Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 27 of 195
Found at i:6201055 original size:13 final size:14
Alignment explanation
Indices: 6201037--6201074 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
6201027 TTATTTATTA
6201037 AACTT-AATAAATG
1 AACTTAAATAAATG
6201050 AACTTAAATAAATAG
1 AACTTAAATAAAT-G
*
6201065 AAATTAAATA
1 AACTTAAATA
6201075 TATTTGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 10 0.45
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (14 bp):
AACTTAAATAAATG
Found at i:6201670 original size:29 final size:30
Alignment explanation
Indices: 6201604--6201682 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
6201594 AATGTTAAAA
*
6201604 ATAATTTTTAAATTATAATAAAATATTTAAC
1 ATAATATTTAAATTATAA-AAAATATTTAAC
*
6201635 ATAATATTTAAATTTTAAAAAAT-TTTAA-
1 ATAATATTTAAATTATAAAAAATATTTAAC
* *
6201663 AGTGATATTTGAATTATAAA
1 A-TAATATTTAAATTATAAA
6201683 TTTATTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.02
29 20 0.48
30 5 0.12
31 16 0.38
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
ATAATATTTAAATTATAAAAAATATTTAAC
Found at i:6202646 original size:23 final size:25
Alignment explanation
Indices: 6202594--6202647 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
6202584 AGTTTTAACT
6202594 ATAAAAGTATTGAGTAATTTTACAA
1 ATAAAAGTATTGAGTAATTTTACAA
* *
6202619 TTAAATGT-TTGAGT-ATTTT-CAAA
1 ATAAAAGTATTGAGTAATTTTAC-AA
6202642 ATAAAA
1 ATAAAA
6202648 TTAACTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.46
24 6 0.25
25 6 0.25
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (25 bp):
ATAAAAGTATTGAGTAATTTTACAA
Found at i:6202648 original size:24 final size:25
Alignment explanation
Indices: 6202594--6202648 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
6202584 AGTTTTAACT
*
6202594 ATAAAA-GTATTGAGTAATTTTACA
1 ATAAAATGTATTGAGTAATTTTAAA
*
6202618 ATTAAATGT-TTGAGT-ATTTTCAAA
1 ATAAAATGTATTGAGTAATTTT-AAA
6202642 ATAAAAT
1 ATAAAAT
6202649 TAACTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 19 0.73
25 2 0.08
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (25 bp):
ATAAAATGTATTGAGTAATTTTAAA
Found at i:6202676 original size:11 final size:12
Alignment explanation
Indices: 6202662--6202710 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
6202652 CTAAAAGATA
6202662 ATTAAAT-TTAT
1 ATTAAATATTAT
6202673 ATTAAATATTAT
1 ATTAAATATTAT
* *
6202685 -TTATATATTTT
1 ATTAAATATTAT
*
6202696 ATTATATATT-T
1 ATTAAATATTAT
6202707 ATTA
1 ATTA
6202711 GTATATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 21 0.62
12 13 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTAAATATTAT
Found at i:6202700 original size:12 final size:12
Alignment explanation
Indices: 6202667--6202716 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
6202657 AGATAATTAA
*
6202667 ATTTATATTAAAT
1 ATTT-TATTATAT
*
6202680 ATTAT-TTATAT
1 ATTTTATTATAT
6202691 ATTTTATTATAT
1 ATTTTATTATAT
6202703 A-TTTATTAGTAT
1 ATTTTATTA-TAT
6202715 AT
1 AT
6202717 AATTCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 16 0.52
12 12 0.39
13 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
ATTTTATTATAT
Found at i:6205173 original size:32 final size:32
Alignment explanation
Indices: 6205132--6205193 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
6205122 GTTCATCATG
6205132 TGGCAGATAGAAGCAGAAATGCAAAAGTAGCC
1 TGGCAGATAGAAGCAGAAATGCAAAAGTAGCC
*
6205164 TGGCAGATAGAAGCAGAAATGCAGAAGTAG
1 TGGCAGATAGAAGCAGAAATGCAAAAGTAG
6205194 AACGGATGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.31, T:0.13
Consensus pattern (32 bp):
TGGCAGATAGAAGCAGAAATGCAAAAGTAGCC
Found at i:6212378 original size:61 final size:60
Alignment explanation
Indices: 6212246--6212601 Score: 388
Period size: 60 Copynumber: 6.0 Consensus size: 60
6212236 TTATACAAGA
* * * * *
6212246 AAAATTGATACTTTTAACTTTTCCT-TAAAAATATTTTTCTTTAAATTTTATTTT-TAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTT-TTAAAATTTTATTTTCAAAAG
* * * *
6212305 AAAATTGGTA-TTTCCGACTTTTCCTCAATAAATGCTTTTTTTAAAATTTTATTTTCAAAAG
1 AAAATTGATACTTT-CAACTTTTCCTCAAAAAAT-ATTTTTTTAAAATTTTATTTTCAAAAG
* *
6212366 AAAATTGATATTTTCAACTTTTCCTCAAAAAATATTTTTTTAAAAATTTTATTTTCAAGA-
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTT-AAAATTTTATTTTCAAAAG
* *
6212426 AAAATTAATACTTTCAACTTTTCCTCAAAAAATA-TTTTTTAAAATTTTTTATTTTCAAGA-
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAAA--TTTTATTTTCAAAAG
** ***
6212486 AAAATTGATACTTTCAACTTTTTTTCAAAAAATATTTTAAAAAAATTTTTATTTTC-AAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAAA-TTTTATTTTCAAAAG
* * *
6212546 AAAATTGATACTTTTAACTTTTCTTC-ATAAATA-TTTTTTAGAAATTTTATTTTCAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTA-AAATTTTATTTTCAA
6212602 GAGATCATTA
Statistics
Matches: 256, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
58 21 0.08
59 36 0.14
60 138 0.54
61 58 0.23
62 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAAATTTTATTTTCAAAAG
Found at i:6212676 original size:3 final size:3
Alignment explanation
Indices: 6212668--6212697 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6212658 TAAATTGGCA
6212668 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6212698 CATCATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6212702 original size:3 final size:3
Alignment explanation
Indices: 6212696--6212721 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6212686 AATAATAATA
6212696 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
6212722 ATTAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:6216350 original size:16 final size:15
Alignment explanation
Indices: 6216329--6216395 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
6216319 CAGTTTTGAG
*
6216329 TTTTTTCGGATTCAA
1 TTTTTTTGGATTCAA
** *
6216344 TTTTTTTTTATTTAGA
1 TTTTTTTGGATTCA-A
* *
6216360 TTTTTTTGAATTGAA
1 TTTTTTTGGATTCAA
6216375 TTTTTTTGGATTTCAA
1 TTTTTTTGGA-TTCAA
6216391 TTTTT
1 TTTTT
6216396 AATTATTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 20 0.49
16 21 0.51
ACGTcount: A:0.19, C:0.04, G:0.10, T:0.66
Consensus pattern (15 bp):
TTTTTTTGGATTCAA
Found at i:6216950 original size:15 final size:16
Alignment explanation
Indices: 6216930--6216967 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6216920 TTTTAGATAT
6216930 TTATTTAATAA-AAAA
1 TTATTTAATAAGAAAA
6216945 TTATTT-ATAAGTAAAA
1 TTATTTAATAAG-AAAA
6216961 TTATTTA
1 TTATTTA
6216968 TTAATATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 6 0.30
16 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTATTTAATAAGAAAA
Found at i:6217007 original size:18 final size:18
Alignment explanation
Indices: 6216986--6217020 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6216976 TGTTAGTATA
*
6216986 ATTTTATTTATAAATAAT
1 ATTTTATTAATAAATAAT
6217004 ATTTTATTAATAAATAA
1 ATTTTATTAATAAATAA
6217021 ATAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTATTAATAAATAAT
Found at i:6217061 original size:23 final size:22
Alignment explanation
Indices: 6216986--6217061 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
6216976 TGTTAGTATA
*
6216986 ATTTTATTTATAAATAATATTT
1 ATTTTATTAATAAATAATATTT
* *
6217008 -TATTAATAAATAAATAATATTAT
1 AT-TTTATTAATAAATAATATT-T
* *
6217031 AATATATTAATAAATAATATTT
1 ATTTTATTAATAAATAATATTT
6217053 GATTTTATT
1 -ATTTTATT
6217062 TTAAGTATTG
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
21 1 0.02
22 17 0.41
23 23 0.56
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
ATTTTATTAATAAATAATATTT
Found at i:6217112 original size:19 final size:19
Alignment explanation
Indices: 6217074--6217138 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
6217064 AAGTATTGTT
6217074 ATATTAATATAATATTTTA
1 ATATTAATATAATATTTTA
*
6217093 ATATTAA-ATATTATTATTA
1 ATATTAATATAATATT-TTA
6217112 A-AGTATAAT-TAAT-TTTTA
1 ATA-T-TAATATAATATTTTA
6217130 ATATTAATA
1 ATATTAATA
6217139 ATTTTAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
17 4 0.11
18 13 0.34
19 15 0.39
20 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATATTAATATAATATTTTA
Found at i:6217361 original size:3 final size:3
Alignment explanation
Indices: 6217353--6217413 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
6217343 ACGTAACCTT
6217353 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6217401 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
6217414 CAACAACAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6218885 original size:65 final size:65
Alignment explanation
Indices: 6218781--6218910 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
6218771 ATAGTATCTT
* *
6218781 TATATTAATGACTACAATCAAATTTAAGTTTGAAAATCAATTATACTTAACAGTC-AATACTAAC
1 TATATTAATGAATACAATCAAATATAAGTTTGAAAATCAATTATACTT-ACAGTCAAATACTAAC
6218845 C
65 C
* * *
6218846 TATATTAATGAATAGAATCAAATATAAGTTTGAAAATCAATTATAGTTACAGTCAAATGCTAACC
1 TATATTAATGAATACAATCAAATATAAGTTTGAAAATCAATTATACTTACAGTCAAATACTAACC
6218911 CGAATCATGG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 6 0.10
65 53 0.90
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (65 bp):
TATATTAATGAATACAATCAAATATAAGTTTGAAAATCAATTATACTTACAGTCAAATACTAACC
Found at i:6221798 original size:20 final size:21
Alignment explanation
Indices: 6221766--6221817 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
6221756 CTTTTCGTTT
*
6221766 TTTTACATTTTTTCCTTGTC-C
1 TTTTA-ATTTTTTTCTTGTCAC
*
6221787 -TTTAATTTTTTTCTTTTCAC
1 TTTTAATTTTTTTCTTGTCAC
6221807 TTTTAATTTTT
1 TTTTAATTTTT
6221818 ATAAGTAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.44
20 5 0.19
21 10 0.37
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAATTTTTTTCTTGTCAC
Found at i:6222883 original size:218 final size:218
Alignment explanation
Indices: 6222505--6222943 Score: 878
Period size: 218 Copynumber: 2.0 Consensus size: 218
6222495 ATTAAAAAGT
6222505 TTATCCAAATAAATTAAATGTTTTTCTGTTTTCATTGCTTTCCTTTATTTTCCTTTATTTTTCTT
1 TTATCCAAATAAATTAAATGTTTTTCTGTTTTCATTGCTTTCCTTTATTTTCCTTTATTTTTCTT
6222570 CTCCTCCCCTCAATCCAAATATAGTGTAATAGAAAATTTTAATATTATTGTATTCAAGTCTTACA
66 CTCCTCCCCTCAATCCAAATATAGTGTAATAGAAAATTTTAATATTATTGTATTCAAGTCTTACA
6222635 TTTTAAGTAAAAAATTAATTATTAAATCAAATGTTGAATGTAAAAATATTTTTTTTAAAATCAAT
131 TTTTAAGTAAAAAATTAATTATTAAATCAAATGTTGAATGTAAAAATATTTTTTTTAAAATCAAT
6222700 GATAAAATAGAAAAAAGTCTAAC
196 GATAAAATAGAAAAAAGTCTAAC
6222723 TTATCCAAATAAATTAAATGTTTTTCTGTTTTCATTGCTTTCCTTTATTTTCCTTTATTTTTCTT
1 TTATCCAAATAAATTAAATGTTTTTCTGTTTTCATTGCTTTCCTTTATTTTCCTTTATTTTTCTT
6222788 CTCCTCCCCTCAATCCAAATATAGTGTAATAGAAAATTTTAATATTATTGTATTCAAGTCTTACA
66 CTCCTCCCCTCAATCCAAATATAGTGTAATAGAAAATTTTAATATTATTGTATTCAAGTCTTACA
6222853 TTTTAAGTAAAAAATTAATTATTAAATCAAATGTTGAATGTAAAAATATTTTTTTTAAAATCAAT
131 TTTTAAGTAAAAAATTAATTATTAAATCAAATGTTGAATGTAAAAATATTTTTTTTAAAATCAAT
6222918 GATAAAATAGAAAAAAGTCTAAC
196 GATAAAATAGAAAAAAGTCTAAC
6222941 TTA
1 TTA
6222944 ATTGACAAAT
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 221 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (218 bp):
TTATCCAAATAAATTAAATGTTTTTCTGTTTTCATTGCTTTCCTTTATTTTCCTTTATTTTTCTT
CTCCTCCCCTCAATCCAAATATAGTGTAATAGAAAATTTTAATATTATTGTATTCAAGTCTTACA
TTTTAAGTAAAAAATTAATTATTAAATCAAATGTTGAATGTAAAAATATTTTTTTTAAAATCAAT
GATAAAATAGAAAAAAGTCTAAC
Found at i:6226478 original size:20 final size:19
Alignment explanation
Indices: 6226446--6226493 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
6226436 AAATTAACAA
6226446 AAAATGAAAAAATCAAAAT-C
1 AAAAT-AAAAAAT-AAAATGC
6226466 AAAATAAATAAATAAAATGC
1 AAAATAAA-AAATAAAATGC
*
6226486 AAGATAAA
1 AAAATAAA
6226494 GACAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (19 bp):
AAAATAAAAAATAAAATGC
Found at i:6228820 original size:18 final size:18
Alignment explanation
Indices: 6228777--6228822 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
6228767 ATCACTTAAC
*
6228777 TATTTAAAA-TATAAATT
1 TATTTAAAATTAAAAATT
* *
6228794 AATTAAAAATTAAAAATT
1 TATTTAAAATTAAAAATT
6228812 TATTTAAAATT
1 TATTTAAAATT
6228823 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTTAAAATTAAAAATT
Found at i:6229748 original size:25 final size:25
Alignment explanation
Indices: 6229698--6229749 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
6229688 TGTAATTATT
*
6229698 TAAAAAAAAGGTTGTAATCTAATAA
1 TAAAAAAAAGGTTGTAATATAATAA
* *
6229723 TAAAAAAATGGATTGT-ATATATTAA
1 TAAAAAAAAGG-TTGTAATATAATAA
6229748 TA
1 TA
6229750 TTTGAATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.33
Consensus pattern (25 bp):
TAAAAAAAAGGTTGTAATATAATAA
Found at i:6231605 original size:23 final size:24
Alignment explanation
Indices: 6231579--6231625 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6231569 TTTACCTAAA
6231579 GATTT-CTTAAGAAT-TATTACTTG
1 GATTTCCTT-AGAATCTATTACTTG
*
6231602 GATTTCCTTAGAATCTATTTCTTG
1 GATTTCCTTAGAATCTATTACTTG
6231626 TAGGCTCGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (24 bp):
GATTTCCTTAGAATCTATTACTTG
Found at i:6234005 original size:163 final size:163
Alignment explanation
Indices: 6233685--6234301 Score: 586
Period size: 163 Copynumber: 3.8 Consensus size: 163
6233675 GTAGATTTAC
* * * * * **
6233685 AAATCATGACACTAAACAAATTCAACTCAAAAAACTTAT-AATCTT-ACCTAGACGACTTGGAGA
1 AAATCTTGACACTAAACAAATTCAACTCGAAAAACTTATGAATCTTGTCTTAGAGGACTTAAAGA
* * * ** *
6233748 CCATG-CTAGGAGATCTTATAAATCTTGACACTTAAATGCT-CTATAAATAAAGGCTCCACAACT
66 CTATGTCTA-GAGGTATTATAAATCTCAACACTTAAATGCTCCTCTAAATAAAGGCTCCACAACT
* **
6233811 TTTGGAATTTAAAATATTTTACTCGGAGGACTTAT
130 TTTGAAATTTAAAATATTTGCCT-GGAGGACTTAT
* *
6233846 AAATCTTGACACTAAACAAATTCAGCTCGAAAAACTTATGAATCTT-TCTTAGAGGACTTAGAGA
1 AAATCTTGACACTAAACAAATTCAACTCGAAAAACTTATGAATCTTGTCTTAGAGGACTTAAAGA
* * * * * *
6233910 CTATGTCTAGAGGTCTTATAAATCTCGATACTTAAATGTTCCTCTAAATAAAGGCTCTACAACAT
66 CTATGTCTAGAGGTATTATAAATCTCAACACTTAAATGCTCCTCTAAATAAAGGCTCCACAACTT
*
6233975 TTGAAATTTTAAATATTCTGCCTGGAGGACTTAT
131 TTGAAATTTAAAATATT-TGCCTGGAGGACTTAT
* * * * * * * ** * * *
6234009 GAATTTTAACACTAAAGAGATTCAATTTGGGAAACTTGTGAATCTTGTC-CAAAGGACTTAAAGA
1 AAATCTTGACACTAAACAAATTCAACTCGAAAAACTTATGAATCTTGTCTTAGAGGACTTAAAGA
* * ** *
6234073 CTATGCCCAGAGGTATTATAAATCTCAACACTTAAATGCAACTCTAAATAGAGGCTCCACAACTT
66 CTATGTCTAGAGGTATTATAAATCTCAACACTTAAATGCTCCTCTAAATAAAGGCTCCACAACTT
** *
6234138 TTGAAATTTAAAATATTATGTCC-AAAGGACTTAC
131 TTGAAATTTAAAATATT-TG-CCTGGAGGACTTAT
* * * * * * *
6234172 AAATCTTGACACTAAATAGATTCAGCTTGAAAGACTT-TCGAATATTGT-TTGGAGGACTTAAAG
1 AAATCTTGACACTAAACAAATTCAACTCGAAAAACTTAT-GAATCTTGTCTTAGAGGACTTAAAG
* * * * * **
6234235 ACTATGTTTAAAGGTATTATAAATCTCAACACTTAAATGCTCATTTAAATAGAGGCTTTACAACT
65 ACTATGTCTAGAGGTATTATAAATCTCAACACTTAAATGCTCCTCTAAATAAAGGCTCCACAACT
6234300 TT
130 TT
6234302 AAAATTCTCA
Statistics
Matches: 376, Mismatches: 72, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
161 36 0.10
162 52 0.14
163 281 0.75
164 7 0.02
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (163 bp):
AAATCTTGACACTAAACAAATTCAACTCGAAAAACTTATGAATCTTGTCTTAGAGGACTTAAAGA
CTATGTCTAGAGGTATTATAAATCTCAACACTTAAATGCTCCTCTAAATAAAGGCTCCACAACTT
TTGAAATTTAAAATATTTGCCTGGAGGACTTAT
Found at i:6237351 original size:18 final size:19
Alignment explanation
Indices: 6237330--6237380 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 19
6237320 TGACAAATAG
6237330 TCAAAGATTCGTAAGAA-T
1 TCAAAGATTCGTAAGAAGT
6237348 TCAAAGATTCGTAA-AAGT
1 TCAAAGATTCGTAAGAAGT
*
6237366 TCAAAGATTTGTAAG
1 TCAAAGATTCGTAAG
6237381 TTTCAAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 2 0.07
18 28 0.93
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (19 bp):
TCAAAGATTCGTAAGAAGT
Found at i:6237453 original size:18 final size:18
Alignment explanation
Indices: 6237420--6237551 Score: 62
Period size: 18 Copynumber: 7.4 Consensus size: 18
6237410 AAAATTCACA
* *
6237420 AAGATTCGCAAGAGATTC
1 AAGATTCACAAAAGATTC
*
6237438 AAGATTC-CTAAAAGATTTA
1 AAGATTCAC-AAAAGA-TTC
6237457 AAGATTCACAAAAG-TTC
1 AAGATTCACAAAAGATTC
* * *
6237474 AAAAATGCGCAAAA-ATTC
1 -AAGATTCACAAAAGATTC
* *
6237492 AAAGATTTATAAAAG-TTC
1 -AAGATTCACAAAAGATTC
* *
6237510 AAAGATTCGC--AAGTTTC
1 -AAGATTCACAAAAGATTC
* *
6237527 AAGATTTACAAAA-ATTT
1 AAGATTCACAAAAGATTC
6237544 AAGATTCA
1 AAGATTCA
6237552 AAGATTCGCA
Statistics
Matches: 86, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
16 10 0.12
17 15 0.17
18 46 0.53
19 14 0.16
20 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (18 bp):
AAGATTCACAAAAGATTC
Found at i:6237485 original size:55 final size:55
Alignment explanation
Indices: 6237398--6237517 Score: 133
Period size: 55 Copynumber: 2.2 Consensus size: 55
6237388 ATTTACAATA
* * *
6237398 ATTT-AAGATTCAAAAATTCACAAAGATTCGCAAGAGATTC-AAGATTCCTAAAAG
1 ATTTAAAGATTCAAAAATTCACAAAGATGCGCAA-AAATTCAAAGATTCATAAAAG
*
6237452 ATTTAAAGATTCACAAAAGTTCA-AAA-ATGCGCAAAAATTCAAAGATTTATAAAAG
1 ATTTAAAGATTCA-AAAA-TTCACAAAGATGCGCAAAAATTCAAAGATTCATAAAAG
*
6237507 -TTCAAAGATTC
1 ATTTAAAGATTC
6237518 GCAAGTTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
54 19 0.33
55 27 0.47
56 7 0.12
57 4 0.07
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (55 bp):
ATTTAAAGATTCAAAAATTCACAAAGATGCGCAAAAATTCAAAGATTCATAAAAG
Found at i:6237521 original size:36 final size:36
Alignment explanation
Indices: 6237306--6237521 Score: 128
Period size: 36 Copynumber: 6.1 Consensus size: 36
6237296 AAAGATTTAT
* *
6237306 AAAAGATTC-AAGATTGACAAATAG-TCAAAGATTCGT
1 AAAA-ATTCAAAGATTCACAAA-AGTTCAAAGATTCGC
* ** *
6237342 AAGAATTCAAAGATTCGTAAAAGTTCAAAGATTTG-
1 AAAAATTCAAAGATTCACAAAAGTTCAAAGATTCGC
* ** * *
6237377 TAAGTTTC-AAGATTTACAATAA-TT-TAAGATT--C
1 AAAAATTCAAAGATTCACAA-AAGTTCAAAGATTCGC
* *
6237409 AAAAATTCACAAAGATTCGCAAGAGATTC-AAGATTC-C
1 AAAAATT--CAAAGATTCACAAAAG-TTCAAAGATTCGC
* * *
6237446 TAAAAGATTTAAAGATTCACAAAAGTTCAAAAATGCGC
1 -AAAA-ATTCAAAGATTCACAAAAGTTCAAAGATTCGC
* *
6237484 AAAAATTCAAAGATTTATAAAAGTTCAAAGATTCGC
1 AAAAATTCAAAGATTCACAAAAGTTCAAAGATTCGC
6237520 AA
1 AA
6237522 GTTTCAAGAT
Statistics
Matches: 136, Mismatches: 29, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
32 4 0.03
33 6 0.04
34 12 0.09
35 21 0.15
36 62 0.46
37 23 0.17
38 5 0.04
39 3 0.02
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (36 bp):
AAAAATTCAAAGATTCACAAAAGTTCAAAGATTCGC
Found at i:6237661 original size:44 final size:44
Alignment explanation
Indices: 6237597--6237700 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 44
6237587 ACTTTTAAAA
* *
6237597 ATTCAAATCAAGATT--AAGGTTTTTA-TTCAAAAATCTTAGAG
1 ATTCACATCAAGATTCAAAGGTTTGTATTTCAAAAATCTTAGAG
* * *
6237638 ATTCACATCTAAGATTCAAAGGTTTGTATTTGAAAAATTTTTGAG
1 ATTCACATC-AAGATTCAAAGGTTTGTATTTCAAAAATCTTAGAG
*
6237683 ATTCTCATCAAAGATTCA
1 ATTCACATC-AAGATTCA
6237701 CATTTAAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 8 0.15
42 6 0.12
44 9 0.17
45 29 0.56
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (44 bp):
ATTCACATCAAGATTCAAAGGTTTGTATTTCAAAAATCTTAGAG
Found at i:6238477 original size:28 final size:27
Alignment explanation
Indices: 6238437--6238489 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6238427 TAACAAATTA
* *
6238437 CATGAGTGTAATGTTTATGAATGCAATG
1 CATGAATGTAATGTTAATG-ATGCAATG
6238465 CATGAATGTAATGTTAATGATGCAA
1 CATGAATGTAATGTTAATGATGCAA
6238490 CTTTAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.34
Consensus pattern (27 bp):
CATGAATGTAATGTTAATGATGCAATG
Found at i:6245441 original size:25 final size:23
Alignment explanation
Indices: 6245401--6245476 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 23
6245391 TGATCGTAGG
*
6245401 TTTTTTTTTCT-AATTTTATTTTA
1 TTTTTTTTTCTCTATTTT-TTTTA
6245424 TTTTTTGTTTCTCTA-TTTTTTTA
1 TTTTTT-TTTCTCTATTTTTTTTA
*
6245447 CTTTTTTTTATTCTCCTATTTTTTGTA
1 --TTTTTTT-TTCT-CTATTTTTTTTA
6245474 TTT
1 TTT
6245477 AATTTTTGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
23 11 0.25
24 9 0.20
25 14 0.32
26 3 0.07
27 7 0.16
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTTTTTTTCTCTATTTTTTTTA
Found at i:6245557 original size:24 final size:25
Alignment explanation
Indices: 6245504--6245557 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
6245494 TTATTCTTGA
* *
6245504 TATGATTATATATTTTATTTGATTG
1 TATGATTATATAATATATTTGATTG
*
6245529 CATGATTAT-TAATATATTT-ATTTG
1 TATGATTATATAATATATTTGA-TTG
6245553 TATGA
1 TATGA
6245558 ATTTGTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.04
24 15 0.62
25 8 0.33
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (25 bp):
TATGATTATATAATATATTTGATTG
Found at i:6245628 original size:21 final size:21
Alignment explanation
Indices: 6245604--6245651 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
6245594 TAAATTTGTG
*
6245604 TGATATTTTATCTTAATCACA
1 TGATATTTTATATTAATCACA
* **
6245625 TGATAGTTTATATTAATTGCA
1 TGATATTTTATATTAATCACA
6245646 TGATAT
1 TGATAT
6245652 CATATTATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (21 bp):
TGATATTTTATATTAATCACA
Found at i:6245664 original size:21 final size:21
Alignment explanation
Indices: 6245635--6245694 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
6245625 TGATAGTTTA
6245635 TATTAATTGCATGATATCATAT
1 TATT-ATTGCATGATATCATAT
*
6245657 TATTATTGCATGATATTATAT
1 TATTATTGCATGATATCATAT
* *
6245678 TGTTATTTGCATAATAT
1 TATTA-TTGCATGATAT
6245695 TATTTGCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (21 bp):
TATTATTGCATGATATCATAT
Found at i:6247873 original size:3 final size:3
Alignment explanation
Indices: 6247865--6247943 Score: 99
Period size: 3 Copynumber: 26.7 Consensus size: 3
6247855 AATTAGATGT
* *
6247865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- GTA CATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
6247910 GT- TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6247944 TAAAAGAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6248957 original size:180 final size:180
Alignment explanation
Indices: 6248607--6248965 Score: 630
Period size: 180 Copynumber: 2.0 Consensus size: 180
6248597 CTGGAGAGAT
* * *
6248607 CATTGGAAAAGTTACAAGGATGTGATGAGGGTGAGTCAGCCAATTTTGCCTTCAATCATGGATCA
1 CATTGGAAAAGTTACAAGGAAGTGATGAGGATGAGTCAGCCAATTTTGCCTTCAATCATGGACCA
*
6248672 TTAATTGGGCCAAAGTCTTCCTATTCACTTGACCCATATATGTTTGGATTCCGTTTGCTTTGGGT
66 TTAATTGGGCCAAAGTCTTCCTATTCACTTGACCCATATATGTTTGGATTCCGTTTACTTTGGGT
* *
6248737 TTTAGTCTAGAATTGGTAATTCTTTTTTATACCTTTTTTTATTATTTATC
131 TTTAGTCTAGAATCGGTAATTCTTTTTTATAACTTTTTTTATTATTTATC
* *
6248787 CATTGGAAAAGTTACAAGGAAGTGGTGATGATGAGTCAGCCAATTTTGCCTTCAATCATGGACCA
1 CATTGGAAAAGTTACAAGGAAGTGATGAGGATGAGTCAGCCAATTTTGCCTTCAATCATGGACCA
6248852 TTAATTGGGCCAAAGTCTTCCTATTCACTTGACCCATATATGCTTTGGATTCCGTTTACTTTGGG
66 TTAATTGGGCCAAAGTCTTCCTATTCACTTGACCCATATATG-TTTGGATTCCGTTTACTTTGGG
6248917 TTTTAGTCTAGAATCGGTAATTCTTTTTTATAAC-TTTTTTATTATTTAT
130 TTTTAGTCTAGAATCGGTAATTCTTTTTTATAACTTTTTTTATTATTTAT
6248966 TTCATTCTTG
Statistics
Matches: 170, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
180 117 0.69
181 53 0.31
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (180 bp):
CATTGGAAAAGTTACAAGGAAGTGATGAGGATGAGTCAGCCAATTTTGCCTTCAATCATGGACCA
TTAATTGGGCCAAAGTCTTCCTATTCACTTGACCCATATATGTTTGGATTCCGTTTACTTTGGGT
TTTAGTCTAGAATCGGTAATTCTTTTTTATAACTTTTTTTATTATTTATC
Found at i:6249024 original size:16 final size:16
Alignment explanation
Indices: 6249003--6249038 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6248993 ATAATAAAAT
* *
6249003 AAAAAAATTTTCGTAA
1 AAAAAAATCTTCATAA
6249019 AAAAAAATCTTCATAA
1 AAAAAAATCTTCATAA
6249035 AAAA
1 AAAA
6249039 GGTTTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAAAAATCTTCATAA
Found at i:6252911 original size:9 final size:9
Alignment explanation
Indices: 6252899--6252934 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
6252889 AAAAATATAA
6252899 AAAAAAAAC
1 AAAAAAAAC
*
6252908 AAAAAAAAT
1 AAAAAAAAC
6252917 AAAAAAAGAC
1 AAAAAAA-AC
6252927 AAAAAAAA
1 AAAAAAAA
6252935 GGAAGACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.89, C:0.06, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:6252913 original size:20 final size:19
Alignment explanation
Indices: 6252887--6252934 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
6252877 TGTGTATAGA
6252887 AAAAAAATATAAAAAAAAAAC
1 AAAAAAA-AT-AAAAAAAAAC
*
6252908 AAAAAAAATAAAAAAAGAC
1 AAAAAAAATAAAAAAAAAC
6252927 AAAAAAAA
1 AAAAAAAA
6252935 GGAAGACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 17 0.65
20 2 0.08
21 7 0.27
ACGTcount: A:0.88, C:0.04, G:0.02, T:0.06
Consensus pattern (19 bp):
AAAAAAAATAAAAAAAAAC
Found at i:6253912 original size:14 final size:14
Alignment explanation
Indices: 6253893--6253920 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6253883 ATCATTGCGA
6253893 AACTTAGAATCTTG
1 AACTTAGAATCTTG
6253907 AACTTAGAATCTTG
1 AACTTAGAATCTTG
6253921 TAATTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
AACTTAGAATCTTG
Found at i:6255668 original size:15 final size:14
Alignment explanation
Indices: 6255648--6255681 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6255638 GTTAGATTTT
6255648 AAAAAATAATAATAA
1 AAAAAATAA-AATAA
6255663 AAAAAATAAAATAA
1 AAAAAATAAAATAA
6255677 AAAAA
1 AAAAA
6255682 TCTTCATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:6257052 original size:15 final size:15
Alignment explanation
Indices: 6257034--6257068 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6257024 AAAACATGAA
*
6257034 GAAAAAAAAGAAAAT
1 GAAAAAAAAGAAAAC
*
6257049 GAAAAAAATGAAAAC
1 GAAAAAAAAGAAAAC
6257064 GAAAA
1 GAAAA
6257069 TGCATGTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (15 bp):
GAAAAAAAAGAAAAC
Found at i:6259603 original size:18 final size:17
Alignment explanation
Indices: 6259550--6259605 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
6259540 TAACAAAACC
* *
6259550 TTTGCAAATTTAAAACT
1 TTTGCAAATCTAAAAAT
* *
6259567 TTTGCAAAACTTGAAAAT
1 TTTGCAAATC-TAAAAAT
6259585 TCTTGCAAATCTAAAAAT
1 T-TTGCAAATCTAAAAAT
6259603 TTT
1 TTT
6259606 TACGAATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 10 0.32
18 13 0.42
19 8 0.26
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (17 bp):
TTTGCAAATCTAAAAAT
Found at i:6260195 original size:2 final size:2
Alignment explanation
Indices: 6260188--6260219 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6260178 TTTACATGTT
6260188 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
6260220 AAGAGAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6261017 original size:21 final size:22
Alignment explanation
Indices: 6260993--6261035 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6260983 AATAAATTTG
* *
6260993 CATGATATTTTATCTTA-ATTA
1 CATGATAGTTTATATTATATTA
6261014 CATGATAGTTTATATTATATTA
1 CATGATAGTTTATATTATATTA
6261036 ATTGCATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (22 bp):
CATGATAGTTTATATTATATTA
Found at i:6261065 original size:21 final size:21
Alignment explanation
Indices: 6261031--6261080 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6261021 GTTTATATTA
6261031 TATTAATTGCATGATATCATAT
1 TATT-ATTGCATGATATCATAT
* * *
6261053 TATTATTGTATGATTTTATAT
1 TATTATTGCATGATATCATAT
6261074 TATTATT
1 TATTATT
6261081 TACATAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (21 bp):
TATTATTGCATGATATCATAT
Found at i:6262242 original size:22 final size:22
Alignment explanation
Indices: 6262214--6262255 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6262204 ATGGATTAAA
6262214 AAATATTAAAAACTTGAAAAAT
1 AAATATTAAAAACTTGAAAAAT
*
6262236 AAATATTAAAAGCTTGAAAA
1 AAATATTAAAAACTTGAAAA
6262256 TGAATCAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (22 bp):
AAATATTAAAAACTTGAAAAAT
Found at i:6263505 original size:21 final size:20
Alignment explanation
Indices: 6263467--6263507 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6263457 ACTCTTTCTC
* *
6263467 TCTTGATTTTTCTGATTGAT
1 TCTTCATTTTTCTAATTGAT
6263487 TCTTCATTGTTTCTAATTGAT
1 TCTTCATT-TTTCTAATTGAT
6263508 CCTAATAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.59
Consensus pattern (20 bp):
TCTTCATTTTTCTAATTGAT
Found at i:6264000 original size:18 final size:19
Alignment explanation
Indices: 6263977--6264015 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6263967 CTCACGAATG
* *
6263977 AAACATGAATT-TTTTAAA
1 AAACATAAATTCTTTGAAA
6263995 AAACATAAATTCTTTGAAA
1 AAACATAAATTCTTTGAAA
6264014 AA
1 AA
6264016 TAAATATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
AAACATAAATTCTTTGAAA
Found at i:6264693 original size:15 final size:14
Alignment explanation
Indices: 6264648--6264698 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
6264638 CACTTCATCA
6264648 TTTT-TTTTCCTTT
1 TTTTCTTTTCCTTT
6264661 TTTT-TTGTT-CTTT
1 TTTTCTT-TTCCTTT
6264674 CTTTTCTATTTCCTTT
1 -TTTTCT-TTTCCTTT
6264690 TTTTCTTTT
1 TTTTCTTTT
6264699 TTCTTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.30
14 9 0.27
15 9 0.27
16 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTCCTTT
Found at i:6267306 original size:24 final size:24
Alignment explanation
Indices: 6267274--6267323 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
6267264 GAATCAGATC
6267274 TAATGACTTCATCCCTAAATGTGT
1 TAATGACTTCATCCCTAAATGTGT
*
6267298 TAATGACTTCATCCCTGAATGTGT
1 TAATGACTTCATCCCTAAATGTGT
6267322 TA
1 TA
6267324 TAGCATGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (24 bp):
TAATGACTTCATCCCTAAATGTGT
Found at i:6268038 original size:27 final size:28
Alignment explanation
Indices: 6267988--6268043 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
6267978 AAAAATAAAA
* ** *
6267988 TCTAGAAATAATGAATTTTCATAA-ATT
1 TCTAAAAATAATGAATAATAATAATATT
6268015 TCTAAAAATAATGAATAATAATAATATT
1 TCTAAAAATAATGAATAATAATAATATT
6268043 T
1 T
6268044 TTACAACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (28 bp):
TCTAAAAATAATGAATAATAATAATATT
Found at i:6268666 original size:3 final size:3
Alignment explanation
Indices: 6268658--6268695 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6268648 AATGCAATTA
6268658 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6268696 CAGTCATTGA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6269720 original size:24 final size:23
Alignment explanation
Indices: 6269688--6269753 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 23
6269678 TTTTTTTCAT
*
6269688 TTTTCATTTTATTTTTAAAGAGAA
1 TTTTAATTTTATTTTTAAAGA-AA
*
6269712 TTTTAATTTTAATTTTTTAATGAAA
1 TTTTAATTTT-A-TTTTTAAAGAAA
* *
6269737 TTTAAACTTTATTTTTA
1 TTTTAATTTTATTTTTA
6269754 TTAAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 6 0.17
24 10 0.28
25 11 0.31
26 9 0.25
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTTAATTTTATTTTTAAAGAAA
Found at i:6271231 original size:7 final size:7
Alignment explanation
Indices: 6271219--6271244 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6271209 ATCTAGTAGA
6271219 TTTAAAT
1 TTTAAAT
6271226 TTTAAAT
1 TTTAAAT
6271233 TTTAAAT
1 TTTAAAT
6271240 TTTAA
1 TTTAA
6271245 GACTTACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAAAT
Found at i:6272106 original size:14 final size:15
Alignment explanation
Indices: 6272089--6272119 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6272079 TAATATTTAA
6272089 TAAA-TTAAAAAAAT
1 TAAATTTAAAAAAAT
6272103 TAAATTTAAAAAAAT
1 TAAATTTAAAAAAAT
6272118 TA
1 TA
6272120 TCTTTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAATTTAAAAAAAT
Found at i:6272677 original size:22 final size:21
Alignment explanation
Indices: 6272632--6272682 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
6272622 TATTTTAAAC
*
6272632 ATTAATATTTATTTATTGATTA
1 ATTAATA-TTATTTATTGACTA
*
6272654 ATTAATATTATTTAATTTACTA
1 ATTAATATTATTT-ATTGACTA
6272676 A-TAATAT
1 ATTAATAT
6272683 ATAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTAATATTATTTATTGACTA
Found at i:6281280 original size:22 final size:22
Alignment explanation
Indices: 6281232--6281280 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
6281222 TCAACATAAA
* * *
6281232 AAAAAAAAATCAATAGAGAAAC
1 AAAAAAAAATAAAAAAAGAAAC
* *
6281254 CAAAAAAAATAAAAAAAGCAAC
1 AAAAAAAAATAAAAAAAGAAAC
6281276 AAAAA
1 AAAAA
6281281 TTTTTGTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.78, C:0.10, G:0.06, T:0.06
Consensus pattern (22 bp):
AAAAAAAAATAAAAAAAGAAAC
Found at i:6281838 original size:9 final size:8
Alignment explanation
Indices: 6281818--6281868 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
6281808 TCTGGTTTAG
6281818 TATTTTTT
1 TATTTTTT
6281826 TATTTTATT
1 TATTTT-TT
6281835 TA-TTTTT
1 TATTTTTT
*
6281842 TATTTACTAT
1 TATTT--TTT
6281852 TA-TTTTT
1 TATTTTTT
6281859 TATTTTTT
1 TATTTTTT
6281867 TA
1 TA
6281869 GTGTTCCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
7 8 0.22
8 18 0.50
9 6 0.17
10 4 0.11
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (8 bp):
TATTTTTT
Found at i:6281840 original size:17 final size:16
Alignment explanation
Indices: 6281821--6281868 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
6281811 GGTTTAGTAT
6281821 TTTTTTATTTTATTTA
1 TTTTTTATTTTATTTA
6281837 TTTTTTA-TTTACTATTA
1 TTTTTTATTTTA-T-TTA
6281854 TTTTTTATTTT-TTTA
1 TTTTTTATTTTATTTA
6281869 GTGTTCCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.24
16 9 0.31
17 10 0.34
18 3 0.10
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTTATTTA
Found at i:6282049 original size:10 final size:10
Alignment explanation
Indices: 6282036--6282060 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6282026 TAATAAAAAG
6282036 ATTAAAAATA
1 ATTAAAAATA
6282046 ATTAAAAATA
1 ATTAAAAATA
6282056 ATTAA
1 ATTAA
6282061 GAAAATGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATTAAAAATA
Found at i:6283293 original size:15 final size:16
Alignment explanation
Indices: 6283260--6283293 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6283250 AAAAAATAAA
*
6283260 AAAATAATAAAAAATC
1 AAAAGAATAAAAAATC
6283276 AAAAGAATAAAAAA-C
1 AAAAGAATAAAAAATC
6283291 AAA
1 AAA
6283294 TCGAAAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAGAATAAAAAATC
Found at i:6283306 original size:22 final size:19
Alignment explanation
Indices: 6283250--6283315 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
6283240 CTTTTTCAAT
* *
6283250 AAAAAAT-AAAAAAATAAT
1 AAAAAATCAAAAGAATAAA
6283268 AAAAAATCAAAAGAATAAA
1 AAAAAATCAAAAGAATAAA
6283287 AAACAAATCGAAAACGAATAAA
1 AAA-AAATC-AAAA-GAATAAA
*
6283309 GAAAAAT
1 AAAAAAT
6283316 TTCACTCGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.17
19 12 0.29
20 5 0.12
21 8 0.20
22 9 0.22
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAAAATCAAAAGAATAAA
Found at i:6287107 original size:19 final size:19
Alignment explanation
Indices: 6287083--6287120 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6287073 GCTAAATGGT
6287083 ATATTCAATTAGATAAAAC
1 ATATTCAATTAGATAAAAC
6287102 ATATTCAATTAGATAAAAC
1 ATATTCAATTAGATAAAAC
6287121 TCATATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATTCAATTAGATAAAAC
Found at i:6289026 original size:12 final size:12
Alignment explanation
Indices: 6288985--6289104 Score: 80
Period size: 12 Copynumber: 9.6 Consensus size: 12
6288975 AGACACACCC
*
6288985 TTCAACAAACCA
1 TTCAGCAAACCA
*
6288997 CTCAG-AAACATCA
1 TTCAGCAAAC--CA
*
6289010 TTCAGCAAACAA
1 TTCAGCAAACCA
* *
6289022 TTCAGCATACGA
1 TTCAGCAAACCA
**
6289034 TTCAGCATGCCAA
1 TTCAGCAAACC-A
*
6289047 TATCATACAATACCA
1 T-TCA-GCAA-ACCA
*
6289062 TTCAACAAACCA
1 TTCAGCAAACCA
6289074 TTCAGCAAACCA
1 TTCAGCAAACCA
* *
6289086 TTCAGCATACGA
1 TTCAGCAAACCA
6289098 TTCAGCA
1 TTCAGCA
6289105 TGCTAATATC
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
11 4 0.05
12 55 0.63
13 12 0.14
14 10 0.11
15 4 0.05
16 2 0.02
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (12 bp):
TTCAGCAAACCA
Found at i:6289089 original size:64 final size:64
Alignment explanation
Indices: 6289008--6289134 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
6288998 TCAGAAACAT
6289008 CATTCAGCAAACAATTCAGCATACGATTCAGCATGCCAATATCATACAATACCATTCAACAAAC
1 CATTCAGCAAACAATTCAGCATACGATTCAGCATGCCAATATCATACAATACCATTCAACAAAC
* *
6289072 CATTCAGCAAACCATTCAGCATACGATTCAGCATGCTAATATCATACAATACCATTCAACAAA
1 CATTCAGCAAACAATTCAGCATACGATTCAGCATGCCAATATCATACAATACCATTCAACAAA
6289135 ATAATATTAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.23
Consensus pattern (64 bp):
CATTCAGCAAACAATTCAGCATACGATTCAGCATGCCAATATCATACAATACCATTCAACAAAC
Found at i:6289139 original size:28 final size:28
Alignment explanation
Indices: 6289108--6289178 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
6289098 TTCAGCATGC
*
6289108 TAATATCATACAATACCATTCAACAAAA
1 TAATATCACACAATACCATTCAACAAAA
* * *
6289136 TAATATTACACAATATCATTCAGCAAAA
1 TAATATCACACAATACCATTCAACAAAA
* *
6289164 CAATATCACATAATA
1 TAATATCACACAATA
6289179 AAGTTCAGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.52, C:0.20, G:0.01, T:0.27
Consensus pattern (28 bp):
TAATATCACACAATACCATTCAACAAAA
Found at i:6290100 original size:186 final size:185
Alignment explanation
Indices: 6289667--6290102 Score: 468
Period size: 186 Copynumber: 2.3 Consensus size: 185
6289657 GATAATTCTA
* * **
6289667 AAAAAAAATTATTAAAGGCA-TTTTC-AGTAGACAATCACCTTCAATAATTATGTACAAAAATTA
1 AAAAAAAATTATTAAAGGCATTTTTCTA--AAAAAAT-ACCTTCAATAATTATGTACGTAAATTA
* * * ** * *
6289730 -AAAGGAATTAGTGAAGGTGTTTTTCTAAAATAAATGCCTTCACTAACCATCTTAAAATTTGAAT
63 GAAAGGAATTAATAAAGGTATTTTTCTAAAATAAACACCTTCACTAACCATATCAAAATTTGAAT
* * * * * *
6289794 TGTGAAATATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCTAAAAATTTTT
128 TATGAAATATTGAAAGCATTTTTCACTAGAAAACACCTTTAACAATCCTAAAAA-TTTT
* * * * * * ** *
6289853 TAAAAAATTTATTAAATGCGTTTATTCTTAAGAAACGCCTTCAATAATTATGTATGTAAATTAGA
1 AAAAAAAATTATTAAAGGCATTT-TTCTAAAAAAATACCTTCAATAATTATGTACGTAAATTAGA
* * * *
6289918 AA-GAATTAATAAAGGTATTTTTCTAGAATAAACACTTTCACTAACCGTATCAAAATTTGAGTTA
65 AAGGAATTAATAAAGGTATTTTTCTAAAATAAACACCTTCACTAACCATATCAAAATTTGAATTA
* *
6289982 T-AGAATATTGAAAGCGTTTTTCACTAGAAAACACCTTTAACAATCTTAAAAATTTT
130 TGA-AATATTGAAAGCATTTTTCACTAGAAAACACCTTTAACAATCCTAAAAATTTT
*
6290038 AAGAAAAAATTATTAAAGGCATTTGTTCTAAAAAAATACCTTCAATAATTATGCACGTAAATTAG
1 AA-AAAAAATTATTAAAGGCATTT-TTCTAAAAAAATACCTTCAATAATTATGTACGTAAATTAG
6290103 TAATTTAAAA
Statistics
Matches: 201, Mismatches: 43, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
185 6 0.03
186 184 0.92
187 8 0.04
188 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (185 bp):
AAAAAAAATTATTAAAGGCATTTTTCTAAAAAAATACCTTCAATAATTATGTACGTAAATTAGAA
AGGAATTAATAAAGGTATTTTTCTAAAATAAACACCTTCACTAACCATATCAAAATTTGAATTAT
GAAATATTGAAAGCATTTTTCACTAGAAAACACCTTTAACAATCCTAAAAATTTT
Found at i:6290522 original size:186 final size:183
Alignment explanation
Indices: 6290208--6290765 Score: 742
Period size: 185 Copynumber: 3.0 Consensus size: 183
6290198 AGTAGACAAC
* * * * * * **
6290208 CGCCTTCAATATTTATGTACAAAAATTAAAAGAAATTAGTGAAGGCGTTTCTTTAGAATAAACAC
1 CGCCTTCAATAATTATGTACATAAATTAGAAGAAATTAATGAAGGCATTTTTTTAGAATAAATGC
**
6290273 CTTCACTAATTGTCTCAAAATTTGAGTTGTGAAATATTGAAGGCATTTTTCACTGAAAGACGCCT
66 CTTCACTAACCGTCTCAAAATTTGAGTTGTGAAATATTGAAGGCATTTTTCACTG-AAGACGCCT
*
6290338 TTAATAATCTCAAAAATTTTAAGAAAATTTTATTGAAGGCGTTTGATCTCAAGAAA
130 TTAATAATCTCAAAAATTTTAAGAAAA--TTATTGAAGGCGTTTGTTCTCAAGAAA
* * *
6290394 CGCCTTCAATAATTATGTACATAAATTAGAAGGAATTAATGAAGGTATTTTTTTCGAATAAATGC
1 CGCCTTCAATAATTATGTACATAAATTAGAAGAAATTAATGAAGGCATTTTTTTAGAATAAATGC
* * * * *
6290459 ATTCACTAACCGTCTCAAAATTTGAGTTATGAAATATCGAAGGTATTTTTCATTAGAAGACGCCT
66 CTTCACTAACCGTCTCAAAATTTGAGTTGTGAAATATTGAAGGCATTTTTCACT-GAAGACGCCT
* *
6290524 TTAATAATC-CAAAAATTTTAGGAGAAAATTATTGAAGGTGTTTGTTCTCAAAAAA
130 TTAATAATCTCAAAAATTTTA--AGAAAATTATTGAAGGCGTTTGTTCTCAAGAAA
* * * *
6290579 TGCCTTCAATAATTATGCACGTAAATTAGAAGAAATTAATGAAGGCATTTTTCTAGAATAAATGC
1 CGCCTTCAATAATTATGTACATAAATTAGAAGAAATTAATGAAGGCATTTTTTTAGAATAAATGC
* * *
6290644 CTTCACTAACCGTCTCAAAATTTGAGTTGTGAAATATTAAAGGCGTTTTTTACTGGAAGACGCCT
66 CTTCACTAACCGTCTCAAAATTTGAGTTGTGAAATATTGAAGGCATTTTTCACT-GAAGACGCCT
* *
6290709 TTAATAAT-TCAAAAAAATTTAAGAAAAAATTATTGAAGGCTTTTGTTCTCAAGAAA
130 TTAATAATCTC-AAAAATTTTAAG--AAAATTATTGAAGGCGTTTGTTCTCAAGAAA
6290765 C
1 C
6290766 ACTTTCACTA
Statistics
Matches: 323, Mismatches: 42, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
184 2 0.01
185 158 0.49
186 156 0.48
187 7 0.02
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (183 bp):
CGCCTTCAATAATTATGTACATAAATTAGAAGAAATTAATGAAGGCATTTTTTTAGAATAAATGC
CTTCACTAACCGTCTCAAAATTTGAGTTGTGAAATATTGAAGGCATTTTTCACTGAAGACGCCTT
TAATAATCTCAAAAATTTTAAGAAAATTATTGAAGGCGTTTGTTCTCAAGAAA
Found at i:6298774 original size:34 final size:34
Alignment explanation
Indices: 6298736--6298845 Score: 121
Period size: 34 Copynumber: 3.2 Consensus size: 34
6298726 CGTGTCAAAG
* *
6298736 ATACAAATACCACTAATATAGTGACATTTTCCAA
1 ATACAAACACCACTAATATAGCGACATTTTCCAA
* *
6298770 ATACAAACACCGCTAATATAGCGACATTTTTCAA
1 ATACAAACACCACTAATATAGCGACATTTTCCAA
* ** ** * *
6298804 ATAAAAACGTCGGTAATATAGCGACATTTTCTAG
1 ATACAAACACCACTAATATAGCGACATTTTCCAA
6298838 ATACAAAC
1 ATACAAAC
6298846 GTTGCTAATA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (34 bp):
ATACAAACACCACTAATATAGCGACATTTTCCAA
Found at i:6298824 original size:68 final size:68
Alignment explanation
Indices: 6298749--6298893 Score: 182
Period size: 68 Copynumber: 2.1 Consensus size: 68
6298739 CAAATACCAC
*
6298749 TAATATAGTGACATTTTCCAAATACAAACACCGCTAATATAGCGACATTTTTCAAATAAAAACGT
1 TAATATAGCGACATTTTCCAAATACAAACACCGCTAATATAGCGACATTTTTCAAATAAAAACGT
6298814 CGG
66 CGG
* * *** * * * *
6298817 TAATATAGCGACATTTTCTAGATACAAACGTTGCTAATATAGTGGCATTTTTCAGATACAAACGT
1 TAATATAGCGACATTTTCCAAATACAAACACCGCTAATATAGCGACATTTTTCAAATAAAAACGT
*
6298882 CGT
66 CGG
*
6298885 TAATGTAGC
1 TAATATAGC
6298894 CAGCACTCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (68 bp):
TAATATAGCGACATTTTCCAAATACAAACACCGCTAATATAGCGACATTTTTCAAATAAAAACGT
CGG
Found at i:6298846 original size:34 final size:34
Alignment explanation
Indices: 6298748--6298893 Score: 159
Period size: 34 Copynumber: 4.3 Consensus size: 34
6298738 ACAAATACCA
* * **
6298748 CTAATATAGTGACATTTTCCAAATACAAACACCG
1 CTAATATAGCGACATTTTTCAAATACAAACGTCG
*
6298782 CTAATATAGCGACATTTTTCAAATAAAAACGTCG
1 CTAATATAGCGACATTTTTCAAATACAAACGTCG
* * *
6298816 GTAATATAGCGACA-TTTTCTAGATACAAACGTTG
1 CTAATATAGCGACATTTTTC-AAATACAAACGTCG
* * *
6298850 CTAATATAGTGGCATTTTTCAGATACAAACGTCG
1 CTAATATAGCGACATTTTTCAAATACAAACGTCG
* *
6298884 TTAATGTAGC
1 CTAATATAGC
6298894 CAGCACTCTG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
33 5 0.05
34 84 0.89
35 5 0.05
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (34 bp):
CTAATATAGCGACATTTTTCAAATACAAACGTCG
Found at i:6301240 original size:57 final size:57
Alignment explanation
Indices: 6301178--6301289 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
6301168 AAATTTGTTT
6301178 AATGATAATAATAATTCTTCTTCATTACTAATTGGACCAAATACTATACTTTATTTG
1 AATGATAATAATAATTCTTCTTCATTACTAATTGGACCAAATACTATACTTTATTTG
* *
6301235 AATGATAATAATAATTCTTCTTCATTACTAATTGGATCAACTACTATACTTTATT
1 AATGATAATAATAATTCTTCTTCATTACTAATTGGACCAAATACTATACTTTATT
6301290 AGTTGATCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
AATGATAATAATAATTCTTCTTCATTACTAATTGGACCAAATACTATACTTTATTTG
Found at i:6305342 original size:88 final size:89
Alignment explanation
Indices: 6305228--6305405 Score: 340
Period size: 88 Copynumber: 2.0 Consensus size: 89
6305218 TTCAGGTTCG
6305228 TCTCCTTTCTTCTTTCCTTTTGATTTGAATTTCTTTATCAATGCTAATTTTGTTAATAATTTGTG
1 TCTCCTTTCTTCTTTCCTTTTGATTTGAATTTCTTTATCAATGCTAATTTTGTTAATAATTTGTG
6305293 ATTAAATCAACCCTCGTCATGACC
66 ATTAAATCAACCCTCGTCATGACC
*
6305317 TCTCCTTTCTTC-TTCCTTTTTATTTGAATTTCTTTATCAATGCTAATTTTGTTAATAATTTGTG
1 TCTCCTTTCTTCTTTCCTTTTGATTTGAATTTCTTTATCAATGCTAATTTTGTTAATAATTTGTG
6305381 ATTAAATCAACCCTCGTCATGACC
66 ATTAAATCAACCCTCGTCATGACC
6305405 T
1 T
6305406 TTTCTTCACA
Statistics
Matches: 88, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 76 0.86
89 12 0.14
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.49
Consensus pattern (89 bp):
TCTCCTTTCTTCTTTCCTTTTGATTTGAATTTCTTTATCAATGCTAATTTTGTTAATAATTTGTG
ATTAAATCAACCCTCGTCATGACC
Found at i:6316387 original size:17 final size:17
Alignment explanation
Indices: 6316367--6316402 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6316357 CTTATCTTTT
6316367 AATTTGTATTT-AAATAA
1 AATTT-TATTTCAAATAA
6316384 AATTTTATTTCAAATAA
1 AATTTTATTTCAAATAA
6316401 AA
1 AA
6316403 AATTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTTTATTTCAAATAA
Found at i:6321078 original size:22 final size:22
Alignment explanation
Indices: 6321037--6321080 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6321027 CGTATTTTGC
*
6321037 ATTTAATAAATATACATTTTTA
1 ATTTAATAAATAAACATTTTTA
*
6321059 ATTTAATAAATAAA-TTTTTTA
1 ATTTAATAAATAAACATTTTTA
6321080 A
1 A
6321081 AAAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAATAAATAAACATTTTTA
Found at i:6329889 original size:12 final size:12
Alignment explanation
Indices: 6329875--6329933 Score: 59
Period size: 12 Copynumber: 4.7 Consensus size: 12
6329865 ATATTATTTT
6329875 AAATATAAATATA
1 AAAT-TAAATATA
6329888 AAATTAAATATA
1 AAATTAAATATA
6329900 TATAA--AAATTTATA
1 -A-AATTAAA--TATA
6329914 AAATTAAATATA
1 AAATTAAATATA
6329926 AAATTAAA
1 AAATTAAA
6329934 AAAATAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
12 25 0.62
13 6 0.15
14 9 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAAATATA
Found at i:6329940 original size:26 final size:25
Alignment explanation
Indices: 6329874--6329940 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
6329864 AATATTATTT
*
6329874 TAAATATAAAT-ATAAAATTAAATA
1 TAAATAAAAATAATAAAATTAAATA
* *
6329898 TATATAAAAATTTATAAAATTAAATA
1 TAAATAAAAA-TAATAAAATTAAATA
6329924 TAAAATTAAAAA-AATAA
1 T-AAA-TAAAAATAATAA
6329941 TTAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 8 0.23
25 1 0.03
26 18 0.51
27 2 0.06
28 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAATAAAAATAATAAAATTAAATA
Found at i:6335620 original size:111 final size:113
Alignment explanation
Indices: 6335440--6335668 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 113
6335430 AGTTGACTAC
6335440 AAGTTAGTGGTTTTTCTTCTGTCAAATACTAAAAGATAAGGAAAATCTTTGTTTCAGGGAGAAGA
1 AAGTTAGTGGTTTTTCTTCTGTCAAATACT---A-ATAAGGAAAATCTTTGTTTCAGGGAGAAGA
*
6335505 AAAGACTGACCTCTGTATTAAGATCTGAAGAAGAAATGCTAGAGGAACTTGG
62 AAAGACTGACCTCTGTATCAAGATCTGAAGAAGAAATGCTAGAGGAACTTGG
*
6335557 AAGTTAGTGGTTTTTCTTCTGTCAAATAGT-A-AAGGAAAATCTTTGTTTCAGGGAGAAGAAAAG
1 AAGTTAGTGGTTTTTCTTCTGTCAAATACTAATAAGGAAAATCTTTGTTTCAGGGAGAAGAAAAG
6335620 ACTGACCTCTGTATCAAGATCTGAAGAAGAAATGCTAGAGGAACTTGG
66 ACTGACCTCTGTATCAAGATCTGAAGAAGAAATGCTAGAGGAACTTGG
6335668 A
1 A
6335669 GAAGCAGTAA
Statistics
Matches: 110, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
111 80 0.73
112 1 0.01
117 29 0.26
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (113 bp):
AAGTTAGTGGTTTTTCTTCTGTCAAATACTAATAAGGAAAATCTTTGTTTCAGGGAGAAGAAAAG
ACTGACCTCTGTATCAAGATCTGAAGAAGAAATGCTAGAGGAACTTGG
Found at i:6336166 original size:6 final size:6
Alignment explanation
Indices: 6336155--6336188 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6336145 ATAAAATGTA
6336155 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
6336189 AAACTCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:6336980 original size:6 final size:6
Alignment explanation
Indices: 6336969--6336994 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6336959 CCAAAATTCG
6336969 CACCAT CACCAT CACCAT CACCAT CA
1 CACCAT CACCAT CACCAT CACCAT CA
6336995 TCATTTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (6 bp):
CACCAT
Found at i:6339272 original size:22 final size:22
Alignment explanation
Indices: 6339247--6339289 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6339237 ATAATTTTTA
*
6339247 TTAAAA-AATTAACAATAATATT
1 TTAAAAGAATTAA-AAAAATATT
6339269 TTAAAAGAATTAAAAAAATAT
1 TTAAAAGAATTAAAAAAATAT
6339290 AACATACCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAGAATTAAAAAAATATT
Found at i:6340798 original size:18 final size:17
Alignment explanation
Indices: 6340758--6340798 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
6340748 GCTTTCTAGA
6340758 ATTTTCTTCTTATCTCT
1 ATTTTCTTCTTATCTCT
6340775 -TTTTCTT-TTCATCTCTT
1 ATTTTCTTCTT-ATCTC-T
6340792 ATTTTCT
1 ATTTTCT
6340799 CTCGCATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 1 0.05
18 6 0.29
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTCTTCTTATCTCT
Found at i:6343582 original size:25 final size:24
Alignment explanation
Indices: 6343532--6343584 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
6343522 ACAACATCAT
* *
6343532 TTTCTTTTCCAAATGTAATGTGAA
1 TTTCTTTTCCAAATGTAAGGTAAA
6343556 TTTCTTTT-CAAATGCTGAAGGTAAA
1 TTTCTTTTCCAAATG-T-AAGGTAAA
6343581 TTTC
1 TTTC
6343585 AGATGGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 9 0.36
25 10 0.40
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (24 bp):
TTTCTTTTCCAAATGTAAGGTAAA
Found at i:6345232 original size:21 final size:21
Alignment explanation
Indices: 6345208--6345273 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
6345198 TCAATGTTAG
6345208 TTTGGTAACTTATAATAAAAT
1 TTTGGTAACTTATAATAAAAT
** * *
6345229 TTTGGTAACCAATGATATAAT
1 TTTGGTAACTTATAATAAAAT
*
6345250 TTTGATAATCTT-TAATAAAAT
1 TTTGGTAA-CTTATAATAAAAT
6345271 TTT
1 TTT
6345274 TATAATCATT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (21 bp):
TTTGGTAACTTATAATAAAAT
Found at i:6345590 original size:10 final size:10
Alignment explanation
Indices: 6345575--6345604 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6345565 ATTGAGTTTT
6345575 TATATTTTAA
1 TATATTTTAA
6345585 TATATTTTAA
1 TATATTTTAA
6345595 T-TATTTTAA
1 TATATTTTAA
6345604 T
1 T
6345605 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:6346083 original size:22 final size:22
Alignment explanation
Indices: 6346058--6346234 Score: 86
Period size: 22 Copynumber: 8.0 Consensus size: 22
6346048 ATGAATAGCA
*
6346058 ACTAAGTTATCATTGATTTAAT
1 ACTAAGTTATCATTGATTTACT
** * *
6346080 ACTACTTTATTATTAATTTACT
1 ACTAAGTTATCATTGATTTACT
* * *
6346102 ACTAAGCTATCAATGATATACT
1 ACTAAGTTATCATTGATTTACT
* * * *
6346124 ACTAAATTATTAATAATTTACT
1 ACTAAGTTATCATTGATTTACT
* ** *
6346146 ACTAAAG-TAGCATTGAAGTACA
1 ACT-AAGTTATCATTGATTTACT
* * * * *
6346168 ATTAATTTATGAATGATTTATT
1 ACTAAGTTATCATTGATTTACT
* * *
6346190 ACTAAGTTATAAATAATTTACT
1 ACTAAGTTATCATTGATTTACT
* * * *
6346212 AATAAATTATTAATGATTTACT
1 ACTAAGTTATCATTGATTTACT
6346234 A
1 A
6346235 TTAATTTACT
Statistics
Matches: 110, Mismatches: 43, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
21 2 0.02
22 106 0.96
23 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (22 bp):
ACTAAGTTATCATTGATTTACT
Found at i:6346113 original size:44 final size:44
Alignment explanation
Indices: 6346058--6346150 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
6346048 ATGAATAGCA
* * * ** *
6346058 ACTAAGTTATCATTGATTTAATACTACTTTATTATTAATTTACT
1 ACTAAGCTATCAATGATATAATACTAAATTATTAATAATTTACT
*
6346102 ACTAAGCTATCAATGATATACTACTAAATTATTAATAATTTACT
1 ACTAAGCTATCAATGATATAATACTAAATTATTAATAATTTACT
6346146 ACTAA
1 ACTAA
6346151 AGTAGCATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (44 bp):
ACTAAGCTATCAATGATATAATACTAAATTATTAATAATTTACT
Found at i:6346215 original size:11 final size:11
Alignment explanation
Indices: 6346201--6346299 Score: 60
Period size: 11 Copynumber: 9.1 Consensus size: 11
6346191 CTAAGTTATA
6346201 AATAATTTACT
1 AATAATTTACT
* *
6346212 AATAAATTATT
1 AATAATTTACT
*
6346223 AATGATTTACT
1 AATAATTTACT
*
6346234 ATTAATTTACT
1 AATAATTTACT
* *
6346245 GATGATTTA-T
1 AATAATTTACT
* *
6346255 TATAAAATTA-T
1 AAT-AATTTACT
*
6346266 AACTAATTTAAT
1 AA-TAATTTACT
* *
6346278 ATTAATTT-TT
1 AATAATTTACT
6346288 AATAATTTACT
1 AATAATTTACT
6346299 A
1 A
6346300 TAAAATTATC
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
10 11 0.17
11 51 0.78
12 3 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (11 bp):
AATAATTTACT
Found at i:6346238 original size:66 final size:66
Alignment explanation
Indices: 6346086--6346316 Score: 191
Period size: 66 Copynumber: 3.5 Consensus size: 66
6346076 TAATACTACT
* * ** * * * *
6346086 TTATTATTAATTTACTACTAAGCTATCAATGATATACTACTAAATTATTAATAATTTACTACTAA
1 TTATTAATAATTTACTATTAATTTATCAATGATTTATTACTAAATTATAAATAATTTACTAATAA
6346151 A
66 A
* ** * * * * *
6346152 GTAGCATTGAA-GTACAATTAATTTATGAATGATTTATTACTAAGTTATAAATAATTTACTAATA
1 TTATTAAT-AATTTACTATTAATTTATCAATGATTTATTACTAAATTATAAATAATTTACTAATA
6346216 AA
65 AA
* * * *
6346218 TTATTAATGATTTACTATTAATTTA-CTGATGATTTATTA-TAAAATTATAACTAATTTAAT-AT
1 TTATTAATAATTTACTATTAATTTATC-AATGATTTATTACT-AAATTATAAATAATTTACTAAT
*
6346280 TAA
64 AAA
* * *
6346283 TTTTTAATAATTTACTATAAAATTATCAATGATT
1 TTATTAATAATTTACTATTAATTTATCAATGATT
6346317 AACTAATATA
Statistics
Matches: 128, Mismatches: 32, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
65 33 0.26
66 93 0.73
67 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (66 bp):
TTATTAATAATTTACTATTAATTTATCAATGATTTATTACTAAATTATAAATAATTTACTAATAA
A
Found at i:6346249 original size:22 final size:22
Alignment explanation
Indices: 6346179--6346253 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
6346169 TTAATTTATG
* * *
6346179 AATGATTTATTACTAAGTTA-T
1 AATGATTTACTAATAAATTACT
* *
6346200 AAATAATTTACTAATAAATTATT
1 -AATGATTTACTAATAAATTACT
* *
6346223 AATGATTTACTATTAATTTACT
1 AATGATTTACTAATAAATTACT
*
6346245 GATGATTTA
1 AATGATTTA
6346254 TTATAAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
22 42 0.98
23 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
AATGATTTACTAATAAATTACT
Found at i:6346255 original size:33 final size:33
Alignment explanation
Indices: 6346167--6346275 Score: 89
Period size: 33 Copynumber: 3.3 Consensus size: 33
6346157 ATTGAAGTAC
*
6346167 AATTAATTTA-TGAATGATTTATTACTAAGTTAT
1 AATTAATTTACTG-ATGATTTATTAATAAGTTAT
* * * * * *
6346200 AAATAATTTACTAATAAATTATTAATGATTTACT
1 AATTAATTTACTGATGATTTATTAATAAGTTA-T
*
6346234 -ATTAATTTACTGATGATTTATT-ATAAAATTAT
1 AATTAATTTACTGATGATTTATTAAT-AAGTTAT
*
6346266 AACTAATTTA
1 AATTAATTTA
6346276 ATATTAATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
32 3 0.05
33 53 0.91
34 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (33 bp):
AATTAATTTACTGATGATTTATTAATAAGTTAT
Found at i:6346329 original size:30 final size:29
Alignment explanation
Indices: 6346286--6346351 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
6346276 ATATTAATTT
* *
6346286 TTAATAATTTACTATAAAATTATCAA-TGA
1 TTAATAATATACTACAAAATTAT-AACTGA
6346315 TTAACTAATATACTACAAAATTATAACTGA
1 TTAA-TAATATACTACAAAATTATAACTGA
*
6346345 TTTATAA
1 TTAATAA
6346352 CTAAATTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAATAATATACTACAAAATTATAACTGA
Found at i:6346357 original size:22 final size:22
Alignment explanation
Indices: 6346332--6346382 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
6346322 ATATACTACA
6346332 AAATTATAACTGATTTATAACT
1 AAATTATAACTGATTTATAACT
* *
6346354 AAATTATCACTGATTTGTAACT
1 AAATTATAACTGATTTATAACT
6346376 AAATTAT
1 AAATTAT
6346383 TACTAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (22 bp):
AAATTATAACTGATTTATAACT
Found at i:6346588 original size:21 final size:22
Alignment explanation
Indices: 6346543--6346625 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
6346533 ATTGATTATG
* *
6346543 ATTTATTATCAAGTTATCACTA
1 ATTTATTATTAAATTATCACTA
6346565 ATTTA-TATTAAATTATCCAC-A
1 ATTTATTATTAAATTAT-CACTA
* *
6346586 ATTTATTATTAAATTATTATTA
1 ATTTATTATTAAATTATCACTA
* * *
6346608 ATTAACTATTAAGTTATC
1 ATTTATTATTAAATTATC
6346626 GATGATTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 16 0.32
22 34 0.68
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTATTATTAAATTATCACTA
Found at i:6346610 original size:22 final size:21
Alignment explanation
Indices: 6346543--6346640 Score: 72
Period size: 22 Copynumber: 4.5 Consensus size: 21
6346533 ATTGATTATG
* *
6346543 ATTTATTATCAAGTTATCACTA
1 ATTTATTATTAAATTATCA-TA
*
6346565 ATTTA-TATTAAATTATCCACA
1 ATTTATTATTAAATTAT-CATA
*
6346586 ATTTATTATTAAATTATTATTA
1 ATTTATTATTAAATTATCA-TA
* * * *
6346608 ATTAACTATTAAGTTATCGATG
1 ATTTATTATTAAATTATC-ATA
*
6346630 ATTTACTATTA
1 ATTTATTATTA
6346641 CTAAGTTATA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
21 16 0.26
22 44 0.72
23 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTTATTATTAAATTATCATA
Found at i:6346610 original size:43 final size:44
Alignment explanation
Indices: 6346543--6346625 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
6346533 ATTGATTATG
* *
6346543 ATTTATTATCAAGTTATCACTAATTTA-TATTAAATTATCCACA
1 ATTTATTATCAAATTATCACTAATTAACTATTAAATTATCCACA
* * * *
6346586 ATTTATTATTAAATTATTATTAATTAACTATTAAGTTATC
1 ATTTATTATCAAATTATCACTAATTAACTATTAAATTATC
6346626 GATGATTTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 22 0.67
44 11 0.33
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (44 bp):
ATTTATTATCAAATTATCACTAATTAACTATTAAATTATCCACA
Found at i:6346634 original size:44 final size:43
Alignment explanation
Indices: 6346540--6346640 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
6346530 TGAATTGATT
* * *
6346540 ATGATTTATTATCAAGTTATCACTAATTTATATTAAATTATCC
1 ATGATTTATTATTAAATTATCACTAATTAATATTAAATTATCC
** * * * *
6346583 ACAATTTATTATTAAATTATTATTAATTAACTATTAAGTTATCG
1 ATGATTTATTATTAAATTATCACTAATTAA-TATTAAATTATCC
*
6346627 ATGATTTACTATTA
1 ATGATTTATTATTA
6346641 CTAAGTTATA
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
43 23 0.51
44 22 0.49
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (43 bp):
ATGATTTATTATTAAATTATCACTAATTAATATTAAATTATCC
Found at i:6346793 original size:11 final size:11
Alignment explanation
Indices: 6346777--6346810 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6346767 CTGATTAACT
6346777 ATTAATTTATC
1 ATTAATTTATC
*
6346788 ATTAATTTATT
1 ATTAATTTATC
*
6346799 ATTAAGTTATC
1 ATTAATTTATC
6346810 A
1 A
6346811 ATTATTAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (11 bp):
ATTAATTTATC
Found at i:6346801 original size:22 final size:21
Alignment explanation
Indices: 6346776--6346862 Score: 68
Period size: 22 Copynumber: 4.0 Consensus size: 21
6346766 ACTGATTAAC
6346776 TATTAATTTATCATTAATTTAT
1 TATTAATTTATCATT-ATTTAT
* * *
6346798 TATTAAGTTATCAATTATTAAC
1 TATTAATTTATC-ATTATTTAT
* *
6346820 TATTAAATTATCACTTGTTT-T
1 TATTAATTTATCA-TTATTTAT
*
6346841 CTATTAATGTATCATTGATTTA
1 -TATTAATTTATCATT-ATTTA
6346863 CTAATATGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
21 3 0.06
22 44 0.88
23 3 0.06
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTAATTTATCATTATTTAT
Found at i:6346818 original size:44 final size:44
Alignment explanation
Indices: 6346556--6346832 Score: 168
Period size: 44 Copynumber: 6.1 Consensus size: 44
6346546 TATTATCAAG
* * * ** * *
6346556 TTATCACTAATTTA-TATTAAATTATCCACAATTTATTATTAAA
1 TTATCATTAATTTACTATTAAGTTATCAATGATTAACTATTAAA
* * * *
6346599 TTATTATTAATTAACTATTAAGTTATCGATGATTTACTATTACTAA
1 TTATCATTAATTTACTATTAAGTTATCAATGATTAACTATTA--AA
* * *
6346645 GTTAT-ATTAATTTAATTTTAAGTT-TCTAATGATTAACTACTAAA
1 -TTATCATTAATTTACTATTAAGTTATC-AATGATTAACTATTAAA
** * *
6346689 TTATCATTGTTTTACTATTAAGTTTATCAATTAATT-ACTATTAATTTGT
1 TTATCATTAATTTACTATTAAG-TTATCAA-TGATTAACTATTAA----A
** ** * * *
6346738 TTACTCAAAAAAATACTATTAAATTA-AAACTGATTAACTATTAAT
1 TTA-TCATTAATTTACTATTAAGTTATCAA-TGATTAACTATTAAA
* *
6346783 TTATCATTAATTTATTATTAAGTTATCAATTATTAACTATTAAA
1 TTATCATTAATTTACTATTAAGTTATCAATGATTAACTATTAAA
6346827 TTATCA
1 TTATCA
6346833 CTTGTTTTCT
Statistics
Matches: 178, Mismatches: 40, Indels: 31
0.71 0.16 0.12
Matches are distributed among these distances:
43 15 0.08
44 72 0.40
45 19 0.11
46 36 0.20
47 4 0.02
48 6 0.03
49 14 0.08
50 12 0.07
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (44 bp):
TTATCATTAATTTACTATTAAGTTATCAATGATTAACTATTAAA
Found at i:6347170 original size:22 final size:22
Alignment explanation
Indices: 6347145--6347223 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
6347135 ATTATTATGC
*
6347145 TATCAATTATTTACTATTAAAT
1 TATCAATAATTTACTATTAAAT
*
6347167 TATCAATAATTTACTATTAAGT
1 TATCAATAATTTACTATTAAAT
** *
6347189 TATTGATAATTTATTA-TAAAT
1 TATCAATAATTTACTATTAAAT
6347210 T-TACAACTAATTTA
1 TAT-CAA-TAATTTA
6347224 TCGACGATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
20 1 0.02
21 6 0.13
22 40 0.85
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.48
Consensus pattern (22 bp):
TATCAATAATTTACTATTAAAT
Found at i:6347414 original size:22 final size:22
Alignment explanation
Indices: 6347389--6347653 Score: 102
Period size: 22 Copynumber: 12.2 Consensus size: 22
6347379 ATTTTTATAT
*
6347389 ATTTATTACTATATTATCATTG
1 ATTTATTACTAAATTATCATTG
** * * *
6347411 ATTTACGACTTAATTTTTGATT-
1 ATTTATTAC-TAAATTATCATTG
**
6347433 ATTTACGAC-AAATTATCATTG
1 ATTTATTACTAAATTATCATTG
*
6347454 ATTTATCACTAAATTATC-TATG
1 ATTTATTACTAAATTATCAT-TG
*
6347476 ATTTATTA-TCAAATTATTATTG
1 ATTTATTACT-AAATTATCATTG
* * *
6347498 ATTTA-TATTAAAATAAGCA-TG
1 ATTTATTACT-AAATTATCATTG
* * * * * *
6347519 CTCTACTATTAAGTTATTATTG
1 ATTTATTACTAAATTATCATTG
* * * *
6347541 A-TTAGCTATTAAATTATTGA-TA
1 ATTTA-TTACTAAATTA-TCATTG
* * *
6347563 ATTTACTATTAAATTAT-ACTG
1 ATTTATTACTAAATTATCATTG
* * *
6347584 ATTTACTT-TTAAATTTTCAATG
1 ATTTA-TTACTAAATTATCATTG
* * *
6347606 ATTAACTACTTAATTATCATT-
1 ATTTATTACTAAATTATCATTG
6347627 ATTTATTACTAAATTATCATTG
1 ATTTATTACTAAATTATCATTG
6347649 ATTTA
1 ATTTA
6347654 CACTGATTTA
Statistics
Matches: 185, Mismatches: 41, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
20 9 0.05
21 57 0.31
22 105 0.57
23 14 0.08
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (22 bp):
ATTTATTACTAAATTATCATTG
Found at i:6347480 original size:43 final size:45
Alignment explanation
Indices: 6347401--6347503 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 45
6347391 TTATTACTAT
* * *
6347401 ATTATCATTGATTTA-CGACTTAATTTTTGATTATTTACGA-CAA
1 ATTATCATTGATTTATCGACTAAATTTCTGATGATTTACGATCAA
**
6347444 ATTATCATTGATTTATC-ACTAAATTATCT-ATGATTTATTATCAA
1 ATTATCATTGATTTATCGACTAAATT-TCTGATGATTTACGATCAA
*
6347488 ATTATTATTGATTTAT
1 ATTATCATTGATTTAT
6347504 ATTAAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 30 0.59
44 21 0.41
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.50
Consensus pattern (45 bp):
ATTATCATTGATTTATCGACTAAATTTCTGATGATTTACGATCAA
Found at i:6347636 original size:21 final size:22
Alignment explanation
Indices: 6347563--6347653 Score: 71
Period size: 21 Copynumber: 4.2 Consensus size: 22
6347553 ATTATTGATA
* * *
6347563 ATTTACTATTAAATTAT-ACTG
1 ATTTATTACTAAATTATCATTG
* * *
6347584 ATTTACTT-TTAAATTTTCAATG
1 ATTTA-TTACTAAATTATCATTG
* * *
6347606 ATTAACTACTTAATTATCATT-
1 ATTTATTACTAAATTATCATTG
6347627 ATTTATTACTAAATTATCATTG
1 ATTTATTACTAAATTATCATTG
6347649 ATTTA
1 ATTTA
6347654 CACTGATTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 32 0.59
22 22 0.41
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTATTACTAAATTATCATTG
Found at i:6347719 original size:22 final size:22
Alignment explanation
Indices: 6347694--6347784 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 22
6347684 TTAAACTGAA
6347694 ACTAATTTACTAA-TAAATTATC
1 ACTAATTTA-TAACTAAATTATC
* * *
6347716 ACTAATTTATTATTAAGTTATC
1 ACTAATTTATAACTAAATTATC
* * * *
6347738 ATTAATTTATAATTAAGTTATT
1 ACTAATTTATAACTAAATTATC
* *
6347760 AATAATTAATAACTAAATTATC
1 ACTAATTTATAACTAAATTATC
6347782 ACT
1 ACT
6347785 TTTTTTTAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 2 0.04
22 55 0.96
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (22 bp):
ACTAATTTATAACTAAATTATC
Found at i:6347736 original size:11 final size:11
Alignment explanation
Indices: 6347722--6347760 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6347712 TATCACTAAT
6347722 TTATTATTAAG
1 TTATTATTAAG
* *
6347733 TTATCATTAAT
1 TTATTATTAAG
*
6347744 TTATAATTAAG
1 TTATTATTAAG
6347755 TTATTA
1 TTATTA
6347761 ATAATTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:6348710 original size:22 final size:22
Alignment explanation
Indices: 6348685--6348731 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6348675 AAAAAGATGA
6348685 TATATTTTTAATTATTACTTCT
1 TATATTTTTAATTATTACTTCT
* *
6348707 TATATTTTTAATTGTTGCTTCT
1 TATATTTTTAATTATTACTTCT
6348729 TAT
1 TAT
6348732 TACCATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (22 bp):
TATATTTTTAATTATTACTTCT
Found at i:6351700 original size:28 final size:30
Alignment explanation
Indices: 6351627--6351700 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 30
6351617 TTTTAACATT
6351627 TTTAAATTAAAATTTTAAATAATTTAATGTTA
1 TTTAAATT-AAATTTTAAAT-ATTTAATGTTA
** ** *
6351659 CATAAATTTTATTTTTAAT-TTTAAT-TTA
1 TTTAAATTAAATTTTAAATATTTAATGTTA
6351687 TTTAAATTAAATTT
1 TTTAAATTAAATTT
6351701 AACTTAATTA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
28 13 0.39
29 6 0.18
31 8 0.24
32 6 0.18
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
TTTAAATTAAATTTTAAATATTTAATGTTA
Found at i:6351711 original size:20 final size:20
Alignment explanation
Indices: 6351673--6351711 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6351663 AATTTTATTT
* * *
6351673 TTAATTTTAATTTATTTAAA
1 TTAAATTTAACTTAATTAAA
6351693 TTAAATTTAACTTAATTAA
1 TTAAATTTAACTTAATTAA
6351712 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAATTTAACTTAATTAAA
Found at i:6351737 original size:18 final size:20
Alignment explanation
Indices: 6351704--6351758 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
6351694 TAAATTTAAC
6351704 TTAA-TTAATAAA-AATTATA
1 TTAATTTAA-AAATAATTATA
*
6351723 -T-ATTTAAAAATAATTTTA
1 TTAATTTAAAAATAATTATA
6351741 TTAATTTAAAAATAATTA
1 TTAATTTAAAAATAATTA
6351759 AAAATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.13
18 11 0.37
19 1 0.03
20 14 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATTTAAAAATAATTATA
Found at i:6356509 original size:22 final size:22
Alignment explanation
Indices: 6356484--6356533 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6356474 CTACTCTTTG
6356484 TTCTTTCTTT-CTTATTTTGGTT
1 TTCTTT-TTTCCTTATTTTGGTT
* **
6356506 TTCTTTTTTCCTTTTTTTTTTT
1 TTCTTTTTTCCTTATTTTGGTT
6356528 TTCTTT
1 TTCTTT
6356534 GAGGTGTCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (22 bp):
TTCTTTTTTCCTTATTTTGGTT
Found at i:6357531 original size:2 final size:2
Alignment explanation
Indices: 6357524--6357554 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6357514 GTTGGAACTC
*
6357524 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6357555 CATACATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6357559 original size:10 final size:10
Alignment explanation
Indices: 6357524--6357563 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
6357514 GTTGGAACTC
*
6357524 ATATATATAT
1 ATATACATAT
*
6357534 ATATATATAT
1 ATATACATAT
6357544 ATATACATAT
1 ATATACATAT
*
6357554 ACATACATAT
1 ATATACATAT
6357564 CCATCTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATACATAT
Found at i:6358714 original size:2 final size:2
Alignment explanation
Indices: 6358663--6358696 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6358653 CAGTTATAGC
*
6358663 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6358697 GGGCTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6363855 original size:7 final size:7
Alignment explanation
Indices: 6363840--6363890 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
6363830 CCATTTGTAA
6363840 TTTTA-T
1 TTTTATT
6363846 TTTTATT
1 TTTTATT
6363853 TTTTATTT
1 TTTTA-TT
6363861 TTTTAAATT
1 TTTT--ATT
**
6363870 TTAAATT
1 TTTTATT
6363877 TTTTATT
1 TTTTATT
6363884 TTTTATT
1 TTTTATT
6363891 GCTATTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
6 5 0.14
7 21 0.57
8 6 0.16
9 4 0.11
10 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTATT
Found at i:6363928 original size:28 final size:27
Alignment explanation
Indices: 6363893--6364037 Score: 113
Period size: 28 Copynumber: 5.3 Consensus size: 27
6363883 TTTTTATTGC
6363893 TATTATTATTTATTAATATATAATTTTT
1 TATTATTATTTATTAATATAT-ATTTTT
* * **
6363921 TATTATTATTTATCTATTA-ACAAATTT
1 TATTATTATTTAT-TAATATATATTTTT
*
6363948 TATTATTTATCTGA-TAATATATATATTTT
1 TATTA-TTAT-TTATTAATATATAT-TTTT
* *
6363977 TATTATTATTTATCTATTCATATA-TTAT
1 TATTATTATTTAT-TAAT-ATATATTTTT
*
6364005 TA-T-TTATCTATTAATATATATTTTT
1 TATTATTATTTATTAATATATATTTTT
6364030 TATT-TTAT
1 TATTATTAT
6364038 CTTTTTTTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
24 5 0.05
25 8 0.09
26 12 0.13
27 16 0.17
28 29 0.32
29 17 0.18
30 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (27 bp):
TATTATTATTTATTAATATATATTTTT
Found at i:6363967 original size:56 final size:53
Alignment explanation
Indices: 6363893--6364037 Score: 197
Period size: 56 Copynumber: 2.7 Consensus size: 53
6363883 TTTTTATTGC
* *
6363893 TATTA-TTATTTATTAATATATAATTTTTTATTATTATTTATCTATTAACAAATTT
1 TATTATTTATCTATTAATATAT-ATTTTTTATTATTATTTATCTATT--CAAATAT
*
6363948 TATTATTTATCTGA-TAATATATATATTTTTATTATTATTTATCTATTCATATAT
1 TATTATTTATCT-ATTAATATATAT-TTTTTATTATTATTTATCTATTCAAATAT
6364002 TATTATTTATCTATTAATATATATTTTTTATT-TTAT
1 TATTATTTATCTATTAATATATATTTTTTATTATTAT
6364038 CTTTTTTTTT
Statistics
Matches: 83, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
52 4 0.05
53 9 0.11
54 27 0.33
55 7 0.08
56 35 0.42
57 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (53 bp):
TATTATTTATCTATTAATATATATTTTTTATTATTATTTATCTATTCAAATAT
Found at i:6363988 original size:32 final size:32
Alignment explanation
Indices: 6363947--6364017 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
6363937 TTAACAAATT
6363947 TTATTATTTATCTGA-TAATATATATATT-TTTA
1 TTATTATTTATCT-ATTAATATAT-TATTATTTA
*
6363979 TTATTATTTATCTATTCATATATTATTATTTA
1 TTATTATTTATCTATTAATATATTATTATTTA
6364011 TCTATTA
1 T-TATTA
6364018 ATATATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 5 0.14
32 25 0.71
33 5 0.14
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (32 bp):
TTATTATTTATCTATTAATATATTATTATTTA
Found at i:6364002 original size:22 final size:22
Alignment explanation
Indices: 6363977--6364032 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
6363967 TATATATTTT
*
6363977 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTAATA
6363999 TATTATTATTTATCTATTAATA
1 TATTATTATTTATCTATTAATA
*
6364021 TA-TATTTTTTAT
1 TATTATTATTTAT
6364033 TTTATCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTATTTATCTATTAATA
Done.