Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 219 of 226
Found at i:65459209 original size:3 final size:3
Alignment explanation
Indices: 65459201--65459242 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
65459191 TTTCCCCATT
*
65459201 TTC TTC TTC TT- TTCC TTC TTC TTC CTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC
65459243 ATCATCCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:65459295 original size:12 final size:12
Alignment explanation
Indices: 65459202--65459295 Score: 52
Period size: 12 Copynumber: 8.1 Consensus size: 12
65459192 TTCCCCATTT
*
65459202 TCTTCTTCTT-T
1 TCTTCTTCTTCC
65459213 TCCTTCTTCTTCC
1 T-CTTCTTCTTCC
*
65459226 TCTTCTTCTTCT
1 TCTTCTTCTTCC
* *
65459238 TCTTCATCATCC
1 TCTTCTTCTTCC
* * * *
65459250 TCATCATCATCA
1 TCTTCTTCTTCC
* *
65459262 TCATCTTCCTCC
1 TCTTCTTCTTCC
*
65459274 TC-T-TGC-TCC
1 TCTTCTTCTTCC
65459283 TCTTCTTCTTCC
1 TCTTCTTCTTCC
65459295 T
1 T
65459296 TTTTCTCCCC
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 4 0.06
12 53 0.80
13 1 0.02
ACGTcount: A:0.07, C:0.39, G:0.01, T:0.52
Consensus pattern (12 bp):
TCTTCTTCTTCC
Found at i:65465610 original size:29 final size:29
Alignment explanation
Indices: 65465578--65465637 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
65465568 AAGAAAATGT
65465578 AAAATATTATATATTTGGACAAGTGTGAG
1 AAAATATTATATATTTGGACAAGTGTGAG
65465607 AAAATATTATATATTTGGACAAGTGTGAG
1 AAAATATTATATATTTGGACAAGTGTGAG
65465636 AA
1 AA
65465638 TGCTTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (29 bp):
AAAATATTATATATTTGGACAAGTGTGAG
Found at i:65471257 original size:16 final size:16
Alignment explanation
Indices: 65471224--65471258 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65471214 TTGTATTACT
*
65471224 CAACAAGGCTTATGTA
1 CAACAAGGCTTATATA
*
65471240 CAACAAGGCTTTTATA
1 CAACAAGGCTTATATA
65471256 CAA
1 CAA
65471259 ACCAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (16 bp):
CAACAAGGCTTATATA
Found at i:65471331 original size:103 final size:100
Alignment explanation
Indices: 65471155--65471361 Score: 308
Period size: 103 Copynumber: 2.0 Consensus size: 100
65471145 AGGCACTCAA
* *
65471155 ACAAATCAAATACAAGGAGCTAATATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
1 ACAAACCAAATACAAGGAGCTAACATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
* * *
65471220 TACTCAACAAGGCTTATGTACAACAAGGCTTTTAT
66 TACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
* *
65471255 ACAAACCAAATACAA-GAGTTAACATGCAAGGAAAGTGAGTGTAAGAGATCTAATGCTATAGCTT
1 ACAAACCAAATACAAGGAGCTAACATGCAAAGAAAGTGAGTGT-A-AGA-C-AATGCTATAGCTT
65471319 GTATTACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
62 GTATTACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
65471358 ACAA
1 ACAA
65471362 TGATTCATGT
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
99 24 0.25
100 15 0.16
101 3 0.03
102 1 0.01
103 53 0.55
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (100 bp):
ACAAACCAAATACAAGGAGCTAACATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
TACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
Found at i:65472743 original size:20 final size:20
Alignment explanation
Indices: 65472718--65472756 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65472708 AAATCAATAC
65472718 AAATCGATTAAACCAACTAA
1 AAATCGATTAAACCAACTAA
* *
65472738 AAATCGATTTAATCAACTA
1 AAATCGATTAAACCAACTA
65472757 TTGAACTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (20 bp):
AAATCGATTAAACCAACTAA
Found at i:65475348 original size:10 final size:10
Alignment explanation
Indices: 65475333--65475365 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
65475323 TCTCTCTCTC
65475333 TATATGTATG
1 TATATGTATG
65475343 TATATGTATG
1 TATATGTATG
65475353 --TATGTATG
1 TATATGTATG
65475361 TATAT
1 TATAT
65475366 ATGTACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (10 bp):
TATATGTATG
Found at i:65480760 original size:14 final size:14
Alignment explanation
Indices: 65480738--65480775 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
65480728 AGAGTTATAC
65480738 AATAACAACAAAAT
1 AATAACAACAAAAT
*
65480752 AATAGCAACAAAAT
1 AATAACAACAAAAT
*
65480766 AGTAACAACA
1 AATAACAACA
65480776 TAATTGTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.66, C:0.16, G:0.05, T:0.13
Consensus pattern (14 bp):
AATAACAACAAAAT
Found at i:65480830 original size:22 final size:23
Alignment explanation
Indices: 65480784--65480836 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
65480774 CATAATTGTG
*
65480784 AAATAAT-AGCAAAATAGTGAAA
1 AAATAATAAGCAAAATAGTCAAA
65480806 AAATAATAAGCAAAA-AG-CAACA
1 AAATAATAAGCAAAATAGTCAA-A
65480828 AAATAATAA
1 AAATAATAA
65480837 AAAAAGTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 19 0.68
23 7 0.25
ACGTcount: A:0.68, C:0.08, G:0.09, T:0.15
Consensus pattern (23 bp):
AAATAATAAGCAAAATAGTCAAA
Found at i:65480830 original size:33 final size:31
Alignment explanation
Indices: 65480793--65480853 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
65480783 GAAATAATAG
* *
65480793 CAAAATAGTGAAAAAATAATAAGCAAAAAGCAA
1 CAAAATAAT-AAAAAA-AATAAGAAAAAAGCAA
*
65480826 CAAAATAATAAAAAAAGTAAGAAAAAAG
1 CAAAATAATAAAAAAAATAAGAAAAAAG
65480854 AAAAAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.44
32 6 0.24
33 8 0.32
ACGTcount: A:0.70, C:0.07, G:0.11, T:0.11
Consensus pattern (31 bp):
CAAAATAATAAAAAAAATAAGAAAAAAGCAA
Found at i:65480852 original size:22 final size:22
Alignment explanation
Indices: 65480784--65480852 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
65480774 CATAATTGTG
* *
65480784 AAATAATAGCAAAATAG-TGAAA
1 AAATAATAACAAAA-AGAAGAAA
* *
65480806 AAATAATAAGCAAAAAGCA-ACA
1 AAATAATAA-CAAAAAGAAGAAA
65480828 AAATAATAA-AAAAAGTAAGAAA
1 AAATAATAACAAAAAG-AAGAAA
65480850 AAA
1 AAA
65480853 GAAAAAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
20 6 0.16
21 1 0.03
22 26 0.68
23 5 0.13
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (22 bp):
AAATAATAACAAAAAGAAGAAA
Found at i:65483777 original size:41 final size:40
Alignment explanation
Indices: 65483732--65483859 Score: 116
Period size: 41 Copynumber: 3.1 Consensus size: 40
65483722 TTAAATTATT
* *
65483732 CTAAATCCCTTAGCATTAGCGGCGCTTTATT-AAAATCGCCG
1 CTAAA-CCCTTAGCATTAGCGACGCTTT-TTAAAAAACGCCG
* *
65483773 CTAAAGCCTTGAGCATTAGCGACGCTTTTTAAAAAACGTCG
1 CTAAACCCTT-AGCATTAGCGACGCTTTTTAAAAAACGCCG
* * * * *
65483814 CTACAGCCCTGAGCATTAGCGATGCGTTCTT-AAAAACACCG
1 CTA-AACCCTTAGCATTAGCGACGC-TTTTTAAAAAACGCCG
65483855 CTAAA
1 CTAAA
65483860 GCCACGAAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
40 7 0.10
41 56 0.79
42 8 0.11
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
CTAAACCCTTAGCATTAGCGACGCTTTTTAAAAAACGCCG
Found at i:65484909 original size:9 final size:9
Alignment explanation
Indices: 65484833--65484908 Score: 100
Period size: 9 Copynumber: 8.4 Consensus size: 9
65484823 GTAGTGATTC
*
65484833 AATTTGGTT
1 AATTCGGTT
65484842 AATTCGGTT
1 AATTCGGTT
*
65484851 AATTCGGGT
1 AATTCGGTT
65484860 AATTCGGTT
1 AATTCGGTT
65484869 AATTC-GTGT
1 AATTCGGT-T
*
65484878 AATTCGGCT
1 AATTCGGTT
65484887 AATTCGGTT
1 AATTCGGTT
*
65484896 AATTTGGTT
1 AATTCGGTT
65484905 AATT
1 AATT
65484909 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
8 2 0.03
9 56 0.95
10 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:65487552 original size:3 final size:3
Alignment explanation
Indices: 65487544--65487578 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
65487534 ATTATTTTAA
65487544 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
65487579 AGAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:65492589 original size:14 final size:14
Alignment explanation
Indices: 65492570--65492597 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65492560 AATCCTTTAT
65492570 CCATTTTAATGTGA
1 CCATTTTAATGTGA
65492584 CCATTTTAATGTGA
1 CCATTTTAATGTGA
65492598 GCAAATAAGA
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CCATTTTAATGTGA
Found at i:65498003 original size:16 final size:16
Alignment explanation
Indices: 65497978--65498012 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65497968 TTATATATAT
*
65497978 TTTTTTTTTCATTCCA
1 TTTTTCTTTCATTCCA
*
65497994 TTTTTCTTTCTTTCCA
1 TTTTTCTTTCATTCCA
65498010 TTT
1 TTT
65498013 CTTTGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTCTTTCATTCCA
Found at i:65500508 original size:15 final size:17
Alignment explanation
Indices: 65500481--65500521 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
65500471 AATATAAATA
65500481 TTTATTT-AATTT-GT-
1 TTTATTTAAATTTGGTG
65500495 TTTATTTAAATTTGGTG
1 TTTATTTAAATTTGGTG
65500512 TTT-TTTAAAT
1 TTTATTTAAAT
65500522 AAATATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 9 0.38
17 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (17 bp):
TTTATTTAAATTTGGTG
Found at i:65501057 original size:21 final size:21
Alignment explanation
Indices: 65501015--65501057 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
65501005 TTGTAAAAAT
* * **
65501015 AAATATATTATATATTTTTTA
1 AAATATATTAAAAATTAATTA
65501036 AAATATATTAAAAATTAATTA
1 AAATATATTAAAAATTAATTA
65501057 A
1 A
65501058 TTACTTATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATATATTAAAAATTAATTA
Found at i:65508971 original size:20 final size:20
Alignment explanation
Indices: 65508946--65508998 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
65508936 ACAATGTTGT
65508946 AAATTACTAAAGTT-CTTATA
1 AAATTACTAAA-TTGCTTATA
*
65508966 AAATTATTAAATTGCTTATA
1 AAATTACTAAATTGCTTATA
*
65508986 AAATTTCTAAATT
1 AAATTACTAAATT
65508999 TTTTAAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (20 bp):
AAATTACTAAATTGCTTATA
Found at i:65509401 original size:19 final size:17
Alignment explanation
Indices: 65509379--65509418 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
65509369 ATAATCACTT
65509379 TAATATTAAATTATTAAAA
1 TAATATT-AATT-TTAAAA
*
65509398 TAATATTAATTTTAGAA
1 TAATATTAATTTTAAAA
65509415 TAAT
1 TAAT
65509419 TAATCTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 4 0.20
19 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TAATATTAATTTTAAAA
Found at i:65529622 original size:17 final size:19
Alignment explanation
Indices: 65529587--65529630 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
65529577 ATTAGTTTAA
* *
65529587 TTAAAAATTAGATTTA-TT
1 TTAAAAATTAGAGTAATTT
65529605 TTAAAAATT-GAGTAATTT
1 TTAAAAATTAGAGTAATTT
65529623 TTAAAAAT
1 TTAAAAAT
65529631 AATAATGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
TTAAAAATTAGAGTAATTT
Found at i:65539571 original size:32 final size:32
Alignment explanation
Indices: 65539515--65539581 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
65539505 GATAATAATA
65539515 AATTAAGATCAATTCTAATTACATAACTTATAT
1 AATTAAGATCAATTCTAATTACATAAC-TATAT
65539548 AATTAAGAT-AATT-TCAATTACATAACTATAT
1 AATTAAGATCAATTCT-AATTACATAACTATAT
65539579 AAT
1 AAT
65539582 ATTAGATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 9 0.27
32 15 0.45
33 9 0.27
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (32 bp):
AATTAAGATCAATTCTAATTACATAACTATAT
Found at i:65539699 original size:21 final size:19
Alignment explanation
Indices: 65539673--65539711 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
65539663 GTATATATAT
65539673 AATTCTAATTTCTAAGTAATC
1 AATTCTAATTT-TAA-TAATC
65539694 AATTCTAATTTTAATAAT
1 AATTCTAATTTTAATAAT
65539712 TATACAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 3 0.17
21 11 0.61
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTCTAATTTTAATAATC
Found at i:65546762 original size:12 final size:13
Alignment explanation
Indices: 65546745--65546776 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
65546735 TAACTTCTCA
65546745 TTTGTTT-TTTTT
1 TTTGTTTCTTTTT
65546757 TTTGTTTCTTTTT
1 TTTGTTTCTTTTT
65546770 TTT-TTTC
1 TTTGTTTC
65546777 GAGTGCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (13 bp):
TTTGTTTCTTTTT
Found at i:65548055 original size:17 final size:19
Alignment explanation
Indices: 65548020--65548062 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
65548010 ATTAGTTTAA
* *
65548020 TTAAAAATTAGATTTA-TT
1 TTAAAAATTAGAGTAATTT
65548038 TTAAAAATT-GAGTAATTT
1 TTAAAAATTAGAGTAATTT
65548056 TTAAAAA
1 TTAAAAA
65548063 ATAATAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
TTAAAAATTAGAGTAATTT
Found at i:65553675 original size:18 final size:18
Alignment explanation
Indices: 65553648--65553686 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
65553638 TAATAAATAA
* *
65553648 AATTATCCAACCCAACTC
1 AATTACCCAACCCAACCC
65553666 AATTACCCAACCCAACCC
1 AATTACCCAACCCAACCC
65553684 AAT
1 AAT
65553687 AAAACTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (18 bp):
AATTACCCAACCCAACCC
Found at i:65553877 original size:37 final size:37
Alignment explanation
Indices: 65553836--65553910 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
65553826 TGTTAATTTC
65553836 AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
*
65553873 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
65553910 A
1 A
65553911 TTCGGGTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (37 bp):
AAGACTTACGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:65553900 original size:17 final size:17
Alignment explanation
Indices: 65553845--65553901 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
65553835 CAAGACTTAC
65553845 GTAATGTTTTTAATTAT
1 GTAATGTTTTTAATTAT
* ***
65553862 GTAGTGATTCAAAGACTTAT
1 GTAATG-TTTTTA-A-TTAT
65553882 GTAATGTTTTTAATTAT
1 GTAATGTTTTTAATTAT
65553899 GTA
1 GTA
65553902 GTGATTCAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 12 0.41
18 4 0.14
19 4 0.14
20 9 0.31
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.49
Consensus pattern (17 bp):
GTAATGTTTTTAATTAT
Found at i:65553946 original size:9 final size:9
Alignment explanation
Indices: 65553909--65553948 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
65553899 GTAGTGATTC
*
65553909 AATTCGGGT
1 AATTCGGTT
65553918 AATTCGGTT
1 AATTCGGTT
**
65553927 AATTCAATT
1 AATTCGGTT
65553936 AATTCGGTT
1 AATTCGGTT
65553945 AATT
1 AATT
65553949 TTTAACCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:65561913 original size:24 final size:22
Alignment explanation
Indices: 65561881--65561942 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 22
65561871 AGTGTATTGT
65561881 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTA-ATTTATCA
* *
65561904 TGTTTTATTATTTGTAATTTATCA
1 -ATATTATTATTT-TAATTTATCA
65561928 ATATTATTATTTTAA
1 ATATTATTATTTTAA
65561943 ATTCATCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.09
23 10 0.30
24 18 0.55
25 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (22 bp):
ATATTATTATTTTAATTTATCA
Found at i:65561945 original size:23 final size:23
Alignment explanation
Indices: 65561881--65562002 Score: 86
Period size: 23 Copynumber: 5.2 Consensus size: 23
65561871 AGTGTATTGT
*
65561881 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTAAATTTATCA
* *
65561904 TGTTTTATTATTTGT-AATTTATCA
1 -ATATTATTATTT-TAAATTTATCA
* *
65561928 ATATTATTATTTTAAATTCATCT
1 ATATTATTATTTTAAATTTATCA
* ** *
65561951 TTAACATTATCTTAAATTTATC-
1 ATATTATTATTTTAAATTTATCA
* *
65561973 ATGTATATCTATTTCAAATTTATCA
1 ATAT-TAT-TATTTTAAATTTATCA
*
65561998 TTATT
1 ATATT
65562003 TTTAAATTTA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
22 2 0.03
23 36 0.49
24 32 0.44
25 3 0.04
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (23 bp):
ATATTATTATTTTAAATTTATCA
Found at i:65562129 original size:24 final size:23
Alignment explanation
Indices: 65562071--65562129 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
65562061 CATCAAAATT
65562071 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
65562094 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
65562119 TTGTAAATTAT
1 TT-TAAATTAT
65562130 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:65563438 original size:14 final size:14
Alignment explanation
Indices: 65563419--65563448 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65563409 ACAAATTGAC
*
65563419 ATGATATTACATAT
1 ATGATAATACATAT
65563433 ATGATAATACATAT
1 ATGATAATACATAT
65563447 AT
1 AT
65563449 ACCATATCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
ATGATAATACATAT
Found at i:65565378 original size:6 final size:6
Alignment explanation
Indices: 65565367--65565392 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
65565357 CTTTCTAGCC
65565367 ATTATA ATTATA ATTATA ATTATA AT
1 ATTATA ATTATA ATTATA ATTATA AT
65565393 GGTAAATTTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:65568556 original size:12 final size:12
Alignment explanation
Indices: 65568533--65568572 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
65568523 AATTTGCTCA
65568533 TTTTTTTT--AT
1 TTTTTTTTAAAT
65568543 TTTTTTTTAAAT
1 TTTTTTTTAAAT
65568555 TTTTTATTTAAAT
1 TTTTT-TTTAAAT
65568568 TTTTT
1 TTTTT
65568573 ATTTTGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 8 0.30
12 7 0.26
13 12 0.44
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTAAAT
Found at i:65568559 original size:14 final size:13
Alignment explanation
Indices: 65568542--65568577 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
65568532 ATTTTTTTTA
65568542 TTTTTTTTTAAAT
1 TTTTTTTTTAAAT
*
65568555 TTTTTATTTAAAT
1 TTTTTTTTTAAAT
65568568 TTTTTATTTT
1 TTTTT-TTTT
65568578 GTTGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTAAAT
Found at i:65571775 original size:5 final size:5
Alignment explanation
Indices: 65571763--65571796 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
65571753 ATTTTTGGGA
* *
65571763 AAAAT AGAAT AGAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
65571797 AGATTAAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:65573014 original size:19 final size:20
Alignment explanation
Indices: 65572987--65573037 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
65572977 AAATATAAAA
65572987 TTTGAAATTTTT-ATAAA-TAT
1 TTTG-AATTTTTGA-AAATTAT
65573007 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTTGAAAATTAT
65573027 TTTGAATTTTT
1 TTTGAATTTTT
65573038 TTTTGTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTGAATTTTTGAAAATTAT
Found at i:65574795 original size:24 final size:24
Alignment explanation
Indices: 65574765--65574812 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65574755 GAAAGTTGAA
* *
65574765 AATAAAT-AAATAAAATAACAAAAT
1 AATAAATGAAA-AAAAGAAAAAAAT
65574789 AATAAATGAAAAAAAGAAAAAAAT
1 AATAAATGAAAAAAAGAAAAAAAT
65574813 TTGAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (24 bp):
AATAAATGAAAAAAAGAAAAAAAT
Found at i:65580714 original size:43 final size:44
Alignment explanation
Indices: 65580611--65580723 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
65580601 TGTGTTATCG
* *
65580611 TGTAAGACCACATCTGAGAC-GTTGACATCGACTTGTGACTTACA
1 TGTAAGACCACATCTGGGACAG-TGGCATCGACTTGTGACTTACA
*
65580655 TGTAAGACC-CTGTCTGGGACAGTGGCATCGA-TATGTGA-TTACA
1 TGTAAGACCAC-ATCTGGGACAGTGGCATCGACT-TGTGACTTACA
*
65580698 TGTAAGACCACATCTGGGACAATGGC
1 TGTAAGACCACATCTGGGACAGTGGC
65580724 GTTGTACGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
43 29 0.48
44 30 0.50
45 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (44 bp):
TGTAAGACCACATCTGGGACAGTGGCATCGACTTGTGACTTACA
Found at i:65584393 original size:36 final size:36
Alignment explanation
Indices: 65584346--65584500 Score: 157
Period size: 36 Copynumber: 4.0 Consensus size: 36
65584336 GCTAAGCTAC
65584346 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
65584382 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * * *
65584424 CTACCACTTATCACTTTGTCTCTTAATCAGATAAGTGTTG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
65584464 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
65584500 C
1 C
65584501 TAAAGCTACC
Statistics
Matches: 99, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
36 62 0.63
38 3 0.03
40 2 0.02
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:65584433 original size:46 final size:46
Alignment explanation
Indices: 65584382--65584536 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 46
65584372 ATAAGTATAG
65584382 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
65584428 CACTTATCACTTTGTCTCTTAATCAGATAAGTGT---T---G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
65584464 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
65584510 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
65584537 AGTACTCAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
36 31 0.34
39 1 0.01
40 1 0.01
42 1 0.01
43 1 0.01
46 56 0.62
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:65584441 original size:82 final size:82
Alignment explanation
Indices: 65584303--65584536 Score: 384
Period size: 82 Copynumber: 2.9 Consensus size: 82
65584293 TACGTATGAT
* * *
65584303 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
65584365 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
65584382 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
* * *
65584447 TAATCAGATAAGTGTTG
66 TGATCAGATAAGTATAG
*
65584464 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
65584529 TGATCAGA
66 TGATCAGA
65584537 AGTACTCAAA
Statistics
Matches: 144, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
79 9 0.06
80 5 0.03
81 20 0.14
82 110 0.76
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:65585010 original size:13 final size:13
Alignment explanation
Indices: 65584994--65585021 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65584984 AACCGCAACA
65584994 CCAAACCCTAATT
1 CCAAACCCTAATT
65585007 CCAAACCCTAATT
1 CCAAACCCTAATT
65585020 CC
1 CC
65585022 CAACTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (13 bp):
CCAAACCCTAATT
Found at i:65586378 original size:21 final size:21
Alignment explanation
Indices: 65586349--65586389 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
65586339 ATTTCTGATG
65586349 GTAAAGTGTGATGGCTTGCTA
1 GTAAAGTGTGATGGCTTGCTA
*
65586370 GTAAGGTGTGATGGCTTGCT
1 GTAAAGTGTGATGGCTTGCT
65586390 GTTCAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.37, T:0.34
Consensus pattern (21 bp):
GTAAAGTGTGATGGCTTGCTA
Found at i:65590373 original size:61 final size:60
Alignment explanation
Indices: 65590278--65590397 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 60
65590268 CTAAGCTGAT
* *
65590278 TGCATTGTAAGCGTGGTCTGATCACAGGAAGCCAACAGCATCTGGCATGGTCCATTACCAA
1 TGCATTGTAAGCGTGGTATGATCACAGGAAGCCAACAGCATCGGGCAT-GTCCATTACCAA
*
65590339 TGCATTGTAAGTGTGGTATGATCACAGGAAGCCAACAGCATCGGGCATGTCCATTACCA
1 TGCATTGTAAGCGTGGTATGATCACAGGAAGCCAACAGCATCGGGCATGTCCATTACCA
65590398 TCCGGACTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 11 0.20
61 45 0.80
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (60 bp):
TGCATTGTAAGCGTGGTATGATCACAGGAAGCCAACAGCATCGGGCATGTCCATTACCAA
Found at i:65597124 original size:4 final size:4
Alignment explanation
Indices: 65597115--65597141 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
65597105 AAAATATGTG
65597115 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
65597142 CATTAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:65605919 original size:2 final size:2
Alignment explanation
Indices: 65605912--65605940 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65605902 TTTCGGGTTG
65605912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65605941 AAATTGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65608002 original size:3 final size:3
Alignment explanation
Indices: 65607994--65608019 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65607984 GAGGGAGAAT
65607994 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
65608020 CATTGAATTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:65611997 original size:247 final size:252
Alignment explanation
Indices: 65611544--65612000 Score: 753
Period size: 247 Copynumber: 1.8 Consensus size: 252
65611534 TAAATTACTG
*
65611544 AAATATTGGTATTATGTGGGTTCTTTATAGATTTAGTTTCTTTCTAATCCCTATATTTTCTTAAA
1 AAATATTGGTATTA-GTGGGTTCATTATAGATTTAGTTTCTTTCTAAT--CTATATTTTCTTAAA
*
65611609 TGTGAATTTTTGATTATGAGACACATTCTTTGTTAAATAATTTCACGATATATACATCTAAATAA
63 TGTGAATTTTAGATTATGAGACACATTCTTTGTTAAATAATTTCACGATATATACATCTAAATAA
** *
65611674 TTTTTACAATTTTTTTTGTACATTTAAGAAAAGACACGAAAGATGCTGACATACAAATGCTGCAT
128 TTTTTACAATCCTTTTTGTACATTTAAGAAAAGACACGAAAGATGCCGACATACAAATGCTGCAT
*
65611739 TATGCCATGTTTAATCATTGAGTTCTTATTTGATCATTTCACTGTTAATTGGTCACAATT
193 TATGACATGTTTAATCATTGAGTTCTTATTTGATCATTTCACTGTTAATTGGTCACAATT
65611799 AAATATTGGTATTA-TGGGTTCATTATAGATTTAGTTTCTTTCT-AT-TATATTTTCTTAAATGT
1 AAATATTGGTATTAGTGGGTTCATTATAGATTTAGTTTCTTTCTAATCTATATTTTCTTAAATGT
* * *
65611861 GAATTTTAGATTATGAGACA-TTTTTTTGTTAAATAATTTCACGATATATACATCTAAATATTTT
66 GAATTTTAGATTATGAGACACATTCTTTGTTAAATAATTTCACGATATATACATCTAAATAATTT
* *
65611925 TTACAA-CCTTTTTGTACATTTAAGAAAAGACACGAAAGATGCCGAGATATAAATGCTGCATTAT
131 TTACAATCCTTTTTGTACATTTAAGAAAAGACACGAAAGATGCCGACATACAAATGCTGCATTAT
65611989 GACATGTTTAAT
196 GACATGTTTAAT
65612001 AAGCCATGTT
Statistics
Matches: 191, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
247 64 0.34
248 47 0.25
249 36 0.19
252 2 0.01
253 28 0.15
255 14 0.07
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (252 bp):
AAATATTGGTATTAGTGGGTTCATTATAGATTTAGTTTCTTTCTAATCTATATTTTCTTAAATGT
GAATTTTAGATTATGAGACACATTCTTTGTTAAATAATTTCACGATATATACATCTAAATAATTT
TTACAATCCTTTTTGTACATTTAAGAAAAGACACGAAAGATGCCGACATACAAATGCTGCATTAT
GACATGTTTAATCATTGAGTTCTTATTTGATCATTTCACTGTTAATTGGTCACAATT
Found at i:65619350 original size:88 final size:88
Alignment explanation
Indices: 65619201--65619373 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 88
65619191 TTTTTAATAT
* *
65619201 GAGAAGATAATAACTAAATTTCAATTCTAATTCCTCTAGTTTCTATGGTTAAATTTCAGTTTTGA
1 GAGAAGATAATAACTAAATTTCAATTCTAATTCCTCAAATTTCTATGGTTAAATTTCAGTTTTGA
*
65619266 TCCTTATATATCACTCAAATTTC
66 TCCCTATATATCACTCAAATTTC
** * *
65619289 GAGAAGATAATTGCTAAATTTCAATTCTAA-TCATTCAAATTTTTATGGTTAAATATT-AGTTTT
1 GAGAAGATAATAACTAAATTTCAATTCTAATTC-CTCAAATTTCTATGGTTAAAT-TTCAGTTTT
* *
65619352 GATCCCTATATTTCAGTCAAAT
64 GATCCCTATATATCACTCAAAT
65619374 CTATAACCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
87 2 0.03
88 70 0.95
89 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (88 bp):
GAGAAGATAATAACTAAATTTCAATTCTAATTCCTCAAATTTCTATGGTTAAATTTCAGTTTTGA
TCCCTATATATCACTCAAATTTC
Found at i:65621876 original size:30 final size:31
Alignment explanation
Indices: 65621804--65621881 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
65621794 ATTCTATATT
*
65621804 AAATATAAATATAAATTTATTATTATTTAATCA
1 AAATATAATTAT-AA-TTATTATTATTTAATCA
*
65621837 AAATGTAATTATAATT-TTATTATTTAAT-A
1 AAATATAATTATAATTATTATTATTTAATCA
*
65621866 CAAATATAATTTTAAT
1 -AAATATAATTATAAT
65621882 AATTTGAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.62
31 2 0.05
32 2 0.05
33 10 0.25
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
AAATATAATTATAATTATTATTATTTAATCA
Found at i:65624035 original size:14 final size:15
Alignment explanation
Indices: 65624016--65624045 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65624006 TCGGCTCTCC
65624016 ACTTA-TTAATTACA
1 ACTTATTTAATTACA
65624030 ACTTATTTAATTACA
1 ACTTATTTAATTACA
65624045 A
1 A
65624046 AGTTATTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTTATTTAATTACA
Found at i:65632017 original size:20 final size:20
Alignment explanation
Indices: 65631992--65632032 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65631982 GCTTTCTCTT
65631992 TCCTTGTGTACTTTTTGGTA
1 TCCTTGTGTACTTTTTGGTA
65632012 TCCTTGTGTACTTTTTGGTA
1 TCCTTGTGTACTTTTTGGTA
65632032 T
1 T
65632033 AATATGTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.56
Consensus pattern (20 bp):
TCCTTGTGTACTTTTTGGTA
Found at i:65632040 original size:19 final size:20
Alignment explanation
Indices: 65631998--65632041 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
65631988 TCTTTCCTTG
** *
65631998 TGTACTTTTTGGTATCCTTG
1 TGTACTTTTTGGTATCAATA
65632018 TGTACTTTTTGGTAT-AATA
1 TGTACTTTTTGGTATCAATA
65632037 TGTAC
1 TGTAC
65632042 ATCCAAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (20 bp):
TGTACTTTTTGGTATCAATA
Found at i:65634432 original size:81 final size:81
Alignment explanation
Indices: 65634290--65634908 Score: 697
Period size: 81 Copynumber: 7.6 Consensus size: 81
65634280 AATGTCATCA
* * * * * *
65634290 TGAAGAAAGAAGCTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGCACCTAG
1 TGAAGAGAGAAACTCCGAGA-GGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
65634355 TGGTTTTAATATCATTG
65 TGGTTTTAATATCATTG
* * ** * *
65634372 TGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATTCTAATATTCTGTTGGCACCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* * *
65634437 GGTTTAAACATCATCG
66 GGTTTTAATATCATTG
* * * * *
65634453 TGAAGAGAGAAACTCC-AGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCATCTAC
1 TGAAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
65634517 TGGTTTTAATATCATTG
65 TGGTTTTAATATCATTG
* * * ** **
65634534 TGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTCTAATCCTCCATTGGTTCCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* *
65634599 GGTTTAAACT-TCATCG
66 GGTTTTAA-TATCATTG
* * * * * *
65634615 TGAAGAGAGAAGCTCC-AGGAGGACCAAATCCTATTCAAAATTCTAATCCTCTGCTAGCACTTAG
1 TGAAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
*
65634679 TGGTTTTAATGTCATTG
65 TGGTTTTAATATCATTG
* * * * * *
65634696 TGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAA-CCATAATCCTCCACAGGCACCTAG
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTC-TAATCCTCCGCTGGCACCTAG
*
65634760 TGGTTTTAATGTCATTG
65 TGGTTTTAATATCATTG
* * *
65634777 TGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCAGACACCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
*
65634842 GGTTTTAATGTCATTG
66 GGTTTTAATATCATTG
* * * * *
65634858 TGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTC
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTC
65634909 TGCTAGCTCC
Statistics
Matches: 453, Mismatches: 76, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.01
81 431 0.95
82 19 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (81 bp):
TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
GGTTTTAATATCATTG
Found at i:65634578 original size:162 final size:162
Alignment explanation
Indices: 65634284--65634908 Score: 822
Period size: 162 Copynumber: 3.9 Consensus size: 162
65634274 TAAAAAAATG
* * * * *
65634284 TCATCATGAAGAAAGAAGCTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGC
1 TCATCGTGAAGAGAGAAACTCCAGGA-GGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGC
* * * *
65634349 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATT
65 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATT
** **
65634414 CTAATATTCTGTTGGCACCTAGTGGTTTAAACA
130 CTAATCCTCCATTGGCACCTAGTGGTTTAAACA
*
65634447 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCA
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
* * * * *
65634512 TCTACTGGTTTTAATATCATTGTGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTC
66 CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
** *
65634577 TAATCCTCCATTGGTTCCTAGTGGTTTAAACT
131 TAATCCTCCATTGGCACCTAGTGGTTTAAACA
* * * * *
65634609 TCATCGTGAAGAGAGAAGCTCCAGGAGGACCAAATCCTATTCAAAATTCTAATCCTCTGCTAGCA
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
* * * *
65634674 CTTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAA-CC
66 CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
** * **
65634738 ATAATCCTCCACAGGCACCTAGTGGTTTTAATG
131 -TAATCCTCCATTGGCACCTAGTGGTTTAAACA
* * *
65634771 TCATTGTGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGC-AGAC
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAG-C
* * * *
65634835 ACCTAGTGGTTTTAATGTCATTGTGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACT
65 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATT
65634900 CTAATCCTC
130 CTAATCCTC
65634909 TGCTAGCTCC
Statistics
Matches: 410, Mismatches: 49, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
161 3 0.01
162 384 0.94
163 23 0.06
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (162 bp):
TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
TAATCCTCCATTGGCACCTAGTGGTTTAAACA
Found at i:65634745 original size:243 final size:242
Alignment explanation
Indices: 65634290--65634915 Score: 781
Period size: 243 Copynumber: 2.6 Consensus size: 242
65634280 AATGTCATCA
* * * *
65634290 TGAAGAAAGAAGCTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGCACCTAG
1 TGAAGAGAGAAGCTCCGGGA-GGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
* * * *
65634355 TGGTTTTAATATCATTGTGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATTCTAATA
65 TGGTTTTAATATCATTGTGAAGAGAGAAACTCCG-GAGGACCAAATCCTCTTCAAAATTCTAATC
* * *
65634420 TTCTGTTGGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
129 CTCTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
* * ** *
65634485 CTTCATAACTCTAATCCTCTGCTA-GCATCTACTGGTTTTAATATCATTG
194 ATTCACAACTCTAATCCTCCAC-AGGCACCTACTGGTTTTAATATCATTG
* ** **
65634534 TGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTCTAATCCTCCATTGGTTCCTAGT
1 TGAAGAGAGAAGCTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* * * *
65634599 GGTTTAAACT-TCATCGTGAAGAGAGAAGCTCCAGGAGGACCAAATCCTATTCAAAATTCTAATC
66 GGTTTTAA-TATCATTGTGAAGAGAGAAACTCC-GGAGGACCAAATCCTCTTCAAAATTCTAATC
* * ** * *
65634663 CTCTGCTAGCACTTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCT
129 CTCTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
* *
65634728 ATTCACAAC-CATAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTG
194 ATTCACAACTC-TAATCCTCCACAGGCACCTACTGGTTTTAATATCATTG
* ** * *
65634777 TGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCAGACACCTAGT
1 TGAAGAGAGAAGCTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* * * * *
65634842 GGTTTTAATGTCATTGTGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCC
66 GGTTTTAATATCATTGTGAAGAGAGAAACTCC-GGAGGACCAAATCCTCTTCAAAATTCTAATCC
65634907 TCTGCTAGC
130 TCTGCTAGC
65634916 TCCGCTTCCG
Statistics
Matches: 325, Mismatches: 52, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
242 3 0.01
243 301 0.93
244 21 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (242 bp):
TGAAGAGAGAAGCTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
GGTTTTAATATCATTGTGAAGAGAGAAACTCCGGAGGACCAAATCCTCTTCAAAATTCTAATCCT
CTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTAT
TCACAACTCTAATCCTCCACAGGCACCTACTGGTTTTAATATCATTG
Found at i:65638709 original size:19 final size:19
Alignment explanation
Indices: 65638685--65638727 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
65638675 TTTTTTTAAC
65638685 AATTAAAAAAATAATTTCA
1 AATTAAAAAAATAATTTCA
65638704 AATTAAAAAAATAATTTCA
1 AATTAAAAAAATAATTTCA
65638723 AATTA
1 AATTA
65638728 TTTCCTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAAAAAAATAATTTCA
Found at i:65639789 original size:31 final size:29
Alignment explanation
Indices: 65639754--65639830 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
65639744 TTAATAGCTC
*
65639754 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
65639785 AGTGACAAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
65639814 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
65639831 CTAAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:65640825 original size:81 final size:81
Alignment explanation
Indices: 65640669--65640877 Score: 319
Period size: 81 Copynumber: 2.5 Consensus size: 81
65640659 TATCATTAAA
** * *
65640669 AATGTCATCATGAAGAGAGAAACTTCGGGAGGATCAAATTATCCTCTTCACAATTCTAATCCTCC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGA-CCAA--ATCCTCTTCACAATTCTAATCCTCC
65640734 ACAGGCACCTAGTGGTTTT
63 ACAGGCACCTAGTGGTTTT
* * **
65640753 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTCCACA
65640818 GGCACCTAGTGGTTTT
66 GGCACCTAGTGGTTTT
65640834 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCT
65640878 CCACCATGAA
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
81 84 0.72
83 3 0.03
84 29 0.25
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (81 bp):
AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTCCACA
GGCACCTAGTGGTTTT
Found at i:65640894 original size:33 final size:33
Alignment explanation
Indices: 65640852--65640917 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
65640842 TGTGAAGAGA
65640852 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
1 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
65640885 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
1 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
65640918 TCTAATCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.15
Consensus pattern (33 bp):
GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
Found at i:65640971 original size:114 final size:114
Alignment explanation
Indices: 65640771--65640989 Score: 384
Period size: 114 Copynumber: 1.9 Consensus size: 114
65640761 TGTGAAGAGA
* * *
65640771 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
*
65640836 TGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTCCACCAT
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
* *
65640885 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
65640950 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
65640990 ATTCACAACC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (114 bp):
GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
Found at i:65641020 original size:81 final size:80
Alignment explanation
Indices: 65640885--65641413 Score: 799
Period size: 81 Copynumber: 6.5 Consensus size: 80
65640875 TCTCCACCAT
* * *
65640885 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCA-CAATCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
65640950 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * * *
65640966 GAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACAATC-TAATCCTCCGCAGGCACCTAGTGGTTTTAA
65641031 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * * *
65641047 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGTACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCAC-AATCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
65641112 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* *
65641128 GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCA-CAATCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
65641193 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * *
65641209 GAAACTCCGGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACAATC-TAATCCTCCGCAGGCACCTAGTGGTTTTAA
65641274 TGTCATTGTGAAGAGA
65 TGTCATTGTGAAGAGA
* * *
65641290 GAAACTCCAGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCAGACACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACAA-TCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
*
65641355 TGTCATTGTGAAGCG-
65 TGTCATTGTGAAGAGA
65641370 GAAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTC
1 G-AAACTCCGGGAGGACCAAATCCTCTTCACAA-TCTAATCCTC
65641414 TGCTAGCTCC
Statistics
Matches: 410, Mismatches: 32, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
80 7 0.02
81 399 0.97
82 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (80 bp):
GAAACTCCGGGAGGACCAAATCCTCTTCACAATCTAATCCTCCGCAGGCACCTAGTGGTTTTAAT
GTCATTGTGAAGAGA
Found at i:65641041 original size:195 final size:195
Alignment explanation
Indices: 65640709--65641072 Score: 622
Period size: 195 Copynumber: 1.9 Consensus size: 195
65640699 GGATCAAATT
*
65640709 ATCCTCTTCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
1 ATCCTCTCCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
* ** **
65640774 ACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAATGT
66 ACTCCAGGAGGACCAAATCCTATTCACGAACCTAATCCTCCACAGGCACCTAGTGGTTTTAATGT
*
65640839 CATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTCCACCATGAAACTCCGGGAGGACCAA
131 CATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCATGAAACTCCGGGAGGACCAA
* * *
65640904 ATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
1 ATCCTCTCCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
65640969 ACTCCAGGAGGACCAAATCCTATTCAC-AACCATAATCCTCCACAGGCACCTAGTGGTTTTAATG
66 ACTCCAGGAGGACCAAATCCTATTCACGAACC-TAATCCTCCACAGGCACCTAGTGGTTTTAATG
65641033 TCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
130 TCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
65641073 TCACGATTCT
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
194 2 0.01
195 156 0.99
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (195 bp):
ATCCTCTCCACAATTCTAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAA
ACTCCAGGAGGACCAAATCCTATTCACGAACCTAATCCTCCACAGGCACCTAGTGGTTTTAATGT
CATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCATGAAACTCCGGGAGGACCAA
Found at i:65641313 original size:243 final size:242
Alignment explanation
Indices: 65640885--65641413 Score: 950
Period size: 243 Copynumber: 2.2 Consensus size: 242
65640875 TCTCCACCAT
*
65640885 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
65640950 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGG
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGG
*
65641015 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGAT
131 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACAAT
* **
65641080 TCTAATCCTCTGCAGGTACCTAGTGGTTTTAATGTCATTGTGAAGAG
196 TCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGAG
65641127 AGAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTA
1 -GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTA
*
65641192 ATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAG
65 ATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAG
*
65641257 GCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAA
130 GCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACAA
*
65641322 TTCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGCG
195 TTCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGAG
* *
65641370 GAAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTC
1 G-AAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTC
65641414 TGCTAGCTCC
Statistics
Matches: 275, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
242 1 0.00
243 274 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (242 bp):
GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATTCACAACCATAATCCTCCACAGG
CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACAAT
TCTAATCCTCCGCAGACACCTAGTGGTTTTAATGTCATTGTGAAGAG
Found at i:65644128 original size:80 final size:81
Alignment explanation
Indices: 65643963--65644224 Score: 235
Period size: 81 Copynumber: 3.2 Consensus size: 81
65643953 TCCAAGATGG
* *
65643963 CCAAATCCTCTTCATAACTCTAATCTTTCGCTGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
1 CCAAATCCTCTTCATAACTCCAATCTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
* *
65644028 AAAAACTCTAGGAGGG
66 AAAAACTCTAGAAGGA
* * *
65644044 CCAAATCCTCTTCATAACTCCAATCATTT-GCAGGCA-CTGGTGGTTTTAATATCATCGTGAAGA
1 CCAAATCCTCTTCATAACTCCAATC-TTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGA
* *
65644107 GACAAA-TACTAGAAGGA
65 AAAAAACT-CTAGAAGGA
* ** ** * *** * * **
65644124 CCAAATACTCTTCATAGTTTTAATCCTCTATTA-TCACCTAGTGGTCTTAATATCATCACGAAGA
1 CCAAATCCTCTTCATAACTCCAAT-CTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGA
* * *
65644188 AAGAAACTCCAGGAGGA
65 AAAAAACTCTAGAAGGA
*
65644205 CCAAATCCTTTTCATAACTC
1 CCAAATCCTCTTCATAACTC
65644225 TAATAGACAC
Statistics
Matches: 144, Mismatches: 31, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 58 0.40
81 81 0.56
82 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (81 bp):
CCAAATCCTCTTCATAACTCCAATCTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
AAAAACTCTAGAAGGA
Found at i:65644331 original size:155 final size:158
Alignment explanation
Indices: 65643963--65644320 Score: 393
Period size: 161 Copynumber: 2.3 Consensus size: 158
65643953 TCCAAGATGG
* * * * **
65643963 CCAAATCCTCTTCATAACTCTAATCTTTCGCTGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
1 CCAAATCCTCTTCATAACTCTAATCCTCCGCTGCCACCTAGTGGTCTTAATATCATCACGAAGAA
* *
65644028 AAAAACTCTAGGAGGGCCAAATCCTCTTCATAACTCCAATCATTTGCAGGCACTGGTGGTTTTAA
66 AAAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCA--TGCA-GCACTGGTGGTTTTAA
65644093 TATCATCGTGAAGAGACAAATACTAGAAGGA
128 TATCATCGTGAAGAGACAAATACTAGAAGGA
* ** * *** **
65644124 CCAAATACTCTTCATAGTTTTAATCCTCTATTATCACCTAGTGGTCTTAATATCATCACGAAGAA
1 CCAAATCCTCTTCATAACTCTAATCCTCCGCTGCCACCTAGTGGTCTTAATATCATCACGAAGAA
* * *
65644189 AGAAACTCCAGGAGGACCAAATCCTTTTCATAACTCTAAT-A-G-A-CACCTGGTGGTTTTAATA
66 AAAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCATGCAGCA-CTGGTGGTTTTAATA
* * * * * *
65644250 TCTTTGTTAAGAGAGACACT-CTAGGAGGA
130 TCATCGTGAAGAGACA-AATACTAGAAGGA
*
65644279 CCGAATCCTCTTCATAACTCTAATCCTCCGCTGCCACCTAGT
1 CCAAATCCTCTTCATAACTCTAATCCTCCGCTGCCACCTAGT
65644321 AATTTTAATA
Statistics
Matches: 160, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
154 2 0.01
155 67 0.42
156 3 0.02
157 1 0.01
160 1 0.01
161 86 0.54
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (158 bp):
CCAAATCCTCTTCATAACTCTAATCCTCCGCTGCCACCTAGTGGTCTTAATATCATCACGAAGAA
AAAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCATGCAGCACTGGTGGTTTTAATAT
CATCGTGAAGAGACAAATACTAGAAGGA
Found at i:65649254 original size:20 final size:20
Alignment explanation
Indices: 65649229--65649267 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
65649219 CAAATTTGAG
65649229 TGTAATAGAAGGATCAAATT
1 TGTAATAGAAGGATCAAATT
65649249 TGTAATAGAAGGATCAAAT
1 TGTAATAGAAGGATCAAAT
65649268 ATGATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
TGTAATAGAAGGATCAAATT
Found at i:65655271 original size:14 final size:14
Alignment explanation
Indices: 65655247--65655292 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
65655237 ACTTTACTGT
65655247 TATAT-TGTATTTG
1 TATATATGTATTTG
65655260 TATATATGTATTTG
1 TATATATGTATTTG
* * *
65655274 TAAATATTTATTCG
1 TATATATGTATTTG
65655288 TATAT
1 TATAT
65655293 GTTGCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:65656821 original size:98 final size:98
Alignment explanation
Indices: 65656643--65656837 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
65656633 TACAATAAAA
* *
65656643 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCTAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* * *
65656708 CTCTAGAATCTCAAACTCGGAATATTTCCTTTT
66 CTCTAAAATCCCAAACTCAGAATATTTCCTTTT
65656741 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* *
65656806 CTTTAAAATCCCAAACTTAGAATATTTCCTTT
66 CTCTAAAATCCCAAACTCAGAATATTTCCTTT
65656838 ATTATTTAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTCTAAAATCCCAAACTCAGAATATTTCCTTTT
Found at i:65657523 original size:23 final size:23
Alignment explanation
Indices: 65657495--65657540 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
65657485 ATATATATAT
65657495 GAAAATATTCA-TTAAAAAAATAG
1 GAAAATA-TCATTTAAAAAAATAG
65657518 GAAAATATCATTTTAAAAAAATA
1 GAAAATATCA-TTTAAAAAAATA
65657541 TATATATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 7 0.33
24 11 0.52
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (23 bp):
GAAAATATCATTTAAAAAAATAG
Found at i:65658168 original size:23 final size:22
Alignment explanation
Indices: 65658125--65658182 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
65658115 AAAGGGTATC
* *
65658125 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
65658146 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
65658169 TACATATCATATCT
1 TACAAATCATATCT
65658183 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:65658185 original size:19 final size:19
Alignment explanation
Indices: 65658138--65658216 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
65658128 AAATTAAATC
*
65658138 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
65658158 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
65658180 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
65658201 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
65658217 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:65658198 original size:21 final size:21
Alignment explanation
Indices: 65658172--65658215 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
65658162 CTAAGATTAC
65658172 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
65658193 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
65658214 AT
1 AT
65658216 CCTCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:65663076 original size:14 final size:15
Alignment explanation
Indices: 65663055--65663092 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
65663045 ATTTTACATT
65663055 ATTGTTAATTAAGTA
1 ATTGTTAATTAAGTA
65663070 A-TGTTAA-TAAGTA
1 ATTGTTAATTAAGTA
65663083 ATTGTTAATT
1 ATTGTTAATT
65663093 TTACTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 12 0.57
15 2 0.10
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
ATTGTTAATTAAGTA
Found at i:65671745 original size:19 final size:19
Alignment explanation
Indices: 65671723--65671766 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
65671713 ACATATATGT
65671723 ATAATAAT-GATGAATAAT-A
1 ATAATAATAG-TGAA-AATAA
65671742 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
65671761 ATAATA
1 ATAATA
65671767 TAATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.13
19 19 0.83
20 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:65673678 original size:70 final size:69
Alignment explanation
Indices: 65673552--65673750 Score: 227
Period size: 67 Copynumber: 3.0 Consensus size: 69
65673542 GTTGATATTT
* *
65673552 TTTTGACAACAGAAATTGAAATTACCTC-GCGTGTC-CGAGGCTC-ACTCATTTCTCGCATATGA
1 TTTTGA-AACAGAAATTGAAATTACCTCAACGTGTCTAGAGGCTCAACTCATTTCTCGCATATGA
65673614 -TTGAA
65 GTT-AA
* * * *
65673619 TTTTGAAAGTAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCATATGA
1 TTTTGAAA-CAGAAATTGAAATTACCTCAACGTGTCTAGAGGCTCAACTCATTTCTCGCATATGA
65673684 GTTAA
65 GTTAA
* *
65673689 TTTTGAAACAGAAATTGAAATTA--TCAATGTGTCTAG-GTGCTCAA-TCATTTCTTGCAT-TGA
1 TTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTAGAG-GCTCAACTCATTTCTCGCATATGA
65673749 GT
65 GT
65673751 CTGATTCTTT
Statistics
Matches: 115, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
65 5 0.04
66 15 0.13
67 39 0.34
68 6 0.05
69 19 0.17
70 29 0.25
71 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (69 bp):
TTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTAGAGGCTCAACTCATTTCTCGCATATGAG
TTAA
Found at i:65687172 original size:18 final size:19
Alignment explanation
Indices: 65687149--65687191 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
65687139 ACATATATGT
65687149 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
65687167 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
65687186 ATAATA
1 ATAATA
65687192 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:65687199 original size:15 final size:17
Alignment explanation
Indices: 65687163--65687203 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
65687153 TAATGATGAA
65687163 AATAAT-AATAATAGTG
1 AATAATAAATAATAGTG
65687179 AA-AATAAATAATA-T-
1 AATAATAAATAATAGTG
65687193 AATAATAAATA
1 AATAATAAATA
65687204 TAATAGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAAATAATAGTG
Found at i:65688782 original size:108 final size:107
Alignment explanation
Indices: 65688545--65688819 Score: 369
Period size: 108 Copynumber: 2.6 Consensus size: 107
65688535 TTTCAAAAAT
65688545 AGATGGT-GAGTGGG-TCGTCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTT
1 AGATGGTGGAGTGGGCTC-TCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTT
* *
65688608 CTATGAGATGTGGCAGAACTTGATTTCCACCTTTTCCAAGGGC
65 CTATGAGATGAGGCAGAACTTGATTTACACCTTTTCCAAGGGC
* * ** *
65688651 AGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCCAATGTTCAAACCAGGACCAACTTGACTTA
1 AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTT-
* * *
65688716 CT-TGAGATGGAGGCGGAACTTGATTTATACCTTTTCCAGGGGC
65 CTATGAGAT-GAGGCAGAACTTGATTTACACCTTTTCCAAGGGC
* * *
65688759 AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCTCAAAGTTTAAACC-GTGACCAACTTGA
1 AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAATGTTCAAACCAG-GACCAACTTGA
65688820 GGCGATGGTG
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
106 7 0.05
107 56 0.38
108 83 0.57
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (107 bp):
AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTTC
TATGAGATGAGGCAGAACTTGATTTACACCTTTTCCAAGGGC
Found at i:65688889 original size:99 final size:98
Alignment explanation
Indices: 65688738--65689027 Score: 354
Period size: 99 Copynumber: 2.9 Consensus size: 98
65688728 GCGGAACTTG
* * * *
65688738 ATTTATACCTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCAATAATATCTCAAAGTTTA
1 ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTTAGTAATATCCCAAAGTTTA
*
65688803 AACCGTGACCAACTTGAGGCGATGGTGCTGGTGT
66 AACCGTGACCAACTTGAGGCG-TGGTGCTGGCGT
* ** *
65688837 ATTTATACGTTTTCTAGAAGCAGATGGTGGAGTGGGCTCTCCCTTTGGTAATATCCCAAAGTTTA
1 ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTTAGTAATATCCCAAAGTTTA
* *
65688902 AACCGTGA-CAACCTTAAGGCCGTGGTGGTGGCGT
66 AACCGTGACCAA-CTTGAGG-CGTGGTGCTGGCGT
* * *
65688936 ATTTATACGTTTTCCAGGGGAAAATGGTGGAGTGGG-TCCTCCCTTTCGTAATATCCCAAAGTTC
1 ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCT-CTCCCTTTAGTAATATCCCAAAGTT-
*
65689000 TAATA--GTGACCAACTTGAAGCGGTGGTG
64 TAA-ACCGTGACCAACTTGAGGC-GTGGTG
65689028 GTGACCAACT
Statistics
Matches: 165, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
98 5 0.03
99 151 0.92
100 8 0.05
101 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (98 bp):
ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTTAGTAATATCCCAAAGTTTA
AACCGTGACCAACTTGAGGCGTGGTGCTGGCGT
Found at i:65693206 original size:31 final size:32
Alignment explanation
Indices: 65693171--65693237 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
65693161 TTACTCCCTA
* * *
65693171 TTAAAATTCAATAATTCAATTT-AATCCTTTT
1 TTAAAAGTAAATAATTCAATTTAAATCATTTT
*
65693202 TTAAAAGTAAATAATTTAATTTAAATCATTTT
1 TTAAAAGTAAATAATTCAATTTAAATCATTTT
65693234 TTAA
1 TTAA
65693238 TATTAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.48
Consensus pattern (32 bp):
TTAAAAGTAAATAATTCAATTTAAATCATTTT
Found at i:65696531 original size:18 final size:18
Alignment explanation
Indices: 65696498--65696545 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
65696488 GGGTGTGCAT
*
65696498 AATTCGGTAAAACCGAAAA
1 AATTCGGT-TAACCGAAAA
***
65696517 AATTCGGTTAACCGACTG
1 AATTCGGTTAACCGAAAA
65696535 AATTCGGTTAA
1 AATTCGGTTAA
65696546 TCGGTCGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (18 bp):
AATTCGGTTAACCGAAAA
Found at i:65696702 original size:13 final size:13
Alignment explanation
Indices: 65696684--65696713 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
65696674 AGCCCAAACT
65696684 CAATTACCCAACC
1 CAATTACCCAACC
65696697 CAATTACCCAACC
1 CAATTACCCAACC
65696710 CAAT
1 CAAT
65696714 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:65705792 original size:15 final size:16
Alignment explanation
Indices: 65705772--65705805 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
65705762 AGACTTAAAC
65705772 AATTAATAAACCTA-A
1 AATTAATAAACCTAGA
65705787 AATTAATAAACCTAGA
1 AATTAATAAACCTAGA
65705803 AAT
1 AAT
65705806 AGTTAGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.26
Consensus pattern (16 bp):
AATTAATAAACCTAGA
Found at i:65706421 original size:42 final size:43
Alignment explanation
Indices: 65706374--65706460 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
65706364 TAATTGTAAT
* * * *
65706374 TTAAATTCTAATT-TTTTTAATTTGTAATTATCACGACTTCTA
1 TTAAATTCTAATTATTTTAAATGTATAATTATCACAACTTCTA
* *
65706416 TTAAATTGTAATTATTTTAAATGTATAATTATCACAAGTTCTA
1 TTAAATTCTAATTATTTTAAATGTATAATTATCACAACTTCTA
65706459 TT
1 TT
65706461 TTATTTCAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
42 12 0.32
43 26 0.68
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (43 bp):
TTAAATTCTAATTATTTTAAATGTATAATTATCACAACTTCTA
Found at i:65708007 original size:16 final size:16
Alignment explanation
Indices: 65707986--65708016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65707976 AACTTGATTG
65707986 ACCCAAAATCAAAACA
1 ACCCAAAATCAAAACA
*
65708002 ACCCAAACTCAAAAC
1 ACCCAAAATCAAAAC
65708017 GACCTAACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.35, G:0.00, T:0.06
Consensus pattern (16 bp):
ACCCAAAATCAAAACA
Found at i:65712548 original size:2 final size:2
Alignment explanation
Indices: 65712541--65712571 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
65712531 TATATTCTTT
65712541 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 T
65712572 CCTTTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65713612 original size:100 final size:101
Alignment explanation
Indices: 65713458--65713641 Score: 316
Period size: 100 Copynumber: 1.8 Consensus size: 101
65713448 GTCAGCATGG
* *
65713458 GATACACATGATATACCACATGTTACTATTTGGTTGTTTTATTAGTCATGCTAG-TTTTAATAGT
1 GATACACATGACATACCACATGTTACTATTTGGTTGTTTTATTAGTCATGCTAGTTTTTAATAAT
65713522 AAAAATAGATGAAATTTTTCATTTACGCAAGTATGA
66 AAAAATAGATGAAATTTTTCATTTACGCAAGTATGA
*
65713558 GATACACATGACATACCACGTGTTACTATTTGGTTGTTTTATTAGTCATGCTAGTTTTTAATAAT
1 GATACACATGACATACCACATGTTACTATTTGGTTGTTTTATTAGTCATGCTAGTTTTTAATAAT
* *
65713623 AGAAATAGATGAATTTTTT
66 AAAAATAGATGAAATTTTT
65713642 AACGAAAAGG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 52 0.67
101 26 0.33
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (101 bp):
GATACACATGACATACCACATGTTACTATTTGGTTGTTTTATTAGTCATGCTAGTTTTTAATAAT
AAAAATAGATGAAATTTTTCATTTACGCAAGTATGA
Found at i:65713983 original size:19 final size:19
Alignment explanation
Indices: 65713959--65714012 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
65713949 AATCTTCAAG
65713959 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65713978 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65713997 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
65714013 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:65714038 original size:22 final size:22
Alignment explanation
Indices: 65713959--65714035 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 22
65713949 AATCTTCAAG
65713959 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
65713978 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
65713997 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
65714019 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
65714036 GATTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 32 0.62
22 8 0.15
23 12 0.23
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:65714490 original size:3 final size:3
Alignment explanation
Indices: 65714482--65714514 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
65714472 ATTAATCTTG
*
65714482 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65714515 ATTCATGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:65722672 original size:21 final size:21
Alignment explanation
Indices: 65722648--65722709 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
65722638 ATAAGTGCTA
*
65722648 AACGGAAACCCGTAAGGGTTG
1 AACGGAAACCCATAAGGGTTG
* * *
65722669 AACGGAAGCTCAT-AGGAGCTG
1 AACGGAAACCCATAAGG-GTTG
65722690 AACGGAAACCCATAAGGGTT
1 AACGGAAACCCATAAGGGTT
65722710 AAACTGAAGC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 3 0.09
21 26 0.81
22 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (21 bp):
AACGGAAACCCATAAGGGTTG
Found at i:65722730 original size:42 final size:42
Alignment explanation
Indices: 65722644--65722764 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
65722634 GCACATAAGT
* * * * *
65722644 GCTAAACGGAAACCCGTAAGGGTTGAACGGAAGCTCATAGGA
1 GCTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAGAAGA
* *
65722686 GCTGAACGGAAACCCATAAGGGTTAAACTGAAGCTTAGAAGA
1 GCTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAGAAGA
* * * *
65722728 GCTAAACTGAAACTCAGAAGGGTTAAACTGAAACTCA
1 GCTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCA
65722765 TATGAGTTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.17
Consensus pattern (42 bp):
GCTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAGAAGA
Found at i:65722778 original size:20 final size:21
Alignment explanation
Indices: 65722694--65722801 Score: 92
Period size: 21 Copynumber: 5.2 Consensus size: 21
65722684 GAGCTGAACG
* *
65722694 GAAACCCATAAGGGTTAAACT
1 GAAACTCATAAGAGTTAAACT
* * * *
65722715 GAAGCTTAGAAGAGCTAAACT
1 GAAACTCATAAGAGTTAAACT
* *
65722736 GAAACTCAGAAGGGTTAAACT
1 GAAACTCATAAGAGTTAAACT
*
65722757 GAAACTCATATGAGTT-AACT
1 GAAACTCATAAGAGTTAAACT
* * * *
65722777 GAAGCTCATGAGAGCTAAACA
1 GAAACTCATAAGAGTTAAACT
65722798 GAAA
1 GAAA
65722802 GCAAACACGA
Statistics
Matches: 67, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
20 16 0.24
21 51 0.76
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (21 bp):
GAAACTCATAAGAGTTAAACT
Found at i:65724991 original size:17 final size:17
Alignment explanation
Indices: 65724969--65725032 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
65724959 AATCTTAGAG
65724969 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
65724986 TTCTAATTATGTCTTAGAG-
1 TTCTAA-T-TGT-ATACAGC
65725005 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
65725022 TTTTAATTGTA
1 TTCTAATTGTA
65725033 GCCTTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 4 0.11
17 19 0.50
18 2 0.05
19 9 0.24
20 4 0.11
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:65725002 original size:36 final size:36
Alignment explanation
Indices: 65724961--65725029 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
65724951 GATTATTTAA
65724961 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
65724997 TCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATT
65725030 GTAGCCTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:65725010 original size:19 final size:18
Alignment explanation
Indices: 65724961--65725012 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
65724951 GATTATTTAA
65724961 TCTTAGAGTTCTAA-TTG
1 TCTTAGAGTTCTAATTTG
* *
65724978 T-ATACAGCTTCTAATTATG
1 TCTTAGAG-TTCTAATT-TG
65724997 TCTTAGAGTTCTAATT
1 TCTTAGAGTTCTAATT
65725013 GTATACAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 1 0.04
19 11 0.41
20 4 0.15
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTTG
Found at i:65730110 original size:17 final size:17
Alignment explanation
Indices: 65730088--65730151 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
65730078 AATCTTAGAG
65730088 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
65730105 TTCTAATTATGTCTTAGAG-
1 TTCTAA-T-TGT-ATACAGC
65730124 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
65730141 TTTTAATTGTA
1 TTCTAATTGTA
65730152 GCCTTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 4 0.11
17 19 0.50
18 2 0.05
19 9 0.24
20 4 0.11
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:65730121 original size:36 final size:36
Alignment explanation
Indices: 65730080--65730148 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
65730070 GATTATTTAA
65730080 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
65730116 TCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATT
65730149 GTAGCCTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:65730129 original size:19 final size:18
Alignment explanation
Indices: 65730080--65730131 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
65730070 GATTATTTAA
65730080 TCTTAGAGTTCTAA-TTG
1 TCTTAGAGTTCTAATTTG
* *
65730097 T-ATACAGCTTCTAATTATG
1 TCTTAGAG-TTCTAATT-TG
65730116 TCTTAGAGTTCTAATT
1 TCTTAGAGTTCTAATT
65730132 GTATACAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 1 0.04
19 11 0.41
20 4 0.15
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTTG
Found at i:65730832 original size:23 final size:24
Alignment explanation
Indices: 65730783--65730832 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
65730773 CGCATATTCG
* * **
65730783 AATACAAAAAAAGACAGAGATTGA
1 AATACAAAAAAAGAAAGAAATCAA
65730807 AATACAAAAAAA-AAAGAAATCAA
1 AATACAAAAAAAGAAAGAAATCAA
65730830 AAT
1 AAT
65730833 TTTTAGGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.70, C:0.08, G:0.10, T:0.12
Consensus pattern (24 bp):
AATACAAAAAAAGAAAGAAATCAA
Found at i:65735091 original size:22 final size:22
Alignment explanation
Indices: 65735065--65735107 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
65735055 ATATTAATGA
*
65735065 GTGATTGATTTATTACTTTTTG
1 GTGATTAATTTATTACTTTTTG
*
65735087 GTGATTAATTTATTATTTTTT
1 GTGATTAATTTATTACTTTTT
65735108 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (22 bp):
GTGATTAATTTATTACTTTTTG
Found at i:65741869 original size:22 final size:22
Alignment explanation
Indices: 65741844--65741886 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
65741834 TATCCAAACA
65741844 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
65741866 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
65741887 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:65744674 original size:15 final size:15
Alignment explanation
Indices: 65744631--65744676 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
65744621 TTGTATGAAC
65744631 TTTTTATATTTTTTAA
1 TTTTTATA-TTTTTAA
*
65744647 -TTTTAAATATTTTAA
1 TTTTTATAT-TTTTAA
65744662 TTTTTATATTTTTAA
1 TTTTTATATTTTTAA
65744677 AATTATTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 18 0.69
16 7 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATATTTTTAA
Found at i:65745329 original size:17 final size:18
Alignment explanation
Indices: 65745307--65745340 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65745297 TTCGCCCCTC
65745307 ATTATACATA-CTAAATA
1 ATTATACATACCTAAATA
*
65745324 ATTATATATACCTAAAT
1 ATTATACATACCTAAAT
65745341 TATGTTTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATACATACCTAAATA
Found at i:65751757 original size:23 final size:22
Alignment explanation
Indices: 65751710--65751757 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
65751700 GATCAAAGTA
* *
65751710 AAAGAAAAAAACATTAAGAATT
1 AAAGAAAAAAACATTAAAAACT
65751732 AAAGTAAAAAAACGA-TAAAAACT
1 AAAG-AAAAAAAC-ATTAAAAACT
65751755 AAA
1 AAA
65751758 ATAATGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAGAAAAAAACATTAAAAACT
Found at i:65755276 original size:23 final size:24
Alignment explanation
Indices: 65755250--65755296 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
65755240 TTAAAAATTT
* *
65755250 AACA-CTTGAATGACTAAAATGAA
1 AACATCTTAAATGACCAAAATGAA
*
65755273 AACATTTTAAATGACCAAAATGAA
1 AACATCTTAAATGACCAAAATGAA
65755297 CACTCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (24 bp):
AACATCTTAAATGACCAAAATGAA
Found at i:65763692 original size:13 final size:12
Alignment explanation
Indices: 65763666--65763706 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
65763656 TTCCCACTCC
*
65763666 AAAAAAATCGAA
1 AAAAAAATAGAA
* *
65763678 AAAAAATTGGAA
1 AAAAAAATAGAA
65763690 AAAAAAATAGAA
1 AAAAAAATAGAA
65763702 AAAAA
1 AAAAA
65763707 TGGAAGCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (12 bp):
AAAAAAATAGAA
Found at i:65770803 original size:20 final size:19
Alignment explanation
Indices: 65770778--65770825 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
65770768 CATTACAAGT
65770778 ATAATTATTATATTT-TATTA
1 ATAATTATT-TATTTATA-TA
65770798 ATAATTTATTTATTTATATA
1 ATAA-TTATTTATTTATATA
*
65770818 TTAATTAT
1 ATAATTAT
65770826 AGTTGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 14 0.56
21 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTATTTATTTATATA
Found at i:65771544 original size:12 final size:13
Alignment explanation
Indices: 65771519--65771547 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
65771509 GATATGTTAA
65771519 AGAGTTTTTGGAG
1 AGAGTTTTTGGAG
65771532 AGAGTTTTT-GAG
1 AGAGTTTTTGGAG
65771544 AGAG
1 AGAG
65771548 CTTTCGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (13 bp):
AGAGTTTTTGGAG
Found at i:65775750 original size:90 final size:89
Alignment explanation
Indices: 65775634--65775810 Score: 232
Period size: 90 Copynumber: 2.0 Consensus size: 89
65775624 TCACATTGAA
** * * * *
65775634 TACTTGAACTTTCAAAGTGCATCAAAAAGACCTTCAAACTTTTTCAAGAAAAAGCAATTAA-CCC
1 TACTTGAACTGCCAAAATACATCAAAAAGACCCTCAAAATTTTTC-A-AAAAAGCAATTAAGCCC
* *
65775698 CTTG-TTTTTTTTTTCACTCAATTGGG
64 C-TGCTTATTTTTTGCACTCAATTGGG
*
65775724 TACTTGAACTGCCAAAATACATCAAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGTCCCT
1 TACTTGAACTGCCAAAATACATCAAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGCCCCT
65775789 GCTTATTTTTTGCACTCAATTG
66 GCTTATTTTTTGCACTCAATTG
65775811 CCAAAATGCA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 15 0.20
89 22 0.29
90 39 0.51
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (89 bp):
TACTTGAACTGCCAAAATACATCAAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGCCCCT
GCTTATTTTTTGCACTCAATTGGG
Found at i:65775862 original size:20 final size:20
Alignment explanation
Indices: 65775837--65775884 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
65775827 AAACCATTTT
65775837 ACCGTTAACTTTAACGATTG
1 ACCGTTAACTTTAACGATTG
* *
65775857 ACCGTTAACTTTAATGGTTG
1 ACCGTTAACTTTAACGATTG
65775877 ACCGTTAA
1 ACCGTTAA
65775885 AGCTAACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (20 bp):
ACCGTTAACTTTAACGATTG
Found at i:65776063 original size:10 final size:10
Alignment explanation
Indices: 65776033--65776068 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
65776023 AAAATTTAGA
65776033 AAAATATTAT
1 AAAATATTAT
*
65776043 AAAA-ATAAT
1 AAAATATTAT
65776052 AAAATATTAT
1 AAAATATTAT
65776062 AAAATAT
1 AAAATAT
65776069 ATAGAGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATTAT
Found at i:65776152 original size:19 final size:21
Alignment explanation
Indices: 65776114--65776173 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
65776104 TTTTATAAAG
* *
65776114 TCGTAAGAAAAATGATAAAAAA
1 TCGTAA-AAGAATTATAAAAAA
*
65776136 T-GT-AAAGAATTAT-AAAAT
1 TCGTAAAAGAATTATAAAAAA
65776154 TCGTAAAAGAATTATAAAAA
1 TCGTAAAAGAATTATAAAAA
65776174 TTGTCATACC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 11 0.34
21 6 0.19
22 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (21 bp):
TCGTAAAAGAATTATAAAAAA
Found at i:65781977 original size:36 final size:36
Alignment explanation
Indices: 65781930--65782002 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
65781920 TTTTAAGTAT
*
65781930 AAGTACCAAACCATTCAACAAGATGGCATTGCCATC
1 AAGTACCAAACCATTCAACAAGATGACATTGCCATC
*
65781966 AAGTACCAAACCATTTAACAAGATGACATTGCCATC
1 AAGTACCAAACCATTCAACAAGATGACATTGCCATC
65782002 A
1 A
65782003 CATACATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (36 bp):
AAGTACCAAACCATTCAACAAGATGACATTGCCATC
Found at i:65787626 original size:13 final size:13
Alignment explanation
Indices: 65787608--65787632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65787598 GAAAGTAATC
65787608 AAAAAAAATAAAG
1 AAAAAAAATAAAG
65787621 AAAAAAAATAAA
1 AAAAAAAATAAA
65787633 TATAAGGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.04, T:0.08
Consensus pattern (13 bp):
AAAAAAAATAAAG
Found at i:65787895 original size:16 final size:15
Alignment explanation
Indices: 65787870--65787910 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
65787860 TCCTTTTCGC
65787870 TATATTTTTAATTAT
1 TATATTTTTAATTAT
65787885 TATATTTTTTAATTAT
1 TATA-TTTTTAATTAT
65787901 TCA-ATTTTTA
1 T-ATATTTTTA
65787911 TCAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.42
16 13 0.54
17 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTTTAATTAT
Found at i:65792187 original size:6 final size:7
Alignment explanation
Indices: 65792177--65792204 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
65792167 TGTTTTTTGT
65792177 TTTTTTA
1 TTTTTTA
65792184 TTTTTTA
1 TTTTTTA
65792191 TTTTTTA
1 TTTTTTA
65792198 TTTTTTA
1 TTTTTTA
65792205 CATTAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Done.