Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 292 of 316
Found at i:96454421 original size:76 final size:76
Alignment explanation
Indices: 96454295--96454446 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
96454285 TTTTAGGGAT
96454295 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
1 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
96454360 TTTTGCCAAGC
66 TTTTGCCAAGC
*
96454371 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGCTATTAAAATTATTACGATTGTT
1 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
96454436 TTTTGCCAAGC
66 TTTTGCCAAGC
96454447 GATGGCAACT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (76 bp):
TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
TTTTGCCAAGC
Found at i:96457738 original size:41 final size:41
Alignment explanation
Indices: 96457686--96457854 Score: 191
Period size: 41 Copynumber: 4.1 Consensus size: 41
96457676 GCAAAAATTG
* * *
96457686 TAAAACACAGAGCAATA-CTGGCGTTTTTTGTTAAAAAGCCAC
1 TAAAACACAGAGCAATAGC-GGCG-TTTTTGGTAAAACGCCGC
* *
96457728 TAAAA-ACAGAGAAATAGCGGCGTTCTTGGTAAAACGCCGC
1 TAAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
* * *
96457768 TAAAAAACAAAGCATTAGCGGCGTTTTTGGTAAAACGCCGC
1 TAAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
* * *
96457809 TAAAAGC-CAGAGCACTAGCGGCGCTTTTGGTAAAATGCCGC
1 TAAAA-CACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
96457850 TAAAA
1 TAAAA
96457855 GTCATATAAC
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.17
41 85 0.77
42 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (41 bp):
TAAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
Found at i:96458220 original size:21 final size:20
Alignment explanation
Indices: 96458183--96458225 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
96458173 ATTATAGTTT
96458183 AGGGTTTACGTTATATGGTTA
1 AGGGTTTACGTT-TATGGTTA
*
96458204 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTT-ACGTTTATG-GTTA
96458226 CTATTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (20 bp):
AGGGTTTACGTTTATGGTTA
Found at i:96458279 original size:14 final size:14
Alignment explanation
Indices: 96458260--96458299 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
96458250 GTTTAAGTGT
96458260 GGTTTAAGGGTTGA
1 GGTTTAAGGGTTGA
*
96458274 GGTTTAA-GGTTTA
1 GGTTTAAGGGTTGA
96458287 GGTGTTAAGGGTT
1 GGT-TTAAGGGTT
96458300 AAGGGTTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 11 0.48
15 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (14 bp):
GGTTTAAGGGTTGA
Found at i:96458284 original size:21 final size:21
Alignment explanation
Indices: 96458260--96458303 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
96458250 GTTTAAGTGT
* *
96458260 GGTTTAAGG-GTTGAGGTTTAA
1 GGTTT-AGGTGTTAAGGGTTAA
96458281 GGTTTAGGTGTTAAGGGTTAA
1 GGTTTAGGTGTTAAGGGTTAA
96458302 GG
1 GG
96458304 GTTCACGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (21 bp):
GGTTTAGGTGTTAAGGGTTAA
Found at i:96458877 original size:41 final size:42
Alignment explanation
Indices: 96458832--96458919 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
96458822 AATTAAGATT
*
96458832 AAAATTGAGCAATAGTGGCG-TTTTTAGGTAAAACGCCGCAA
1 AAAATTGAGCAATAGTGACGTTTTTTAGGTAAAACGCCGCAA
* * *
96458873 AAAATTGAGCTATAGTGACGTTTTTTAGTTTAAACGCCGCAA
1 AAAATTGAGCAATAGTGACGTTTTTTAGGTAAAACGCCGCAA
96458915 AAAAT
1 AAAAT
96458920 CTAAAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 18 0.43
42 24 0.57
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (42 bp):
AAAATTGAGCAATAGTGACGTTTTTTAGGTAAAACGCCGCAA
Found at i:96464038 original size:43 final size:43
Alignment explanation
Indices: 96463974--96464124 Score: 212
Period size: 43 Copynumber: 3.5 Consensus size: 43
96463964 GGGCAAATTC
* *
96463974 GCGGCGTTTTTTAAAAGAGCGCCGCGAAAGGTCCTGGTCGTTA
1 GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
*
96464017 GCGGCATTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
1 GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
* * *
96464060 GCGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCCTGGTCTTTA
1 GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
* *
96464103 TCGGCTTTTTTTCGAAAAAAGC
1 GCGGCGTTTTTT--AAAAAAGC
96464125 CACTAATTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 89 0.93
45 7 0.07
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
Found at i:96469694 original size:23 final size:24
Alignment explanation
Indices: 96469651--96469698 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
96469641 TATACTTAGG
96469651 TTTAGTTGTAATTAAACTTAATTA
1 TTTAGTTGTAATTAAACTTAATTA
*
96469675 TTTAGTT-TAATCTTAA-TTAATTA
1 TTTAGTTGTAAT-TAAACTTAATTA
96469698 T
1 T
96469699 CATTTAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
TTTAGTTGTAATTAAACTTAATTA
Found at i:96470884 original size:26 final size:26
Alignment explanation
Indices: 96470847--96470952 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
96470837 GTACAAATTA
96470847 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
96470873 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
96470899 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
96470925 ATAATGGTTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
96470951 AT
1 AT
96470953 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:96473690 original size:17 final size:17
Alignment explanation
Indices: 96473650--96473690 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
96473640 GTGGAATGGG
*
96473650 TTTACAAAAACAAAGAT
1 TTTATAAAAACAAAGAT
96473667 TTT-TAAAAACGAAA-AT
1 TTTATAAAAAC-AAAGAT
96473683 TTTATAAA
1 TTTATAAA
96473691 GATTGCGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (17 bp):
TTTATAAAAACAAAGAT
Found at i:96480498 original size:25 final size:25
Alignment explanation
Indices: 96480470--96480518 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
96480460 GGGCCAAACA
*
96480470 GAATATGCCATAAAGGCAACATATG
1 GAATATGCCACAAAGGCAACATATG
*
96480495 GAATATGCCACAAAGGTAACATAT
1 GAATATGCCACAAAGGCAACATAT
96480519 AAAGTCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (25 bp):
GAATATGCCACAAAGGCAACATATG
Found at i:96482328 original size:40 final size:40
Alignment explanation
Indices: 96482260--96482432 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
96482250 CGATATCTCA
* * * *
96482260 CACACTAAGTGTCGTA-CTAGCCGAAGCTATCTC-AAGTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATATCGAA-TCG
* * *
96482299 CACACTAAGTGCCATATATAGCCAAAGCTATGTTGAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATATCGAATCG
* **
96482339 CATACTAAGTGCCATATATAGCCGAAGCTATATCTTATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATATCGAATCG
* * *
96482379 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGTATCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATATCGAATCG
96482419 CACACTAAGTGCCA
1 CACACTAAGTGCCA
96482433 CAAATAACCG
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 14 0.12
40 100 0.86
41 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATATCGAATCG
Found at i:96482410 original size:80 final size:80
Alignment explanation
Indices: 96482257--96482432 Score: 239
Period size: 80 Copynumber: 2.2 Consensus size: 80
96482247 ACTCGATATC
* * * *
96482257 TCACACACTAAGTGTCGTA-CTAGCCGAAGCTATCTCAAGTCGCACACTAAGTGCCATATATAGC
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATATCAAGTCGCACACTAAGTGCCATATATAGC
*
96482321 CAAAGCTATGTTGAA
66 CAAAGCTATGTCGAA
* * *
96482336 TCGCATACTAAGTGCCATATATAGCCGAAGCTATATCTTA-TCGCACACTAAGTGCCATATATAG
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATATC-AAGTCGCACACTAAGTGCCATATATAG
* *
96482400 CCGAAGCTATGTCGTA
65 CCAAAGCTATGTCGAA
96482416 TCACACACTAAGTGCCA
1 TCACACACTAAGTGCCA
96482433 CAAATAACCG
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 15 0.18
80 67 0.81
81 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (80 bp):
TCACACACTAAGTGCCATATATAGCCGAAGCTATATCAAGTCGCACACTAAGTGCCATATATAGC
CAAAGCTATGTCGAA
Found at i:96483242 original size:13 final size:14
Alignment explanation
Indices: 96483218--96483246 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
96483208 ATTTGCTAAT
96483218 TTACTAAATTAACC
1 TTACTAAATTAACC
96483232 TTACT-AATTAACC
1 TTACTAAATTAACC
96483245 TT
1 TT
96483247 TAAAACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTAAATTAACC
Found at i:96499267 original size:40 final size:40
Alignment explanation
Indices: 96499222--96499372 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
96499212 CGTACCAGCC
* * *
96499222 GAAGCTATCTC-AAGTCTCACATTAAGTGCCATGTATAGCA
1 GAAGCTATATCGAA-TCGCACATTAAGTGCCATATATAGCA
* *
96499262 GAAGCTATGTCGAATCGCACACTT-AGTGCCATATATAGCT
1 GAAGCTATATCGAATCGCACA-TTAAGTGCCATATATAGCA
* *
96499302 GAAGCTATATCGTATCGCACATTAAGTGCCATATATAGCC
1 GAAGCTATATCGAATCGCACATTAAGTGCCATATATAGCA
* * * *
96499342 GAAGCTATGTCGTATTGCACACTAAGTGCCA
1 GAAGCTATATCGAATCGCACATTAAGTGCCA
96499373 CAAACAACCG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.94
41 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (40 bp):
GAAGCTATATCGAATCGCACATTAAGTGCCATATATAGCA
Found at i:96503745 original size:18 final size:19
Alignment explanation
Indices: 96503709--96503747 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
96503699 GGTTTCTTCA
*
96503709 TTTTTCATTAAGGAGAATT
1 TTTTTCATTAAGGAAAATT
*
96503728 TTTTTCATTAA-TAAAATT
1 TTTTTCATTAAGGAAAATT
96503746 TT
1 TT
96503748 CAGCTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTTCATTAAGGAAAATT
Found at i:96504402 original size:13 final size:12
Alignment explanation
Indices: 96504384--96504423 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
96504374 CGAAAAAGTG
96504384 TAAAAACAAAAAA
1 TAAAAA-AAAAAA
96504397 TAAAAAAAAAAA
1 TAAAAAAAAAAA
*
96504409 GAAAAGAAAAAAA
1 TAAAA-AAAAAAA
96504422 TA
1 TA
96504424 TTATATGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.07
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:96515836 original size:16 final size:16
Alignment explanation
Indices: 96515815--96515854 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
96515805 TTAAGTTTTT
96515815 ATTTATATTTTCTTTA
1 ATTTATATTTTCTTTA
96515831 ATTTATATTTTCTTTA
1 ATTTATATTTTCTTTA
96515847 ATTT-TATT
1 ATTTATATT
96515855 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTATATTTTCTTTA
Found at i:96515870 original size:6 final size:5
Alignment explanation
Indices: 96515811--96515869 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
96515801 TAATTTAAGT
* * * *
96515811 TTTTA TTTATA TTTTC TTTAA TTTATA TTTTC TTTAA TTTTA --TTA TTTTA
1 TTTTA TTT-TA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA
96515861 TTTTA TTTT
1 TTTTA TTTT
96515870 TTTGATTCCT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
3 3 0.07
5 30 0.71
6 9 0.21
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:96534179 original size:36 final size:34
Alignment explanation
Indices: 96534139--96534223 Score: 80
Period size: 36 Copynumber: 2.4 Consensus size: 34
96534129 AACGTGTTAT
* *
96534139 AAAATAAAAAAAAGATGAAGAAAATAAAGAATAAA
1 AAAATAAAAAAAAGACGAAAAAAATAAA-AATAAA
** ***
96534174 GAAAATATGAAAGTTACGAAAAAAATAAAAATAAA
1 -AAAATAAAAAAAAGACGAAAAAAATAAAAATAAA
*
96534209 AAAATAAAATAAAGA
1 AAAATAAAAAAAAGA
96534224 ATACACAGAT
Statistics
Matches: 36, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
34 9 0.25
35 6 0.17
36 21 0.58
ACGTcount: A:0.74, C:0.01, G:0.11, T:0.14
Consensus pattern (34 bp):
AAAATAAAAAAAAGACGAAAAAAATAAAAATAAA
Found at i:96534211 original size:14 final size:13
Alignment explanation
Indices: 96534192--96534221 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
96534182 GAAAGTTACG
96534192 AAAAAAATAAAAAT
1 AAAAAAAT-AAAAT
96534206 AAAAAAATAAAAT
1 AAAAAAATAAAAT
96534219 AAA
1 AAA
96534222 GAATACACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:96539965 original size:14 final size:15
Alignment explanation
Indices: 96539938--96539966 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96539928 GCACAATGAA
96539938 TTTTTTATTATTTCC
1 TTTTTTATTATTTCC
96539953 TTTTTTATT-TTTCC
1 TTTTTTATTATTTCC
96539967 GTACCATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTATTATTTCC
Found at i:96542925 original size:23 final size:24
Alignment explanation
Indices: 96542881--96542931 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
96542871 GCGTTACAAC
96542881 TTTTTTATATTTTAATTTTTTA-A
1 TTTTTTATATTTTAATTTTTTAGA
96542904 TTTTTTATATTTATAA-TTTTTAGA
1 TTTTTTATATTT-TAATTTTTTAGA
96542928 TTTT
1 TTTT
96542932 CTAAATGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTTTATATTTTAATTTTTTAGA
Found at i:96545672 original size:18 final size:18
Alignment explanation
Indices: 96545649--96545683 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96545639 TCAATATTTT
*
96545649 TTTTATAATTTCTAAACC
1 TTTTATAATTTCCAAACC
*
96545667 TTTTATAGTTTCCAAAC
1 TTTTATAATTTCCAAAC
96545684 TTATCTAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTATAATTTCCAAACC
Found at i:96550751 original size:19 final size:19
Alignment explanation
Indices: 96550715--96550772 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
96550705 TTTTTTAAAA
*
96550715 TTATAAAT-TTTGGAATTT
1 TTATAAATATTTTGAATTT
96550733 TTATAAATATTTTGAATTT
1 TTATAAATATTTTGAATTT
* *
96550752 TAAAAAATATTTTGAATTT
1 TTATAAATATTTTGAATTT
96550771 TT
1 TT
96550773 TTGTAACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
18 8 0.23
19 27 0.77
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (19 bp):
TTATAAATATTTTGAATTT
Found at i:96555669 original size:94 final size:94
Alignment explanation
Indices: 96555507--96555882 Score: 698
Period size: 94 Copynumber: 4.0 Consensus size: 94
96555497 AATGTGACCG
* *
96555507 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
96555572 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
96555601 AATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
96555666 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
96555695 TATATGCTATTTGAATTAAGTAAATTGCCTTGTTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
96555760 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
96555789 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
96555854 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
96555883 GAATGTCGAT
Statistics
Matches: 274, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 274 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:96555964 original size:24 final size:24
Alignment explanation
Indices: 96555912--96555974 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
96555902 AAAATTTCAG
*
96555912 GCACTATGTGTGCG-GTTTAGTAT
1 GCACTATGTGTGCGAGTTAAGTAT
*
96555935 GACACTATGTGTGCGAGCTTAATTA-
1 G-CACTATGTGTGCGAG-TTAAGTAT
96555960 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
96555975 ATTTGGTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 1 0.03
24 27 0.77
25 2 0.06
26 5 0.14
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTTAAGTAT
Found at i:96576240 original size:61 final size:62
Alignment explanation
Indices: 96576144--96576260 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 62
96576134 CAGGCATTTT
*
96576144 TTTATTCTACTTATGCTTCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
1 TTTATTCTACTTATGCATCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
* * *
96576206 TTTATTCT-CTTATGCATCTGGTTT-AAGTAACTGGATTCTGTTATTTCTTTGATAT
1 TTTATTCTACTTATGCATCT-ATTTGAAGTAACTGGATTCTGTTATGTCTTTAATAT
96576261 GGCTTTTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 39 0.78
62 11 0.22
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (62 bp):
TTTATTCTACTTATGCATCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
Found at i:96584858 original size:17 final size:17
Alignment explanation
Indices: 96584838--96584871 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96584828 GACATTTATT
96584838 TATTTCAAATTAATTGG
1 TATTTCAAATTAATTGG
* *
96584855 TATTTTAGATTAATTGG
1 TATTTCAAATTAATTGG
96584872 GCTGGTTGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (17 bp):
TATTTCAAATTAATTGG
Found at i:96597525 original size:19 final size:19
Alignment explanation
Indices: 96597503--96597543 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
96597493 AAAAAAGTAC
*
96597503 AAAAAATAAAATACAAAAA
1 AAAAAATAAAAAACAAAAA
*
96597522 AAAAAATAAAAAATAAAAA
1 AAAAAATAAAAAACAAAAA
96597541 AAA
1 AAA
96597544 TTCTGTGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.88, C:0.02, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAATAAAAAACAAAAA
Found at i:96597540 original size:14 final size:14
Alignment explanation
Indices: 96597493--96597541 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
96597483 AAAAAGTGAT
*
96597493 AAAAAAGTACAAAA
1 AAAAAAATACAAAA
*
96597507 AATAAAATACAAAA
1 AAAAAAATACAAAA
96597521 AAAAAAATA-AAAA
1 AAAAAAATACAAAA
96597534 ATAAAAAA
1 A-AAAAAA
96597542 AATTCTGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
13 5 0.16
14 26 0.84
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (14 bp):
AAAAAAATACAAAA
Found at i:96606345 original size:21 final size:21
Alignment explanation
Indices: 96606319--96606361 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
96606309 ATGACTTTCG
96606319 ACTAAGTGCATCAGCAACTAC
1 ACTAAGTGCATCAGCAACTAC
96606340 ACTAAGTGCATCAGCAACTAC
1 ACTAAGTGCATCAGCAACTAC
96606361 A
1 A
96606362 TTAGCTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.19
Consensus pattern (21 bp):
ACTAAGTGCATCAGCAACTAC
Found at i:96614000 original size:17 final size:17
Alignment explanation
Indices: 96613978--96614012 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
96613968 CTAGAACACA
96613978 AGTTTTGCATCTTATTC
1 AGTTTTGCATCTTATTC
*
96613995 AGTTTTGTATCTTATTC
1 AGTTTTGCATCTTATTC
96614012 A
1 A
96614013 ATTTGGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.54
Consensus pattern (17 bp):
AGTTTTGCATCTTATTC
Found at i:96617599 original size:52 final size:52
Alignment explanation
Indices: 96617490--96617649 Score: 182
Period size: 52 Copynumber: 3.1 Consensus size: 52
96617480 TGACGGAAAA
* * * * *
96617490 GATGTGATATATGATTCCGTATAAGACCATAGCCAGGCTATGGAATCAGTAC
1 GATGTGATATATGATTCCGTATAAGACCATAGCTAGGGTATGGCATCGGTAT
* *
96617542 AATGTGAT-TCATG-TTCCTGTATAAGACCATAGCTAGGGTATGGCATCGGTGT
1 GATGTGATAT-ATGATTCC-GTATAAGACCATAGCTAGGGTATGGCATCGGTAT
* *
96617594 GATGTGATAATGTGATTCCGTATAAGACCATATCT-GGGATATGGCATCGGTAT
1 GATGTGAT-ATATGATTCCGTATAAGACCATAGCTAGGG-TATGGCATCGGTAT
96617647 GAT
1 GAT
96617650 ATGTGATCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
51 5 0.05
52 48 0.53
53 33 0.36
54 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (52 bp):
GATGTGATATATGATTCCGTATAAGACCATAGCTAGGGTATGGCATCGGTAT
Found at i:96617667 original size:46 final size:52
Alignment explanation
Indices: 96617555--96617693 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 52
96617545 GTGATTCATG
96617555 TTCCTGTATAAGACCATAGCTAGGGTATGGCATCGGTGTGATGTGATAATGTGA
1 TTCC-GTATAAGACCATAGCTAGGGTATGGCATCGGTGTGA-GTGATAATGTGA
*
96617609 TTCCGTATAAGACCATATCT-GGGATATGGCATC-G-GT-A-TGAT-ATGTGA
1 TTCCGTATAAGACCATAGCTAGGG-TATGGCATCGGTGTGAGTGATAATGTGA
* * *
96617656 -TCCGTGTAAGACCATGGC-AGGGCTATGGCTTCGGTGTG
1 TTCCGTATAAGACCATAGCTAGGG-TATGGCATCGGTGTG
96617694 TAATGTGTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
46 26 0.35
47 7 0.09
48 6 0.08
50 1 0.01
51 2 0.03
52 4 0.05
53 24 0.32
54 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (52 bp):
TTCCGTATAAGACCATAGCTAGGGTATGGCATCGGTGTGAGTGATAATGTGA
Found at i:96618465 original size:20 final size:20
Alignment explanation
Indices: 96618440--96618497 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
96618430 TGCCCATGGG
96618440 CAGGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
* *
96618460 CAGGCCACACGGGCGTGTTC
1 CAGGCCACATGGGCATGTTC
*
96618480 CAGACCACATGGGCATGT
1 CAGGCCACATGGGCATGT
96618498 GCCCCTAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGCCACATGGGCATGTTC
Found at i:96621190 original size:20 final size:20
Alignment explanation
Indices: 96621136--96621180 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
96621126 ATATCAATAT
*
96621136 TTTTATACAAGTATCGATAA
1 TTTTATAAAAGTATCGATAA
96621156 TTTTATAAAAGTATCGATAA
1 TTTTATAAAAGTATCGATAA
96621176 TTTTA
1 TTTTA
96621181 AATCAGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (20 bp):
TTTTATAAAAGTATCGATAA
Found at i:96626487 original size:17 final size:18
Alignment explanation
Indices: 96626460--96626503 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
96626450 ATATATATTT
96626460 TATTA-ATTATTTGTACA
1 TATTATATTATTTGTACA
96626477 TATTATATATTATTTGTACA
1 TA-T-TATATTATTTGTACA
96626497 TA-TATAT
1 TATTATAT
96626504 ACTTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.29
18 1 0.04
19 2 0.08
20 14 0.58
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATATTATTTGTACA
Found at i:96626488 original size:20 final size:19
Alignment explanation
Indices: 96626465--96626504 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
96626455 TATTTTATTA
96626465 ATTATTTGTACATATTATAT
1 ATTATTTGTACATA-TATAT
96626485 ATTATTTGTACATATATAT
1 ATTATTTGTACATATATAT
96626504 A
1 A
96626505 CTTTCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTATTTGTACATATATAT
Found at i:96638883 original size:210 final size:210
Alignment explanation
Indices: 96638570--96639373 Score: 1045
Period size: 210 Copynumber: 3.8 Consensus size: 210
96638560 TAAGCCGCAG
* * *
96638570 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCATATCGAAGATGACAGATCTTATCTCTT
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTC
* * * *
96638635 TGTATTCGGGGGGGAGCAGATCAAAGATGTAACTGATTTGACTTTCACGTGTTTACGATGAAGCA
66 TGTATTCGGCGGGGAACAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* * *
96638700 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTATTTCCACTTT
*
96638765 GATGGGAGGTAGACA
196 GATGGGAGGCAGACA
* * *
96638780 CATAGCAGATCTCACCTTTAGATGTTTATGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTC
* * * * *
96638845 TGTATTCGGCGGGGAACAGATCGAAGAAATAGCTGATTTGGCTTTCATGTGCTTACGATGAAGCA
66 TGTATTCGGCGGGGAACAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
96638910 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTATTTCCACTTT
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTATTTCCACTTT
*
96638975 GATGGAAGGCAGACA
196 GATGGGAGGCAGACA
96638990 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTC
* * * *
96639055 CGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATAAAGCA
66 TGTATTCGGCGGGGAACAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* * *
96639120 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTATCTCTACTTC
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTATTTCCACTTT
* * *
96639185 AAT-AGAGAGCAGATA
196 GATGGGAG-GCAGACA
* * *** *
96639200 CATAGCAGATCTGACCTTCAGATGATTA-GACTGAAA-CAAGATCCAAGATGATTTA-C-CATC-
1 CATAGCAGATCTCACCTTCAGATGTTTACG-CT-AAAGC-AGATCCAAGATGACAGATCTTATCT
* ** * * * *
96639260 CT-TGTGCTTAC-AAGGAGTA-A-ATCAAAGACATAGCTGATTT-AGTTTTCACGTGTTTACGAT
63 CTCTGT-ATT-CGGCGGGGAACAGATCAAAGATATAGCTGATTTGA-CTTTCACGTGTTTACGAT
* * * *
96639320 GAAGCAAATCTAAAATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
125 GAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAG
96639374 AGGTAGATTT
Statistics
Matches: 529, Mismatches: 58, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
205 1 0.00
206 84 0.16
207 3 0.01
208 7 0.01
209 7 0.01
210 410 0.78
211 17 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTC
TGTATTCGGCGGGGAACAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTATTTCCACTTT
GATGGGAGGCAGACA
Found at i:96641338 original size:17 final size:19
Alignment explanation
Indices: 96641303--96641341 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
96641293 TTTTTTATTA
96641303 ATTATTTGTACTTATTATAT
1 ATTATTTGTAC-TATTATAT
96641323 ATTATTTGTAC-A-TATAT
1 ATTATTTGTACTATTATAT
96641340 AT
1 AT
96641342 ACTTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
20 11 0.58
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTATTTGTACTATTATAT
Found at i:96641649 original size:22 final size:22
Alignment explanation
Indices: 96641623--96641669 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
96641613 TATTTTAAAA
*
96641623 TTATTAT-TAAATATCTTATTTT
1 TTATTATATAAATAT-ATATTTT
*
96641645 TTATTATATATATATATATTTT
1 TTATTATATAAATATATATTTT
96641667 TTA
1 TTA
96641670 ACAATTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTATATAAATATATATTTT
Found at i:96647164 original size:28 final size:28
Alignment explanation
Indices: 96647124--96647179 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
96647114 TGCCACACGT
96647124 AGGAGCAATTCTCTCTCACTATGCTTGA
1 AGGAGCAATTCTCTCTCACTATGCTTGA
96647152 AGGAGCAATTCTCTCTCACTATGCTTGA
1 AGGAGCAATTCTCTCTCACTATGCTTGA
96647180 CAGACACAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
AGGAGCAATTCTCTCTCACTATGCTTGA
Found at i:96660543 original size:27 final size:27
Alignment explanation
Indices: 96660513--96660663 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
96660503 ATATTGAGTC
* * * *
96660513 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
96660540 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
96660567 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
96660595 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
96660622 CGCACACTTAGTGC-ATCATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
96660649 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96660664 GTACAATTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:96660605 original size:55 final size:55
Alignment explanation
Indices: 96660513--96660663 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 55
96660503 ATATTGAGTC
* * * *
96660513 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
** ** *
96660567 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
96660622 CGCACACTTAGTGC-ATCATAGTCAAA-TCGCACACTTAGTGCT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCT
96660664 GTACAATTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
54 36 0.42
55 49 0.58
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
Found at i:96661164 original size:12 final size:12
Alignment explanation
Indices: 96661147--96661173 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
96661137 ATGGCATACT
96661147 TATGTATATATA
1 TATGTATATATA
96661159 TATGTATATATA
1 TATGTATATATA
96661171 TAT
1 TAT
96661174 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:96668702 original size:27 final size:27
Alignment explanation
Indices: 96668672--96668822 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
96668662 ATATTGAGTC
* * * *
96668672 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
96668699 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
96668726 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
96668754 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
96668781 CGCACACTTAGTGC-ATCATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
96668808 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96668823 GTACAATTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:96668764 original size:55 final size:55
Alignment explanation
Indices: 96668672--96668822 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 55
96668662 ATATTGAGTC
* * * *
96668672 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
** ** *
96668726 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
96668781 CGCACACTTAGTGC-ATCATAGTCAAA-TCGCACACTTAGTGCT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCT
96668823 GTACAATTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
54 36 0.42
55 49 0.58
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
Found at i:96669323 original size:14 final size:14
Alignment explanation
Indices: 96669304--96669333 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
96669294 ATGGCATACT
96669304 TATGTATATATATA
1 TATGTATATATATA
96669318 TATGTATATATATA
1 TATGTATATATATA
96669332 TA
1 TA
96669334 CTTCGGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:96686551 original size:3 final size:3
Alignment explanation
Indices: 96686543--96686611 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
96686533 TCTAGTTGTA
96686543 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
96686591 TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC
96686612 ATTTTTCTAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:96699720 original size:27 final size:27
Alignment explanation
Indices: 96699706--96699775 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
96699696 ATTAGTCATT
* *
96699706 TTACCCTCCAGGGGTAAATCGGTAGTC
1 TTACCCTACAGGGGTAAATCAGTAGTC
*
96699733 TTACCCTACAGGGGTAAATCGGTAGTC
1 TTACCCTACAGGGGTAAATCAGTAGTC
96699760 TTACCCTACAGGGGTA
1 TTACCCTACAGGGGTA
96699776 TTTTAGTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (27 bp):
TTACCCTACAGGGGTAAATCAGTAGTC
Found at i:96703515 original size:30 final size:29
Alignment explanation
Indices: 96703479--96703539 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
96703469 AAACGGAAGT
96703479 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
96703509 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
96703538 TT
1 TT
96703540 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:96705189 original size:25 final size:25
Alignment explanation
Indices: 96705155--96705204 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
96705145 TAATATTTTG
96705155 TTAACTTTGTACAGGGGTAGCACAT
1 TTAACTTTGTACAGGGGTAGCACAT
*
96705180 TTAACTTTGTATAGGGGTAGCACAT
1 TTAACTTTGTACAGGGGTAGCACAT
96705205 ACTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (25 bp):
TTAACTTTGTACAGGGGTAGCACAT
Found at i:96705252 original size:11 final size:11
Alignment explanation
Indices: 96705236--96705261 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
96705226 TCTAACAAAT
96705236 TAACTAACAAC
1 TAACTAACAAC
96705247 TAACTAACAAC
1 TAACTAACAAC
96705258 TAAC
1 TAAC
96705262 AGATTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (11 bp):
TAACTAACAAC
Found at i:96714678 original size:30 final size:31
Alignment explanation
Indices: 96714617--96714680 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
96714607 ACTTAACAAG
*
96714617 CAAATGCTTCTAAAATAATAATAATAATTAA
1 CAAATGCTTCTAAAATAATAAGAATAATTAA
96714648 CAAATGCCTT-TAAAATAATAAGAA-AATTAA
1 CAAATG-CTTCTAAAATAATAAGAATAATTAA
96714678 CAA
1 CAA
96714681 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 9 0.29
31 19 0.61
32 3 0.10
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAAGAATAATTAA
Found at i:96715051 original size:21 final size:21
Alignment explanation
Indices: 96715025--96715068 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
96715015 TTCGTTGGTG
96715025 TTGTTTACTACTGTTTTGCTA
1 TTGTTTACTACTGTTTTGCTA
* *
96715046 TTGTTTATTATTGTTTTGCTA
1 TTGTTTACTACTGTTTTGCTA
96715067 TT
1 TT
96715069 ATATTGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.64
Consensus pattern (21 bp):
TTGTTTACTACTGTTTTGCTA
Found at i:96717470 original size:16 final size:15
Alignment explanation
Indices: 96717432--96717471 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
96717422 TAGTTAAAAC
96717432 TATTTTTTTATATAT
1 TATTTTTTTATATAT
*
96717447 TA-TTTTTTATGTAT
1 TATTTTTTTATATAT
96717461 TATTTATTTTA
1 TATTT-TTTTA
96717472 AAAATTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 13 0.59
15 4 0.18
16 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTTTTTATATAT
Found at i:96717657 original size:18 final size:18
Alignment explanation
Indices: 96717622--96717655 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
96717612 TGTTTTCTAT
*
96717622 TGGTTCATTATTTATTTA
1 TGGTTCATTATTCATTTA
96717640 TGGTT-ATTATTCATTT
1 TGGTTCATTATTCATTT
96717656 TAAACATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
TGGTTCATTATTCATTTA
Found at i:96718497 original size:33 final size:32
Alignment explanation
Indices: 96718460--96718542 Score: 78
Period size: 33 Copynumber: 2.6 Consensus size: 32
96718450 CGAAACTTGT
* *
96718460 TATATTTTTGTTTCATATTGTTTAATATTTTCA
1 TATATTCTTGTTTCATATTATTTAAT-TTTTCA
* **
96718493 TATATTCTTGAGTTCATATTATTTTGTTTTTCA
1 TATATTCTTG-TTTCATATTATTTAATTTTTCA
* *
96718526 TAT-GTGTTGTTTCATAT
1 TATATTCTTGTTTCATAT
96718543 GTATATTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 7 0.17
32 4 0.10
33 18 0.44
34 12 0.29
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.61
Consensus pattern (32 bp):
TATATTCTTGTTTCATATTATTTAATTTTTCA
Found at i:96719076 original size:131 final size:130
Alignment explanation
Indices: 96718843--96719100 Score: 338
Period size: 131 Copynumber: 2.0 Consensus size: 130
96718833 CGATTACTCA
* * *
96718843 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATATTTGGCAATTCGAAAATCATACCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGACATTTGGCAATCCGAAAATCATACCCTATCG
* * *
96718908 TGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTT-GGAATTTCGCTCATGT
66 TGCTGGGTTGCAATCTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGG-ATTTCACTCATGT
96718972 C
130 C
* ** * ** * *
96718973 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGACGTTTGGCAATCCGGGGAATCTTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGACATTTGGCAATCC-GAAAATCATACCCTATC
* * *
96719038 GTGCTGGGTTGCAATCTCCTGTTTGTTCCAAATAATCGAATATTCCTTTAGGATTTCACTCAT
65 GTGCTGGGTTGCAATCTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGGATTTCACTCAT
96719101 TCTAAAATAA
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
130 40 0.37
131 67 0.61
132 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTCGACATTTGGCAATCCGAAAATCATACCCTATCG
TGCTGGGTTGCAATCTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGGATTTCACTCATGTC
Found at i:96730569 original size:29 final size:30
Alignment explanation
Indices: 96730505--96730571 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
96730495 TGTATTAATT
* *
96730505 TATAATTTTATTATTTTTTAAGTGACTTAA
1 TATAATTTTATTAATTTTTAAGTGACTAAA
* *
96730535 CATAATTTTTTTAATTTTT-AG-GACTAAA
1 TATAATTTTATTAATTTTTAAGTGACTAAA
96730563 GTATAATTT
1 -TATAATTT
96730572 AACCATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 6 0.19
29 9 0.29
30 16 0.52
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (30 bp):
TATAATTTTATTAATTTTTAAGTGACTAAA
Found at i:96741291 original size:27 final size:27
Alignment explanation
Indices: 96741261--96741313 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
96741251 GTTCATATCA
*
96741261 TCGGCTTGGTTCTCAGGGTACTAATCC
1 TCGGCTTGGTTCTCAGAGTACTAATCC
96741288 TCGGCTTGGTTCTCAGAGTACTAATC
1 TCGGCTTGGTTCTCAGAGTACTAATC
96741314 TATTGTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (27 bp):
TCGGCTTGGTTCTCAGAGTACTAATCC
Found at i:96745937 original size:27 final size:27
Alignment explanation
Indices: 96745907--96746084 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
96745897 ATATTGAGCC
* *
96745907 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
96745934 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96745961 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
96745989 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
96746016 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
96746043 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
96746070 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96746085 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:96746046 original size:82 final size:81
Alignment explanation
Indices: 96745928--96746083 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
96745918 TGCTATATAA
* * * *
96745928 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTC-GAATCGCA
96745993 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
96746010 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCA
96746074 CACTTAGTGC
65 CACTTAGTGC
96746084 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:96759721 original size:27 final size:27
Alignment explanation
Indices: 96759673--96759823 Score: 114
Period size: 26 Copynumber: 5.9 Consensus size: 27
96759663 GCGAGGCTGC
* *
96759673 CAGATATTGT-GAAGAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
96759700 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
96759726 CAAATATATGTGGC--AG--A--A-AT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
96759746 CAGATAATTGTGGCATAG-CACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
96759772 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
96759799 -AGATAATTGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
96759824 CGCTTCCTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 31
0.74 0.04 0.22
Matches are distributed among these distances:
20 11 0.11
21 3 0.03
22 2 0.02
23 2 0.02
25 5 0.05
26 43 0.42
27 34 0.33
28 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:96759768 original size:46 final size:46
Alignment explanation
Indices: 96759700--96759788 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 46
96759690 TCACCAGATA
96759700 CAGATATTGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAAAT
1 CAGATATTGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAAAT
* *
96759746 CAGATAATTGTGGCATAG-CACCAGAACAGATATATGTGGCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGAACAAATATATGTGGCAGA
96759789 GCCACCAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 29 0.73
47 11 0.28
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (46 bp):
CAGATATTGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAAAT
Found at i:96761483 original size:26 final size:26
Alignment explanation
Indices: 96761427--96761533 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
96761417 TGAAATACCC
96761427 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
96761452 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
96761478 ATCATGGAATATTTACCTAATCGATT
1 ATCATGGAACATTTACCTAACCCATT
96761504 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96761530 ATCA
1 ATCA
96761534 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 20 0.27
26 55 0.73
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96762339 original size:17 final size:18
Alignment explanation
Indices: 96762313--96762346 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
96762303 CTGAGTACTC
96762313 AATCTCCTTACG-CTTTA
1 AATCTCCTTACGACTTTA
*
96762330 AATCTGCTTACGACTTT
1 AATCTCCTTACGACTTT
96762347 TGCCTATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (18 bp):
AATCTCCTTACGACTTTA
Found at i:96766900 original size:27 final size:27
Alignment explanation
Indices: 96766852--96767010 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
96766842 ACGAGGCAAC
* *
96766852 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
96766879 CAGATATTGTGGTAGCGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
96766905 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
96766932 CAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
96766959 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
96766986 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
96767011 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:96766942 original size:54 final size:54
Alignment explanation
Indices: 96766870--96767010 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
96766860 GTGACGAAGT
* *
96766870 CACCAGATACAGAT-ATTGTGGTAGCGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
*
96766924 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* *
96766978 CACCAGATCAAATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAG
96767011 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:96768661 original size:26 final size:26
Alignment explanation
Indices: 96768630--96768737 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
96768620 TGAAATGCCC
* *
96768630 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
96768656 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
96768682 ATCATGGAATATTTACCTAATCGATT
1 ATCATGGAACATTTACCTAACCCATT
96768708 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96768734 ATCA
1 ATCA
96768738 ATTTCTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96768687 original size:52 final size:52
Alignment explanation
Indices: 96768630--96768737 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
96768620 TGAAATGCCC
96768630 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
96768682 ATCATGGAATATTTACCTAATCGATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
96768734 ATCA
1 ATCA
96768738 ATTTCTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:96769757 original size:24 final size:26
Alignment explanation
Indices: 96769725--96769793 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 26
96769715 CGAGCTGAAT
96769725 AGTAAGCTCATACGAGCTGAGA-A-C
1 AGTAAGCTCATACGAGCTGAGATATC
* * *
96769749 AGTAAGCTCTTACGAGTTGATATATC
1 AGTAAGCTCATACGAGCTGAGATATC
* *
96769775 GGTAAGCTTATACGAGCTG
1 AGTAAGCTCATACGAGCTG
96769794 TGGTGATCCC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 19 0.53
25 1 0.03
26 16 0.44
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (26 bp):
AGTAAGCTCATACGAGCTGAGATATC
Found at i:96771498 original size:13 final size:13
Alignment explanation
Indices: 96771476--96771510 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
96771466 ACACAGTTTA
*
96771476 TAAAACCATATCT
1 TAAAAACATATCT
96771489 TAAAAACATATCT
1 TAAAAACATATCT
96771502 T-AAAACATA
1 TAAAAACATA
96771511 GGCTCACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAAACATATCT
Found at i:96772159 original size:26 final size:26
Alignment explanation
Indices: 96772121--96772177 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
96772111 ACTAGAGAAT
* *
96772121 CCCCAATTCACAACTTACCTGGCGAA
1 CCCCAATTAACAACTTAACTGGCGAA
* * *
96772147 CCCCAGTTAACAACTTAACTGGTGAG
1 CCCCAATTAACAACTTAACTGGCGAA
96772173 CCCCA
1 CCCCA
96772178 TTTCAATGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.37, G:0.14, T:0.19
Consensus pattern (26 bp):
CCCCAATTAACAACTTAACTGGCGAA
Found at i:96779186 original size:18 final size:18
Alignment explanation
Indices: 96779163--96779197 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
96779153 ATAATTAGTT
96779163 ACCCTAAAACCCTAATCC
1 ACCCTAAAACCCTAATCC
96779181 ACCCTAAAACCCTAATC
1 ACCCTAAAACCCTAATC
96779198 TGAAGTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (18 bp):
ACCCTAAAACCCTAATCC
Found at i:96780768 original size:22 final size:23
Alignment explanation
Indices: 96780740--96780799 Score: 106
Period size: 22 Copynumber: 2.7 Consensus size: 23
96780730 TCCATTTTCG
96780740 AAATTCATTTATTCAAAAAAT-A
1 AAATTCATTTATTCAAAAAATAA
96780762 AAATTCATTTATTCAAAAAATAA
1 AAATTCATTTATTCAAAAAATAA
96780785 AAATTCATTT-TTCAA
1 AAATTCATTTATTCAA
96780800 GTCATTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 26 0.70
23 11 0.30
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTCATTTATTCAAAAAATAA
Found at i:96780889 original size:57 final size:57
Alignment explanation
Indices: 96780816--96780934 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 57
96780806 TTCATTTTTT
* * *
96780816 CATTTTATTTTTATTTTGGAGGAAACCACATTCATTTCCAAATAATT-CTATTTCTC
1 CATTTTATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAATTCCTATTTCTC
* * **
96780872 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCCTATTTCTC
1 CATTTT-ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAATTCCTATTTCTC
96780930 CATTT
1 CATTT
96780935 CACCATTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 6 0.11
57 34 0.63
58 14 0.26
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (57 bp):
CATTTTATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAATTCCTATTTCTC
Found at i:96786213 original size:12 final size:12
Alignment explanation
Indices: 96786196--96786243 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 12
96786186 TTTAAATATT
96786196 TTAAAAATAATA
1 TTAAAAATAATA
96786208 TTAAAATATAATAA
1 TTAAAA-ATAAT-A
96786222 TTAATAAATTAAATA
1 TTAA-AAA-T-AATA
96786237 TTAAAAA
1 TTAAAAA
96786244 ATAGTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.19
13 5 0.16
14 9 0.29
15 8 0.26
16 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAAAATAATA
Found at i:96786234 original size:43 final size:45
Alignment explanation
Indices: 96786187--96786290 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 45
96786177 ATATAAATTT
*
96786187 TTAAATATTTTAAAAATAATA-TTAA-AATATAAT-AATTAATAAA
1 TTAAATATTTTAAAAATAATAGTTAATAATAGAATCAATTAA-AAA
96786230 TTAAATA--TT-AAAA-AATAGTTAATAATAGAATCAATTAAAAA
1 TTAAATATTTTAAAAATAATAGTTAATAATAGAATCAATTAAAAA
* *
96786271 TTATAATATTTGATAAATAA
1 TTA-AATATTTTAAAAATAA
96786291 AAAGTATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
39 4 0.08
40 8 0.16
41 15 0.30
42 10 0.20
43 7 0.14
44 1 0.02
45 3 0.06
46 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (45 bp):
TTAAATATTTTAAAAATAATAGTTAATAATAGAATCAATTAAAAA
Found at i:96788140 original size:17 final size:18
Alignment explanation
Indices: 96788095--96788147 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
96788085 TATAAATGAA
96788095 ATATAAAATATAGTTAAATT
1 ATATAAAA-ATA-TTAAATT
96788115 AT-T-AAAATATT-AATT
1 ATATAAAAATATTAAATT
*
96788130 ATATAAAAATATAAAATT
1 ATATAAAAATATTAAATT
96788148 TTCACTGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.21
16 3 0.10
17 10 0.34
18 7 0.24
19 1 0.03
20 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATAAAAATATTAAATT
Found at i:96794763 original size:21 final size:22
Alignment explanation
Indices: 96794721--96794763 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
96794711 CTACTTATAT
* * *
96794721 TTTTTTTATATTTAGAATTTAA
1 TTTTTTTATATTAAAAAATTAA
96794743 TTTTTTTAT-TTAAAAAATTAA
1 TTTTTTTATATTAAAAAATTAA
96794764 ATCTAATTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTTTATATTAAAAAATTAA
Found at i:96794798 original size:14 final size:14
Alignment explanation
Indices: 96794779--96794816 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
96794769 ATTGTTAATA
96794779 TTGTTAAATTTTTC
1 TTGTTAAATTTTTC
96794793 TTGTTAAATTTTTC
1 TTGTTAAATTTTTC
*
96794807 TTGTCAAATT
1 TTGTTAAATT
96794817 CAGTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (14 bp):
TTGTTAAATTTTTC
Found at i:96802025 original size:43 final size:43
Alignment explanation
Indices: 96801977--96802112 Score: 245
Period size: 43 Copynumber: 3.2 Consensus size: 43
96801967 AAAAAAATGT
* *
96801977 CGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCACAAACGC
1 CGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
96802020 CGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
*
96802063 CGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCACAAATGC
1 CGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
96802106 CGCTAAA
1 CGCTAAA
96802113 GATCATAAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
Found at i:96807226 original size:46 final size:46
Alignment explanation
Indices: 96807174--96807437 Score: 406
Period size: 46 Copynumber: 5.7 Consensus size: 46
96807164 TGTCATAGTG
* * * *
96807174 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
* * *
96807220 TCTTTCAACCATGGTCTTGCTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
96807266 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
96807312 TCTTTCAACCATGGTCTTA-ATCATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACA-CATTTCATATCAGGTTGCCATGGTA
*
96807358 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
96807404 TCTTTCAGCCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
96807438 AGAGCACACT
Statistics
Matches: 204, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
45 5 0.02
46 198 0.97
47 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:96811280 original size:26 final size:26
Alignment explanation
Indices: 96811251--96811300 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
96811241 AAGAATTAGA
96811251 TAAAATTTGAAATCTTGAAAATTTTT
1 TAAAATTTGAAATCTTGAAAATTTTT
* * *
96811277 TAAAATTTTAATTCTTTAAAATTT
1 TAAAATTTGAAATCTTGAAAATTT
96811301 GAAATTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTTTT
Found at i:96811289 original size:16 final size:16
Alignment explanation
Indices: 96811270--96811300 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96811260 AAATCTTGAA
*
96811270 AATTTTTTAAAATTTT
1 AATTCTTTAAAATTTT
96811286 AATTCTTTAAAATTT
1 AATTCTTTAAAATTT
96811301 GAAATTATTT
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:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTCTTTAAAATTTT
Found at i:96811477 original size:16 final size:14
Alignment explanation
Indices: 96811448--96811523 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 14
96811438 TTTAACCTTT
*
96811448 AACCCTTAACCCTAA
1 AACCCCTAACCCT-A
96811463 AACCCCTAACACCTA
1 AACCCCTAAC-CCTA
96811478 AACCCCATAACCCGTA
1 AACCCC-TAACCC-TA
* *
96811494 AACCCCTAACTCTT
1 AACCCCTAACCCTA
*
96811508 AATCCCTAAACCCTA
1 AACCCCT-AACCCTA
96811523 A
1 A
96811524 GTCATAAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
14 7 0.14
15 29 0.57
16 15 0.29
ACGTcount: A:0.38, C:0.42, G:0.01, T:0.18
Consensus pattern (14 bp):
AACCCCTAACCCTA
Found at i:96811879 original size:15 final size:15
Alignment explanation
Indices: 96811856--96811906 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
96811846 ATACCCATGG
*
96811856 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
**
96811871 CCATAAAACCCGAAA
1 CCATAAAACCTTAAA
*
96811886 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
96811900 CCTTAAA
1 CCATAAA
96811907 TACTAAACTC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:96812064 original size:23 final size:23
Alignment explanation
Indices: 96812030--96812077 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
96812020 TATGATGTTT
96812030 TTTAAGGTTTAGAG-TTTAGGGG
1 TTTAAGGTTTAGAGTTTTAGGGG
*
96812052 TTTAAGGGTTTAGTGTTTTAGGGG
1 TTTAA-GGTTTAGAGTTTTAGGGG
96812076 TT
1 TT
96812078 ATAGATTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 8 0.35
24 10 0.43
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (23 bp):
TTTAAGGTTTAGAGTTTTAGGGG
Found at i:96812178 original size:42 final size:41
Alignment explanation
Indices: 96812131--96812343 Score: 182
Period size: 41 Copynumber: 5.2 Consensus size: 41
96812121 GTTATATGAC
* *
96812131 TTTTAGTGGCGTTTTGACCACAAATGCCGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTGACCA-AAACGCCGCTATTGCTCTGGT
** * *
96812173 TTTTAGCGGCGTTTTTG-GTAAAACACCGCTATTGTTCTGGT
1 TTTTAGCGGCG-TTTTGACCAAAACGCCGCTATTGCTCTGGT
* *
96812214 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGTT
1 TTTTAGCGGCGTTTTGACCAAAA-CGCCGCTATTGCTCTGGT
* * ** * *
96812255 TTTTAGCGGCGTTTT-ATCGAAAGCGCCATTAATGCTCTGTT
1 TTTTAGCGGCGTTTTGA-CCAAAACGCCGCTATTGCTCTGGT
* * * **
96812296 TTTTAGCGGCGTTCT-ACCGAAAACGCCACTAATGCTCTATT
1 TTTTAGCGGCGTTTTGACC-AAAACGCCGCTATTGCTCTGGT
96812337 TTTTAGC
1 TTTTAGC
96812344 CACCATTATT
Statistics
Matches: 145, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
40 9 0.06
41 116 0.80
42 15 0.10
43 5 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGACCAAAACGCCGCTATTGCTCTGGT
Found at i:96812252 original size:82 final size:81
Alignment explanation
Indices: 96812131--96812343 Score: 239
Period size: 82 Copynumber: 2.6 Consensus size: 81
96812121 GTTATATGAC
* * * * *
96812131 TTTTAGTGGCGTTTTGACCACAAATGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTT-TGGTAAA
1 TTTTAGCGGCGTTTT-ACCA-AAACGCCGCTAATGCTCTGTTTTTTAGCGGCGTTTTATCG-AAA
* * *
96812195 ACACCGCTATTGTTCTGGT
63 ACACCACTAATGCTCTGGT
*
96812214 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTTAGCGGCGTTTTATCGAAAGC
1 TTTTAGCGGCGTTTTACCAAAA-CGCCGCTAATGCTCTGTTTTTTAGCGGCGTTTTATCGAAAAC
* * *
96812279 GCCATTAATGCTCTGTT
65 ACCACTAATGCTCTGGT
* * *
96812296 TTTTAGCGGCGTTCTACCGAAAACGCCACTAATGCTCTATTTTTTAGC
1 TTTTAGCGGCGTTTTACC-AAAACGCCGCTAATGCTCTGTTTTTTAGC
96812344 CACCATTATT
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
81 3 0.03
82 89 0.79
83 20 0.18
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAACGCCGCTAATGCTCTGTTTTTTAGCGGCGTTTTATCGAAAACA
CCACTAATGCTCTGGT
Found at i:96812317 original size:41 final size:41
Alignment explanation
Indices: 96812164--96812343 Score: 200
Period size: 41 Copynumber: 4.4 Consensus size: 41
96812154 ATGCCGCTAT
* ** * * * *
96812164 TGCTCTGGTTTTTAGCGGCGTTTT-TGGTAAAACACCGCTAT
1 TGCTCTGTTTTTTAGCGGCGTTTTACCG-AAAGCGCCACTAA
* * * *
96812205 TGTTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAA
1 TGCTCTGTTTTTTAGCGGCGTTTTACCGAAAGCGCCACTAA
* *
96812246 TGCTCTGTTTTTTAGCGGCGTTTTATCGAAAGCGCCATTAA
1 TGCTCTGTTTTTTAGCGGCGTTTTACCGAAAGCGCCACTAA
* *
96812287 TGCTCTGTTTTTTAGCGGCGTTCTACCGAAAACGCCACTAA
1 TGCTCTGTTTTTTAGCGGCGTTTTACCGAAAGCGCCACTAA
*
96812328 TGCTCTATTTTTTAGC
1 TGCTCTGTTTTTTAGC
96812344 CACCATTATT
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 120 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (41 bp):
TGCTCTGTTTTTTAGCGGCGTTTTACCGAAAGCGCCACTAA
Found at i:96813993 original size:177 final size:178
Alignment explanation
Indices: 96813691--96814049 Score: 539
Period size: 177 Copynumber: 2.0 Consensus size: 178
96813681 AATTTAAATT
* * *
96813691 CTCTTTGCATGCAAATGAATTATGGTTTTCTTACATTTGAAAGCCTTCTTTTCTATCTTGATATG
1 CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTGAAAGCCTTCTTTTCTATCTTGATATG
* * * **
96813756 ATTATTATGTTTAGTTAATCGATAAGGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGTAGGTGTA
66 ATTATTATGTTTAGCTAATCGAGAAGGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGTGTA
** *
96813821 ATCGGTACCAAC-TTTCAAGTATTTTGCTGGTGAGTTTCTAAACTCAAA
131 ATCAATACC-ACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
96813869 CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTG-AAGTCCATT-TTTT-TATCTTGATA
1 CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTGAAAG-CC-TTCTTTTCTATCTTGATA
*
96813931 TGATTATTATGTTTAGCTAA-CTGAGAATGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGT
64 TGATTATTATGTTTAGCTAATC-GAGAAGGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGT
96813995 GTAATCAATACCACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
128 GTAATCAATACCACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
96814046 CTCT
1 CTCT
96814050 ATGTGGTTTT
Statistics
Matches: 165, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
176 3 0.02
177 118 0.72
178 42 0.25
179 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (178 bp):
CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTGAAAGCCTTCTTTTCTATCTTGATATG
ATTATTATGTTTAGCTAATCGAGAAGGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGTGTA
ATCAATACCACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
Found at i:96815090 original size:23 final size:23
Alignment explanation
Indices: 96815053--96815101 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
96815043 CCAGTTTCCT
* *
96815053 ATTTAGTTTTATTTTTACTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
* *
96815076 ATTTAGGTTTCTTTTCAGTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
96815099 ATT
1 ATT
96815102 ATAATTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.06, G:0.12, T:0.61
Consensus pattern (23 bp):
ATTTAGGTTTATTTTCACTTGTA
Found at i:96823852 original size:21 final size:20
Alignment explanation
Indices: 96823828--96823872 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
96823818 AAGGTTACTG
*
96823828 ATTTTTTTTTCTTTCTCTTTC
1 ATTTTATTTTCTTTC-CTTTC
96823849 ATTTTATTTTCTTTCCTTTC
1 ATTTTATTTTCTTTCCTTTC
96823869 -TTTT
1 ATTTT
96823873 CGAATCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 5 0.22
21 14 0.61
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTTATTTTCTTTCCTTTC
Found at i:96825730 original size:90 final size:90
Alignment explanation
Indices: 96825577--96825755 Score: 340
Period size: 90 Copynumber: 2.0 Consensus size: 90
96825567 ATCCCATGTT
*
96825577 TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTATTAATTCAAACCAATTAT
1 TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
96825642 TCCATTTTATTTCAAGTCAAATCAA
66 TCCATTTTATTTCAAGTCAAATCAA
*
96825667 TATTATTCCTCTTTTTATACGGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
1 TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
96825732 TCCATTTTATTTCAAGTCAAATCA
66 TCCATTTTATTTCAAGTCAAATCA
96825756 GTGTGTTTTG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.45
Consensus pattern (90 bp):
TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
TCCATTTTATTTCAAGTCAAATCAA
Found at i:96828713 original size:29 final size:29
Alignment explanation
Indices: 96828654--96828714 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
96828644 TATAGGGACT
* *
96828654 AAACTGAACAATTCACAAAATTTTAGGTA
1 AAACTGAACAATTCACAAAATTTAAGATA
* *
96828683 AAACTGAACAATT-ATAAAATGTTAATATA
1 AAACTGAACAATTCACAAAAT-TTAAGATA
96828712 AAA
1 AAA
96828715 TATATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (29 bp):
AAACTGAACAATTCACAAAATTTAAGATA
Found at i:96831705 original size:19 final size:21
Alignment explanation
Indices: 96831667--96831708 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
96831657 TTGTAGGAAA
*
96831667 TATTAAAAAATTATATAAAAT
1 TATTAAAAAATAATATAAAAT
96831688 TATT-AAAAATAATA-AAAAT
1 TATTAAAAAATAATATAAAAT
96831707 TA
1 TA
96831709 AGATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TATTAAAAAATAATATAAAAT
Found at i:96839286 original size:141 final size:139
Alignment explanation
Indices: 96839033--96839312 Score: 506
Period size: 141 Copynumber: 2.0 Consensus size: 139
96839023 GAAATGGCTC
*
96839033 TCAAAAACCCGGGAAATACAATCCTGCTATTCCAATAAAAAAGCTGTTTTGTCTCCTTTAAGAAT
1 TCAAAAACCCAGGAAATACAATCCTGCTATTCCAATAAAAAAGCTGTTTTGTCTCCTTTAAGAAT
*
96839098 AATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTGTATTCCCTACAATGCTATTTCCCTATT
66 AATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTCCCTACAATGCTATTTCCCTATT
96839163 AGGAACAAA
131 AGGAACAAA
96839172 TCAAAAACCCAGGAAATACAATCCTGCTATTCCAATAAAAAAAGCTGTTTTTGTCTCCTTTAAGA
1 TCAAAAACCCAGGAAATACAATCCTGCTATTCCAAT-AAAAAAGCTG-TTTTGTCTCCTTTAAGA
* *
96839237 ATAATTTTCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTTCCTACAATGCTATTTCCCTA
64 ATAATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTCCCTACAATGCTATTTCCCTA
96839302 TTAGGAACAAA
129 TTAGGAACAAA
96839313 GCAATGCAGT
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
139 35 0.26
140 10 0.07
141 90 0.67
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (139 bp):
TCAAAAACCCAGGAAATACAATCCTGCTATTCCAATAAAAAAGCTGTTTTGTCTCCTTTAAGAAT
AATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTCCCTACAATGCTATTTCCCTATT
AGGAACAAA
Found at i:96845861 original size:19 final size:19
Alignment explanation
Indices: 96845837--96845894 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
96845827 GAATATTAAG
96845837 ATAGCAGGTTCAATACTAT
1 ATAGCAGGTTCAATACTAT
96845856 ATAGCAGGTTCAATACTAT
1 ATAGCAGGTTCAATACTAT
*
96845875 ACAGCAGGTTCAATACTAT
1 ATAGCAGGTTCAATACTAT
96845894 A
1 A
96845895 CCCTTAACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (19 bp):
ATAGCAGGTTCAATACTAT
Found at i:96846221 original size:27 final size:27
Alignment explanation
Indices: 96846191--96846245 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
96846181 GCCAAACCCA
96846191 TTGTTTGCTTCATCCATGCCTTCTATT
1 TTGTTTGCTTCATCCATGCCTTCTATT
96846218 TTGTTTGCTTCATCCATGCCTTCTATT
1 TTGTTTGCTTCATCCATGCCTTCTATT
96846245 T
1 T
96846246 CCATTTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.25, G:0.11, T:0.53
Consensus pattern (27 bp):
TTGTTTGCTTCATCCATGCCTTCTATT
Found at i:96846259 original size:27 final size:27
Alignment explanation
Indices: 96846194--96846260 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
96846184 AAACCCATTG
* **
96846194 TTTGCTTCATCCATGCCTTCTATTTTG
1 TTTGCTACATCCATGCCTTCTATTTCA
*
96846221 TTTGCTTCATCCATGCCTTCTATTTCCA
1 TTTGCTACATCCATGCCTTCTATTT-CA
*
96846249 TTTG-TAGATCCA
1 TTTGCTACATCCA
96846261 CACTTTCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.89
28 4 0.11
ACGTcount: A:0.15, C:0.27, G:0.10, T:0.48
Consensus pattern (27 bp):
TTTGCTACATCCATGCCTTCTATTTCA
Found at i:96853651 original size:33 final size:33
Alignment explanation
Indices: 96853610--96853673 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
96853600 AAAAAAGAAA
96853610 ATATATATAAGAGAAAATAATAATTCTTTGTCT
1 ATATATATAAGAGAAAATAATAATTCTTTGTCT
96853643 ATATATATAAGAGAAAATAATAATTCTTTGT
1 ATATATATAAGAGAAAATAATAATTCTTTGT
96853674 ATTTTTAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (33 bp):
ATATATATAAGAGAAAATAATAATTCTTTGTCT
Found at i:96860794 original size:11 final size:11
Alignment explanation
Indices: 96860780--96860836 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
96860770 ATATCTAAAT
96860780 AATAACAACAA
1 AATAACAACAA
**
96860791 AATAGTAACAA
1 AATAACAACAA
** * *
96860802 TCTAATAGCAA
1 AATAACAACAA
*
96860813 AATGACAACAA
1 AATAACAACAA
96860824 AATAACAACAA
1 AATAACAACAA
96860835 AA
1 AA
96860837 CAATTTATTC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.65, C:0.16, G:0.05, T:0.14
Consensus pattern (11 bp):
AATAACAACAA
Found at i:96860804 original size:29 final size:28
Alignment explanation
Indices: 96860729--96860806 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 28
96860719 AAATGTCTTT
** *
96860729 AAAATAGTAACAAAATTAATAATAAAAC
1 AAAATAGTAACAATCTAAATAATAAAAC
*
96860757 -AAAGAGCTATACAATATCTAAATAATAACAAC
1 AAAATAG-TA-AC-A-ATCTAAATAATAA-AAC
96860789 AAAATAGTAACAATCTAA
1 AAAATAGTAACAATCTAA
96860807 TAGCAAAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
27 5 0.13
28 2 0.05
29 8 0.21
30 2 0.05
31 12 0.31
32 5 0.13
33 5 0.13
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.22
Consensus pattern (28 bp):
AAAATAGTAACAATCTAAATAATAAAAC
Found at i:96861690 original size:18 final size:18
Alignment explanation
Indices: 96861667--96861702 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
96861657 GTACGTAATA
96861667 CTTATGATTATATAATGT
1 CTTATGATTATATAATGT
96861685 CTTATGATTATATAATGT
1 CTTATGATTATATAATGT
96861703 GTATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTATGATTATATAATGT
Found at i:96862309 original size:19 final size:19
Alignment explanation
Indices: 96862271--96862309 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
96862261 ATGCATTATT
* * *
96862271 TAAATGTATATCAACTTTA
1 TAAATATATATAAACATTA
96862290 TAAATATATATAAACATTA
1 TAAATATATATAAACATTA
96862309 T
1 T
96862310 CATTGGTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
TAAATATATATAAACATTA
Found at i:96862569 original size:9 final size:9
Alignment explanation
Indices: 96862557--96862590 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
96862547 ACATATAAAA
*
96862557 AATTAACTG
1 AATTAACCG
96862566 AATTAACCG
1 AATTAACCG
96862575 AATTAACCG
1 AATTAACCG
96862584 AAATTAA
1 -AATTAA
96862591 AGTATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:96863618 original size:14 final size:12
Alignment explanation
Indices: 96863585--96863611 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
96863575 TATTATTTTT
96863585 TATGTGAATAAG
1 TATGTGAATAAG
96863597 TATGTGAATAAG
1 TATGTGAATAAG
96863609 TAT
1 TAT
96863612 TTGTGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (12 bp):
TATGTGAATAAG
Found at i:96867427 original size:20 final size:20
Alignment explanation
Indices: 96867402--96867442 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
96867392 AAGGGATGAA
96867402 GTTTAATTCCCGAGCCTAGG
1 GTTTAATTCCCGAGCCTAGG
96867422 GTTTAATTCCCGAGCCTAGG
1 GTTTAATTCCCGAGCCTAGG
96867442 G
1 G
96867443 GCAAAAGTGT
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:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (20 bp):
GTTTAATTCCCGAGCCTAGG
Found at i:96870179 original size:82 final size:80
Alignment explanation
Indices: 96870035--96870184 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 80
96870025 TATAATAATT
* * *
96870035 CACCGGCATAAAGCCTGCTAGGCCTAAGCCTGTATCACACACCGGCACAAGGCCTGCTAGGCTCA
1 CACCGGCATAAAGCCTGCTAGGCATAAGCCTGTATAACACACCAGCACAAGGCCTGCTAGGCTCA
96870100 AAGTCTGATTTTATA
66 AAGTCTGATTTTATA
* ** *
96870115 CACCGGCAATAAA-CCTGCTAGGCATAAAGCCTGATTTAATTCACCAGCACAAGGCTTGCTAGGC
1 CACCGGC-ATAAAGCCTGCTAGGCAT-AAGCCTG-TATAACACACCAGCACAAGGCCTGCTAGGC
96870179 TCAAAG
63 TCAAAG
96870185 CCCGAATGTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 18 0.30
81 12 0.20
82 30 0.50
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (80 bp):
CACCGGCATAAAGCCTGCTAGGCATAAGCCTGTATAACACACCAGCACAAGGCCTGCTAGGCTCA
AAGTCTGATTTTATA
Found at i:96873708 original size:5 final size:6
Alignment explanation
Indices: 96873687--96873758 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
96873677 AATTTAGCCA
* * *
96873687 TTTATT TTTA-T TGTA-T TTTATT TTTATT TTTATT TTTAGT TTAATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
96873733 TTTGTT TTCTAATT TTT-CT TTTATT T
1 TTTATT TT-T-ATT TTTATT TTTATT T
96873759 GCTTCTGGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
5 12 0.23
6 34 0.65
7 2 0.04
8 4 0.08
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:96874283 original size:20 final size:20
Alignment explanation
Indices: 96874258--96874299 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
96874248 GGAACAAAGC
96874258 TAAACAGTGGTTGAATTCTT
1 TAAACAGTGGTTGAATTCTT
96874278 TAAACAGTGGTTGAATTCTT
1 TAAACAGTGGTTGAATTCTT
96874298 TA
1 TA
96874300 CCACGAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (20 bp):
TAAACAGTGGTTGAATTCTT
Found at i:96876850 original size:22 final size:23
Alignment explanation
Indices: 96876799--96876864 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 23
96876789 TTATTTGTTA
96876799 TATTA-TTTATTTTTATTTTCCT
1 TATTATTTTATTTTTATTTTCCT
* *
96876821 AATT-TTTTA-TTTTATTTTCTT
1 TATTATTTTATTTTTATTTTCCT
96876842 TATTATTTTTATACTTTTATTTT
1 TATTA-TTTTAT--TTTTATTTT
96876865 AATTTTCTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 14 0.40
22 7 0.20
23 5 0.14
26 9 0.26
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (23 bp):
TATTATTTTATTTTTATTTTCCT
Found at i:96876986 original size:12 final size:12
Alignment explanation
Indices: 96876971--96877018 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
96876961 CTTTTTTTCG
96876971 TTTTATTTTTTA
1 TTTTATTTTTTA
96876983 TTTTATTTTTTA
1 TTTTATTTTTTA
*
96876995 -TTTATCTTTTTT
1 TTTTAT-TTTTTA
96877007 TTTTAATTTTTT
1 TTTT-ATTTTTT
96877019 TAGTTGCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 5 0.16
12 17 0.53
13 8 0.25
14 2 0.06
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:96876991 original size:25 final size:24
Alignment explanation
Indices: 96876951--96877044 Score: 61
Period size: 24 Copynumber: 3.8 Consensus size: 24
96876941 ATTGAGTTTA
* *
96876951 TTATTTTTT-TCTT-TTTTTCGTT
1 TTATTTTTTATTTTATTTTTTGTT
*
96876973 TTATTTTTTATTTTATTTTTT-AT
1 TTATTTTTTATTTTATTTTTTGTT
*
96876996 TTATCTTTTTTTTTTAATTTTTTTAGTTGCT
1 TTAT-TTTTTATTTT-A-TTTTTT-G-T--T
96877027 TTATTTTTTA-TTTATTTT
1 TTATTTTTTATTTTATTTT
96877045 CTTAAAATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
22 9 0.16
23 8 0.14
24 14 0.25
25 1 0.02
26 6 0.11
27 4 0.07
28 1 0.02
29 3 0.05
30 5 0.09
31 5 0.09
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.80
Consensus pattern (24 bp):
TTATTTTTTATTTTATTTTTTGTT
Found at i:96877019 original size:12 final size:11
Alignment explanation
Indices: 96876951--96877019 Score: 59
Period size: 12 Copynumber: 6.0 Consensus size: 11
96876941 ATTGAGTTTA
96876951 TTATTTTTTTCT
1 TTATTTTTTT-T
**
96876963 TT-TTTTCGTT
1 TTATTTTTTTT
96876973 TTATTTTTTATT
1 TTATTTTTT-TT
96876985 TTATTTTTTATT
1 TTATTTTTT-TT
*
96876997 TATCTTTTTTTT
1 T-TATTTTTTTT
*
96877009 TTAATTTTTTT
1 TTATTTTTTTT
96877020 AGTTGCTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
10 3 0.06
11 17 0.36
12 20 0.43
13 7 0.15
ACGTcount: A:0.12, C:0.04, G:0.01, T:0.83
Consensus pattern (11 bp):
TTATTTTTTTT
Found at i:96888408 original size:26 final size:26
Alignment explanation
Indices: 96888379--96888435 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
96888369 CTCCTCTAGC
96888379 TTCTATTTCTTGAATCCAACTTGATA
1 TTCTATTTCTTGAATCCAACTTGATA
96888405 TTCTATTTCTTGAATCCAACTTGATA
1 TTCTATTTCTTGAATCCAACTTGATA
96888431 TTCTA
1 TTCTA
96888436 ACTCCCCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (26 bp):
TTCTATTTCTTGAATCCAACTTGATA
Found at i:96889825 original size:24 final size:23
Alignment explanation
Indices: 96889773--96889827 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
96889763 GAACAATGAT
* *
96889773 TGTGACCTGGTGTACGTCAGATGG
1 TGTGA-CTGGTGGACGTCAGACGG
96889797 TGTGACTGGTGGACGTCAGACGG
1 TGTGACTGGTGGACGTCAGACGG
96889820 TGGTGACT
1 T-GTGACT
96889828 AGTAGTAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.27
Consensus pattern (23 bp):
TGTGACTGGTGGACGTCAGACGG
Done.