Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 35 of 113
Found at i:10469477 original size:16 final size:16
Alignment explanation
Indices: 10469445--10469487 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
10469435 AACCCTAAAT
*
10469445 TAAACCCTAAACCTTC
1 TAAACCTTAAACCTTC
*
10469461 TAAACCTTAAACTTTC
1 TAAACCTTAAACCTTC
*
10469477 TGAACCTTAAA
1 TAAACCTTAAA
10469488 AATGAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (16 bp):
TAAACCTTAAACCTTC
Found at i:10469662 original size:29 final size:29
Alignment explanation
Indices: 10469627--10469795 Score: 157
Period size: 29 Copynumber: 5.8 Consensus size: 29
10469617 CCCAACCTTC
*
10469627 AAACCTTAAAATTAAACCCTAAATCCTCT
1 AAACCTTAAAATCAAACCCTAAATCCTCT
* *
10469656 AAACCTTAAAATCAAAACTTCAAA-CCT-T
1 AAACCTTAAAATCAAACCCT-AAATCCTCT
* * *
10469684 AAACCCTAAAATCAAATCCCTAAAACATC-
1 AAACCTTAAAATCAAA-CCCTAAATCCTCT
*
10469713 AAAACTTAAAATCAAAACCCTAAATCCTCT
1 AAACCTTAAAATC-AAACCCTAAATCCTCT
* * *
10469743 AAACTTTAAAATTGAAACCTTAAATCCT-T
1 AAACCTTAAAA-TCAAACCCTAAATCCTCT
* *
10469772 CAAACCCTAAAACCAAACCCTAAA
1 -AAACCTTAAAATCAAACCCTAAA
10469796 AACTAAAACC
Statistics
Matches: 112, Mismatches: 20, Indels: 16
0.76 0.14 0.11
Matches are distributed among these distances:
28 19 0.17
29 55 0.49
30 37 0.33
31 1 0.01
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (29 bp):
AAACCTTAAAATCAAACCCTAAATCCTCT
Found at i:10469704 original size:14 final size:13
Alignment explanation
Indices: 10469625--10469736 Score: 53
Period size: 13 Copynumber: 7.9 Consensus size: 13
10469615 ACCCCAACCT
*
10469625 TCAAACCTTAAAA
1 TCAAACCCTAAAA
* *
10469638 TTAAACCCTAAATCC
1 TCAAACCCTAAA--A
*
10469653 TCTAAACCTTAAAA
1 TC-AAACCCTAAAA
* * *
10469667 TCAAAACTTCAAACC
1 TCAAACCCT-AAA-A
*
10469682 TTAAACCCTAAAA
1 TCAAACCCTAAAA
10469695 TCAAATCCCTAAAACA
1 TCAAA-CCCT-AAA-A
* *
10469711 TCAAAACTTAAAA
1 TCAAACCCTAAAA
10469724 TCAAAACCCTAAA
1 TC-AAACCCTAAA
10469737 TCCTCTAAAC
Statistics
Matches: 73, Mismatches: 17, Indels: 17
0.68 0.16 0.16
Matches are distributed among these distances:
13 23 0.32
14 23 0.32
15 12 0.16
16 15 0.21
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (13 bp):
TCAAACCCTAAAA
Found at i:10469738 original size:13 final size:14
Alignment explanation
Indices: 10469684--10469736 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
10469674 TTCAAACCTT
10469684 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
10469698 AATCCCTAAAACATCA
1 AAACCCT-AAA-ATCA
*
10469714 AAA-CTTAAAATCA
1 AAACCCTAAAATCA
10469727 AAACCCTAAA
1 AAACCCTAAA
10469737 TCCTCTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.22
14 14 0.44
15 5 0.16
16 6 0.19
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:10469839 original size:14 final size:14
Alignment explanation
Indices: 10469773--10469841 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 14
10469763 TAAATCCTTC
*
10469773 AAACCCTAAAA-CC
1 AAACCCTAAAATCA
*
10469786 AAACCCTAAAAACTA
1 AAACCCTAAAATC-A
* *
10469801 AAACCCCAAACCTCA
1 AAACCCTAAA-ATCA
* *
10469816 AATCCC-AAAATTA
1 AAACCCTAAAATCA
10469829 AAACCCTAAAATC
1 AAACCCTAAAATC
10469842 CTAAACACTA
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
13 18 0.42
14 9 0.21
15 15 0.35
16 1 0.02
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:10469840 original size:22 final size:23
Alignment explanation
Indices: 10469815--10469857 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10469805 CCCAAACCTC
*
10469815 AAATCCCAAA-ATTAAAACCCTA
1 AAATCCCAAACACTAAAACCCTA
*
10469837 AAATCCTAAACACTAAAACCC
1 AAATCCCAAACACTAAAACCC
10469858 CAAACCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.16
Consensus pattern (23 bp):
AAATCCCAAACACTAAAACCCTA
Found at i:10469904 original size:7 final size:7
Alignment explanation
Indices: 10469892--10469940 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
10469882 AAAACCCCAT
10469892 AAAATCC
1 AAAATCC
10469899 AAAATCC
1 AAAATCC
10469906 AAAATCC
1 AAAATCC
*
10469913 TCAAATCC
1 -AAAATCC
10469921 AAAA-CC
1 AAAATCC
10469927 TAAAAATCC
1 --AAAATCC
10469936 AAAAT
1 AAAAT
10469941 TCTAAAAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 2 0.06
7 22 0.61
8 10 0.28
9 2 0.06
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAATCC
Found at i:10469920 original size:15 final size:16
Alignment explanation
Indices: 10469899--10469956 Score: 75
Period size: 15 Copynumber: 3.8 Consensus size: 16
10469889 CATAAAATCC
10469899 AAAATCCAAAATCCT-
1 AAAATCCAAAATCCTA
*
10469914 CAAATCCAAAA-CCTA
1 AAAATCCAAAATCCTA
*
10469929 AAAATCCAAAATTCTA
1 AAAATCCAAAATCCTA
*
10469945 AAAACCCAAAAT
1 AAAATCCAAAAT
10469957 TTGGTATGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 3 0.08
15 20 0.54
16 14 0.38
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATCCAAAATCCTA
Found at i:10469947 original size:16 final size:16
Alignment explanation
Indices: 10469863--10469957 Score: 70
Period size: 16 Copynumber: 6.0 Consensus size: 16
10469853 AACCCCAAAC
* *
10469863 CTAAAAATCTAAATTT
1 CTAAAAATCCAAAATT
* *
10469879 CTAAAAACCCCATAAAAT
1 CTAAAAA-TCCA-AAATT
* *
10469897 C-CAAAATCCAAAATC
1 CTAAAAATCCAAAATT
* *
10469912 CT-CAAATCCAAAA-C
1 CTAAAAATCCAAAATT
10469926 CTAAAAATCCAAAATT
1 CTAAAAATCCAAAATT
*
10469942 CTAAAAACCCAAAATT
1 CTAAAAATCCAAAATT
10469958 TGGTATGCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
14 3 0.05
15 24 0.39
16 25 0.40
17 6 0.10
18 4 0.06
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (16 bp):
CTAAAAATCCAAAATT
Found at i:10476529 original size:17 final size:16
Alignment explanation
Indices: 10476507--10476545 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
10476497 AGGCATCACA
10476507 AAAAAAAAATAAAAAAC
1 AAAAAAAAA-AAAAAAC
*
10476524 AAAAAAAAACAAAAAC
1 AAAAAAAAAAAAAAAC
10476540 AAAAAA
1 AAAAAA
10476546 GGTAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:10478298 original size:22 final size:22
Alignment explanation
Indices: 10478273--10478314 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10478263 TGACATTTTA
*
10478273 AAGACTTTCAGGTATAATTTCT
1 AAGACCTTCAGGTATAATTTCT
*
10478295 AAGACCTTCGGGTATAATTT
1 AAGACCTTCAGGTATAATTT
10478315 TGATTCGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (22 bp):
AAGACCTTCAGGTATAATTTCT
Found at i:10478476 original size:110 final size:110
Alignment explanation
Indices: 10478308--10478534 Score: 300
Period size: 110 Copynumber: 2.1 Consensus size: 110
10478298 ACCTTCGGGT
* * *
10478308 ATAATTTTGATTCGCAGTGTTATCTCGATCGATTTCTCATTTTTTGACGTACGATGTTATCTCAA
1 ATAATTTTGATTCACAGTGTTATCCCGATCGATTTCTCATTTTTTGACATACGATGTTATCTCAA
* *
10478373 TCGATTCTGTAAGACCTCC-AGGCATGATTTTTTAGA-TCTCTAAGC
66 TCGATTCTGTAAGACCTCCGA-GCATGATTTTTAAGACT-TCCAAGC
* *
10478418 ATAATTTTGATTCAC-GATGTTATCCCGATCGA-TTCTTTATTTTTTGACATACGGTGTTATCTC
1 ATAATTTTGATTCACAG-TGTTATCCCGATCGATTTC-TCATTTTTTGACATACGATGTTATCTC
* * *
10478481 AGTTGATTTTGTAAGACCTCCGAGCATGATTTTTAAGACTTCCAAGC
64 AATCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACTTCCAAGC
10478528 ATAATTT
1 ATAATTT
10478535 CTAAGACCTT
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
109 4 0.04
110 97 0.94
111 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (110 bp):
ATAATTTTGATTCACAGTGTTATCCCGATCGATTTCTCATTTTTTGACATACGATGTTATCTCAA
TCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACTTCCAAGC
Found at i:10478528 original size:22 final size:22
Alignment explanation
Indices: 10478484--10478543 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
10478474 TTATCTCAGT
*
10478484 TGATTTTGTAAGACCTCCGAGCA
1 TGATTTT-TAAGACCTCCAAGCA
*
10478507 TGATTTTTAAGACTTCCAAGCA
1 TGATTTTTAAGACCTCCAAGCA
* *
10478529 TAATTTCTAAGACCT
1 TGATTTTTAAGACCT
10478544 TCGAGTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
TGATTTTTAAGACCTCCAAGCA
Found at i:10478553 original size:22 final size:22
Alignment explanation
Indices: 10478492--10478557 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
10478482 GTTGATTTTG
* * *
10478492 TAAGACCTCCGAGCATGATTTT
1 TAAGACCTTCGAGCATAATTTC
*
10478514 TAAGA-CTTCCAAGCATAATTTC
1 TAAGACCTT-CGAGCATAATTTC
*
10478536 TAAGACCTTCGAGTATAATTTC
1 TAAGACCTTCGAGCATAATTTC
10478558 GATTCACGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.86
23 3 0.08
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGAGCATAATTTC
Found at i:10478580 original size:132 final size:130
Alignment explanation
Indices: 10478418--10478664 Score: 345
Period size: 132 Copynumber: 1.9 Consensus size: 130
10478408 ATCTCTAAGC
* *
10478418 ATAATTTTGATTCACGATGTTATCCCGATCGA-TTCTTTATTTTTTGACATACGGTGTTATCTCA
1 ATAATTTCGATTCACGATGTTATCCCGATCGATTTC-TTATTTTTCGACATACGGTGTT-T-TCA
* * *
10478482 GTTGATTTTGTAAGACCTCCGAGCATGATTTTTAAGA-CTTCCAAGCATAATTTCTAAGACCTTC
63 GTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAAACCTT-CAAGCATAATTTCTAAGACCTTC
10478546 GAGT
127 GAGT
* * **
10478550 ATAATTTCGATTCACGGTGTTATCCCGATCGATTTCTTATTTTTCGACTTGTGGTGTTTTCAGTC
1 ATAATTTCGATTCACGATGTTATCCCGATCGATTTCTTATTTTTCGACATACGGTGTTTTCAGTC
* *
10478615 GATTCTGTAAGACCTCCGGGCATGATTTTTAAAACCTTCAGGCATAATTT
66 GATTCTGTAAGACCTCCGAGCATGATTTTTAAAACCTTCAAGCATAATTT
10478665 TGATTCGCGA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
130 47 0.46
131 4 0.04
132 48 0.47
133 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (130 bp):
ATAATTTCGATTCACGATGTTATCCCGATCGATTTCTTATTTTTCGACATACGGTGTTTTCAGTC
GATTCTGTAAGACCTCCGAGCATGATTTTTAAAACCTTCAAGCATAATTTCTAAGACCTTCGAGT
Found at i:10478699 original size:240 final size:242
Alignment explanation
Indices: 10478267--10478740 Score: 639
Period size: 240 Copynumber: 2.0 Consensus size: 242
10478257 TGGCATTGAC
* * * * * *
10478267 ATTTTAAAGACTTTCAGGTATAATTTCTAAGACCTTCGGGTATAATTTTGATTCGCAGTGTTATC
1 ATTTTAAAGACTTCCAAGCATAATTTCTAAGACCTTCGAGTATAATTTCGATTCACAGTGTTATC
* *
10478332 TCGATCGATTTCTCATTTTTTGACGTACGATGTTATCTCAATCGATTCTGTAAGACCTCCAGGCA
66 CCGATCGATTTCTCATTTTTCGACGTACGATGTTATCTCAATCGATTCTGTAAGACCTCCAGGCA
* * * * *
10478397 TGATTTTTTAGATCTCTAAGCATAATTTTGATTCACGATGTTATCCCGATCGATTCTTTATTTTT
131 TGATTTTTAAAACCTCTAAGCATAATTTTGATTCACGACGTTATCCCAATCGATTCTTTATTTTT
* *
10478462 TGACATACGGTGTTATCTCAGTTGATTTTGTAAGACCTCCGAGCATG
196 TGACATACGGTGTTATCCCAGTTGATTCTGTAAGACCTCCGAGCATG
* *
10478509 ATTTTTAAGACTTCCAAGCATAATTTCTAAGACCTTCGAGTATAATTTCGATTCACGGTGTTATC
1 ATTTTAAAGACTTCCAAGCATAATTTCTAAGACCTTCGAGTATAATTTCGATTCACAGTGTTATC
* * ** * * *
10478574 CCGATCGATTTCTTATTTTTCGACTTGTGGTGTT-T-TCAGTCGATTCTGTAAGACCTCCGGGCA
66 CCGATCGATTTCTCATTTTTCGACGTACGATGTTATCTCAATCGATTCTGTAAGACCTCCAGGCA
* * ** *
10478637 TGATTTTTAAAACCT-TCAGGCATAATTTTGATTCGCGACGTTATCCCAATCTTTTTTTTATTTT
131 TGATTTTTAAAACCTCT-AAGCATAATTTTGATTCACGACGTTATCCCAATCGATTCTTTATTTT
* *
10478701 TTGACTTGCGGTGTTATCCCAGTTGATTCTGTAAGACCTC
195 TTGACATACGGTGTTATCCCAGTTGATTCTGTAAGACCTC
10478741 TGGGCATCAT
Statistics
Matches: 200, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
239 1 0.00
240 114 0.57
241 1 0.00
242 84 0.42
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (242 bp):
ATTTTAAAGACTTCCAAGCATAATTTCTAAGACCTTCGAGTATAATTTCGATTCACAGTGTTATC
CCGATCGATTTCTCATTTTTCGACGTACGATGTTATCTCAATCGATTCTGTAAGACCTCCAGGCA
TGATTTTTAAAACCTCTAAGCATAATTTTGATTCACGACGTTATCCCAATCGATTCTTTATTTTT
TGACATACGGTGTTATCCCAGTTGATTCTGTAAGACCTCCGAGCATG
Found at i:10478707 original size:108 final size:110
Alignment explanation
Indices: 10478550--10478753 Score: 268
Period size: 108 Copynumber: 1.9 Consensus size: 110
10478540 ACCTTCGAGT
** * * *
10478550 ATAATTTCGATTCACGGTGTTATCCCGATCGATTTCTTATTTTTCGACTTGTGGTGTT-T-TCAG
1 ATAATTTCGATTCACGACGTTATCCCAATCGATTTCTTATTTTTCGACTTGCGGTGTTATCCCAG
*
10478613 TCGATTCTGTAAGACCTCCGGGCATGATTTTTAAAACCTTCAGGC
66 TCGATTCTGTAAGACCTCCGGGCATCATTTTTAAAACCTTCAGGC
* * ** * *
10478658 ATAATTTTGATTCGCGACGTTATCCCAATCTTTTTTTTATTTTTTGACTTGCGGTGTTATCCCAG
1 ATAATTTCGATTCACGACGTTATCCCAATCGATTTCTTATTTTTCGACTTGCGGTGTTATCCCAG
* *
10478723 TTGATTCTGTAAGACCTCTGGGCATCATTTT
66 TCGATTCTGTAAGACCTCCGGGCATCATTTT
10478754 GATTTACGGT
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
108 48 0.60
109 1 0.01
110 31 0.39
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (110 bp):
ATAATTTCGATTCACGACGTTATCCCAATCGATTTCTTATTTTTCGACTTGCGGTGTTATCCCAG
TCGATTCTGTAAGACCTCCGGGCATCATTTTTAAAACCTTCAGGC
Found at i:10479045 original size:329 final size:328
Alignment explanation
Indices: 10478410--10479082 Score: 927
Period size: 329 Copynumber: 2.0 Consensus size: 328
10478400 TTTTTTAGAT
* * *
10478410 CTCTAAGCATAATTTTGATTCACGATGTTATCCCGATCGATTCTTTATTTTTTGACATACGGTGT
1 CTCTGAGCATAATTTTGATTCACGATGTTATCCCAATCGATTCTTTATTTTTTAACATACGGTGT
* * * * * *
10478475 TATCTCAGTTGATTTTGTAAGACCTCCGAGCATGATTTTTAAGACTTCCAAGCATAATTTCTAAG
66 TATCTCAGTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACCTCCAAGCACAATTTATAAA
* *
10478540 ACCTTCGAGTATAATTTCGATTCACGGTGTTATCCCGATCGATTTCTTATTTTTCGACTTGTGGT
131 ACCTTCGAGCATAATTTCGATTCACGGTGTTATCCCGATCGATTTCTTATTTTTCGACTTGCGGT
* * * * * *
10478605 GTTTTCAGTCGATTCTGTAAGACCTCCGGGCATGATTTTTAAAACCTTCAGGCATAATTTTGATT
196 GTTTCCAATCAATTCTGTAAGACCTCCAGGCATGATTTTTAAAACATTCAGGCATAATTTCGATT
** * *
10478670 CGCGACGTTATCCCAATCTTTTTTTTATTTTTTGACTTGCGGTGTTATCCCAGTTGATTCTGTAA
261 CGCGACGTTATCCCAATCGATTTGTTATTTTTTGACTTGCGGTGTTATCCCAGTTGATTCTATAA
10478735 GAC
326 GAC
* * * * * * * *
10478738 CTCTGGGCATCATTTTGATTTACGGTGTTATCTCAATTGATTTTTTATTTTTTAACTTACGGTGT
1 CTCTGAGCATAATTTTGATTCACGATGTTATCCCAATCGATTCTTTATTTTTTAACATACGGTGT
*
10478803 TATCTCAGTCGATTCTGTAAGACCTCC-AGACATGATTTTTAAGACCTCTAAGCACAATTTATAA
66 TATCTCAGTCGATTCTGTAAGACCTCCGAG-CATGATTTTTAAGACCTCCAAGCACAATTTATAA
** * * *
10478867 AACCTTCGA-CATAATTTCGATTCGTGGTGTTATCCCGATTGATTTTTTATTTTTTGACTTGCGG
130 AACCTTCGAGCATAATTTCGATTCACGGTGTTATCCCGATCGATTTCTTATTTTTCGACTTGCGG
* *
10478931 TGTTATCCCAATCAATTCTGTAAGACCTCCAGGCATGATTTTTAAGACATTCGGGCATAATTTCG
195 TGTT-T-CCAATCAATTCTGTAAGACCTCCAGGCATGATTTTTAAAACATTCAGGCATAATTTCG
* * * *
10478996 ATTCGCGATGTTATCCTAATCGATTTGTTATTTTTTGACTTGTGGTGTTATCCTAGTTGATTCTA
258 ATTCGCGACGTTATCCCAATCGATTTGTTATTTTTTGACTTGCGGTGTTATCCCAGTTGATTCTA
10479061 TAAGAC
323 TAAGAC
*
10479067 CTCTGAGCATGATTTT
1 CTCTGAGCATAATTTT
10479083 AAAGACCTCC
Statistics
Matches: 299, Mismatches: 43, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
327 54 0.18
328 118 0.39
329 127 0.42
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (328 bp):
CTCTGAGCATAATTTTGATTCACGATGTTATCCCAATCGATTCTTTATTTTTTAACATACGGTGT
TATCTCAGTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACCTCCAAGCACAATTTATAAA
ACCTTCGAGCATAATTTCGATTCACGGTGTTATCCCGATCGATTTCTTATTTTTCGACTTGCGGT
GTTTCCAATCAATTCTGTAAGACCTCCAGGCATGATTTTTAAAACATTCAGGCATAATTTCGATT
CGCGACGTTATCCCAATCGATTTGTTATTTTTTGACTTGCGGTGTTATCCCAGTTGATTCTATAA
GAC
Found at i:10479101 original size:110 final size:110
Alignment explanation
Indices: 10478842--10479104 Score: 305
Period size: 110 Copynumber: 2.4 Consensus size: 110
10478832 ACATGATTTT
** * * *
10478842 TAAGACCTCTAAGCACAATTTATAAA-ACCTTC-GACATAATTTCGATTCGTGGTGTTATCCCGA
1 TAAGACCTCTAAGCATGATTT-TAAAGACCTTCGGACATAATTTCGATTCGCGATGTTATCCCAA
* * *
10478905 TTGATTTTTTATTTTTTGACTTGCGGTGTTATCCCAATCAATTCTG
65 TCGATTTGTTATTTTTTGACTTGCGGTGTTATCCCAATCAATTCTA
* * * * * *
10478951 TAAGACCTCCAGGCATGATTTTTAAGACATTCGGGCATAATTTCGATTCGCGATGTTATCCTAAT
1 TAAGACCTCTAAGCATGATTTTAAAGACCTTCGGACATAATTTCGATTCGCGATGTTATCCCAAT
* * * **
10479016 CGATTTGTTATTTTTTGACTTGTGGTGTTATCCTAGTTGATTCTA
66 CGATTTGTTATTTTTTGACTTGCGGTGTTATCCCAATCAATTCTA
* * *
10479061 TAAGACCTCTGAGCATGATTTTAAAGACCTCCGGATATAATTTC
1 TAAGACCTCTAAGCATGATTTTAAAGACCTTCGGACATAATTTC
10479105 TAAGATCTCC
Statistics
Matches: 125, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
108 3 0.02
109 22 0.18
110 100 0.80
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (110 bp):
TAAGACCTCTAAGCATGATTTTAAAGACCTTCGGACATAATTTCGATTCGCGATGTTATCCCAAT
CGATTTGTTATTTTTTGACTTGCGGTGTTATCCCAATCAATTCTA
Found at i:10479189 original size:132 final size:132
Alignment explanation
Indices: 10478985--10479224 Score: 324
Period size: 132 Copynumber: 1.8 Consensus size: 132
10478975 AGACATTCGG
** * * * * * **
10478985 GCATAATTTCGATTCGCGATGTTATCCTAATCGATTTGTTATTTTTTGACTTGTGGTGTTATCCT
1 GCATAATTTCGATTCGCGACATTAACCCAATCGATTTCTCATTTTCTGACTTACGGTGTTATCCT
*
10479050 AGTTGATTCTATAAGACCTCT-GAGCATGA-TTTTAAAGACCTCCGGATATAATTTCTAAGATCT
66 AGTTGATTCTATAAGACCTCTGGA-CATAATTTTTAAA-ACCTCCGGATATAATTTCTAAGATCT
10479113 CCGA
129 CCGA
* *
10479117 GCATAATTTTGATTCGCGACATTAACCCGATCGATTTCTCATTTTCTGACTTACGGTGTTATTCC
1 GCATAATTTCGATTCGCGACATTAACCCAATCGATTTCTCATTTTCTGACTTACGGTGTTA-TCC
10479182 -AGTTGATTCTATAAGACCTCTGGACATAATTTTTAAAACCTCC
65 TAGTTGATTCTATAAGACCTCTGGACATAATTTTTAAAACCTCC
10479225 TGGCATAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
132 81 0.87
133 12 0.13
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (132 bp):
GCATAATTTCGATTCGCGACATTAACCCAATCGATTTCTCATTTTCTGACTTACGGTGTTATCCT
AGTTGATTCTATAAGACCTCTGGACATAATTTTTAAAACCTCCGGATATAATTTCTAAGATCTCC
GA
Found at i:10479242 original size:242 final size:242
Alignment explanation
Indices: 10478763--10479365 Score: 575
Period size: 242 Copynumber: 2.5 Consensus size: 242
10478753 TGATTTACGG
* * ** * * * * *
10478763 TGTTATCTCAATTGATTTTTTATTTTTTAACTTACGGTGTTATCTCAGTCGATTCTGTAAGACCT
1 TGTTATCCCAATCGATTCCTTATTTTTCAACTTGCGATGTTATCCCAGTCGATTCTATAAGACCT
** * * *** * * * * * * * *
10478828 CCAGACATGATTTTTAAGACCTCTAAGCACAATTTATAAAACCTTCGA-CATAATTTCGATTCGT
66 ATAGGCATGATTTTAAAGACCTCCGCGTATAATTTCTAAGACCTCCAAGCATAATTTTGATTCGC
*** * * * * * * *
10478892 GGTGTTATCCCGATTGATTTTTTATTTTTTGACTTGCGGTGTTATCCCAATCAATTCTGTAAGAC
131 GACATTAACCCGATCGATTTCTCATTTTCTGACTTACGGTGTTATCCCAATCAATTCTATAAGAC
* * *
10478957 CTCCAGGCATGATTTTTAAGACATTCGGGCATAATTTCGATTCGCGA
196 CTCCAGGCATAATTTTTAAAACATCCGGGCATAATTTCGATTCGCGA
* ** ** * * * *
10479004 TGTTATCCTAATCGATTTGTTATTTTTTGACTTGTGGTGTTATCCTAGTTGATTCTATAAGACCT
1 TGTTATCCCAATCGATTCCTTATTTTTCAACTTGCGATGTTATCCCAGTCGATTCTATAAGACCT
* * *
10479069 CT-GAGCATGATTTTAAAGACCTCCG-GATATAATTTCTAAGATCTCCGAGCATAATTTTGATTC
66 ATAG-GCATGATTTTAAAGACCTCCGCG-TATAATTTCTAAGACCTCCAAGCATAATTTTGATTC
* * **
10479132 GCGACATTAACCCGATCGATTTCTCATTTTCTGACTTACGGTGTTATTCCAGTTGATTCTATAAG
129 GCGACATTAACCCGATCGATTTCTCATTTTCTGACTTACGGTGTTATCCCAATCAATTCTATAAG
* * * *
10479197 ACCT-CTGGACATAATTTTTAAAACCTCCTGGCATAATTTCGATTCGCGG
194 ACCTCCAGG-CATAATTTTTAAAACATCCGGGCATAATTTCGATTCGCGA
* * *
10479246 TGTTATCCCGATCGATTCCTTATTTTTCAACTTGCGATGTTATCCCAGTCGATTTTGTAAGACCT
1 TGTTATCCCAATCGATTCCTTATTTTTCAACTTGCGATGTTATCCCAGTCGATTCTATAAGACCT
* * * *
10479311 ATAGGCATGATTTTTAAGACCTTCGCGTATGATTTCTAAGACCTTCAAGCATAAT
66 ATAGGCATGATTTTAAAGACCTCCGCGTATAATTTCTAAGACCTCCAAGCATAAT
10479366 CTTTAAGACC
Statistics
Matches: 292, Mismatches: 64, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
240 2 0.01
241 90 0.31
242 198 0.68
243 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (242 bp):
TGTTATCCCAATCGATTCCTTATTTTTCAACTTGCGATGTTATCCCAGTCGATTCTATAAGACCT
ATAGGCATGATTTTAAAGACCTCCGCGTATAATTTCTAAGACCTCCAAGCATAATTTTGATTCGC
GACATTAACCCGATCGATTTCTCATTTTCTGACTTACGGTGTTATCCCAATCAATTCTATAAGAC
CTCCAGGCATAATTTTTAAAACATCCGGGCATAATTTCGATTCGCGA
Found at i:10479287 original size:110 final size:110
Alignment explanation
Indices: 10479076--10479332 Score: 270
Period size: 110 Copynumber: 2.3 Consensus size: 110
10479066 CCTCTGAGCA
* * * * *
10479076 TGATTTTA-AAGACCTCCGGATATAATTTCTAAGATCTCCGAGCATAATTTTGATTCGCGACATT
1 TGATTTTATAAGACCTCTGGACATAATTTTTAAGACCTCCGAGCATAATTTCGATTCGCGACATT
* * * *
10479140 AACCCGATCGATTTCTCATTTTCTGACTTACGGTGTTATTCCAGT
66 AACCCGATCGATTCCTCATTTTCTAACTTACGATGTTATCCCAGT
* * ***
10479185 TGATTCTATAAGACCTCTGGACATAATTTTTAAAACCTCCTG-GCATAATTTCGATTCGCGGTGT
1 TGATTTTATAAGACCTCTGGACATAATTTTTAAGACCTCC-GAGCATAATTTCGATTCGCGACAT
* * *
10479249 TATCCCGATCGATTCCTTATTTT-TCAACTTGCGATGTTATCCCAGT
65 TAACCCGATCGATTCCTCATTTTCT-AACTTACGATGTTATCCCAGT
* * * *
10479295 CGATTTTGTAAGACCTATAGG-CATGATTTTTAAGACCT
1 TGATTTTATAAGACCTCT-GGACATAATTTTTAAGACCT
10479333 TCGCGTATGA
Statistics
Matches: 121, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
109 8 0.07
110 110 0.91
111 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (110 bp):
TGATTTTATAAGACCTCTGGACATAATTTTTAAGACCTCCGAGCATAATTTCGATTCGCGACATT
AACCCGATCGATTCCTCATTTTCTAACTTACGATGTTATCCCAGT
Found at i:10479330 original size:22 final size:21
Alignment explanation
Indices: 10479296--10479376 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
10479286 TATCCCAGTC
10479296 GATTTTGTAAGACCTATAGGCAT
1 GATTTT-TAAGACCT-TAGGCAT
* *
10479319 GATTTTTAAGACCTTCGCGTAT
1 GATTTTTAAGACCTTAG-GCAT
* *
10479341 GATTTCTAAGACCTTCAAGCAT
1 GATTTTTAAGACCTT-AGGCAT
* *
10479363 AATCTTTAAGACCT
1 GATTTTTAAGACCT
10479377 ACAGGTGTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.04
22 39 0.83
23 6 0.13
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (21 bp):
GATTTTTAAGACCTTAGGCAT
Found at i:10479629 original size:3 final size:3
Alignment explanation
Indices: 10479623--10479647 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10479613 ATTATTAACT
10479623 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
10479648 ATATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10480872 original size:20 final size:20
Alignment explanation
Indices: 10480849--10480896 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
10480839 TAAAAATGCT
*
10480849 TAAAATAATAATAATAATAA
1 TAAAATAAAAATAATAATAA
* *
10480869 TAAATTAAAAATTATAAT-A
1 TAAAATAAAAATAATAATAA
10480888 -AAAATAAAA
1 TAAAATAAAA
10480897 TATATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 8 0.33
19 1 0.04
20 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAATAAAAATAATAATAA
Found at i:10481230 original size:16 final size:16
Alignment explanation
Indices: 10481209--10481263 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
10481199 ATTCCCAAAT
10481209 TAAACCCTAAACATAC
1 TAAACCCTAAACATAC
10481225 TAAACCCT-AA-AT--
1 TAAACCCTAAACATAC
10481237 TAAACCCTAAACATAC
1 TAAACCCTAAACATAC
10481253 TAAACCCTAAA
1 TAAACCCTAAA
10481264 TTAAACCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.23
13 2 0.06
14 4 0.11
15 2 0.06
16 19 0.54
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAACCCTAAACATAC
Found at i:10481237 original size:28 final size:28
Alignment explanation
Indices: 10481205--10481299 Score: 136
Period size: 28 Copynumber: 3.4 Consensus size: 28
10481195 AAAAATTCCC
10481205 AAATTAAACCCTAAACATACTAAACCCT
1 AAATTAAACCCTAAACATACTAAACCCT
10481233 AAATTAAACCCTAAACATACTAAACCCT
1 AAATTAAACCCTAAACATACTAAACCCT
* * * * *
10481261 AAATTAAACCATAAACCTTCTGAACTCT
1 AAATTAAACCCTAAACATACTAAACCCT
10481289 AAAATTAAACC
1 -AAATTAAACC
10481300 TCAAACCTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 51 0.84
29 10 0.16
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.23
Consensus pattern (28 bp):
AAATTAAACCCTAAACATACTAAACCCT
Found at i:10481242 original size:12 final size:12
Alignment explanation
Indices: 10481205--10481275 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
10481195 AAAAATTCCC
10481205 AAATTAAACCCT
1 AAATTAAACCCT
10481217 AAACATACTAAACCCT
1 -AA-AT--TAAACCCT
10481233 AAATTAAACCCT
1 AAATTAAACCCT
10481245 AAACATACTAAACCCT
1 -AA-AT--TAAACCCT
*
10481261 AAATTAAACCAT
1 AAATTAAACCCT
10481273 AAA
1 AAA
10481276 CCTTCTGAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
12 18 0.36
13 4 0.08
14 8 0.16
15 4 0.08
16 16 0.32
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATTAAACCCT
Found at i:10481314 original size:28 final size:29
Alignment explanation
Indices: 10481205--10481319 Score: 85
Period size: 28 Copynumber: 4.1 Consensus size: 29
10481195 AAAAATTCCC
* * * * *
10481205 AAATTAAACCCTAAACATACTAAACCCT-
1 AAATTAAACCATAAACCTTCCAAACTCTA
* * * * *
10481233 AAATTAAACCCTAAACATACTAAACCCT-
1 AAATTAAACCATAAACCTTCCAAACTCTA
**
10481261 AAATTAAACCATAAACCTTCTGAACTCTA
1 AAATTAAACCATAAACCTTCCAAACTCTA
10481290 AAATTAAACC-TCAAACC-TCCAAACTCTA
1 AAATTAAACCAT-AAACCTTCCAAACTCTA
10481318 AA
1 AA
10481320 CACTCTAAAC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
28 63 0.81
29 15 0.19
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.23
Consensus pattern (29 bp):
AAATTAAACCATAAACCTTCCAAACTCTA
Found at i:10481341 original size:28 final size:29
Alignment explanation
Indices: 10481310--10481386 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 29
10481300 TCAAACCTCC
* *
10481310 AAACTCTAAACACTCTAAACCCT-AAATT
1 AAACCCTAAACACTCTAAACCCTAAAATG
* *
10481338 AAACCCTAAACCCTCTGAACCCTAAAAATG
1 AAACCCTAAACACTCTAAACCCT-AAAATG
10481368 AAACCCTAAACACTCTAAA
1 AAACCCTAAACACTCTAAA
10481387 TCTTAAACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 20 0.49
30 21 0.51
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (29 bp):
AAACCCTAAACACTCTAAACCCTAAAATG
Found at i:10481408 original size:46 final size:46
Alignment explanation
Indices: 10481337--10481439 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
10481327 AACCCTAAAT
* * **
10481337 TAAACCCTAAACCCTCTGAACCCTAAAAATGAAACCCTAAACACTC
1 TAAACCTTAAACCCTCTGAAACCTAAAAACAAAACCCTAAACACTC
* * * * *
10481383 TAAATCTTAAACCTTTTGAAACCTAAAAACAAAATCCTAAACTCTC
1 TAAACCTTAAACCCTCTGAAACCTAAAAACAAAACCCTAAACACTC
10481429 TAAACCTTAAA
1 TAAACCTTAAA
10481440 AACGATACAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.23
Consensus pattern (46 bp):
TAAACCTTAAACCCTCTGAAACCTAAAAACAAAACCCTAAACACTC
Found at i:10481468 original size:14 final size:14
Alignment explanation
Indices: 10481451--10481511 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 14
10481441 ACGATACATT
10481451 AAACCCTAAAATTC
1 AAACCCTAAAATTC
* *
10481465 AAACCTTAAATTTC
1 AAACCCTAAAATTC
* *
10481479 AAAACCCAAAAATTA
1 -AAACCCTAAAATTC
10481494 AAACCCTAAAA-TC
1 AAACCCTAAAATTC
10481507 AAACC
1 AAACC
10481512 TCAAACACCC
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
13 6 0.16
14 22 0.58
15 10 0.26
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAATTC
Found at i:10481613 original size:16 final size:15
Alignment explanation
Indices: 10481592--10481738 Score: 74
Period size: 16 Copynumber: 9.7 Consensus size: 15
10481582 ACCTTAAAAT
10481592 TAAACCCTAAATCCTC
1 TAAACCCTAAA-CCTC
*
10481608 TAAACCCTAAA-ATC
1 TAAACCCTAAACCTC
* *
10481622 -AAAACTTCAAACCTC
1 TAAACCCT-AAACCTC
*
10481637 -AAACCCTAAA-ATC
1 TAAACCCTAAACCTC
*
10481650 -AAATCCCTAAAACATC
1 TAAA-CCCT-AAACCTC
* *
10481666 AAAACCCTAAA-ATC
1 TAAACCCTAAACCTC
* *
10481680 AAAACCCTGAATCCTC
1 TAAACCCT-AAACCTC
*
10481696 TAAACCTTAAATCCTC
1 TAAACCCTAAA-CCTC
*
10481712 TAAACCTTAAATCCT-
1 TAAACCCTAAA-CCTC
10481727 TCAAACCCTAAA
1 T-AAACCCTAAA
10481739 AGCAAACCTT
Statistics
Matches: 108, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
13 10 0.09
14 23 0.21
15 18 0.17
16 54 0.50
17 3 0.03
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.22
Consensus pattern (15 bp):
TAAACCCTAAACCTC
Found at i:10481618 original size:29 final size:29
Alignment explanation
Indices: 10481556--10481739 Score: 124
Period size: 30 Copynumber: 6.2 Consensus size: 29
10481546 AACTTAAAAA
* * * *
10481556 CCTAAAACTAAACCC-CAAGCCTCCAAAC
1 CCTAAAATTAAACCCTAAATCCTCTAAAC
*
10481584 CTTAAAATTAAACCCTAAATCCTCTAAAC
1 CCTAAAATTAAACCCTAAATCCTCTAAAC
* * *
10481613 CCTAAAATCAAAACTTCAAA-CCTC-AAAC
1 CCTAAAATTAAACCCT-AAATCCTCTAAAC
* * * *
10481641 CCTAAAATCAAATCCCTAAAACATCAAAAC
1 CCTAAAATTAAA-CCCTAAATCCTCTAAAC
* *
10481671 CCTAAAATCAAAACCCTGAATCCTCTAAAC
1 CCTAAAAT-TAAACCCTAAATCCTCTAAAC
* * *
10481701 CTTAAATCCTCTAAACCTTAAATCCT-TCAAAC
1 CCTAAA--AT-TAAACCCTAAATCCTCT-AAAC
10481733 CCTAAAA
1 CCTAAAA
10481740 GCAAACCTTA
Statistics
Matches: 123, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
28 32 0.26
29 31 0.25
30 33 0.27
31 4 0.03
32 23 0.19
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (29 bp):
CCTAAAATTAAACCCTAAATCCTCTAAAC
Found at i:10481657 original size:14 final size:14
Alignment explanation
Indices: 10481609--10481687 Score: 81
Period size: 14 Copynumber: 5.5 Consensus size: 14
10481599 TAAATCCTCT
10481609 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
10481623 AAA-CTTCAAACCTC-
1 AAACCCT-AAA-ATCA
10481637 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
10481651 AATCCCTAAAACATCA
1 AAACCCT-AAA-ATCA
10481667 AAACCCTAAAATCA
1 AAACCCTAAAATCA
10481681 AAACCCT
1 AAACCCT
10481688 GAATCCTCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
13 4 0.08
14 29 0.55
15 10 0.19
16 10 0.19
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:10481746 original size:45 final size:45
Alignment explanation
Indices: 10481697--10481786 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
10481687 TGAATCCTCT
* *
10481697 AAACCTTAAATCCTCTAAA-CCTTAAATCCTTC-AAACCCTAAAAGC
1 AAACCTTAAAACCTCTAAATCC-TAAAT-CTTCTAAAACCTAAAAGC
* *
10481742 AAACCTTAAAACTTTTAAATCCTAAATCTTCTAAAACCTAAAAGC
1 AAACCTTAAAACCTCTAAATCCTAAATCTTCTAAAACCTAAAAGC
10481787 TAAAACCCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 4 0.10
45 33 0.85
46 2 0.05
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (45 bp):
AAACCTTAAAACCTCTAAATCCTAAATCTTCTAAAACCTAAAAGC
Found at i:10481842 original size:22 final size:22
Alignment explanation
Indices: 10481778--10481849 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
10481768 TCTTCTAAAA
* * *
10481778 CCTAAAAGCTAAAACCCCAAAC
1 CCTAAAATCCAAAATCCCAAAC
* **
10481800 -CTCAAATCCCAAAAT-TGAAAC
1 CCTAAAAT-CCAAAATCCCAAAC
10481821 CCTAAAATCCAAAATCCCAAAC
1 CCTAAAATCCAAAATCCCAAAC
*
10481843 ACTAAAA
1 CCTAAAA
10481850 CCCCAAACCT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
21 16 0.43
22 21 0.57
ACGTcount: A:0.51, C:0.32, G:0.03, T:0.14
Consensus pattern (22 bp):
CCTAAAATCCAAAATCCCAAAC
Found at i:10481863 original size:14 final size:14
Alignment explanation
Indices: 10481772--10481863 Score: 60
Period size: 14 Copynumber: 6.4 Consensus size: 14
10481762 CCTAAATCTT
** *
10481772 CTAAAACCTAAAAG
1 CTAAAACCCCAAAC
10481786 CTAAAACCCCAAAC
1 CTAAAACCCCAAAC
* * *
10481800 CTCAAATCCCAAAA
1 CTAAAACCCCAAAC
* * *
10481814 TTGAAACCCTAAAATC
1 CTAAAACCC-CAAA-C
*
10481830 C-AAAATCCCAAAC
1 CTAAAACCCCAAAC
10481843 ACTAAAACCCCAAAC
1 -CTAAAACCCCAAAC
10481858 CTAAAA
1 CTAAAA
10481864 ATCTAAATTT
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
13 1 0.02
14 38 0.66
15 19 0.33
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (14 bp):
CTAAAACCCCAAAC
Found at i:10481900 original size:41 final size:41
Alignment explanation
Indices: 10481845--10481923 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
10481835 TCCCAAACAC
* *
10481845 TAAAACCCCAAACCTAAAAATCTA-AATTTCTAAAAACCTCA
1 TAAAACCCAAAACCTAAAAAT-TATAAATTCTAAAAACCTCA
*
10481886 TAAAATCCAAAACCTAAAAATTATAAATTCTAAAAACC
1 TAAAACCCAAAACCTAAAAATTATAAATTCTAAAAACC
10481924 CAAAATTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (41 bp):
TAAAACCCAAAACCTAAAAATTATAAATTCTAAAAACCTCA
Found at i:10498663 original size:2 final size:2
Alignment explanation
Indices: 10498656--10498681 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10498646 GTGAGAAAAT
10498656 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
10498682 GAGAGAGAGA
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):
TA
Found at i:10498686 original size:2 final size:2
Alignment explanation
Indices: 10498681--10498708 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10498671 ATATATATAT
10498681 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10498709 GCTTTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10505218 original size:25 final size:24
Alignment explanation
Indices: 10505173--10505230 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
10505163 TTTACATGTC
10505173 ATTTTATTATTAAATCATAAAGTATT
1 ATTTTA-TATTAAATCATAAAGTA-T
* *
10505199 ATTTTATATTAATAT-TTAAATTAT
1 ATTTTATATTAA-ATCATAAAGTAT
10505223 ATTTTATA
1 ATTTTATA
10505231 ATTCAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 12 0.41
26 8 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTTATATTAAATCATAAAGTAT
Found at i:10505470 original size:14 final size:14
Alignment explanation
Indices: 10505453--10505485 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10505443 AATGGTTAAA
10505453 TAAAATTTAAAA-AT
1 TAAAA-TTAAAAGAT
10505467 TAAAATTAAAAGAT
1 TAAAATTAAAAGAT
10505481 TAAAA
1 TAAAA
10505486 GATTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
TAAAATTAAAAGAT
Found at i:10514861 original size:14 final size:14
Alignment explanation
Indices: 10514842--10514876 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
10514832 GTTAAAGGGT
10514842 AAAAATAAATTTTA
1 AAAAATAAATTTTA
10514856 AAAAAT-AATTTTA
1 AAAAATAAATTTTA
*
10514869 AAACATAA
1 AAAAATAA
10514877 CAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATAAATTTTA
Found at i:10516416 original size:16 final size:16
Alignment explanation
Indices: 10516395--10516446 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
10516385 AACATTAAAA
10516395 ATTATAAAATTTTAAT
1 ATTATAAAATTTTAAT
*
10516411 ATTATACAA----AA-
1 ATTATAAAATTTTAAT
*
10516422 ATTACAAAATTTTAAT
1 ATTATAAAATTTTAAT
10516438 ATTATAAAA
1 ATTATAAAA
10516447 AAAATAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
11 7 0.26
12 2 0.07
15 2 0.07
16 16 0.59
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATAAAATTTTAAT
Found at i:10516422 original size:27 final size:26
Alignment explanation
Indices: 10516391--10516465 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 26
10516381 TTTTAACATT
10516391 AAAAATTATAAAATTTTAATATTATA
1 AAAAATTATAAAATTTTAATATTATA
*
10516417 CAAAAATTACAAAATTTTAATATTATA
1 -AAAAATTATAAAATTTTAATATTATA
*
10516444 AAAAA-AAT-AAATTTTAATATTA
1 AAAAATTATAAAATTTTAATATTA
10516466 AATATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.31
25 1 0.02
26 5 0.11
27 25 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAAATTATAAAATTTTAATATTATA
Found at i:10516895 original size:12 final size:13
Alignment explanation
Indices: 10516858--10516904 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
10516848 AATATAAAAA
*
10516858 ATATAAAAATAAT
1 ATATAAAAATTAT
*
10516871 ATAGTTTAAAATTAT
1 ATA--TAAAAATTAT
10516886 -TATAAAAATTAT
1 ATATAAAAATTAT
10516898 ATATAAA
1 ATATAAA
10516905 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.32
13 9 0.32
14 2 0.07
15 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
ATATAAAAATTAT
Found at i:10517251 original size:2 final size:2
Alignment explanation
Indices: 10517244--10517280 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10517234 TTTATTTTAT
10517244 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
10517281 TAAAGAGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10517903 original size:17 final size:17
Alignment explanation
Indices: 10517881--10517915 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10517871 AAAAAATAAA
10517881 AAATAAATTTATTTTTT
1 AAATAAATTTATTTTTT
* *
10517898 AAATAATTTTGTTTTTT
1 AAATAAATTTATTTTTT
10517915 A
1 A
10517916 TCTTGTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
AAATAAATTTATTTTTT
Found at i:10518021 original size:25 final size:24
Alignment explanation
Indices: 10517943--10518022 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 24
10517933 ATTTTGTTAT
10517943 AAATATTTATTAATATATATTTTAATA
1 AAATA-TTATTAATAT-TA-TTTAATA
* *
10517970 AAATA-TATTAATTTTAATTAATCTA
1 AAATATTATTAATATTATTTAA--TA
*
10517995 AAATATTAATTTATATTATTTAATA
1 AAATATT-ATTAATATTATTTAATA
10518020 AAA
1 AAA
10518023 AATATATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
23 4 0.09
24 2 0.05
25 20 0.45
26 1 0.02
27 17 0.39
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATATTATTAATATTATTTAATA
Found at i:10518025 original size:27 final size:27
Alignment explanation
Indices: 10517943--10518027 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 27
10517933 ATTTTGTTAT
* *
10517943 AAATATTTATTAATATATATTTTAATAAA
1 AAATATTAATTTATAT-TA-TTTAATAAA
* **
10517972 ATATATTAATTT-TA--A-TTAATCTA
1 AAATATTAATTTATATTATTTAATAAA
10517995 AAATATTAATTTATATTATTTAATAAA
1 AAATATTAATTTATATTATTTAATAAA
10518022 AAATAT
1 AAATAT
10518028 ATTTACTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
23 17 0.39
24 2 0.05
25 1 0.02
26 1 0.02
27 12 0.27
28 2 0.05
29 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
AAATATTAATTTATATTATTTAATAAA
Found at i:10518031 original size:25 final size:25
Alignment explanation
Indices: 10517969--10518032 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 25
10517959 ATATTTTAAT
* * **
10517969 AAAATATATTAATTTTAATTAATCT
1 AAAATATATTTATATTAATTAATAA
*
10517994 AAAATATTAATTTATATTATTTAATAA
1 AAAATA-T-ATTTATATTAATTAATAA
10518021 AAAATATATTTA
1 AAAATATATTTA
10518033 CTAAATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 11 0.34
26 2 0.06
27 19 0.59
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AAAATATATTTATATTAATTAATAA
Found at i:10519944 original size:9 final size:9
Alignment explanation
Indices: 10519930--10519984 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
10519920 ATGAGTATAA
10519930 ATTTAATAT
1 ATTTAATAT
10519939 ATTTAATAT
1 ATTTAATAT
* *
10519948 ATTTAACAC
1 ATTTAATAT
* * *
10519957 GTTAAACAT
1 ATTTAATAT
*
10519966 ATTTTATAT
1 ATTTAATAT
10519975 ATTTAATAT
1 ATTTAATAT
10519984 A
1 A
10519985 ATATAAATAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (9 bp):
ATTTAATAT
Found at i:10523065 original size:17 final size:16
Alignment explanation
Indices: 10523030--10523070 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
10523020 TTATTAAATT
10523030 AAATAAAAATATAAAA
1 AAATAAAAATATAAAA
10523046 AAATACAAAATA-AAACA
1 AAATA-AAAATATAAA-A
10523063 AAA-AAAAA
1 AAATAAAAA
10523071 AAAAAGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.17
16 9 0.39
17 10 0.43
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (16 bp):
AAATAAAAATATAAAA
Found at i:10524624 original size:13 final size:13
Alignment explanation
Indices: 10524596--10524637 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
10524586 TTTTTCCTTC
*
10524596 AAAAATTTAAATTA
1 AAAAAATTAAA-TA
10524610 AAAAAATTAAATA
1 AAAAAATTAAATA
*
10524623 AAATAATT-AATA
1 AAAAAATTAAATA
10524635 AAA
1 AAA
10524638 TTTCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 7 0.27
13 9 0.35
14 10 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAAATTAAATA
Found at i:10524928 original size:24 final size:24
Alignment explanation
Indices: 10524887--10524934 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10524877 GAAACAATAA
*
10524887 TTAATAAATTAAAAAAAACAAATT
1 TTAATAAATTAAAAAAAAAAAATT
*
10524911 TTAATAAA-TAAATCAAAAAAAATT
1 TTAATAAATTAAA-AAAAAAAAATT
10524935 ATTTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAATAAATTAAAAAAAAAAAATT
Found at i:10530680 original size:21 final size:21
Alignment explanation
Indices: 10530656--10530699 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10530646 TTATATTCAA
* *
10530656 ATTTTATTATATGTGAGTTTT
1 ATTTAATTATATGTGAGATTT
* *
10530677 ATTTAATTTTATGTTAGATTT
1 ATTTAATTATATGTGAGATTT
10530698 AT
1 AT
10530700 CCAATTATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.61
Consensus pattern (21 bp):
ATTTAATTATATGTGAGATTT
Found at i:10530944 original size:34 final size:34
Alignment explanation
Indices: 10530906--10530970 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
10530896 ACTCATGTAA
*
10530906 CGAAAGTTAATCTTTCATTATAAATTATTAAATG
1 CGAAAGTTAATCTTTCATTATAAATAATTAAATG
*
10530940 CGAAAGTTAATCTTTTATTATAAATAATTAA
1 CGAAAGTTAATCTTTCATTATAAATAATTAA
10530971 GTGAAGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (34 bp):
CGAAAGTTAATCTTTCATTATAAATAATTAAATG
Found at i:10531305 original size:16 final size:16
Alignment explanation
Indices: 10531284--10531316 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10531274 GTGATACGAA
10531284 ATGGAATTTTAATTGG
1 ATGGAATTTTAATTGG
10531300 ATGGAATTTTAATTGG
1 ATGGAATTTTAATTGG
10531316 A
1 A
10531317 CAAGGTGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (16 bp):
ATGGAATTTTAATTGG
Found at i:10531817 original size:21 final size:19
Alignment explanation
Indices: 10531780--10531818 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
10531770 ATTTGATTTG
10531780 AATTTAAAAAGAGTAATAA
1 AATTTAAAAAGAGTAATAA
*
10531799 AATTATAAAGAAGATTAATA
1 AATT-TAAA-AAGAGTAATA
10531819 TTTGTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (19 bp):
AATTTAAAAAGAGTAATAA
Found at i:10534874 original size:13 final size:13
Alignment explanation
Indices: 10534856--10534889 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10534846 GTCTTTAATG
10534856 AAATTATAAGTAT
1 AAATTATAAGTAT
*
10534869 AAATTATAATTAT
1 AAATTATAAGTAT
10534882 -AATTATAA
1 AAATTATAA
10534890 TCGAGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
AAATTATAAGTAT
Found at i:10534879 original size:6 final size:6
Alignment explanation
Indices: 10534857--10534890 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
10534847 TCTTTAATGA
*
10534857 AATTAT AAGTAT AAATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT -AATTAT AATTAT AATTAT AAT
10534891 CGAGTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (6 bp):
AATTAT
Found at i:10537732 original size:15 final size:15
Alignment explanation
Indices: 10537712--10537741 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10537702 TTTGAATTTA
10537712 AACTTTATCACTATT
1 AACTTTATCACTATT
*
10537727 AACTTTATCCCTATT
1 AACTTTATCACTATT
10537742 TTTTTTTTTT
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:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (15 bp):
AACTTTATCACTATT
Found at i:10540205 original size:25 final size:26
Alignment explanation
Indices: 10540177--10540227 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10540167 TTAATATAAC
10540177 TTTAAAATA-ATAAAAATTATTTATT
1 TTTAAAATATATAAAAATTATTTATT
* **
10540202 TTTAAAGTATATTGAAATTATTTATT
1 TTTAAAATATATAAAAATTATTTATT
10540228 ACTAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTAAAATATATAAAAATTATTTATT
Found at i:10540437 original size:44 final size:44
Alignment explanation
Indices: 10540349--10540438 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
10540339 AATATTTTAA
* * **
10540349 AATATTTAGAATAGTAATACTATTCTTAAAATATTATTTTTATT
1 AATATTTAAAATAGTAATACTATTATTAAAATATTATTACTATT
*
10540393 AATA-TTAAAATAGTAATATTTATTATTAAAATATT-TATACTATT
1 AATATTTAAAATAGTAATA-CTATTATTAAAATATTAT-TACTATT
10540437 AA
1 AA
10540439 AATATTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 14 0.36
44 25 0.64
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (44 bp):
AATATTTAAAATAGTAATACTATTATTAAAATATTATTACTATT
Found at i:10540438 original size:17 final size:16
Alignment explanation
Indices: 10540407--10540449 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
10540397 TTAAAATAGT
10540407 AATATTTAT-TATTAA
1 AATATTTATATATTAA
10540422 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
10540439 AATATTTATAT
1 AATATTTATAT
10540450 TTTATATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:10540625 original size:43 final size:43
Alignment explanation
Indices: 10540578--10540708 Score: 116
Period size: 39 Copynumber: 3.1 Consensus size: 43
10540568 TAAAAAAGAA
10540578 ATTATTAAA-ATTATTCATATTAAGAA-AATAATAATAATATTA-T-
1 ATTATTAAACATTA--CATATTAA-AATAATAA-AATAATATTATTG
*
10540621 ATTATTAAACATTACTTATTAAAATAATAAAATAATATTATTG
1 ATTATTAAACATTACATATTAAAATAATAAAATAATATTATTG
* * * * *
10540664 ATTATT--ATA-TA-ATATTAAAATAATAATATATTAATATTT
1 ATTATTAAACATTACATATTAAAATAATAAAATAATATTATTG
10540703 ATTATT
1 ATTATT
10540709 GAAATACTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
39 29 0.38
40 2 0.03
41 14 0.18
42 13 0.17
43 15 0.19
44 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (43 bp):
ATTATTAAACATTACATATTAAAATAATAAAATAATATTATTG
Found at i:10541749 original size:20 final size:22
Alignment explanation
Indices: 10541722--10541768 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
10541712 ATAATTTTAC
10541722 TTAT-AAATAAAT-AT-TTATA
1 TTATAAAATAAATAATATTATA
10541741 TTATAAAATAAATAATATTATA
1 TTATAAAATAAATAATATTATA
10541763 TTATAA
1 TTATAA
10541769 TTATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 2 0.08
22 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATAAAATAAATAATATTATA
Found at i:10541810 original size:31 final size:30
Alignment explanation
Indices: 10541746--10541812 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
10541736 TTATATTATA
* *
10541746 AAATAAATAATATTATATTATAATTATATT
1 AAATAAATAATATTATAATACAATTATATT
*
10541776 AAATAAATAATATTTTTAATACAATTAT-TGT
1 AAATAAATAATA-TTATAATACAATTATAT-T
10541807 AAATAA
1 AAATAA
10541813 TATCTATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (30 bp):
AAATAAATAATATTATAATACAATTATATT
Found at i:10541932 original size:16 final size:15
Alignment explanation
Indices: 10541751--10541975 Score: 87
Period size: 14 Copynumber: 15.6 Consensus size: 15
10541741 TTATAAAATA
10541751 AATAATATTATATTAT
1 AATAATATTA-ATTAT
* *
10541767 AATTATATTAAATA-
1 AATAATATTAATTAT
10541781 AATAATATT--TT-T
1 AATAATATTAATTAT
*
10541793 AATACA-ATT-ATTGT
1 AATA-ATATTAATTAT
* *
10541807 AAATAATATCT-ATAAC
1 -AATAATAT-TAATTAT
*
10541823 AATAGTATTAA-TAT
1 AATAATATTAATTAT
*
10541837 AATAATAAT-ATGTAT
1 AATAATATTAAT-TAT
* *
10541852 ATTATATATTAA-AAT
1 AATA-ATATTAATTAT
10541867 AA-AATATTTAA-TA-
1 AATAATA-TTAATTAT
10541880 AATAATA-TACTATTAGT
1 AATAATATTA--ATTA-T
*
10541897 -A-AATAAT-ATTAT
1 AATAATATTAATTAT
10541909 AAT-ATATTAATTAT
1 AATAATATTAATTAT
*
10541923 AATAATTATTAATAAT
1 AATAA-TATTAATTAT
*
10541939 AATTACTATTAA-TAT
1 AA-TAATATTAATTAT
10541954 AATAATATTAA-TA-
1 AATAATATTAATTAT
10541967 AATAATATT
1 AATAATATT
10541976 GAAAAATAAT
Statistics
Matches: 161, Mismatches: 22, Indels: 55
0.68 0.09 0.23
Matches are distributed among these distances:
12 11 0.07
13 27 0.17
14 48 0.30
15 37 0.23
16 35 0.22
17 3 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
AATAATATTAATTAT
Found at i:10542021 original size:13 final size:13
Alignment explanation
Indices: 10541833--10542027 Score: 73
Period size: 13 Copynumber: 14.5 Consensus size: 13
10541823 AATAGTATTA
*
10541833 ATATAATAATAAT
1 ATATAATATTAAT
*
10541846 ATGT-ATATT-AT
1 ATATAATATTAAT
* *
10541857 ATATTAAAATAAAAT
1 ATA-TAATAT-TAAT
*
10541872 ATTTAATA--AAT
1 ATATAATATTAAT
* *
10541883 AATATACTATTAGT
1 -ATATAATATTAAT
*
10541897 AAATAATATT-AT
1 ATATAATATTAAT
10541909 A-AT-ATATTAATT
1 ATATAATATTAA-T
10541921 ATAATAATTATTAAT
1 AT-ATAA-TATTAAT
*
10541936 AATAATTACTATTAAT
1 -AT-A-TAATATTAAT
10541952 ATAATAATATTAAT
1 AT-ATAATATTAAT
*
10541966 AAATAATATTGAA-
1 ATATAATATT-AAT
*
10541979 AAATAATATTATAAT
1 ATATAATA-T-TAAT
*
10541994 ATATTAATAAATAAT
1 ATA-TAAT-ATTAAT
*
10542009 ATATTATATTAAT
1 ATATAATATTAAT
*
10542022 AAATAA
1 ATATAA
10542028 GCATATTAAT
Statistics
Matches: 139, Mismatches: 22, Indels: 42
0.68 0.11 0.21
Matches are distributed among these distances:
10 5 0.04
11 10 0.07
12 15 0.11
13 39 0.28
14 26 0.19
15 20 0.14
16 21 0.15
17 3 0.02
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (13 bp):
ATATAATATTAAT
Found at i:10542039 original size:20 final size:20
Alignment explanation
Indices: 10541993--10542040 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
10541983 AATATTATAA
*
10541993 TATATTAATAAATAATATAT
1 TATATTAATAAATAACATAT
10542013 TATATTAATAAATAAGCATAT
1 TATATTAATAAATAA-CATAT
10542034 TA-ATTAA
1 TATATTAA
10542041 ATTATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TATATTAATAAATAACATAT
Found at i:10542279 original size:17 final size:16
Alignment explanation
Indices: 10542234--10542281 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
10542224 TTCAATTTAG
*
10542234 AAAAATAAATATTTTTT
1 AAAAAT-AATTTTTTTT
*
10542251 AAAAAAATATTTTATTTT
1 AAAAATA-ATTTT-TTTT
10542269 AAAAATAATTTTT
1 AAAAATAATTTTT
10542282 GCAAAATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAAATAATTTTTTTT
Found at i:10546764 original size:32 final size:32
Alignment explanation
Indices: 10546693--10546835 Score: 111
Period size: 32 Copynumber: 4.6 Consensus size: 32
10546683 AAAAAAATTC
* * ***
10546693 ATAAAAAAATATATATTCATATTATATAAAAT
1 ATAAAAATATATATATTTATATTATATTTTAT
* *
10546725 ATTAAAATTTATATATTTATATTATATTTTAT
1 ATAAAAATATATATATTTATATTATATTTTAT
* *
10546757 ATAAAAATATATATA-TTA-CTTATA-TTGAT
1 ATAAAAATATATATATTTATATTATATTTTAT
10546786 ATAAAAATATATAATATATT-T-TTA-ATTTTAT
1 ATAAAAATATAT-ATAT-TTATATTATATTTTAT
** *
10546817 -TAAATTTATATATAATTAT
1 ATAAAAATATATATATTTAT
10546836 TAAAAATTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
28 2 0.02
29 20 0.22
30 18 0.20
31 10 0.11
32 40 0.44
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
ATAAAAATATATATATTTATATTATATTTTAT
Found at i:10546766 original size:20 final size:20
Alignment explanation
Indices: 10546714--10546773 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
10546704 TATATTCATA
* *
10546714 TTATAT-AAAATATTAAAAT
1 TTATATAAAAATATTATATT
***
10546733 TTATATATTTATATTATATT
1 TTATATAAAAATATTATATT
10546753 TTATATAAAAATATATATATT
1 TTATATAAAAATAT-TATATT
10546774 ACTTATATTG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 6 0.19
20 19 0.61
21 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATATAAAAATATTATATT
Found at i:10546857 original size:22 final size:21
Alignment explanation
Indices: 10546818--10546858 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10546808 TAATTTTATT
*
10546818 AAATTTATATATAATTATTAA
1 AAATTTAAATATAATTATTAA
*
10546839 AAATTTAAATTATACTTATT
1 AAATTTAAA-TATAATTATT
10546859 TTATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTTAAATATAATTATTAA
Found at i:10547638 original size:16 final size:17
Alignment explanation
Indices: 10547606--10547640 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10547596 ATAAGATAAT
*
10547606 TTATTTATTTGTCAAAA
1 TTATTTATTTCTCAAAA
10547623 TTATTT-TTTCTCAAAA
1 TTATTTATTTCTCAAAA
10547639 TT
1 TT
10547641 TATATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (17 bp):
TTATTTATTTCTCAAAA
Found at i:10547643 original size:17 final size:18
Alignment explanation
Indices: 10547603--10547643 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
10547593 AAGATAAGAT
*
10547603 AATTTATTTATTTGTCAA
1 AATTTATTTATTTCTCAA
10547621 AA-TTATTT-TTTCTCAA
1 AATTTATTTATTTCTCAA
10547637 AATTTAT
1 AATTTAT
10547644 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTATTTATTTCTCAA
Found at i:10548834 original size:39 final size:39
Alignment explanation
Indices: 10548780--10548855 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
10548770 AGGCTAGGAT
10548780 TAGTTTCACAATTTAGGTTGTTCCTTCTTGTGGATGGTG
1 TAGTTTCACAATTTAGGTTGTTCCTTCTTGTGGATGGTG
*
10548819 TAGTTTCACAATTTAGTTTGTTCCTTCTTGTGGATGG
1 TAGTTTCACAATTTAGGTTGTTCCTTCTTGTGGATGG
10548856 CGATATCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.47
Consensus pattern (39 bp):
TAGTTTCACAATTTAGGTTGTTCCTTCTTGTGGATGGTG
Found at i:10559116 original size:12 final size:11
Alignment explanation
Indices: 10559097--10559128 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10559087 TTTAATTTTA
10559097 ATTTAAAATAT
1 ATTTAAAATAT
10559108 ATTTAAAA-AT
1 ATTTAAAATAT
10559118 A-TTAAAATAT
1 ATTTAAAATAT
10559128 A
1 A
10559129 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.30
10 6 0.30
11 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTTAAAATAT
Found at i:10559734 original size:29 final size:29
Alignment explanation
Indices: 10559688--10559743 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
10559678 CAAGGTAGTA
* *
10559688 TTTAATCTTATTTATC-AAAGCAGGATAAT
1 TTTAAACTTAATTATCAAAAG-AGGATAAT
*
10559717 TTTAAACTTAATTCTCAAAAGAGGATA
1 TTTAAACTTAATTATCAAAAGAGGATA
10559744 CTTGGTACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (29 bp):
TTTAAACTTAATTATCAAAAGAGGATAAT
Found at i:10560726 original size:20 final size:20
Alignment explanation
Indices: 10560671--10560732 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
10560661 AAAAAAATTG
*
10560671 ATAAATATGAAATTAATTATT
1 ATAATTATGAAATTAA-TATT
* *
10560692 ATAATAATAAAATTAATATT
1 ATAATTATGAAATTAATATT
* *
10560712 ATAATTATGAGATTAAAATT
1 ATAATTATGAAATTAATATT
10560732 A
1 A
10560733 ATGATGAGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 21 0.62
21 13 0.38
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAATTATGAAATTAATATT
Found at i:10560875 original size:27 final size:27
Alignment explanation
Indices: 10560816--10560875 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
10560806 CATTAAAGAT
10560816 ATTAAATTAAAACTTATATATAATAAA
1 ATTAAATTAAAACTTATATATAATAAA
* * *
10560843 ATTTAAATTATAATTTGATAT-TTATAAA
1 A-TTAAATTAAAACTT-ATATATAATAAA
10560871 ATTAA
1 ATTAA
10560876 TAAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.18
28 19 0.68
29 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
ATTAAATTAAAACTTATATATAATAAA
Found at i:10561055 original size:24 final size:27
Alignment explanation
Indices: 10561023--10561075 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 27
10561013 AATTTAGAAG
*
10561023 ATAATAATTAT-TTT-TT-AAATTAAA
1 ATAATAATTATATTTATTCAAAATAAA
10561047 ATAATAATTATATTTATTCAAAATAAA
1 ATAATAATTATATTTATTCAAAATAAA
10561074 AT
1 AT
10561076 TTGAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 11 0.44
25 3 0.12
26 2 0.08
27 9 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
ATAATAATTATATTTATTCAAAATAAA
Found at i:10567215 original size:61 final size:61
Alignment explanation
Indices: 10567135--10567261 Score: 227
Period size: 61 Copynumber: 2.1 Consensus size: 61
10567125 GGATGAAATA
* * *
10567135 AAACAAGACCAATCTCTAAAACCAAGGATATTTGCCCAAATTCCTAACTCCCTTCCCTCCC
1 AAACTAGACCAATCTCTAAAACCAAGGATATCTGCCCAAATTCCTAACTCCCTCCCCTCCC
10567196 AAACTAGACCAATCTCTAAAACCAAGGATATCTGCCCAAATTCCTAACTCCCTCCCCTCCC
1 AAACTAGACCAATCTCTAAAACCAAGGATATCTGCCCAAATTCCTAACTCCCTCCCCTCCC
10567257 AAACT
1 AAACT
10567262 TTGTTCTCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.35, C:0.37, G:0.06, T:0.22
Consensus pattern (61 bp):
AAACTAGACCAATCTCTAAAACCAAGGATATCTGCCCAAATTCCTAACTCCCTCCCCTCCC
Found at i:10568605 original size:32 final size:33
Alignment explanation
Indices: 10568566--10568654 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 33
10568556 AATAAAATAT
* *
10568566 TTAATATGATATTTAAATTTTAAAATTTTTTAA
1 TTAATATGATATTTAAATTTTAAAATTTATAAA
*
10568599 -TAATATGATATTTAAATTAT-AAATTTATAAA
1 TTAATATGATATTTAAATTTTAAAATTTATAAA
* *
10568630 TTAATATAATATTTATA-TTTAAAAT
1 TTAATATGATATTTAAATTTTAAAAT
10568655 GATTAAATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
31 11 0.23
32 37 0.77
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (33 bp):
TTAATATGATATTTAAATTTTAAAATTTATAAA
Found at i:10568662 original size:32 final size:32
Alignment explanation
Indices: 10568566--10568672 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 32
10568556 AATAAAATAT
* * *
10568566 TTAATATGATATTTAAATTTTAAAATTTTTTAA
1 TTAATATAATATTTAAA-TTTAAAATTATTAAA
* *
10568599 -TAATATGATATTTAAATTATAAATTTA-TAAA
1 TTAATATAATATTTAAATT-TAAAATTATTAAA
* *
10568630 TTAATATAATATTTATATTTAAAATGATTAAA
1 TTAATATAATATTTAAATTTAAAATTATTAAA
10568662 TTCAA-ATAATA
1 TT-AATATAATA
10568673 AATATTTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
31 11 0.17
32 50 0.79
33 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
TTAATATAATATTTAAATTTAAAATTATTAAA
Found at i:10573611 original size:2 final size:2
Alignment explanation
Indices: 10573604--10573636 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10573594 ATTAACTGGT
10573604 TA TA TA TA 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 TA TA TA TA T
10573637 GGGGTAGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10579768 original size:24 final size:24
Alignment explanation
Indices: 10579736--10579811 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 24
10579726 AAAAAAATTT
10579736 ATTTATTTATTATTATTTAATAAA
1 ATTTATTTATTATTATTTAATAAA
*
10579760 ATTTATTTATTATATTAAATTAATAAA
1 ATTTATTTA-T-TATT-ATTTAATAAA
*
10579787 A-TTATTTCATAATT-TTTAAATAAA
1 ATTTATTT-ATTATTATTT-AATAAA
10579811 A
1 A
10579812 ATAAAAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.05
24 16 0.36
25 4 0.09
26 11 0.25
27 11 0.25
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTATTTATTATTATTTAATAAA
Found at i:10579782 original size:27 final size:27
Alignment explanation
Indices: 10579720--10579793 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 27
10579710 TAATTCACAA
*
10579720 TATAA-TAAAAAAATTTATTTATTTAT
1 TATAATTAATAAAATTTATTTATTTAT
*
10579746 TATTATTTAATAAAATTTATTTATTATAT
1 TA-TAATTAATAAAATTTATTTATT-TAT
10579775 TA-AATTAATAAAA-TTATTT
1 TATAATTAATAAAATTTATTT
10579794 CATAATTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.19
27 12 0.29
28 17 0.40
29 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TATAATTAATAAAATTTATTTATTTAT
Found at i:10581152 original size:3 final size:3
Alignment explanation
Indices: 10581146--10581179 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10581136 AATTTTTTTT
10581146 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10581180 AAATTGTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10583268 original size:58 final size:60
Alignment explanation
Indices: 10583177--10583316 Score: 203
Period size: 58 Copynumber: 2.4 Consensus size: 60
10583167 TGGATTAGGC
* * * * * *
10583177 CTGCTTTAGATTTTCAAGTAAGATTTAGGACTGCTTGTTGGGTTTGGTTGATG-GGATGT
1 CTGCTTGAGAGTTTCAAGTAAGATTTAGGACTGCCTGTTAGGTTTGGCTGATGTGGATAT
10583236 CTGCTTGAGAG-TTCAAGTAAGATTTAGGACTGCCTGTTAGGTTTGGCTGATGTGGATAT
1 CTGCTTGAGAGTTTCAAGTAAGATTTAGGACTGCCTGTTAGGTTTGGCTGATGTGGATAT
*
10583295 CTGCTTGAGTGTTTCAAGTAAG
1 CTGCTTGAGAGTTTCAAGTAAG
10583317 GTTTTTTTCG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
58 38 0.53
59 24 0.33
60 10 0.14
ACGTcount: A:0.21, C:0.11, G:0.30, T:0.39
Consensus pattern (60 bp):
CTGCTTGAGAGTTTCAAGTAAGATTTAGGACTGCCTGTTAGGTTTGGCTGATGTGGATAT
Found at i:10583410 original size:60 final size:60
Alignment explanation
Indices: 10583337--10583464 Score: 220
Period size: 60 Copynumber: 2.1 Consensus size: 60
10583327 TGACAGTTTC
* *
10583337 AAGATTTAGGACTGCTTATTAGGCTTGGTTGATTTGGATATCTGCTCGAGAGTTTCAAGT
1 AAGATTTAGGACTGCTTATTAGGCTTGGCTGATCTGGATATCTGCTCGAGAGTTTCAAGT
* *
10583397 AAGATTTAGGACTGCTTATTAGGTTTGGCTGATCTGGATATCTGCTTGAGAGTTTCAAGT
1 AAGATTTAGGACTGCTTATTAGGCTTGGCTGATCTGGATATCTGCTCGAGAGTTTCAAGT
10583457 AAGATTTA
1 AAGATTTA
10583465 AGACAGACTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (60 bp):
AAGATTTAGGACTGCTTATTAGGCTTGGCTGATCTGGATATCTGCTCGAGAGTTTCAAGT
Found at i:10583452 original size:143 final size:141
Alignment explanation
Indices: 10583196--10583459 Score: 420
Period size: 143 Copynumber: 1.9 Consensus size: 141
10583186 ATTTTCAAGT
* * * * *
10583196 AAGATTTAGGACTGCTTGTTGGGTTTGGTTGATGGGATGTCTGCTTGAGAGTTCAAGTAAGATTT
1 AAGATTTAGGACTGCTTATTAGGCTTGGTTGATGGGATATCTGCTCGAGAGTTCAAGTAAGATTT
* * *
10583261 AGGACTGCCTGTTAGGTTTGGCTGATGTGGATATCTGCTTGAGTGTTTCAAGTAAGGTTTTTTTC
66 AGGACTGCCTATTAGGTTTGGCTGATCTGGATATCTGCTTGAGAGTTTCAAGTAAGGTTTTTTTC
10583326 GTGACAGTTTC
131 GTGACAGTTTC
*
10583337 AAGATTTAGGACTGCTTATTAGGCTTGGTTGATTTGGATATCTGCTCGAGAGTTTCAAGTAAGAT
1 AAGATTTAGGACTGCTTATTAGGCTTGGTTGA-TGGGATATCTGCTCGAGAG-TTCAAGTAAGAT
*
10583402 TTAGGACTGCTTATTAGGTTTGGCTGATCTGGATATCTGCTTGAGAGTTTCAAGTAAG
64 TTAGGACTGCCTATTAGGTTTGGCTGATCTGGATATCTGCTTGAGAGTTTCAAGTAAG
10583460 ATTTAAGACA
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
141 29 0.26
142 16 0.14
143 66 0.59
ACGTcount: A:0.22, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
AAGATTTAGGACTGCTTATTAGGCTTGGTTGATGGGATATCTGCTCGAGAGTTCAAGTAAGATTT
AGGACTGCCTATTAGGTTTGGCTGATCTGGATATCTGCTTGAGAGTTTCAAGTAAGGTTTTTTTC
GTGACAGTTTC
Found at i:10584964 original size:2 final size:2
Alignment explanation
Indices: 10584952--10584984 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10584942 AAGGGGCGAC
10584952 AT AT A- AT 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 AT AT AT AT
10584985 CGTAGTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10587001 original size:23 final size:24
Alignment explanation
Indices: 10586952--10587004 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
10586942 AAATATACTA
*
10586952 TTTTTTAAAAATCATATTTCTTGAAT
1 TTTTTTAAAAATCAGATTTC-T-AAT
10586978 TTTTTTAAAAATCAGATTTC-AAT
1 TTTTTTAAAAATCAGATTTCTAAT
10587001 TTTT
1 TTTT
10587005 AAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.27
26 19 0.73
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTTTAAAAATCAGATTTCTAAT
Found at i:10587167 original size:20 final size:22
Alignment explanation
Indices: 10587150--10587192 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
10587140 AATATTTATC
10587150 AATAT-TTTT-ATTTTTTTAAA
1 AATATGTTTTAATTTTTTTAAA
10587170 AATATGTTTTGAATTTTTTTAAA
1 AATATGTTTT-AATTTTTTTAAA
10587193 TTATGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 4 0.20
23 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
AATATGTTTTAATTTTTTTAAA
Found at i:10587186 original size:22 final size:24
Alignment explanation
Indices: 10587161--10587211 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
10587151 ATATTTTTAT
*
10587161 TTTTTTAAAAATATG-TTTTG-AA
1 TTTTTTAAAAATATGCATTTGTAA
* *
10587183 TTTTTTTAAATTATGCATTTGTAA
1 TTTTTTAAAAATATGCATTTGTAA
10587207 TTTTT
1 TTTTT
10587212 AAGAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.54
23 4 0.17
24 7 0.29
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (24 bp):
TTTTTTAAAAATATGCATTTGTAA
Found at i:10587203 original size:23 final size:24
Alignment explanation
Indices: 10587159--10587211 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
10587149 CAATATTTTT
*
10587159 ATTTTTTTAAAAATATGTTTTG-A
1 ATTTTTTTAAAAATATGATTTGTA
*
10587182 ATTTTTTT-AAATTATGCATTTGTA
1 ATTTTTTTAAAAATATG-ATTTGTA
10587206 ATTTTT
1 ATTTTT
10587212 AAGAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
24 7 0.27
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
ATTTTTTTAAAAATATGATTTGTA
Found at i:10587842 original size:10 final size:9
Alignment explanation
Indices: 10587823--10587852 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10587813 AAAATAAGAA
10587823 TTTTTTAAT
1 TTTTTTAAT
*
10587832 TTTTTTAAA
1 TTTTTTAAT
10587841 TTTTTTAAT
1 TTTTTTAAT
10587850 TTT
1 TTT
10587853 CATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:10587861 original size:18 final size:18
Alignment explanation
Indices: 10587821--10587862 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10587811 TAAAAATAAG
**
10587821 AATTTTTTAATTTTTTTA
1 AATTTTTTAATTTTCATA
10587839 AATTTTTTAATTTTCATA
1 AATTTTTTAATTTTCATA
*
10587857 TATTTT
1 AATTTT
10587863 AAAAAGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTTTTTAATTTTCATA
Found at i:10593994 original size:29 final size:30
Alignment explanation
Indices: 10593952--10594021 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
10593942 TTTTTAAAGT
*
10593952 AATTTATATATTTTT-A-TTATACTT-AAATA
1 AATTTTTAT-TTTTTAATTTATA-TTCAAATA
10593981 AATTTTTATTTTTTAATTTATATTCAAATA
1 AATTTTTATTTTTTAATTTATATTCAAATA
*
10594011 AAATTTTATTT
1 AATTTTTATTT
10594022 CAAATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 5 0.14
29 11 0.31
30 20 0.56
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
AATTTTTATTTTTTAATTTATATTCAAATA
Found at i:10594031 original size:18 final size:18
Alignment explanation
Indices: 10593997--10594030 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10593987 TATTTTTTAA
10593997 TTTATATTCAAATAAAAT
1 TTTATATTCAAATAAAAT
10594015 TTTAT-TTCAAATAAAA
1 TTTATATTCAAATAAAA
10594031 AAATTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATATTCAAATAAAAT
Found at i:10595146 original size:39 final size:40
Alignment explanation
Indices: 10595093--10595206 Score: 94
Period size: 39 Copynumber: 2.9 Consensus size: 40
10595083 TATTTTTTAA
* * *
10595093 AATTGTTATAATTATAATGAAA-TATTA-TATTTATATAATT
1 AATTATTATAATTATAAT-AAATTATAATTA-TTAAATAATT
*
10595133 AATTATTAT-ATTATTATAAATTATAATTATTAAATAATT
1 AATTATTATAATTATAATAAATTATAATTATTAAATAATT
** * *
10595172 AATTAACA-AATTATAATATAACTA-AATAATTAAAT
1 AATTATTATAATTATAATA-AATTATAATTATTAAAT
10595207 TCATGCACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
38 3 0.05
39 44 0.72
40 14 0.23
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (40 bp):
AATTATTATAATTATAATAAATTATAATTATTAAATAATT
Found at i:10595150 original size:21 final size:21
Alignment explanation
Indices: 10595103--10595151 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
10595093 AATTGTTATA
10595103 ATTATAATGAAATATTATATT
1 ATTATAATGAAATATTATATT
* *
10595124 -TATATAATTAATTATTATATT
1 AT-TATAATGAAATATTATATT
10595145 ATTATAA
1 ATTATAA
10595152 ATTATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATAATGAAATATTATATT
Found at i:10595161 original size:21 final size:21
Alignment explanation
Indices: 10595116--10595162 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
10595106 ATAATGAAAT
*
10595116 ATTATATTTATATAATTAATT
1 ATTATATTTATATAATTAATA
10595137 ATTATA-TTATTATAAATT-ATA
1 ATTATATTTA-TAT-AATTAATA
10595158 ATTAT
1 ATTAT
10595163 TAAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 3 0.13
21 16 0.70
22 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATATTTATATAATTAATA
Found at i:10595699 original size:25 final size:26
Alignment explanation
Indices: 10595671--10595728 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
10595661 ATAATATAAC
*
10595671 TATTAAATTGT-TAAAAAGTATTTAA
1 TATTAAATTATATAAAAAGTATTTAA
* * *
10595696 TATTAAATTATATTAAAATTATTTAT
1 TATTAAATTATATAAAAAGTATTTAA
10595722 TATTAAA
1 TATTAAA
10595729 ATATTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
TATTAAATTATATAAAAAGTATTTAA
Found at i:10595733 original size:15 final size:16
Alignment explanation
Indices: 10595705--10595782 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
10595695 ATATTAAATT
10595705 ATATTAAAATTATTTA
1 ATATTAAAATTATTTA
*
10595721 TTATTAAAA-TATTTA
1 ATATTAAAATTATTTA
* *
10595736 ATATTAAAAAATAATTA
1 ATATT-AAAATTATTTA
*
10595753 TATTTTAAAATTAATATTTA
1 -ATATTAAAA-T--TATTTA
10595773 ATATTAAAAT
1 ATATTAAAAT
10595783 ATTACGTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 10 0.20
16 12 0.24
17 9 0.18
18 5 0.10
19 8 0.16
20 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:10595785 original size:15 final size:15
Alignment explanation
Indices: 10595705--10595785 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 15
10595695 ATATTAAATT
10595705 ATATTAAAATTATTTA
1 ATATTAAAA-TATTTA
*
10595721 TTATTAAAATATTTA
1 ATATTAAAATATTTA
*
10595736 ATATTAAAAAATAATTA
1 ATATT--AAAATATTTA
*
10595753 TATTTTAAAATTAATATTTA
1 -ATATT--AA--AATATTTA
10595773 ATATTAAAATATT
1 ATATTAAAATATT
10595786 ACGTTAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
15 16 0.30
16 8 0.15
17 11 0.20
18 8 0.15
19 4 0.07
20 7 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTAAAATATTTA
Found at i:10595848 original size:15 final size:15
Alignment explanation
Indices: 10595847--10595965 Score: 112
Period size: 15 Copynumber: 7.5 Consensus size: 15
10595837 TTTATTAATA
10595847 TATTAATATATTATT
1 TATTAATATATTATT
10595862 TATTAATAATATACTATT
1 TATTAAT-ATAT--TATT
*
10595880 TATTAAAATATTATT
1 TATTAATATATTATT
*
10595895 TACTAATATAATATTATT
1 TA-TTA-AT-ATATTATT
*
10595913 TATTAAAATATTATT
1 TATTAATATATTATT
* *
10595928 AAATAATATATTATAT
1 TATTAATATATTAT-T
* *
10595944 TAATAGTATATTATT
1 TATTAATATATTATT
10595959 TATTAAT
1 TATTAAT
10595966 GTATAATAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
15 38 0.45
16 20 0.24
17 7 0.08
18 20 0.24
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:10595873 original size:18 final size:18
Alignment explanation
Indices: 10595850--10595965 Score: 112
Period size: 18 Copynumber: 7.1 Consensus size: 18
10595840 ATTAATATAT
10595850 TAATATATTATTTATTAA
1 TAATATATTATTTATTAA
*
10595868 TAATATACTATTTATT-A
1 TAATATATTATTTATTAA
*
10595885 -AA-ATATTATTTACTAA
1 TAATATATTATTTATTAA
10595901 T-ATAATATTATTTATT-A
1 TAAT-ATATTATTTATTAA
10595918 -AA-ATATTA-TTA--AA
1 TAATATATTATTTATTAA
10595931 TAATATATTA--TATTAA
1 TAATATATTATTTATTAA
*
10595947 TAGTATATTATTTATTAA
1 TAATATATTATTTATTAA
10595965 T
1 T
10595966 GTATAATAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
13 1 0.01
14 7 0.09
15 22 0.27
16 15 0.19
17 3 0.04
18 33 0.41
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.52
Consensus pattern (18 bp):
TAATATATTATTTATTAA
Found at i:10595891 original size:33 final size:33
Alignment explanation
Indices: 10595847--10595965 Score: 138
Period size: 33 Copynumber: 3.7 Consensus size: 33
10595837 TTTATTAATA
* *
10595847 TATTAATATATTATTTATTAATAATATACTATT
1 TATTAAAATATTATTTATTAATAATATATTATT
*
10595880 TATTAAAATATTATTTACTAAT-ATAATATTATT
1 TATTAAAATATTATTTATTAATAAT-ATATTATT
10595913 TATTAAAATATTA-TTA--AATAATATATTATAT
1 TATTAAAATATTATTTATTAATAATATATTAT-T
* **
10595944 TAATAGTATATTATTTATTAAT
1 TATTAAAATATTATTTATTAAT
10595966 GTATAATAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
30 10 0.14
31 13 0.18
32 8 0.11
33 40 0.54
34 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (33 bp):
TATTAAAATATTATTTATTAATAATATATTATT
Found at i:10596045 original size:18 final size:18
Alignment explanation
Indices: 10595835--10595978 Score: 69
Period size: 18 Copynumber: 8.2 Consensus size: 18
10595825 TTCTTTATAT
*
10595835 TATTTATTAATATATTAA
1 TATTTATTAATATAATAA
*
10595853 TATATTATTTAT-TAATAA
1 TAT-TTATTAATATAATAA
* *
10595871 TATACTATTTAT-TAA-AA
1 TAT-TTATTAATATAATAA
*
10595888 TA-TTATTTACTA-ATATAA
1 TATTTA-TTAATATA-ATAA
*
10595906 TA-TTATTTAT-TAA-AA
1 TATTTATTAATATAATAA
10595921 TA-TTATTAA-ATAAT-A
1 TATTTATTAATATAATAA
*
10595936 TATTATATTAATAGT-ATAT
1 TATT-TATTAATA-TAATAA
10595955 TATTTATTAATGTATAATAA
1 TATTTATTAA--TATAATAA
10595975 TATT
1 TATT
10595979 ATTTATTTAT
Statistics
Matches: 99, Mismatches: 11, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
15 18 0.18
16 6 0.06
17 15 0.15
18 38 0.38
19 13 0.13
20 9 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (18 bp):
TATTTATTAATATAATAA
Found at i:10598403 original size:18 final size:18
Alignment explanation
Indices: 10598380--10598414 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10598370 TTAAATTTTT
10598380 ATTTTTATTTTA-AAAAAC
1 ATTTTT-TTTTATAAAAAC
10598398 ATTTTTTTTTATAAAAA
1 ATTTTTTTTTATAAAAA
10598415 TAGCTCGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTTTTTATAAAAAC
Found at i:10617802 original size:58 final size:58
Alignment explanation
Indices: 10617671--10617888 Score: 332
Period size: 57 Copynumber: 3.7 Consensus size: 58
10617661 TTTTTTGTAG
10617671 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTCT-AA
* * * *
10617731 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
10617789 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
* *
10617846 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTT
10617889 TAAAATTTTT
Statistics
Matches: 145, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
57 53 0.37
58 38 0.26
59 7 0.05
60 47 0.32
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:10617987 original size:8 final size:8
Alignment explanation
Indices: 10617970--10618027 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
10617960 CTAATCTAAT
10617970 AAAT-AAA
1 AAATAAAA
10617977 AAATAAAA
1 AAATAAAA
10617985 AAATAAAA
1 AAATAAAA
* *
10617993 TAAAGAAAT
1 -AAATAAAA
* *
10618002 AAACAAAG
1 AAATAAAA
10618010 AAATAAAA
1 AAATAAAA
10618018 AAA-AAAA
1 AAATAAAA
10618025 AAA
1 AAA
10618028 CCTGGAGCGG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
7 11 0.26
8 26 0.60
9 6 0.14
ACGTcount: A:0.84, C:0.02, G:0.03, T:0.10
Consensus pattern (8 bp):
AAATAAAA
Found at i:10618108 original size:5 final size:5
Alignment explanation
Indices: 10618094--10618126 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10618084 CTCGGGGGAG
*
10618094 CGGCT TGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
10618127 AGGGGGGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.42, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:10618387 original size:19 final size:20
Alignment explanation
Indices: 10618347--10618392 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
10618337 GAACACCGGT
*
10618347 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
10618367 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
10618386 GCCGGAA
1 GCCGGAA
10618393 GTTGGCCGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:10618480 original size:31 final size:31
Alignment explanation
Indices: 10618438--10618503 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
10618428 GACTGGTCGT
* *
10618438 CGGAAACTTC-AATGTTCGCCGGAATTGTT-GC
1 CGGAAAATTCAAAT-TTCACCGGAATT-TTCGC
10618469 CGGAAAATTCAAATTTCACCGGAATTTTCGC
1 CGGAAAATTCAAATTTCACCGGAATTTTCGC
10618500 CGGA
1 CGGA
10618504 TTCTGGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 26 0.84
32 3 0.10
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (31 bp):
CGGAAAATTCAAATTTCACCGGAATTTTCGC
Found at i:10618929 original size:22 final size:24
Alignment explanation
Indices: 10618878--10618931 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
10618868 ATATGATAGT
*
10618878 ATAAAAATAAAAAAATAATATCAG
1 ATAAAATTAAAAAAATAATATCAG
*
10618902 AT--AATTCAAAAAA-AA-ATCAG
1 ATAAAATTAAAAAAATAATATCAG
10618922 ATAAAATTAA
1 ATAAAATTAA
10618932 CAGATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 7 0.28
21 2 0.08
22 14 0.56
24 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.22
Consensus pattern (24 bp):
ATAAAATTAAAAAAATAATATCAG
Done.