGATATTTTTT
Found at i:12693866 original size:2 final size:2
Alignment explanation
Indices: 12693861--12693885 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12693851 ACTAAAAAAT
12693861 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12693886 TGTTATTTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12694673 original size:27 final size:27
Alignment explanation
Indices: 12694611--12694664 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12694601 TATTTTATTA
* **
12694611 AAATTATATTTTATATTTTAATAGTTAG
1 AAATAATA-TTTATATTTTAATAAATAG
12694639 AAATAATATTTATATTTTAATAAATA
1 AAATAATATTTATATTTTAATAAATA
12694665 TAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
AAATAATATTTATATTTTAATAAATAG
Found at i:12695015 original size:16 final size:16
Alignment explanation
Indices: 12694979--12695010 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12694969 TTTTTATTAA
12694979 TTTATATATTATTATT
1 TTTATATATTATTATT
12694995 TTTATA-ATTATT-TT
1 TTTATATATTATTATT
12695009 TT
1 TT
12695011 ATTATGGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATATATTATTATT
Found at i:12702620 original size:15 final size:16
Alignment explanation
Indices: 12702591--12702621 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12702581 AAAAATTTTT
12702591 CAAGAAAAGAAAAGGA
1 CAAGAAAAGAAAAGGA
12702607 CAAGAAAA-AAAAGGA
1 CAAGAAAAGAAAAGGA
12702622 ATGATGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (16 bp):
CAAGAAAAGAAAAGGA
Found at i:12702853 original size:59 final size:59
Alignment explanation
Indices: 12702686--12703103 Score: 374
Period size: 59 Copynumber: 7.0 Consensus size: 59
12702676 TGCTTTTATA
* ** * * *
12702686 CAAGAAAAATTGATACTTTCAACTTTTCCTT-AAAGCA---TTTTAAGATTTTTACTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTAAAAATTTTATTTT
* * * ** *
12702741 CAA-AGAAAATTAATACTTTCAATTTTTTCTTAAAAATGTTTTTTTTTTAAATTTTAATTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTCTTAAAAAT-ATTTTTTTAAAAATTTTATTTT
* *
12702801 CAAGAAAAATTAATACTTTCAACTTTTTCTTAAAAATACTTTTTTAAAAATTTTAATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTAAAAATTTT-ATTTT
* * *
12702861 -AAGAAAAATTGATACTATCAACTTTTTC-CAAAAATATATTTTTTGAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATAT-TTTTTTAAAAATTTTATTTT
* *
12702919 CAAGAAAAATTGATACTTTCAACTTTTTCTAAAAAATATTTATTATTTTTTTGAAAATTTTATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCT--TAAA-A---A-TATTTTTTTAAAAATTTTATTT
12702984 T
59 T
* * *
12702985 TAA-AAAAATTGATATTTTCAAC-TTTTCTTTAAAAATATTTTTTTTTTGAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTC-TTAAAAATA---TTTTTTTAAAAATTTTATTTT
* * *
12703046 TAA-AGAAAATTGATACTTTCAACTTTATT-TCAAAAATA-TTTTTTAAAAAATTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTT-TTCTTAAAAATATTTTTTTAAAAATTTTATTTT
12703104 AAAATAATCA
Statistics
Matches: 307, Mismatches: 31, Indels: 47
0.80 0.08 0.12
Matches are distributed among these distances:
54 1 0.00
55 26 0.08
56 3 0.01
58 32 0.10
59 81 0.26
60 51 0.17
61 26 0.08
62 29 0.09
63 6 0.02
64 7 0.02
65 19 0.06
66 23 0.07
67 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTAAAAATTTTATTTT
Found at i:12704243 original size:42 final size:42
Alignment explanation
Indices: 12704116--12704375 Score: 269
Period size: 41 Copynumber: 6.3 Consensus size: 42
12704106 ACAACTTTTG
* *
12704116 AAAATAAATTACTCTTCTAAACAGAGGCACTACAACTTT-AA
1 AAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAA
* * * **
12704157 AAAGTAAATTACTCCTT-TAAATAGAGGCACCATGACTTTG-A
1 AAAATAAATTGCT-CTTCTAAACAGAGGCACCACAACTTTGAA
* * * *
12704198 AAAAGAAATTGCTCTTCTAAACAGAGGGACCACGACTTCGAA
1 AAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAA
* * * *
12704240 AAAATAAATTGCTCCTCTAAACAAAGGCATCACAACTTTAAA
1 AAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAA
* *
12704282 AAAATAAATTGCT-TCTCTAAACAGAGGCACTATAACTTTG-A
1 AAAATAAATTGCTCT-TCTAAACAGAGGCACCACAACTTTGAA
* * * * *
12704323 AAAGTGAATTGCTCTTCTAAATAGAGGCACCACGACATTGAA
1 AAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAA
12704365 AAAATAAATTG
1 AAAATAAATTG
12704376 TTCATTGACA
Statistics
Matches: 177, Mismatches: 35, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
40 3 0.02
41 92 0.52
42 82 0.46
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (42 bp):
AAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAA
Found at i:12704283 original size:82 final size:82
Alignment explanation
Indices: 12704084--12704375 Score: 239
Period size: 83 Copynumber: 3.5 Consensus size: 82
12704074 CAATAAACAA
* * ** * *
12704084 GCTCCTCTTAAACAAAGG-TTAAACAACTTTTGAAAATAAATTACTCTTCTAAACAGAGGCACTA
1 GCTCCTC-TAAACAAAGGCAT-CACAACTTTAAAAAATAAATTGCTCTTCTAAACAGAGGCACCA
* *
12704148 CAACTTTAAAAAGTAAATT
64 CAACTTGAAAAAATAAATT
* * * * * ** * * * *
12704167 ACTCCTTTAAATAGAGGCACCATGACTTTGAAAAAGAAATTGCTCTTCTAAACAGAGGGACCACG
1 GCTCCTCTAAACAAAGGCATCACAACTTTAAAAAATAAATTGCTCTTCTAAACAGAGGCACCACA
12704232 ACTTCGAAAAAATAAATT
66 ACTT-GAAAAAATAAATT
*
12704250 GCTCCTCTAAACAAAGGCATCACAACTTTAAAAAAATAAATTGCT-TCTCTAAACAGAGGCACTA
1 GCTCCTCTAAACAAAGGCATCACAACTTT-AAAAAATAAATTGCTCT-TCTAAACAGAGGCACCA
* * *
12704314 TAACTTTG-AAAAGTGAATT
64 CAAC-TTGAAAAAATAAATT
* * * * * *
12704333 GCTCTTCTAAATAGAGGCACCACGACATTGAAAAAATAAATTG
1 GCTCCTCTAAACAAAGGCATCACAAC-TTTAAAAAATAAATTG
12704376 TTCATTGACA
Statistics
Matches: 164, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
82 47 0.29
83 82 0.50
84 33 0.20
85 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (82 bp):
GCTCCTCTAAACAAAGGCATCACAACTTTAAAAAATAAATTGCTCTTCTAAACAGAGGCACCACA
ACTTGAAAAAATAAATT
Found at i:12704340 original size:125 final size:124
Alignment explanation
Indices: 12704116--12704375 Score: 346
Period size: 125 Copynumber: 2.1 Consensus size: 124
12704106 ACAACTTTTG
* * * * * *
12704116 AAAATAAATTACTCTTCTAAACAGAGGCACTACAACTTTAAAAAGTAAATTACTCCTTTAAATAG
1 AAAATAAATTGCTCCTCTAAACAAAGGCACTACAACTTTAAAAAATAAATTACTCCTCTAAACAG
* *
12704181 AGGCACCATGACTTTGAAAAAGAAATTGCTCTTCTAAACAGAGGGACCACGAC-TTCGAA
66 AGGCACCATAACTTTGAAAAAGAAATTGCTCTTCTAAACAGAGGCACCACGACATT-GAA
* *
12704240 AAAATAAATTGCTCCTCTAAACAAAGGCA-TCACAACTTTAAAAAAATAAATTGCTTCTCTAAAC
1 AAAATAAATTGCTCCTCTAAACAAAGGCACT-ACAACTTT-AAAAAATAAATTACTCCTCTAAAC
* * *
12704304 AGAGGCACTATAACTTTG-AAAAGTGAATTGCTCTTCTAAATAGAGGCACCACGACATTGAA
64 AGAGGCACCATAACTTTGAAAAAG-AAATTGCTCTTCTAAACAGAGGCACCACGACATTGAA
12704365 AAAATAAATTG
1 AAAATAAATTG
12704376 TTCATTGACA
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
123 1 0.01
124 39 0.33
125 77 0.65
126 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (124 bp):
AAAATAAATTGCTCCTCTAAACAAAGGCACTACAACTTTAAAAAATAAATTACTCCTCTAAACAG
AGGCACCATAACTTTGAAAAAGAAATTGCTCTTCTAAACAGAGGCACCACGACATTGAA
Found at i:12721200 original size:17 final size:16
Alignment explanation
Indices: 12721169--12721206 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12721159 AATTATAATT
*
12721169 ATAATTAAATAATCAA
1 ATAAATAAATAATCAA
12721185 ATAAATAAACTAATCAA
1 ATAAATAAA-TAATCAA
12721202 A-AAAT
1 ATAAAT
12721207 TAGAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATAAATAATCAA
Found at i:12726275 original size:46 final size:45
Alignment explanation
Indices: 12726163--12726442 Score: 278
Period size: 46 Copynumber: 6.0 Consensus size: 45
12726153 TTTTTTTTTT
* * * * *
12726163 GCTCATCTTATTAGAGGTTTGATAACTTTAAAAATCAAACAATGAAAA
1 GCTCTTCTCATTA-AGGCTTGACAACTTTAAAAATGAAAC--TGAAAA
* *
12726211 GCTCATCTCATTAGAGGCTTGACAACTTTAAAAATTAAA-TCGAAAA
1 GCTCTTCTCATTA-AGGCTTGACAACTTTAAAAATGAAACT-GAAAA
* * * *
12726257 ACTCTTCTCATTGAAGGCTTGATAACTTTAAAAATTAAAACTGTAAA
1 GCTCTTCTCATT-AAGGCTTGACAACTTTAAAAA-TGAAACTGAAAA
* * *
12726304 GCT-TCTCTCATCAAAGGCTTAACAACTTTAAAAATGAAACTGAAAG
1 GCTCT-TCTCAT-TAAGGCTTGACAACTTTAAAAATGAAACTGAAAA
12726350 GCTCTTCTCATTAGAGGCTTGACAACTTTAAAAATGAAACTGAAAA
1 GCTCTTCTCATTA-AGGCTTGACAACTTTAAAAATGAAACTGAAAA
* * *
12726396 GCTTTTCTCATCAGAAGCTTGACAACTTTAAAAAT-AAAGCTGAAAA
1 GCTCTTCTCATTA-AGGCTTGACAACTTTAAAAATGAAA-CTGAAAA
12726442 G
1 G
12726443 ATCCTTTAAT
Statistics
Matches: 201, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
45 5 0.02
46 123 0.61
47 37 0.18
48 36 0.18
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (45 bp):
GCTCTTCTCATTAAGGCTTGACAACTTTAAAAATGAAACTGAAAA
Found at i:12726355 original size:93 final size:92
Alignment explanation
Indices: 12726172--12726441 Score: 325
Period size: 93 Copynumber: 2.9 Consensus size: 92
12726162 TGCTCATCTT
* * * * *
12726172 ATTAGAGGTTTGATAACTTTAAAAATCAAACAATGAAAAGC-TCATCTCATTAGAGGCTTGACAA
1 ATTAGAGGCTTGATAACTTTAAAAATTAAA-ACTGAAAAGCTTC-TCTCATCAAAGGCTTGACAA
12726236 CTTTAAAAATTAAA-TCGAAAAACTCTTCTC
64 CTTTAAAAA-TAAACT-GAAAAACTCTTCTC
* *
12726266 ATT-GAAGGCTTGATAACTTTAAAAATTAAAACTGTAAAGCTTCTCTCATCAAAGGCTTAACAAC
1 ATTAG-AGGCTTGATAACTTTAAAAATTAAAACTGAAAAGCTTCTCTCATCAAAGGCTTGACAAC
**
12726330 TTTAAAAATGAAACTGAAAGGCTCTTCTC
65 TTTAAAAAT-AAACTGAAAAACTCTTCTC
* * *
12726359 ATTAGAGGCTTGACAACTTTAAAAA-TGAAACTGAAAAGCTTTTCTCATCAGAA-GCTTGACAAC
1 ATTAGAGGCTTGATAACTTTAAAAATTAAAACTGAAAAGCTTCTCTCATCA-AAGGCTTGACAAC
12726422 TTTAAAAATAAAGCTGAAAA
65 TTTAAAAATAAA-CTGAAAA
12726442 GATCCTTTAA
Statistics
Matches: 154, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
91 3 0.02
92 47 0.31
93 74 0.48
94 30 0.19
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (92 bp):
ATTAGAGGCTTGATAACTTTAAAAATTAAAACTGAAAAGCTTCTCTCATCAAAGGCTTGACAACT
TTAAAAATAAACTGAAAAACTCTTCTC
Found at i:12726367 original size:139 final size:139
Alignment explanation
Indices: 12726186--12726477 Score: 376
Period size: 139 Copynumber: 2.1 Consensus size: 139
12726176 GAGGTTTGAT
*
12726186 AACTTTAAAAATCAAACAATGAAAAGCTCATCTCATTAGAGGCTTGACAACTTTAAAAATTAAA-
1 AACTTTAAAAATCAAAC-ATGAAAAGCTCATCTCATTAGAGGCTTGACAACTTTAAAAATGAAAC
* * * * * *
12726250 TCGAAAAACTCTTCTCAT-TGAAGGCTTGATAACTTTAAAAATTAAAACTGTAAAGCTTCTCTCA
65 T-GAAAAACTCTTCTCATCAGAA-GCTTGACAACTTTAAAAA-TAAAACTGAAAAGATCCTCTAA
12726314 TCAAAGGCTT-AAC
127 TCAAAGG-TTCAAC
* * *
12726327 AACTTTAAAAATGAAAC-TGAAAGGCTCTTCTCATTAGAGGCTTGACAACTTTAAAAATGAAACT
1 AACTTTAAAAATCAAACATGAAAAGCTCATCTCATTAGAGGCTTGACAACTTTAAAAATGAAACT
* * * *
12726391 GAAAAGCTTTTCTCATCAGAAGCTTGACAACTTTAAAAATAAAGCTGAAAAGATCCTTTAATCAA
66 GAAAAACTCTTCTCATCAGAAGCTTGACAACTTTAAAAATAAAACTGAAAAGATCCTCTAATCAA
12726456 AGGTTCAAC
131 AGGTTCAAC
*
12726465 AACGTTAAAAATC
1 AACTTTAAAAATC
12726478 TGATTAGAAA
Statistics
Matches: 132, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
137 2 0.02
138 37 0.28
139 73 0.55
140 4 0.03
141 16 0.12
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (139 bp):
AACTTTAAAAATCAAACATGAAAAGCTCATCTCATTAGAGGCTTGACAACTTTAAAAATGAAACT
GAAAAACTCTTCTCATCAGAAGCTTGACAACTTTAAAAATAAAACTGAAAAGATCCTCTAATCAA
AGGTTCAAC
Found at i:12726467 original size:46 final size:46
Alignment explanation
Indices: 12726186--12726568 Score: 269
Period size: 46 Copynumber: 8.3 Consensus size: 46
12726176 GAGGTTTGAT
* * * * *
12726186 AACTTTAAAAATCAAACAATGAAAAGCTCATCTCATTAGAGGCTTGAC
1 AACTTTAAAAATGAAAC--TGAAAAGCTCTTCTCATCAAAGGCTTAAC
* * ** * *
12726234 AACTTTAAAAATTAAA-TCGAAAAACTCTTCTCATTGAAGGCTTGAT
1 AACTTTAAAAATGAAACT-GAAAAGCTCTTCTCATCAAAGGCTTAAC
* *
12726280 AACTTTAAAAATTAAAACTGTAAAGCT-TCTCTCATCAAAGGCTTAAC
1 AACTTTAAAAA-TGAAACTGAAAAGCTCT-TCTCATCAAAGGCTTAAC
* * * *
12726327 AACTTTAAAAATGAAACTGAAAGGCTCTTCTCATTAGAGGCTTGAC
1 AACTTTAAAAATGAAACTGAAAAGCTCTTCTCATCAAAGGCTTAAC
* *
12726373 AACTTTAAAAATGAAACTGAAAAGCTTTTCTCATCAGAA-GCTTGAC
1 AACTTTAAAAATGAAACTGAAAAGCTCTTCTCATCA-AAGGCTTAAC
* *
12726419 AACTTTAAAAAT-AAAGCTGAAAAGATCCTT-TAATCAAAGG-TTCAAC
1 AACTTTAAAAATGAAA-CTGAAAAGCT-CTTCTCATCAAAGGCTT-AAC
* *** * * * * * *
12726465 AACGTTAAAAATCTGATTAGAAAA-CTCCTCTAATCAAAGACTCAAT
1 AACTTTAAAAATGAAACT-GAAAAGCTCTTCTCATCAAAGGCTTAAC
* * * * * *
12726511 AACTTTAAAAAT-ATGATTGGAAAGCTCTTCTCATTAGAGGCTTGAC
1 AACTTTAAAAATGA-AACTGAAAAGCTCTTCTCATCAAAGGCTTAAC
*
12726557 AATTTTAAAAAT
1 AACTTTAAAAAT
12726569 CAAATATGAA
Statistics
Matches: 271, Mismatches: 48, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
45 14 0.05
46 195 0.72
47 46 0.17
48 16 0.06
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (46 bp):
AACTTTAAAAATGAAACTGAAAAGCTCTTCTCATCAAAGGCTTAAC
Found at i:12737994 original size:10 final size:10
Alignment explanation
Indices: 12737979--12738033 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
12737969 AATTGGTCAC
12737979 TTATTAAAAT
1 TTATTAAAAT
*
12737989 TTATT--ATT
1 TTATTAAAAT
*
12737997 TTAATAAAA-
1 TTATTAAAAT
12738006 TT-TTAAAAT
1 TTATTAAAAT
*
12738015 TAATTAAAAT
1 TTATTAAAAT
12738025 TTATTAAAA
1 TTATTAAAA
12738034 AGATAAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
8 11 0.31
9 3 0.09
10 21 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TTATTAAAAT
Found at i:12738006 original size:18 final size:19
Alignment explanation
Indices: 12737981--12738032 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
12737971 TTGGTCACTT
**
12737981 ATTAAAATTTATTATTTTA
1 ATTAAAATTTATTAAATTA
*
12738000 A-TAAAATTT-TAAAATTA
1 ATTAAAATTTATTAAATTA
12738017 ATTAAAATTTATTAAA
1 ATTAAAATTTATTAAA
12738033 AAGATAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 6 0.22
18 16 0.59
19 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTAAAATTTATTAAATTA
Found at i:12738785 original size:28 final size:29
Alignment explanation
Indices: 12738735--12738798 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
12738725 TTTTTATTGG
* *
12738735 TTTTTTTTTTTTGGATTGAAAAGGTTTTT
1 TTTTTTTTTTTTTGATAGAAAAGGTTTTT
12738764 TCTTTTTTTTTTTT-ATAG-AAAGGTTTTT
1 T-TTTTTTTTTTTTGATAGAAAAGGTTTTT
12738792 TTTTTTT
1 TTTTTTT
12738799 AATTTTCGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 11 0.34
29 4 0.12
30 11 0.34
ACGTcount: A:0.16, C:0.02, G:0.12, T:0.70
Consensus pattern (29 bp):
TTTTTTTTTTTTTGATAGAAAAGGTTTTT
Found at i:12745864 original size:2 final size:2
Alignment explanation
Indices: 12745859--12745884 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12745849 TTAATCCCTC
12745859 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
12745885 TGTAAAAGCA
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:12746550 original size:98 final size:98
Alignment explanation
Indices: 12746380--12746571 Score: 348
Period size: 98 Copynumber: 2.0 Consensus size: 98
12746370 AGTAGAAAAA
* *
12746380 TTAACAGATAAATCACCCTATTGTTACTCTACAAAATCATACATGTAACTTTTATTTTATACGGC
1 TTAACAGATAAATCACCCTATTGTTACTCTACAAAATCATACATGAAACTTTCATTTTATACGGC
*
12746445 TCTTTGTTCAATTCTTTCTAAGCCATTGGGTTG
66 TCCTTGTTCAATTCTTTCTAAGCCATTGGGTTG
12746478 TTAACAGATAAATCACCCTATTGTTACTCTACAAAATCATACATGAAACTTTCATTTTATACGGC
1 TTAACAGATAAATCACCCTATTGTTACTCTACAAAATCATACATGAAACTTTCATTTTATACGGC
*
12746543 TCCTTGTTCAATTCTTTCTAAGTCATTGG
66 TCCTTGTTCAATTCTTTCTAAGCCATTGG
12746572 ATCTTTTTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (98 bp):
TTAACAGATAAATCACCCTATTGTTACTCTACAAAATCATACATGAAACTTTCATTTTATACGGC
TCCTTGTTCAATTCTTTCTAAGCCATTGGGTTG
Found at i:12747610 original size:12 final size:12
Alignment explanation
Indices: 12747562--12747614 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
12747552 CTTTAAACGT
*
12747562 TTATTAATAA-A
1 TTATTTATAATA
12747573 TTATTTATATATA
1 TTATTTATA-ATA
*
12747586 TATATATTTTAATA
1 T-TAT-TTATAATA
12747600 TTATTTATAATA
1 TTATTTATAATA
12747612 TTA
1 TTA
12747615 AAATTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
11 8 0.23
12 11 0.31
13 5 0.14
14 7 0.20
15 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATTTATAATA
Found at i:12747681 original size:23 final size:24
Alignment explanation
Indices: 12747646--12747714 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
12747636 ATCAAAACAG
* *
12747646 TAATACATATTATTTATTATATAA
1 TAATACAAATTATTTATTAAATAA
*
12747670 TAATA-AAATTATTTATCAAATAA
1 TAATACAAATTATTTATTAAATAA
* *
12747693 TAGTACAAATTTTTTATTAAAT
1 TAATACAAATTATTTATTAAAT
12747715 TAAATTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (24 bp):
TAATACAAATTATTTATTAAATAA
Found at i:12747727 original size:19 final size:19
Alignment explanation
Indices: 12747703--12747781 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
12747693 TAGTACAAAT
12747703 TTTTTATTAAATTAAATTA
1 TTTTTATTAAATTAAATTA
**
12747722 --TTT-TTAAATT-GTTTA
1 TTTTTATTAAATTAAATTA
*
12747737 TTTTTATATAATAATAAAATTA
1 TTTTTAT-T-A-AATTAAATTA
*
12747759 TTTCTATTAAATTAAATTA
1 TTTTTATTAAATTAAATTA
12747778 TTTT
1 TTTT
12747782 AAAATTTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
15 3 0.07
16 7 0.16
17 6 0.13
18 1 0.02
19 13 0.29
20 2 0.04
21 4 0.09
22 9 0.20
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (19 bp):
TTTTTATTAAATTAAATTA
Found at i:12747730 original size:16 final size:17
Alignment explanation
Indices: 12747699--12747780 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 17
12747689 ATAATAGTAC
*
12747699 AAATTTTTTATTAAATT
1 AAATTATTTATTAAATT
12747716 AAATTATTT-TTAAATT
1 AAATTATTTATTAAATT
** *
12747732 -GTTTATTTTTATATAATAATA
1 AAATTA--TTTAT-T-A-AATT
12747753 AAATTATTTCTATTAAATT
1 AAATTA-TT-TATTAAATT
12747772 AAATTATTT
1 AAATTATTT
12747781 TAAAATTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
15 3 0.06
16 7 0.14
17 12 0.24
18 3 0.06
19 10 0.20
20 2 0.04
21 7 0.14
22 6 0.12
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
AAATTATTTATTAAATT
Found at i:12749332 original size:21 final size:21
Alignment explanation
Indices: 12749302--12749347 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
12749292 TCATTCAAGC
12749302 CATCCAATGTAAAAAATGATT
1 CATCCAATGTAAAAAATGATT
* *
12749323 CATCCCATGTTAAAAATGATT
1 CATCCAATGTAAAAAATGATT
12749344 CATC
1 CATC
12749348 TTGCCTGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (21 bp):
CATCCAATGTAAAAAATGATT
Found at i:12752713 original size:76 final size:76
Alignment explanation
Indices: 12752598--12752751 Score: 238
Period size: 76 Copynumber: 2.0 Consensus size: 76
12752588 TAAATATAAT
* *
12752598 TTATAAAACAACCAATGAAAAAATAATAAATGGCATAAAATTGGATGCCTTT-TAAATGATGCAT
1 TTATAAAACAACCAATGAAAAAATAATAAATGGCATAAAATTGGAT-ACTTTCTAAATGACGCAT
12752662 AAACAACATTAA
65 AAACAACATTAA
* *
12752674 TTATAAAACAACCAATGAAAAACTAATAAATGGCGTAAAATTGGATACTTTCTAAATGACGCATA
1 TTATAAAACAACCAATGAAAAAATAATAAATGGCATAAAATTGGATACTTTCTAAATGACGCATA
* *
12752739 AGCAATATTAA
66 AACAACATTAA
12752750 TT
1 TT
12752752 GAAAGGCTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
75 4 0.06
76 67 0.94
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.27
Consensus pattern (76 bp):
TTATAAAACAACCAATGAAAAAATAATAAATGGCATAAAATTGGATACTTTCTAAATGACGCATA
AACAACATTAA
Found at i:12753408 original size:78 final size:79
Alignment explanation
Indices: 12753317--12753467 Score: 234
Period size: 79 Copynumber: 1.9 Consensus size: 79
12753307 TTTGAAAATG
*
12753317 TATTAACTGTCTAATACC-TTTACCAATCCTAGTTTCAAAAACCAATCCCT-CTTTCAAAGTTAT
1 TATTAACTGTCTAATACCTTTTACCAATCCTAGTTTCAAAAACCAAT-CCTGATTTCAAAGTTAT
*
12753380 TTGGTTTTTCATAGC
65 TTGATTTTTCATAGC
* * *
12753395 TATTAATTGTCTAATACCTTTTACCAATCCTAGTTTCAAAAATCAATCCTGATTTTAAAGTTATT
1 TATTAACTGTCTAATACCTTTTACCAATCCTAGTTTCAAAAACCAATCCTGATTTCAAAGTTATT
12753460 TGATTTTT
66 TGATTTTT
12753468 ATATCATTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 20 0.30
79 46 0.70
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.43
Consensus pattern (79 bp):
TATTAACTGTCTAATACCTTTTACCAATCCTAGTTTCAAAAACCAATCCTGATTTCAAAGTTATT
TGATTTTTCATAGC
Found at i:12754688 original size:16 final size:16
Alignment explanation
Indices: 12754667--12754706 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
12754657 TAAATGAAAC
12754667 AATTTAAATTCAAAAT
1 AATTTAAATTCAAAAT
* *
12754683 AATTTAAATTTAAATT
1 AATTTAAATTCAAAAT
12754699 AATTTAAA
1 AATTTAAA
12754707 CATGAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAAATTCAAAAT
Found at i:12755088 original size:2 final size:2
Alignment explanation
Indices: 12755081--12755105 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12755071 TAGATCTGTT
12755081 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12755106 TCAAGATTGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12755726 original size:28 final size:27
Alignment explanation
Indices: 12755693--12755747 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
12755683 TATTTAGATA
*
12755693 ATTTTTT-ATAAATATATATTAATATTT
1 ATTTTTTAATAAAAATATATTAAT-TTT
12755720 ATTTTTTAATAAAAATATATTAATTTT
1 ATTTTTTAATAAAAATATATTAATTTT
12755747 A
1 A
12755748 ATTAATCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTTTTAATAAAAATATATTAATTTT
Found at i:12755791 original size:15 final size:15
Alignment explanation
Indices: 12755771--12755800 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12755761 AAAAATTTAT
12755771 ATTATTTAATAAAAA
1 ATTATTTAATAAAAA
*
12755786 ATTATTTACTAAAAA
1 ATTATTTAATAAAAA
12755801 TATATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTATTTAATAAAAA
Found at i:12756030 original size:2 final size:2
Alignment explanation
Indices: 12756023--12756066 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
12756013 TTAGTTGATT
12756023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12756065 TA
1 TA
12756067 AAACAATCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12763737 original size:26 final size:26
Alignment explanation
Indices: 12763703--12763757 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
12763693 ATACATTTTT
* *
12763703 AAATCTCTAGTTAAATAAGTGGATAA
1 AAATATCTAGTTAAATAAATGGATAA
*
12763729 AAATATCTATTTAAATAAATGGATAA
1 AAATATCTAGTTAAATAAATGGATAA
12763755 AAA
1 AAA
12763758 CATATTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATATCTAGTTAAATAAATGGATAA
Found at i:12764268 original size:22 final size:23
Alignment explanation
Indices: 12764225--12764269 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
12764215 TTATTTAAGT
12764225 TTTTTATTATTTATTTTCATTTA
1 TTTTTATTATTTATTTTCATTTA
12764248 TTTTTA-TATGTTATTTT-ATTTA
1 TTTTTATTAT-TTATTTTCATTTA
12764270 GTGATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATTATTTATTTTCATTTA
Found at i:12766751 original size:22 final size:21
Alignment explanation
Indices: 12766726--12766768 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
12766716 TGAAAGCATG
*
12766726 TGAAAAAAAAAAGAGAACAAAA
1 TGAAAAAAAAAAAAGAA-AAAA
12766748 TGAAAAAAAAAAAAGAAAAAA
1 TGAAAAAAAAAAAAGAAAAAA
12766769 GAATTGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (21 bp):
TGAAAAAAAAAAAAGAAAAAA
Found at i:12767921 original size:71 final size:71
Alignment explanation
Indices: 12767860--12768027 Score: 203
Period size: 71 Copynumber: 2.4 Consensus size: 71
12767850 TCGTTGTTTA
* * * * *
12767860 AACCATGCATTTGTATTTTTTGGTGAGTATATAGATGATTGTTTTGAA-TGTCGCATTTGCATTA
1 AACCATGCATTTGTATTATTTGGTGAGTATATAGATCACTGTTTT-AAGTATCGCATTTGCATCA
**
12767924 CCATTTG
65 ATATTTG
* * * * *
12767931 AACCATACTTTTGCATTATTTGGTAAGTATATAGATCACTGTTTTAAGTATTGCATTTGCATCAA
1 AACCATGCATTTGTATTATTTGGTGAGTATATAGATCACTGTTTTAAGTATCGCATTTGCATCAA
12767996 TATTTG
66 TATTTG
*
12768002 GACCATGCATTTGTATTATTTGGTGA
1 AACCATGCATTTGTATTATTTGGTGA
12768028 ATATTTGAAT
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
70 2 0.03
71 77 0.97
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (71 bp):
AACCATGCATTTGTATTATTTGGTGAGTATATAGATCACTGTTTTAAGTATCGCATTTGCATCAA
TATTTG
Found at i:12768798 original size:32 final size:32
Alignment explanation
Indices: 12768615--12768846 Score: 125
Period size: 32 Copynumber: 7.3 Consensus size: 32
12768605 AGTTTGAGCT
** * * *
12768615 TTCATTTTTAACCTTCCCTTAGTTTGATCACC
1 TTCATTTTTAACCTTGGCTCAGTCTAATCACC
* * * *
12768647 TTCATTTTTTACTTTAGCTCAGT-TCAGTCACC
1 TTCATTTTTAACCTTGGCTCAGTCT-AATCACC
* * * * *
12768679 TTTCATTTTTGAA-TTTGGCTTAG-CTCGACCACA
1 -TTCATTTTT-AACCTTGGCTCAGTCT-AATCACC
* * * * *
12768712 TTCATTTTGAACCTTGGTTCAATCCAATCATC
1 TTCATTTTTAACCTTGGCTCAGTCTAATCACC
* * *
12768744 TTTATTTTCAACCTTGACTCAGTCTAATCACC
1 TTCATTTTTAACCTTGGCTCAGTCTAATCACC
* * *
12768776 TTCATTTTTTACCTTGGTTCAGTCTAGTCACC
1 TTCATTTTTAACCTTGGCTCAGTCTAATCACC
* * *
12768808 -T-ATTTTTAACTTTGGCTCAGT-TCGATCACT
1 TTCATTTTTAACCTTGGCTCAGTCT-AATCACC
12768838 TTCATTTTT
1 TTCATTTTT
12768847 TACTATAGTT
Statistics
Matches: 148, Mismatches: 43, Indels: 18
0.71 0.21 0.09
Matches are distributed among these distances:
29 1 0.01
30 21 0.14
31 5 0.03
32 97 0.66
33 23 0.16
34 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (32 bp):
TTCATTTTTAACCTTGGCTCAGTCTAATCACC
Found at i:12768991 original size:32 final size:33
Alignment explanation
Indices: 12768955--12769017 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
12768945 TCAGTTTTGG
*
12768955 CTTAA-TCCAAGTTATATCATTTTTCAACTTTT
1 CTTAAGTCCAAGTCATATCATTTTTCAACTTTT
**
12768987 CTTAAGTTTAAGTCATATCATTTTTCAACTT
1 CTTAAGTCCAAGTCATATCATTTTTCAACTT
12769018 CGACTGAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (33 bp):
CTTAAGTCCAAGTCATATCATTTTTCAACTTTT
Found at i:12769101 original size:33 final size:33
Alignment explanation
Indices: 12768996--12769101 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 33
12768986 TCTTAAGTTT
** * *
12768996 AAGTCATATCATTTTTCAACTTC-GACTGAGTCTG
1 AAGTCATATCATTTTTTGACTTCAG-CTAAGTC-C
* * * *
12769030 AA-TCATTTCATTTATTGGCTTCAACTAAGAT-C
1 AAGTCATATCATTTTTTGACTTCAGCTAAG-TCC
*
12769062 ATGTCATATCATTTTTTGACTTCAGCTAAGTCC
1 AAGTCATATCATTTTTTGACTTCAGCTAAGTCC
12769095 AAGTCAT
1 AAGTCAT
12769102 GTTATTTTAT
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
32 2 0.04
33 49 0.91
34 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (33 bp):
AAGTCATATCATTTTTTGACTTCAGCTAAGTCC
Found at i:12769102 original size:38 final size:38
Alignment explanation
Indices: 12769060--12769139 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
12769050 TCAACTAAGA
*
12769060 TCATGTCATATCATTTTTTGACTTCAGCT-AAGTCCAAG
1 TCATGTCATATCATTTTTAGACTTCAGCTCAA-TCCAAG
* * * * *
12769098 TCATGTTATTTTATTTTTAGACTTTAGTTCAATCCAAG
1 TCATGTCATATCATTTTTAGACTTCAGCTCAATCCAAG
12769136 TCAT
1 TCAT
12769140 TCCTTTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 33 0.94
39 2 0.06
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.45
Consensus pattern (38 bp):
TCATGTCATATCATTTTTAGACTTCAGCTCAATCCAAG
Found at i:12769605 original size:21 final size:21
Alignment explanation
Indices: 12769581--12769623 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12769571 TTATTTAATG
*
12769581 ATTTATTT-CTTATATATCTTT
1 ATTTATTTCCTAAT-TATCTTT
12769602 ATTTATTTCCTAATTATCTTT
1 ATTTATTTCCTAATTATCTTT
12769623 A
1 A
12769624 CTTGTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTATTTCCTAATTATCTTT
Found at i:12770248 original size:26 final size:28
Alignment explanation
Indices: 12770191--12770250 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
12770181 GTTCTGTATT
* **
12770191 TTTTTTTGGTTTTTTTTTGTTATGGTGT
1 TTTTATTGGTTTTTTTTTGTTATGGTAA
*
12770219 TTTTATTGG-TTTTTTTT-TTATGTTAA
1 TTTTATTGGTTTTTTTTTGTTATGGTAA
12770245 TTTTAT
1 TTTTAT
12770251 CATATTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.43
27 8 0.29
28 8 0.29
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.75
Consensus pattern (28 bp):
TTTTATTGGTTTTTTTTTGTTATGGTAA
Found at i:12775879 original size:15 final size:15
Alignment explanation
Indices: 12775859--12775887 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12775849 TAATTGATAT
12775859 TTAATCTTAATTTTC
1 TTAATCTTAATTTTC
12775874 TTAATCTTAATTTT
1 TTAATCTTAATTTT
12775888 GTTTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATCTTAATTTTC
Found at i:12780959 original size:32 final size:32
Alignment explanation
Indices: 12780923--12780991 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
12780913 TTTGTATCAC
* * *
12780923 TTGCATTTACATCATGAAAAAGACATTCGCAT
1 TTGCATCTACATCATGAAAAACACATTCACAT
12780955 TTGCATCTACATCATGAAAAACACATTCACAT
1 TTGCATCTACATCATGAAAAACACATTCACAT
12780987 TTGCA
1 TTGCA
12780992 CCACAAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (32 bp):
TTGCATCTACATCATGAAAAACACATTCACAT
Found at i:12781150 original size:15 final size:15
Alignment explanation
Indices: 12781130--12781159 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12781120 AAAAAGATAT
*
12781130 TTGCATTTGCATCAC
1 TTGCATCTGCATCAC
12781145 TTGCATCTGCATCAC
1 TTGCATCTGCATCAC
12781160 AAAAAAGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (15 bp):
TTGCATCTGCATCAC
Found at i:12781158 original size:41 final size:41
Alignment explanation
Indices: 12781107--12781197 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
12781097 TTTGCATTCA
* * * *
12781107 CATCTACATCACCAAAAAGATATTTGCATTTGCATCACTTG
1 CATCTGCATCACAAAAAAGACATTCGCATTTGCATCACTTG
*
12781148 CATCTGCATCACAAAAAAGACATTCGCATTTGCATTACTTG
1 CATCTGCATCACAAAAAAGACATTCGCATTTGCATCACTTG
* *
12781189 TATTTGCAT
1 CATCTGCAT
12781198 TTATAGTGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (41 bp):
CATCTGCATCACAAAAAAGACATTCGCATTTGCATCACTTG
Found at i:12781406 original size:18 final size:18
Alignment explanation
Indices: 12781383--12781421 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12781373 TTTCATATTC
*
12781383 TTGCATTCGCATTGAGAT
1 TTGCATTCGCATTGACAT
12781401 TTGCATTCGCATTGACAT
1 TTGCATTCGCATTGACAT
12781419 TTG
1 TTG
12781422 ATGGAAATAG
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:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (18 bp):
TTGCATTCGCATTGACAT
Found at i:12781824 original size:49 final size:50
Alignment explanation
Indices: 12781761--12782071 Score: 330
Period size: 49 Copynumber: 6.3 Consensus size: 50
12781751 AATATTTTAA
** * * *
12781761 ATTTTCAAAGTTTCATTGCCTTTGTTT-GGGAGGACCCATTTTCAGACAAA
1 ATTTT-AAAGTTTCAAAGCCTCTGTTTAGGGAGGAGCCATTTTCAGACAAG
* * *
12781811 ATTTTAAAGTTTCAAAGCTTTTGTTTAGGG-GGAGCCATTTTCATACAAG
1 ATTTTAAAGTTTCAAAGCCTCTGTTTAGGGAGGAGCCATTTTCAGACAAG
* * * * *
12781860 ATTTTAAAATGTTCAATGCCTCTATCT-GGGATGAGCCATTTTCAGACAAG
1 ATTTTAAAGT-TTCAAAGCCTCTGTTTAGGGAGGAGCCATTTTCAGACAAG
* *
12781910 ATTTTAAAGTTTTAAAGCCTCTGTTTAGGGA-GAGCCATTTTTA-AGCAAG
1 ATTTTAAAGTTTCAAAGCCTCTGTTTAGGGAGGAGCCATTTTCAGA-CAAG
* * * *
12781959 ATTTTAAAGTTTCAAAGCCTCTGTTTAAGG-GGAGCCATTTTTATATAAG
1 ATTTTAAAGTTTCAAAGCCTCTGTTTAGGGAGGAGCCATTTTCAGACAAG
* * * *
12782008 ATTTTAAAAGTTTCAACGCCTTTGTTT-GAGAGGAGTCATTTTCAGACAAG
1 ATTTT-AAAGTTTCAAAGCCTCTGTTTAGGGAGGAGCCATTTTCAGACAAG
12782058 ATTTTAAAGTTTCA
1 ATTTTAAAGTTTCA
12782072 TACAATATTT
Statistics
Matches: 221, Mismatches: 31, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.00
49 131 0.59
50 89 0.40
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (50 bp):
ATTTTAAAGTTTCAAAGCCTCTGTTTAGGGAGGAGCCATTTTCAGACAAG
Found at i:12781935 original size:99 final size:96
Alignment explanation
Indices: 12781787--12782071 Score: 304
Period size: 99 Copynumber: 2.9 Consensus size: 96
12781777 TGCCTTTGTT
* * *
12781787 TGGGAGGACCCATTTTCAGACAAAATTTTAAAGTTTCAAAGCTTTTGTTTAGGGGGAGCCATTTT
1 TGGGA-GAGCCATTTTCAGACAAGATTTTAAAGTTTCAAAGCCTTTGTTTAGGGGGAGCCATTTT
*
12781852 CATACAAGATTTTAAAATGTTCAATGCCTCTATC
65 CA-ACAAGATTTTAAAAT-TTCAAAGCCTCTATC
* * *
12781886 TGGGATGAGCCATTTTCAGACAAGATTTTAAAGTTTTAAAGCCTCTGTTTAGGGAGAGCCATTTT
1 TGGGA-GAGCCATTTTCAGACAAGATTTTAAAGTTTCAAAGCCTTTGTTTAGGGGGAGCCATTTT
* * * *
12781951 TAAGCAAGATTTTAAAGTTTCAAAGCCTCTGTT
65 CAA-CAAGATTTTAAAATTTCAAAGCCTCTATC
* * * * * *
12781984 TAAGGG-GAGCCATTTTTATATAAGATTTTAAAAGTTTCAACGCCTTTGTTT-GAGAGGAGTCAT
1 T--GGGAGAGCCATTTTCAGACAAGATTTT-AAAGTTTCAAAGCCTTTGTTTAG-GGGGAGCCAT
*
12782047 TTTCAGACAAGATTTTAAAGTTTCA
62 TTTCA-ACAAGATTTTAAAATTTCA
12782072 TACAATATTT
Statistics
Matches: 158, Mismatches: 22, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
98 35 0.22
99 119 0.75
100 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (96 bp):
TGGGAGAGCCATTTTCAGACAAGATTTTAAAGTTTCAAAGCCTTTGTTTAGGGGGAGCCATTTTC
AACAAGATTTTAAAATTTCAAAGCCTCTATC
Found at i:12782076 original size:20 final size:21
Alignment explanation
Indices: 12782047--12782092 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
12782037 GAGGAGTCAT
12782047 TTTCAGACAAGATTTT-AAAG
1 TTTCAGACAAGATTTTAAAAG
* *
12782067 TTTCATACAATATTTTAAAAG
1 TTTCAGACAAGATTTTAAAAG
12782088 TTTCA
1 TTTCA
12782093 ATGCCTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (21 bp):
TTTCAGACAAGATTTTAAAAG
Found at i:12782132 original size:70 final size:70
Alignment explanation
Indices: 12782008--12782141 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 70
12781998 TTTATATAAG
* * * * * *
12782008 ATTTTAAAAGTTTCAACGCCTTTGTTTGAGAGGAGTCATTTTCAGACAAGATTTTAAAGTTTCAT
1 ATTTTAAAAGTTTCAACGCCTCTATTTGAGAAGAGCCACTTTCAGACAAAATTTTAAAGTTTCAT
12782073 ACAAT
66 ACAAT
* *
12782078 ATTTTAAAAGTTTCAATGCCTCTATTT-AGGAAGAGCCACTTTCAGATAAAATTTTAAAGTTTCA
1 ATTTTAAAAGTTTCAACGCCTCTATTTGA-GAAGAGCCACTTTCAGACAAAATTTTAAAGTTTCA
12782142 AAGCCTCTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 1 0.02
70 54 0.98
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (70 bp):
ATTTTAAAAGTTTCAACGCCTCTATTTGAGAAGAGCCACTTTCAGACAAAATTTTAAAGTTTCAT
ACAAT
Found at i:12782203 original size:169 final size:169
Alignment explanation
Indices: 12781899--12782241 Score: 442
Period size: 169 Copynumber: 2.0 Consensus size: 169
12781889 GATGAGCCAT
* * * * * *
12781899 TTTCAGACAAGATTTTAAAGTTTTAAAGCCTCTGTTTAGGGAGAGCCATTTTTAAGCAAGATTTT
1 TTTCAGACAAGATTTTAAAGTTTCAAAGCCTCTATTTAGGAAGAGCCACTTTCAAGCAAAATTTT
* * * *
12781964 AAAGTTTCAAAGCCTCTGTTTAAGGGGAGCCATTTTTATATAAGATTTTAAAAGTTTCAACGCCT
66 AAAGTTTCAAAGCCTCTATTTAAGGGGAGCAATTTTTAAATAAGATTTTAAAAGTTTCAAAGCCT
* * * *
12782029 TTGTTT-GAGAGGAGTCATTTTCAGACAAGA-TTTTAAAG
131 TTGTTTAG-GAGGAGCCATTTCCAAACAAGATTTTTAAAA
* * * *
12782067 TTTCATACAATATTTTAAAAGTTTCAATGCCTCTATTTAGGAAGAGCCACTTTC-AGATAAAATT
1 TTTCAGACAAGATTTT-AAAGTTTCAAAGCCTCTATTTAGGAAGAGCCACTTTCAAG-CAAAATT
*
12782131 TTAAAGTTTCAAAGCCTCTATTTAGGGGGAGCAATTTTTAAATAAGATTTT-AAAGTTTCAAAGC
64 TTAAAGTTTCAAAGCCTCTATTTAAGGGGAGCAATTTTTAAATAAGATTTTAAAAGTTTCAAAGC
*
12782195 CTTTTGTTTAGGGGGAGCCATTTCCAAACAAGATTTTTAAAA
129 C-TTTGTTTAGGAGGAGCCATTTCCAAACAAGATTTTTAAAA
12782237 TTTCA
1 TTTCA
12782242 AAGCCTCATG
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
168 29 0.19
169 108 0.72
170 13 0.09
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (169 bp):
TTTCAGACAAGATTTTAAAGTTTCAAAGCCTCTATTTAGGAAGAGCCACTTTCAAGCAAAATTTT
AAAGTTTCAAAGCCTCTATTTAAGGGGAGCAATTTTTAAATAAGATTTTAAAAGTTTCAAAGCCT
TTGTTTAGGAGGAGCCATTTCCAAACAAGATTTTTAAAA
Found at i:12782254 original size:51 final size:48
Alignment explanation
Indices: 12782078--12782355 Score: 236
Period size: 49 Copynumber: 5.6 Consensus size: 48
12782068 TTCATACAAT
* * ** * *
12782078 ATTTTAAAAGTTTCAATGCCTCTATTTAGGAAGAGCCACTTTCAGATAAA
1 ATTTT-AAAGTTTCAAAGCCTCTGTTTAGGGGGAGCCA-TTTCAAATAAG
* * *
12782128 ATTTTAAAGTTTCAAAGCCTCTATTTAGGGGGAGCAATTTTTAAATAAG
1 ATTTTAAAGTTTCAAAGCCTCTGTTTAGGGGGAGCCA-TTTCAAATAAG
* *
12782177 ATTTTAAAGTTTCAAAGCCTTTTGTTTAGGGGGAGCCATTTCCAAACAAG
1 ATTTTAAAGTTTCAAAGCC-TCTGTTTAGGGGGAGCCATTT-CAAATAAG
* *** *
12782227 ATTTTTAAAATTTCAAAGCCTCATGTTTAGAATGAGCCATTTCATATAAG
1 A-TTTTAAAGTTTCAAAGCCTC-TGTTTAGGGGGAGCCATTTCAAATAAG
** * *** *
12782277 ATTTTAAAGTTTCAACA-TTTTTGTTT-GAAATGAGCCATTTTCAAACAAG
1 ATTTTAAAGTTTCAA-AGCCTCTGTTTAG-GGGGAGCCA-TTTCAAATAAG
*
12782326 ATTTTAAAGTTTCAAAGTCTCTGTTTAGGG
1 ATTTTAAAGTTTCAAAGCCTCTGTTTAGGG
12782356 AATGCCATTT
Statistics
Matches: 189, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 15 0.08
49 103 0.54
50 37 0.20
51 33 0.17
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (48 bp):
ATTTTAAAGTTTCAAAGCCTCTGTTTAGGGGGAGCCATTTCAAATAAG
Found at i:12782359 original size:99 final size:100
Alignment explanation
Indices: 12782102--12782359 Score: 262
Period size: 99 Copynumber: 2.6 Consensus size: 100
12782092 AATGCCTCTA
* * * * * *
12782102 TTTAGGAA-GAGCCACTTTCAGATAAAATTTTAAAGTTTCAAAGCCTCTATTTAGGG--GGAGCA
1 TTTA-GAAGGAGCCATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTGTTTAGGGAATGAGCA
*
12782164 ATTTTTAAATAAGATTTTAAAGTTTCAAAGCCTTTTG
65 ATTTTCAAATAAGATTTTAAAGTTTCAAA-CCTTTTG
** * *
12782201 TTTAGGGGGAGCCATTTCCAAACAAGATTTTTAAAATTTCAAAGCCTCATGTTTA--GAATGAGC
1 TTTAGAAGGAGCCATTTTCAAACAAGA-TTTTAAAGTTTCAAAGCCTC-TGTTTAGGGAATGAGC
* * *
12782264 CA-TTTCATATAAGATTTTAAAGTTTC-AACATTTTTG
64 AATTTTCAAATAAGATTTTAAAGTTTCAAAC-CTTTTG
* *
12782300 TTT-GAAATGAGCCATTTTCAAACAAGATTTTAAAGTTTCAAAGTCTCTGTTTAGGGAATG
1 TTTAG-AAGGAGCCATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTGTTTAGGGAATG
12782360 CCATTTTCAA
Statistics
Matches: 130, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
97 6 0.05
98 21 0.16
99 52 0.40
100 41 0.32
101 10 0.08
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (100 bp):
TTTAGAAGGAGCCATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTGTTTAGGGAATGAGCAA
TTTTCAAATAAGATTTTAAAGTTTCAAACCTTTTG
Found at i:12782363 original size:49 final size:48
Alignment explanation
Indices: 12782067--12782380 Score: 212
Period size: 49 Copynumber: 6.4 Consensus size: 48
12782057 GATTTTAAAG
* * * * * *
12782067 TTTCATACAATATTTTAAAAGTTTCAATGCCTCTATTTAGGAAGAGCCAC
1 TTTCAAACAAGATTTT-AAAGTTTCAAAGCCTCTGTTTAGGAA-TGCCAT
* * * * * *
12782117 TTTCAGATAAAATTTTAAAGTTTCAAAGCCTCTATTTAGGGGGA-GCAAT
1 TTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTGTTTA--GGAATGCCAT
* * * *
12782166 TTTTAAATAAGATTTTAAAGTTTCAAAGCCTTTTGTTTAGGGGGA-GCCAT
1 TTTCAAACAAGATTTTAAAGTTTCAAAGCC-TCTGTTTA--GGAATGCCAT
* *
12782216 TTCCAAACAAGATTTTTAAAATTTCAAAGCCTCATGTTTA-GAATGAGCCA-
1 TTTCAAACAAGA-TTTTAAAGTTTCAAAGCCTC-TGTTTAGGAAT--GCCAT
* * ** * *
12782266 TTTCATATAAGATTTTAAAGTTTCAACA-TTTTTGTTT-GAAATGAGCCAT
1 TTTCAAACAAGATTTTAAAGTTTCAA-AGCCTCTGTTTAGGAAT--GCCAT
*
12782315 TTTCAAACAAGATTTTAAAGTTTCAAAGTCTCTGTTTAGGGAATGCCAT
1 TTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTGTTTA-GGAATGCCAT
12782364 TTTCAAAC-A-ATTTTAAA
1 TTTCAAACAAGATTTTAAA
12782381 AAAGTAAAGT
Statistics
Matches: 218, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
47 8 0.04
48 18 0.08
49 109 0.50
50 49 0.22
51 34 0.16
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (48 bp):
TTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTGTTTAGGAATGCCAT
Found at i:12785106 original size:18 final size:18
Alignment explanation
Indices: 12785070--12785107 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12785060 GCATGTTGTC
*
12785070 TTTGCATATGGATCCTGT
1 TTTGCATATGGATCATGT
*
12785088 TTTGCATATGGGTCATGT
1 TTTGCATATGGATCATGT
12785106 TT
1 TT
12785108 GATACTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.47
Consensus pattern (18 bp):
TTTGCATATGGATCATGT
Found at i:12788927 original size:29 final size:27
Alignment explanation
Indices: 12788876--12788930 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
12788866 TTAAGTAAAA
12788876 TTTTATTTTTAATTCTATTTAAATAAG
1 TTTTATTTTTAATTCTATTTAAATAAG
12788903 TTTTATCTTTTAATT-TATAGTTAAATAA
1 TTTTAT-TTTTAATTCTAT--TTAAATAA
12788931 ATTCCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.36
28 8 0.32
29 8 0.32
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTATTTTTAATTCTATTTAAATAAG
Found at i:12791452 original size:25 final size:25
Alignment explanation
Indices: 12791371--12791452 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
12791361 GCCAAATTAG
*
12791371 AAATATTTTCTCTTTTCGAATTTCT
1 AAATATTTTCTCTTTTGGAATTTCT
* * **
12791396 AAAT-TTTTCACCATTTGGATCAATTTAG
1 AAATATTTTC-TCTTTTGG---AATTTCT
*
12791424 AAATATTTTCTTTTTTGGAATTTCT
1 AAATATTTTCTCTTTTGGAATTTCT
12791449 AAAT
1 AAAT
12791453 TTCCCATCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 5 0.12
25 18 0.43
28 14 0.33
29 5 0.12
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (25 bp):
AAATATTTTCTCTTTTGGAATTTCT
Found at i:12791464 original size:53 final size:52
Alignment explanation
Indices: 12791350--12791491 Score: 178
Period size: 53 Copynumber: 2.7 Consensus size: 52
12791340 TCTAATTATT
* * *
12791350 CCACCATTTAGGCCAAATTAGAAATATTTTCTCTTTTCGAATTTCTAAATTTT
1 CCACCATTT-GGCCAATTTAGAAATATTTTCTTTTTTCGAATTTCTAAATTTC
* * *
12791403 TCACCATTTGGATCAATTTAGAAATATTTTCTTTTTTGGAATTTCTAAATTTC
1 CCACCATTTGG-CCAATTTAGAAATATTTTCTTTTTTCGAATTTCTAAATTTC
* *
12791456 CCATCATTTGGCCTATTTAGAAAT-TCTTTCTTTTTT
1 CCACCATTTGGCCAATTTAGAAATAT-TTTCTTTTTT
12791492 TTTTGGAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 1 0.01
52 23 0.30
53 53 0.69
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (52 bp):
CCACCATTTGGCCAATTTAGAAATATTTTCTTTTTTCGAATTTCTAAATTTC
Found at i:12792899 original size:42 final size:41
Alignment explanation
Indices: 12792842--12793103 Score: 265
Period size: 42 Copynumber: 6.3 Consensus size: 41
12792832 ATGACTTTGA
* ** *
12792842 GAAAAATAAAATGCTCCTCTAAGTAGAGGTACCACAACTTTT
1 GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC-TTT
*
12792884 GAAAAATAAATTGCTCCTCTAGACAGAGGCACCAC-ACTTT
1 GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT
* *
12792924 GGAAACATAAATTGCTCATCTAAACAGAGGCACCACAACTTT
1 -GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT
* * * ***
12792966 GAAAGAATAAATTCCTCCTATAAATAGAGGCACCATGGCTTT
1 GAAA-AATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT
* * **
12793008 GAAAAAATAAATTGCTCTTCTAAACAAAGGCACCATGACTTT
1 G-AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT
* * * * *
12793050 GAAAAAATAAATTACTCTTTTAAACAAAGGCACCATAACTTT
1 G-AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT
12793092 GAAAAAATAAAT
1 G-AAAAATAAAT
12793104 AAAAGGTTCC
Statistics
Matches: 191, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.02
41 38 0.20
42 147 0.77
43 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (41 bp):
GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT
Found at i:12793049 original size:84 final size:83
Alignment explanation
Indices: 12792835--12793103 Score: 297
Period size: 84 Copynumber: 3.2 Consensus size: 83
12792825 AGGCTTAATG
* * ** * *
12792835 ACTTTGAGAAAAATAAAATGCTCCTCTAAGTAGAGGTACCACAACTTTTGAAAAATAAATTGCTC
1 ACTTTGA-AAAAATAAATTGCTCATCTAAACAGAGGCACCACAAC-TTTGAAAAATAAATTACTC
* * *
12792900 CTCTAGACAGAGGCACCA-C
64 CTATAAACAGAGGCACCATA
* * *
12792919 ACTTTGGAAACATAAATTGCTCATCTAAACAGAGGCACCACAACTTTGAAAGAATAAATTCCTCC
1 ACTTTGAAAAAATAAATTGCTCATCTAAACAGAGGCACCACAACTTTGAAA-AATAAATTACTCC
* *
12792984 TATAAATAGAGGCACCATG
65 TATAAACAGAGGCACCATA
* * * ** *
12793003 GCTTTGAAAAAATAAATTGCTCTTCTAAACAAAGGCACCATGACTTTGAAAAAATAAATTACTCT
1 ACTTTGAAAAAATAAATTGCTCATCTAAACAGAGGCACCACAACTTTG-AAAAATAAATTACTCC
* *
12793068 TTTAAACAAAGGCACCATA
65 TATAAACAGAGGCACCATA
12793087 ACTTTGAAAAAATAAAT
1 ACTTTGAAAAAATAAAT
12793104 AAAAGGTTCC
Statistics
Matches: 156, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
82 7 0.04
83 57 0.37
84 89 0.57
85 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (83 bp):
ACTTTGAAAAAATAAATTGCTCATCTAAACAGAGGCACCACAACTTTGAAAAATAAATTACTCCT
ATAAACAGAGGCACCATA
Found at i:12794026 original size:13 final size:13
Alignment explanation
Indices: 12794010--12794043 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12794000 TCGCCTTCAG
*
12794010 TTTTCTTTTTTTT
1 TTTTCTTTTTTTA
*
12794023 TTTTCATTTTTTA
1 TTTTCTTTTTTTA
12794036 TTTTCTTT
1 TTTTCTTT
12794044 CAAGCATAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTTTTTTTA
Found at i:12800723 original size:99 final size:99
Alignment explanation
Indices: 12800550--12800747 Score: 308
Period size: 99 Copynumber: 2.0 Consensus size: 99
12800540 GCATGGGCTG
*
12800550 TTATCTTTCAACAGTACATGATAATATGAGTTTTTGGGTACTTTATACCATCATAATGCTTAAAT
1 TTATCTTTCAACAGTACATGATAATATGAGTTTTTGGGTACTTTATACCATCATAATGCTCAAAT
12800615 TTTGATACTTTAAACTTTGAAGGAATGACCACAT
66 TTTGATACTTTAAACTTTGAAGGAATGACCACAT
* * * *
12800649 TTATC-TTCTAACAGTACATGGTAATATGAGTTTTTGGGTACTTTGTACCATCATATTTCTCAAA
1 TTATCTTTC-AACAGTACATGATAATATGAGTTTTTGGGTACTTTATACCATCATAATGCTCAAA
* * *
12800713 TTTTGGTACTTTGAACTTTGGAGGAATGACCACAT
65 TTTTGATACTTTAAACTTTGAAGGAATGACCACAT
12800748 CTGGAACTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 3 0.03
99 87 0.97
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (99 bp):
TTATCTTTCAACAGTACATGATAATATGAGTTTTTGGGTACTTTATACCATCATAATGCTCAAAT
TTTGATACTTTAAACTTTGAAGGAATGACCACAT
Found at i:12802627 original size:29 final size:29
Alignment explanation
Indices: 12802585--12802642 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
12802575 TGATGCTAGA
12802585 ACGAAGGTATGGTTTACGAAACTAACTTT
1 ACGAAGGTATGGTTTACGAAACTAACTTT
*
12802614 ACGAAGGTATGGTTTACGAAACTGACTTT
1 ACGAAGGTATGGTTTACGAAACTAACTTT
12802643 CTTTGCATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (29 bp):
ACGAAGGTATGGTTTACGAAACTAACTTT
Found at i:12802631 original size:15 final size:15
Alignment explanation
Indices: 12802585--12802633 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
12802575 TGATGCTAGA
12802585 ACGAAGGTATGGTTT
1 ACGAAGGTATGGTTT
** **
12802600 ACGAAACTA-ACTTT
1 ACGAAGGTATGGTTT
12802614 ACGAAGGTATGGTTT
1 ACGAAGGTATGGTTT
12802629 ACGAA
1 ACGAA
12802634 ACTGACTTTC
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (15 bp):
ACGAAGGTATGGTTT
Found at i:12803571 original size:45 final size:45
Alignment explanation
Indices: 12803520--12803627 Score: 108
Period size: 50 Copynumber: 2.3 Consensus size: 45
12803510 AGGATGATGC
* * * *
12803520 AAATGATAATGTTAAAATATGATCATGAAAATGATGCATAGAATA
1 AAATGATAATGTTAAAACATGAGCATGAAAACGATGCATAAAATA
* *
12803565 AAATGATATGGAAATGTTAAAACATGAGGATGAAAACGATGCATAAAATG
1 AAATG--AT---AATGTTAAAACATGAGCATGAAAACGATGCATAAAATA
*
12803615 ATATGATAATGTT
1 AAATGATAATGTT
12803628 GTGATGCACA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
45 11 0.22
47 2 0.04
48 2 0.04
50 36 0.71
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.28
Consensus pattern (45 bp):
AAATGATAATGTTAAAACATGAGCATGAAAACGATGCATAAAATA
Found at i:12803621 original size:50 final size:50
Alignment explanation
Indices: 12803527--12803622 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
12803517 TGCAAATGAT
* * * *
12803527 AATGTTAAAATATGATCATGAAAATGATGCATAGAATAAAATGATATGGA
1 AATGTTAAAACATGAGCATGAAAACGATGCATAAAATAAAATGATATGGA
* * *
12803577 AATGTTAAAACATGAGGATGAAAACGATGCATAAAATGATATGATA
1 AATGTTAAAACATGAGCATGAAAACGATGCATAAAATAAAATGATA
12803623 ATGTTGTGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (50 bp):
AATGTTAAAACATGAGCATGAAAACGATGCATAAAATAAAATGATATGGA
Found at i:12805052 original size:15 final size:16
Alignment explanation
Indices: 12805034--12805063 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12805024 TTCAACCAAA
12805034 ATTTTT-TATTTTTTT
1 ATTTTTATATTTTTTT
12805049 ATTTTTATATTTTTT
1 ATTTTTATATTTTTT
12805064 GGATTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
ATTTTTATATTTTTTT
Found at i:12805307 original size:9 final size:9
Alignment explanation
Indices: 12805293--12805340 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
12805283 ACAAACACAT
12805293 AAATAAAAA
1 AAATAAAAA
12805302 AAATAAATAAA
1 AAAT-AA-AAA
12805313 ACAATAAAAA
1 A-AATAAAAA
*
12805323 ATATAAAAA
1 AAATAAAAA
12805332 AAATCAAAA
1 AAAT-AAAA
12805341 TGGCTTGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 14 0.42
10 10 0.30
11 6 0.18
12 3 0.09
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (9 bp):
AAATAAAAA
Found at i:12805318 original size:21 final size:21
Alignment explanation
Indices: 12805294--12805334 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12805284 CAAACACATA
*
12805294 AATAAAAAAAATAAATAAAAC
1 AATAAAAAAAATAAAAAAAAC
*
12805315 AATAAAAAATATAAAAAAAA
1 AATAAAAAAAATAAAAAAAA
12805335 TCAAAATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (21 bp):
AATAAAAAAAATAAAAAAAAC
Found at i:12806202 original size:15 final size:15
Alignment explanation
Indices: 12806182--12806221 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
12806172 ATTGTTTAGC
* *
12806182 GAAAAAAAAAAGGAG
1 GAAAAAAAAAAGAAA
*
12806197 GAAAAAAAAGAGAAA
1 GAAAAAAAAAAGAAA
12806212 GAAAAAAAAA
1 GAAAAAAAAA
12806222 GGAAGAGAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAGAAA
Found at i:12806219 original size:18 final size:20
Alignment explanation
Indices: 12806198--12806238 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
12806188 AAAAAGGAGG
12806198 AAAAAA-AAGAGA-AAGAAA
1 AAAAAAGAAGAGAGAAGAAA
12806216 AAAAAAGGAAGAGAGAAGAAA
1 AAAAAA-GAAGAGAGAAGAAA
12806237 AA
1 AA
12806239 TGAACAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAGAGAGAAGAAA
Done.