Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 73 of 325
Found at i:25672412 original size:10 final size:10
Alignment explanation
Indices: 25672382--25672424 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
25672372 TTAAATTTTT
* *
25672382 TTCTTTTTTT
1 TTCTTTCTTC
*
25672392 TTCTTTTTTC
1 TTCTTTCTTC
25672402 TTCTTTCTTC
1 TTCTTTCTTC
25672412 TTC-TTCTTC
1 TTCTTTCTTC
25672421 TTCT
1 TTCT
25672425 CCTCCTACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 9 0.30
10 21 0.70
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:25672532 original size:19 final size:18
Alignment explanation
Indices: 25672489--25672537 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
25672479 GATGCCGGTA
25672489 CTCTT-TCTTTTCTTCTC
1 CTCTTCTCTTTTCTTCTC
25672506 CTCTTTCTCTTTTCTTCTC
1 CTC-TTCTCTTTTCTTCTC
*
25672525 TTTCTTCT-TTTTC
1 -CTCTTCTCTTTTC
25672538 CTTCGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.11
18 7 0.25
19 16 0.57
20 2 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
CTCTTCTCTTTTCTTCTC
Found at i:25672535 original size:17 final size:17
Alignment explanation
Indices: 25672489--25672539 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
25672479 GATGCCGGTA
25672489 CTCTTTCTT-TTCTTCTC
1 CTCTTTCTTCTT-TTCTC
*
25672506 CTCTTTC-TCTTTTCTT
1 CTCTTTCTTCTTTTCTC
25672522 CTCTTTCTTCTTTT-TC
1 CTCTTTCTTCTTTTCTC
25672538 CT
1 CT
25672540 TCGAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 15 0.50
17 15 0.50
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
CTCTTTCTTCTTTTCTC
Found at i:25672816 original size:29 final size:29
Alignment explanation
Indices: 25672783--25672899 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
25672773 TGTAATTTTT
*
25672783 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
25672812 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
25672842 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
25672871 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
25672900 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:25672838 original size:30 final size:30
Alignment explanation
Indices: 25672798--25672899 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
25672788 ATTTAGGATT
*
25672798 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
25672828 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
25672858 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
25672888 AAAATGCAATTT
1 AAAATGAAATTT
25672900 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:25672919 original size:13 final size:15
Alignment explanation
Indices: 25672895--25672928 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
25672885 GTCAAAATGC
25672895 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
25672909 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
25672923 AATTTT
1 AATTTT
25672929 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:25673254 original size:55 final size:55
Alignment explanation
Indices: 25673170--25673386 Score: 315
Period size: 55 Copynumber: 4.1 Consensus size: 55
25673160 CACGTGAGCC
* *
25673170 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
25673225 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
* *
25673276 AAGGCTCAACTCACCTCTCGCAATATGAG-TGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
25673329 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
25673384 AAG
1 AAG
25673387 TAGAAATTGA
Statistics
Matches: 148, Mismatches: 6, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
49 14 0.09
50 2 0.01
51 32 0.22
53 31 0.21
54 20 0.14
55 37 0.25
56 6 0.04
57 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:25673355 original size:104 final size:104
Alignment explanation
Indices: 25673170--25673378 Score: 332
Period size: 106 Copynumber: 2.0 Consensus size: 104
25673160 CACGTGAGCC
* *
25673170 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
25673235 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA
* *
25673276 AAGGCTCAACTCACCTCTCGCAATATGAG-TGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
25673339 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
25673379 TTGAAAAGTA
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
103 16 0.16
104 35 0.36
105 8 0.08
106 38 0.39
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:25673384 original size:14 final size:14
Alignment explanation
Indices: 25673365--25673399 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25673355 GAGTTGATTT
25673365 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
25673379 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
25673393 TTGAAAA
1 TTGAAAA
25673400 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:25673483 original size:15 final size:15
Alignment explanation
Indices: 25673463--25673491 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25673453 TTTTTGAAAC
25673463 ACAGAAATTAAAAAA
1 ACAGAAATTAAAAAA
25673478 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
25673492 CAAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
ACAGAAATTAAAAAA
Found at i:25673642 original size:85 final size:87
Alignment explanation
Indices: 25673487--25673733 Score: 290
Period size: 85 Copynumber: 2.8 Consensus size: 87
25673477 AACAGAAATT
* * *
25673487 AAAAACA-AATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
25673551 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
** * * *
25673573 TGAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
25673636 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
25673662 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
25673726 GTTGATTT
64 GTTGATTT
25673734 TTGAAAAACA
Statistics
Matches: 135, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
86 4 0.03
87 26 0.19
88 3 0.02
89 30 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:25673679 original size:15 final size:16
Alignment explanation
Indices: 25673646--25673679 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25673636 TTGATTTTTG
* *
25673646 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
25673662 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
25673678 AA
1 AA
25673680 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:25673721 original size:91 final size:87
Alignment explanation
Indices: 25673487--25673740 Score: 304
Period size: 91 Copynumber: 2.9 Consensus size: 87
25673477 AACAGAAATT
* * *
25673487 AAAAACAAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAGT
1 AAAAACAAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
*
25673552 TGA--TTTGAAAAGTAGAATTAG
65 TGATTTTTGAAAAGTAGAATTAA
** * * *
25673573 TGAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACA-AAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
25673636 TTGATTTTTGAAAAGCATAG-ATTGAA
64 TTGATTTTTGAAAAG--TAGAATT-AA
25673662 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACA-AAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
25673726 GTTGATTTTTGAAAA
63 GTTGATTTTTGAAAA
25673741 ACAAAAATTA
Statistics
Matches: 142, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
86 4 0.03
87 26 0.18
88 3 0.02
89 27 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTTTGAAAAGTAGAATTAA
Found at i:25673942 original size:73 final size:70
Alignment explanation
Indices: 25673753--25673948 Score: 207
Period size: 73 Copynumber: 2.7 Consensus size: 70
25673743 AAAAATTAAA
* ** * * * * **
25673753 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
25673817 CCCCG
66 CCCCG
*
25673822 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAA-AAAATTTAAAAATACCTCAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA----TTTTAAAACAAAAATTAAAAATACCTCAA
* **
25673886 CGTGTCTTG
62 CGTGCCCCG
25673895 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT--AAAACAAAAATTAAAA
25673949 GGCTTAACTC
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
69 29 0.28
70 2 0.02
71 4 0.04
72 10 0.10
73 53 0.50
74 7 0.07
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:25674326 original size:191 final size:192
Alignment explanation
Indices: 25673698--25674503 Score: 1476
Period size: 190 Copynumber: 4.2 Consensus size: 192
25673688 CATGTGAGCC
** *
25673698 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
25673763 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATACCTCGGCGTGCCCCGAGGCTC
*
25673828 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAATTTAAAAATACCTCAACGTGTCT
129 AACTCACTTCTCGCAATATGAGTTGATTTTTTTT--AAAAAATTTAAAAATACCTCAACGTGTCT
25673893 T
192 T
25673894 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
25673959 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACCTCGGCGTGCCCCGAGGCTCAA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACCTCGGCGTGCCCCGAGGCTCAA
*
25674024 CTCACTTCTCGCAATATGAGTTGATTTTTTTT--AAAATTTAAAAATATCTCAACGTGTCTT
131 CTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
25674084 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
25674149 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATACCTCGGCGTGCCCCGAGGCTCA
25674214 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
130 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
25674276 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
25674340 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACCTCGGCGTGCCCCGAGGCTCAA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACCTCGGCGTGCCCCGAGGCTCAA
**
25674405 CTCACTTCTCGCAATATGAGTTGATTTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
131 CTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
25674467 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
25674504 CCTTGGAAAG
Statistics
Matches: 598, Mismatches: 8, Indels: 13
0.97 0.01 0.02
Matches are distributed among these distances:
190 188 0.31
191 181 0.30
192 71 0.12
194 60 0.10
195 68 0.11
196 30 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACCTCGGCGTGCCCCGAGGCTCAA
CTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:25695356 original size:16 final size:15
Alignment explanation
Indices: 25695330--25695364 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
25695320 TGATGTGAAT
25695330 AATATAAAATATTAA
1 AATATAAAATATTAA
*
25695345 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
25695361 AATA
1 AATA
25695365 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:25695552 original size:20 final size:21
Alignment explanation
Indices: 25695510--25695552 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
25695500 CTTTTTTTAG
* *
25695510 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
25695531 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
25695551 AA
1 AA
25695553 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:25703549 original size:31 final size:30
Alignment explanation
Indices: 25703514--25703583 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
25703504 AAAATTGAAG
25703514 TTTCATGTATATAATTGAACTACAACCAAAA
1 TTTCATGTATATAATTGAACTA-AACCAAAA
* * *
25703545 TTTCACGTATATAATTGTACTAAATCAAAA
1 TTTCATGTATATAATTGAACTAAACCAAAA
25703575 TTT-ATGTAT
1 TTTCATGTAT
25703584 CAAATGAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 5 0.14
30 10 0.29
31 20 0.57
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTCATGTATATAATTGAACTAAACCAAAA
Found at i:25705419 original size:18 final size:17
Alignment explanation
Indices: 25705388--25705439 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
25705378 AAAATTTAAA
25705388 ATATA-TTTTATTTTTT
1 ATATATTTTTATTTTTT
25705404 ATATATTTTTATTTTTT
1 ATATATTTTTATTTTTT
*
25705421 -TAATGATTTTTAATTTTT
1 AT-AT-ATTTTTATTTTTT
25705439 A
1 A
25705440 ATTTTTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 6 0.19
17 13 0.42
18 12 0.39
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
ATATATTTTTATTTTTT
Found at i:25705440 original size:17 final size:16
Alignment explanation
Indices: 25705387--25705446 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 16
25705377 AAAAATTTAA
25705387 AATATATTTTATTTTTT
1 AATAT-TTTTATTTTTT
25705404 ATATATTTTTATTTTTTT
1 A-ATATTTTTA-TTTTTT
*
25705422 AATGATTTTTAATTTTT
1 AAT-ATTTTTATTTTTT
25705439 AAT-TTTTT
1 AATATTTTT
25705447 TCTTATCTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 5 0.13
17 16 0.41
18 18 0.46
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
AATATTTTTATTTTTT
Found at i:25705847 original size:26 final size:28
Alignment explanation
Indices: 25705808--25705865 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
25705798 TTGGATAAAC
**
25705808 AATTGAAAAGGTAAAATTAAAGA-TGGA
1 AATTGAAAAGGTAAAAACAAAGATTGGA
*
25705835 AATTGAAGA-GTAAAAACAAAGATTGGA
1 AATTGAAAAGGTAAAAACAAAGATTGGA
25705862 AATT
1 AATT
25705866 AGAATTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.55, C:0.02, G:0.21, T:0.22
Consensus pattern (28 bp):
AATTGAAAAGGTAAAAACAAAGATTGGA
Found at i:25709454 original size:49 final size:48
Alignment explanation
Indices: 25709388--25709486 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 48
25709378 TTACACATCT
* *
25709388 TCACATAATGATGCCATAGCCCCGCAATGGTCATACATGTAATCACATA
1 TCACATAATGATGCCATAGCCCAGCAATGGTCATACACG-AATCACATA
* * *
25709437 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
1 TCACATAAT-GATGCCATAGCCCAGCAATGGTCATACACGAATCACATA
25709485 TC
1 TC
25709487 TCACTGATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
48 12 0.27
49 32 0.73
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (48 bp):
TCACATAATGATGCCATAGCCCAGCAATGGTCATACACGAATCACATA
Found at i:25709621 original size:31 final size:31
Alignment explanation
Indices: 25709586--25709703 Score: 175
Period size: 31 Copynumber: 3.8 Consensus size: 31
25709576 CTTGTCACTT
*
25709586 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25709617 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
25709648 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
25709679 GTAGCTGAAGTTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
25709704 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
30 2 0.03
31 75 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:25709781 original size:50 final size:51
Alignment explanation
Indices: 25709679--25709807 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
25709669 CACTGATCAG
* * * *
25709679 GTAGCTGAAGTTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
25709730 GTAGCCGAAGCTATCACTTATCACTT-TCACTTTTTC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
25709780 GTAGTCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
25709808 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 42 0.60
51 28 0.40
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:25713518 original size:19 final size:19
Alignment explanation
Indices: 25713480--25713539 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
25713470 ATCAAATTTG
*
25713480 TTAATTATGATTAAAATTAAT
1 TTAATTAAGATT--AATTAAT
* *
25713501 TTAATTAAGTTTAATTAAG
1 TTAATTAAGATTAATTAAT
* *
25713520 CTAATTAGGATTAATTAAT
1 TTAATTAAGATTAATTAAT
25713539 T
1 T
25713540 ACTAAACTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 21 0.68
21 10 0.32
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (19 bp):
TTAATTAAGATTAATTAAT
Found at i:25714386 original size:12 final size:12
Alignment explanation
Indices: 25714364--25714393 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25714354 GAATTAAATC
25714364 ATAAA-TAATTG
1 ATAAATTAATTG
25714375 ATAAATTAATTG
1 ATAAATTAATTG
25714387 ATAAATT
1 ATAAATT
25714394 GAATATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (12 bp):
ATAAATTAATTG
Found at i:25719662 original size:20 final size:20
Alignment explanation
Indices: 25719633--25719677 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25719623 AGCACATATA
* *
25719633 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
25719653 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
25719673 TTCAT
1 TTCAT
25719678 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:25722558 original size:43 final size:44
Alignment explanation
Indices: 25722489--25722645 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 44
25722479 AGCTTGTACA
* * *
25722489 ATGCCAATGTCCCAGA-TGTGGGCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACATGTAATCAAATATCG
*
25722532 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACAGTGGTCTTACATGTAATCAAATATCG
* * *
25722574 ATGCCAACGTCCCAGAC-GTGGTATTACACGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACATGT-AATCA-AATATCG
*
25722618 ATGCCAACGCCCCAGACA-TGGTCTTACA
1 ATGCCAACGTCCCAGACAGTGGTCTTACA
25722646 CAAAAACACA
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 39 0.41
44 30 0.31
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAGTGGTCTTACATGTAATCAAATATCG
Found at i:25722633 original size:86 final size:85
Alignment explanation
Indices: 25722489--25722645 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
25722479 AGCTTGTACA
* * * * *
25722489 ATGCCAATGTCCCAGATGTGGGCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACGTGGGATTACACGTAATCAAATATCGATGCCACTGCCCCAGACAGGGT
25722554 CTTACATGAAATCAAATACG
66 CTTACATGAAATCAAATACG
* * *
25722574 ATGCCAACGTCCCAGACGTGGTATTACACGTAAATCATAA-GTCGATGCCAAC-GCCCCAGACAT
1 ATGCCAACGTCCCAGACGTGGGATTACACGT-AATCA-AATATCGATGCC-ACTGCCCCAGACAG
25722637 GGTCTTACA
63 GGTCTTACA
25722646 CAAAAACACA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 26 0.43
86 31 0.51
87 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGTGGGATTACACGTAATCAAATATCGATGCCACTGCCCCAGACAGGGT
CTTACATGAAATCAAATACG
Found at i:25725617 original size:43 final size:43
Alignment explanation
Indices: 25725503--25725623 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
25725493 TATCATATTG
*** * *
25725503 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAACA
* *
25725546 ATGCCAATGTCCTAGACATGATCTTACATGTAATCACAATAA-A
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA-AATAACA
*
25725589 ATGCCAATGTCCCAAACATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
25725624 TCATCTCGGA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 63 0.94
44 4 0.06
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAACA
Found at i:25725751 original size:5 final size:5
Alignment explanation
Indices: 25725741--25725767 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25725731 ACCATTCAGC
25725741 ATTCA ATTCA ATTCA ATTCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA AT
25725768 AATAAATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCA
Found at i:25729028 original size:43 final size:43
Alignment explanation
Indices: 25728980--25729068 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
25728970 TTTATGTCAA
*
25728980 TTGTTAGAGTATATTATACTTATATC-TCAAAGGTATTATTTTC
1 TTGTTAGAGTATATTATACTTATATCAT-AAAGGTATTATTCTC
*
25729023 TTGTTAGAGTATATTGTACTTATATCATAAAGGTATTATTCTC
1 TTGTTAGAGTATATTATACTTATATCATAAAGGTATTATTCTC
25729066 TTG
1 TTG
25729069 GTATCATCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.48
Consensus pattern (43 bp):
TTGTTAGAGTATATTATACTTATATCATAAAGGTATTATTCTC
Found at i:25732712 original size:21 final size:21
Alignment explanation
Indices: 25732673--25732712 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25732663 ATTAATATAA
* **
25732673 TTTAAAACTAAAATTTTAAAT
1 TTTAAAAATAAAAAATTAAAT
25732694 TTTAAAAATAAAAAATTAA
1 TTTAAAAATAAAAAATTAA
25732713 GATTACAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAAAATAAAAAATTAAAT
Found at i:25736372 original size:50 final size:52
Alignment explanation
Indices: 25736293--25736400 Score: 184
Period size: 50 Copynumber: 2.1 Consensus size: 52
25736283 CATGAAATTC
25736293 TTATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
* *
25736343 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
25736395 TTATCA
1 TTATCA
25736401 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 31 0.57
51 16 0.30
52 7 0.13
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:25736378 original size:26 final size:26
Alignment explanation
Indices: 25736293--25736400 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
25736283 CATGAAATTC
* *
25736293 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
25736319 TTATCAT-GAACATTTACCTAACC-A
1 TTATCATGGAACATTTACCTAACCTA
25736343 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
25736369 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
25736395 TTATCA
1 TTATCA
25736401 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 8 0.10
25 31 0.39
26 40 0.51
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:25742129 original size:26 final size:26
Alignment explanation
Indices: 25742100--25742183 Score: 114
Period size: 26 Copynumber: 3.2 Consensus size: 26
25742090 AATGAAATTC
*
25742100 TTATCATAAAACATTTACTTAACCCA
1 TTATCATAAAACATTTACCTAACCCA
*
25742126 TTATCATAAAACATCTACCTAACCCA
1 TTATCATAAAACATTTACCTAACCCA
** * *
25742152 TTATCATGGAACATTTACCTAATCTA
1 TTATCATAAAACATTTACCTAACCCA
25742178 TTATCA
1 TTATCA
25742184 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (26 bp):
TTATCATAAAACATTTACCTAACCCA
Found at i:25742681 original size:27 final size:27
Alignment explanation
Indices: 25742643--25742697 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
25742633 TTCATTTTTG
25742643 TTGTTACTCATACTAATGTGTCAATTA
1 TTGTTACTCATACTAATGTGTCAATTA
25742670 TTGTTACTCATACTAATGTGTCAATTA
1 TTGTTACTCATACTAATGTGTCAATTA
25742697 T
1 T
25742698 GAAAATGATA
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:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (27 bp):
TTGTTACTCATACTAATGTGTCAATTA
Found at i:25744233 original size:13 final size:13
Alignment explanation
Indices: 25744215--25744239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25744205 TTTTCATCTG
25744215 CATAATTATTTTT
1 CATAATTATTTTT
25744228 CATAATTATTTT
1 CATAATTATTTT
25744240 GAAGTTCGTT
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
CATAATTATTTTT
Found at i:25748810 original size:46 final size:46
Alignment explanation
Indices: 25748743--25748917 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
25748733 TGTAACCCGC
25748743 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
25748789 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
25748839 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
25748882 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
25748918 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:25748863 original size:93 final size:93
Alignment explanation
Indices: 25748751--25748921 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25748741 GCCCATAAGT
** *
25748751 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25748816 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
25748844 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25748909 CGAGTTCGGATGC
66 CGAGCTCGGATGC
25748922 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:25756536 original size:20 final size:20
Alignment explanation
Indices: 25756513--25756553 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25756503 TTTCATTTAG
25756513 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
* * *
25756533 CTCATATGGGTTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
25756553 C
1 C
25756554 CCTAATGAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (20 bp):
CTCACATGAGCTTCAGTTAA
Found at i:25756565 original size:20 final size:20
Alignment explanation
Indices: 25756518--25756591 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
25756508 TTTAGCTCAC
* *
25756518 ATGAGCTTCAGTTAACTC-A
1 ATGAGTTTCAGTTAACCCTA
*
25756537 TATGGGTTTCAGTTAACCCTA
1 -ATGAGTTTCAGTTAACCCTA
* *
25756558 ATGAGTTTTAGTTCAACTCTTA
1 ATGAGTTTCAGTT-AAC-CCTA
25756580 A-GAGTTTCAGTT
1 ATGAGTTTCAGTT
25756592 TAAACCTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 26 0.59
21 14 0.32
22 4 0.09
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGAGTTTCAGTTAACCCTA
Found at i:25756663 original size:41 final size:42
Alignment explanation
Indices: 25756603--25756681 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
25756593 AAACCTATTA
* *
25756603 GGTTTTCATTCAGCTCTTATGAGCTTCTGTTCAACCCTTATG
1 GGTTTCCATTCAGCACTTATGAGCTTCTGTTCAACCCTTATG
* *
25756645 GGTTTCCATT-AGCACTTATGTGCTTCTGTTCAGCCCT
1 GGTTTCCATTCAGCACTTATGAGCTTCTGTTCAACCCT
25756682 CAAGTTTCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 24 0.73
42 9 0.27
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (42 bp):
GGTTTCCATTCAGCACTTATGAGCTTCTGTTCAACCCTTATG
Found at i:25761402 original size:15 final size:15
Alignment explanation
Indices: 25761372--25761402 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25761362 AGTGCTGCTG
*
25761372 ATAAAGGAATAAAAA
1 ATAAAGGAAAAAAAA
25761387 ATAAAGGAAAAAAAA
1 ATAAAGGAAAAAAAA
25761402 A
1 A
25761403 CAGAAAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
ATAAAGGAAAAAAAA
Found at i:25761847 original size:41 final size:42
Alignment explanation
Indices: 25761809--25761888 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
25761799 AATTAAATTT
25761809 AAATAACTTTTAAAATA-TATAAAAATAATAAAAATAAATCC
1 AAATAACTTTTAAAATATTATAAAAATAATAAAAATAAATCC
* * * * * *
25761850 AAATTATTTTTTAATTATTTTAAAAATAATAAAATTAAA
1 AAATAACTTTTAAAATATTATAAAAATAATAAAAATAAA
25761889 GAATTATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (42 bp):
AAATAACTTTTAAAATATTATAAAAATAATAAAAATAAATCC
Found at i:25764369 original size:14 final size:14
Alignment explanation
Indices: 25764350--25764387 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
25764340 GTTTGCCAGT
*
25764350 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
25764364 AAAATGATTTCTGG
1 AAAATGATTTCCGG
25764378 AAAATGATTT
1 AAAATGATTT
25764388 ACTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:25764401 original size:19 final size:20
Alignment explanation
Indices: 25764371--25764414 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
25764361 CGGAAAATGA
25764371 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25764391 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25764410 TTTCT
1 TTTCT
25764415 AGTGTTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25764517 original size:14 final size:14
Alignment explanation
Indices: 25764498--25764574 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
25764488 TGTTTTTACA
25764498 TATATTAATAAATT
1 TATATTAATAAATT
*
25764512 TATATT-TTAAATT
1 TATATTAATAAATT
*
25764525 GT-TTTTAATAAATT
1 -TATATTAATAAATT
25764539 TATACTT--TAAATT
1 TATA-TTAATAAATT
*
25764552 GT-TTTTAATAAATT
1 -TATATTAATAAATT
25764566 TATACTTAA
1 TATA-TTAA
25764575 ATTATTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
12 2 0.04
13 18 0.38
14 22 0.46
15 6 0.12
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (14 bp):
TATATTAATAAATT
Found at i:25764574 original size:26 final size:26
Alignment explanation
Indices: 25764502--25764584 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 26
25764492 TTTACATATA
*
25764502 TTAATAAATTTATATTTTAAATTGTTT
1 TTAATAAATTTATA-CTTAAATTGTTT
25764529 TTAATAAATTTATACTTTAAATTGTTT
1 TTAATAAATTTATAC-TTAAATTGTTT
*
25764556 TTAATAAATTTATACTTAAATTATTT
1 TTAATAAATTTATACTTAAATTGTTT
25764582 TTA
1 TTA
25764585 CATATATTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
TTAATAAATTTATACTTAAATTGTTT
Found at i:25774861 original size:24 final size:25
Alignment explanation
Indices: 25774833--25774880 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
25774823 ATCATAATAT
25774833 TTTTATAAATATTTT-AATTATTTG
1 TTTTATAAATATTTTAAATTATTTG
**
25774857 TTTTATATTTATTTTAAATTATTT
1 TTTTATAAATATTTTAAATTATTT
25774881 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTATAAATATTTTAAATTATTTG
Found at i:25774881 original size:14 final size:13
Alignment explanation
Indices: 25774842--25774883 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
25774832 TTTTTATAAA
25774842 TATTTTAATTATT
1 TATTTTAATTATT
*
25774855 TGTTTT-A-TATT
1 TATTTTAATTATT
25774866 TATTTTAAATTATT
1 TATTTT-AATTATT
25774880 TATT
1 TATT
25774884 ATATTAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 9 0.38
12 1 0.04
13 6 0.25
14 8 0.33
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TATTTTAATTATT
Found at i:25779838 original size:20 final size:21
Alignment explanation
Indices: 25779815--25779860 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
25779805 CAAGTTTAAT
* *
25779815 AATTATTA-AAATATTATAAA
1 AATTATTAGAAAAACTATAAA
25779835 AATTA-TAGAAAAACTATAAA
1 AATTATTAGAAAAACTATAAA
25779855 AATTAT
1 AATTAT
25779861 AATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AATTATTAGAAAAACTATAAA
Found at i:25779841 original size:9 final size:9
Alignment explanation
Indices: 25779815--25779862 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
25779805 CAAGTTTAAT
25779815 AATTATTAAA
1 AATTA-TAAA
25779825 ATATTATAAA
1 A-ATTATAAA
25779835 AATTATAGAAA
1 AATTAT--AAA
*
25779846 AACTATAAA
1 AATTATAAA
25779855 AATTATAA
1 AATTATAA
25779863 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 15 0.45
10 6 0.18
11 12 0.36
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:25780553 original size:34 final size:33
Alignment explanation
Indices: 25780462--25780579 Score: 109
Period size: 34 Copynumber: 3.5 Consensus size: 33
25780452 TAAAAATTAC
*
25780462 TACTTTTATAAATTTTCATGATAAAA-AATCAAA
1 TACTTTTATAAATTTTCATGA-AAAACAATTAAA
* * *
25780495 GTAC-ATT-T-AATATTCATGATAAACAATTATAA
1 -TACTTTTATAAATTTTCATGAAAAACAATTA-AA
*
25780527 TACTTTTATAAATTTTCATGAAAAACAATTAGAG
1 TACTTTTATAAATTTTCATGAAAAACAATTA-AA
*
25780561 TACATTTAATAAATTTTCA
1 TAC-TTTTATAAATTTTCA
25780580 ACTGAACGAC
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
30 3 0.04
31 17 0.25
32 5 0.07
33 3 0.04
34 26 0.38
35 14 0.21
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (33 bp):
TACTTTTATAAATTTTCATGAAAAACAATTAAA
Found at i:25783728 original size:14 final size:14
Alignment explanation
Indices: 25783706--25783753 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
25783696 TGGGCCCGTG
* * *
25783706 CAAACACAAAACAC
1 CAAAAACAAAAAAA
25783720 CAAAAACAAAAAAA
1 CAAAAACAAAAAAA
25783734 C-AAAACAAAAAATA
1 CAAAAACAAAAAA-A
25783748 CAAAAA
1 CAAAAA
25783754 ATATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 14 0.48
15 4 0.14
ACGTcount: A:0.77, C:0.21, G:0.00, T:0.02
Consensus pattern (14 bp):
CAAAAACAAAAAAA
Found at i:25783737 original size:22 final size:22
Alignment explanation
Indices: 25783711--25783754 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25783701 CCGTGCAAAC
*
25783711 ACAAAACACCAAAA-ACAAAAAA
1 ACAAAACA-AAAAATACAAAAAA
25783733 ACAAAACAAAAAATACAAAAAA
1 ACAAAACAAAAAATACAAAAAA
25783755 TATATAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.80, C:0.18, G:0.00, T:0.02
Consensus pattern (22 bp):
ACAAAACAAAAAATACAAAAAA
Found at i:25783740 original size:13 final size:14
Alignment explanation
Indices: 25783722--25783752 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
25783712 CAAAACACCA
25783722 AAAACAAAAAA-AC
1 AAAACAAAAAATAC
25783735 AAAACAAAAAATAC
1 AAAACAAAAAATAC
25783749 AAAA
1 AAAA
25783753 AATATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAACAAAAAATAC
Found at i:25783946 original size:21 final size:21
Alignment explanation
Indices: 25783922--25783980 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
25783912 AACAGACAAG
25783922 AAAACAACAGCAAATAGAAAC
1 AAAACAACAGCAAATAGAAAC
* * * *
25783943 AAAAAAAAAGCAAATGGCAAC
1 AAAACAACAGCAAATAGAAAC
**
25783964 AGGACAACAGCAAATAG
1 AAAACAACAGCAAATAG
25783981 GAAAAATGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.63, C:0.17, G:0.15, T:0.05
Consensus pattern (21 bp):
AAAACAACAGCAAATAGAAAC
Found at i:25785953 original size:14 final size:14
Alignment explanation
Indices: 25785910--25785946 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
25785900 TATTTGATTG
25785910 TTAGTCCATCATTT
1 TTAGTCCATCATTT
25785924 TTAGTCCATCATTT
1 TTAGTCCATCATTT
25785938 TTAGTCCAT
1 TTAGTCCAT
25785947 TTTTTTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.49
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:25786468 original size:132 final size:131
Alignment explanation
Indices: 25786317--25786611 Score: 387
Period size: 132 Copynumber: 2.3 Consensus size: 131
25786307 GAGATTTGAT
25786317 ATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAA
1 ATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAA
* ** *
25786382 TCGAATATCCCTTCAAAATTTCACTTATGTCTTCCAAAAATCCTTTAAA-ATAAGGGTGATGTTC
66 TCGAAGATCCCTTCAAAATTTCACCCATGTCTTCCAAAAATCCTTTAAACATAA--GCGATGTTC
25786446 GAC
129 GAC
* * ** *
25786449 ATTTGACAATTCGCAGAATCATGCCCTAACGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAGTAA
1 ATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAA
* * * ** *
25786514 TCGAAGATCCCTTTAGAGTTTCACCCATGTCTTTTAAAAATTCTTTAAACATAAGCGATGTTCGA
66 TCGAAGATCCCTTCAAAATTTCACCCATGTCTTCCAAAAATCCTTTAAACATAAGCGATGTTCGA
*
25786579 T
131 C
* * *
25786580 ATTTGGCAATTCG-GGAATCGTGCGCTATCGTG
1 ATTTGGCAATTCGCAGAATCGTGCCCTAACGTG
25786612 CTAGGTTACG
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
130 15 0.11
131 22 0.16
132 100 0.71
133 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (131 bp):
ATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAA
TCGAAGATCCCTTCAAAATTTCACCCATGTCTTCCAAAAATCCTTTAAACATAAGCGATGTTCGA
C
Found at i:25791068 original size:20 final size:18
Alignment explanation
Indices: 25791030--25791073 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
25791020 AAAACCTAAT
25791030 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
25791047 TTTCCCTTTTTCATTCTTTC
1 TTTCCCTTTTTC-TT-TTTC
25791067 TTTCCCT
1 TTTCCCT
25791074 GCTAATCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 5 0.21
19 2 0.08
20 11 0.46
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:25793002 original size:16 final size:16
Alignment explanation
Indices: 25792969--25793002 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25792959 TGTCCATGTT
* *
25792969 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
25792985 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
25793001 AA
1 AA
25793003 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:25795825 original size:21 final size:21
Alignment explanation
Indices: 25795799--25795839 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25795789 AGACGAGCAA
* *
25795799 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
25795820 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
25795840 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:25797777 original size:16 final size:16
Alignment explanation
Indices: 25797744--25797777 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25797734 GGAGATTGTT
* *
25797744 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
25797760 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
25797776 AA
1 AA
25797778 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:25808622 original size:25 final size:26
Alignment explanation
Indices: 25808587--25808653 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
25808577 TTTATATTAA
25808587 AATAAATTTAAAAATATAATATATT-G
1 AATAAA-TTAAAAATATAATATATTCG
* *
25808613 AA-AACATT-AAAATA-AATATTTTCT
1 AATAA-ATTAAAAATATAATATATTCG
25808637 AATAAATTAAAAATATA
1 AATAAATTAAAAATATA
25808654 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
23 7 0.21
24 11 0.32
25 12 0.35
26 4 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (26 bp):
AATAAATTAAAAATATAATATATTCG
Found at i:25808770 original size:22 final size:22
Alignment explanation
Indices: 25808744--25808794 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
25808734 ATAACAAAAT
*
25808744 AATAACAACAAAATAGTAGTAA
1 AATAACAACAAAATAGTAGCAA
* * *
25808766 TATAATAACAAAATGGTAGCAA
1 AATAACAACAAAATAGTAGCAA
25808788 AATAACA
1 AATAACA
25808795 TCAGTAGTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.20
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:25809020 original size:3 final size:3
Alignment explanation
Indices: 25809012--25809038 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25809002 AGTTAAACTT
25809012 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
25809039 AGGATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25809684 original size:37 final size:37
Alignment explanation
Indices: 25809638--25809711 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
25809628 ACAAAAGGAA
25809638 AACACATCCAGATTGATATAAGAGGATACAAACATAT
1 AACACATCCAGATTGATATAAGAGGATACAAACATAT
*
25809675 AACATATCCAGATTGATATAAGAGGATACAAACATAT
1 AACACATCCAGATTGATATAAGAGGATACAAACATAT
25809712 CCAGATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.23
Consensus pattern (37 bp):
AACACATCCAGATTGATATAAGAGGATACAAACATAT
Found at i:25813443 original size:2 final size:2
Alignment explanation
Indices: 25813431--25813468 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
25813421 TACTTCTGCT
25813431 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25813469 TTTACAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:25813603 original size:21 final size:20
Alignment explanation
Indices: 25813561--25813604 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
25813551 AAACTTATTT
*
25813561 TTACATACCAAATATTAAAA
1 TTACATACCAAAAATTAAAA
* *
25813581 TTACATCCCAAAAAATTATAA
1 TTACATACC-AAAAATTAAAA
25813602 TTA
1 TTA
25813605 TTAAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
TTACATACCAAAAATTAAAA
Found at i:25814894 original size:38 final size:38
Alignment explanation
Indices: 25814846--25814919 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
25814836 TTATTTTCCT
25814846 TTTTTTCTTTTACATTATTTATCTCCCTCTTTATTTCG
1 TTTTTTCTTTTACATTATTTATCTCCCTCTTTATTTCG
25814884 TTTTTTCTTTTACATTATTTATCTCCCTCTTTATTT
1 TTTTTTCTTTTACATTATTTATCTCCCTCTTTATTT
25814920 TTTCTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.14, C:0.20, G:0.01, T:0.65
Consensus pattern (38 bp):
TTTTTTCTTTTACATTATTTATCTCCCTCTTTATTTCG
Found at i:25814914 original size:22 final size:22
Alignment explanation
Indices: 25814851--25814915 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 22
25814841 TTCCTTTTTT
25814851 TCTTTTACATTATTTATCTCCC
1 TCTTTTACATTATTTATCTCCC
* *
25814873 TC-TTTA-TTTCGTTT-T-T---
1 TCTTTTACATT-ATTTATCTCCC
25814889 TCTTTTACATTATTTATCTCCC
1 TCTTTTACATTATTTATCTCCC
25814911 TCTTT
1 TCTTT
25814916 ATTTTTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 16
0.61 0.08 0.31
Matches are distributed among these distances:
16 2 0.06
17 7 0.23
18 3 0.10
19 2 0.06
20 3 0.10
21 7 0.23
22 7 0.23
ACGTcount: A:0.14, C:0.23, G:0.02, T:0.62
Consensus pattern (22 bp):
TCTTTTACATTATTTATCTCCC
Found at i:25816161 original size:20 final size:21
Alignment explanation
Indices: 25816121--25816161 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25816111 TAAGAGAATG
*
25816121 TATTTTTGTAATGCAATAATT
1 TATTTTTGTAATGCAACAATT
*
25816142 TATTTTTGTATTGC-ACAATT
1 TATTTTTGTAATGCAACAATT
25816162 AGGCATTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (21 bp):
TATTTTTGTAATGCAACAATT
Found at i:25826156 original size:20 final size:20
Alignment explanation
Indices: 25826127--25826167 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25826117 AAGAAGAAAG
*
25826127 TAAGAGAAATGCTACAACTC
1 TAAGAGAAATGCTAAAACTC
*
25826147 TAAGATAAATGCTAAAACTC
1 TAAGAGAAATGCTAAAACTC
25826167 T
1 T
25826168 CCACCATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.24
Consensus pattern (20 bp):
TAAGAGAAATGCTAAAACTC
Found at i:25835114 original size:17 final size:17
Alignment explanation
Indices: 25835080--25835114 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25835070 AACTTGAGCC
* *
25835080 TTTATTTATTTATTCAT
1 TTTATTTATGTATCCAT
25835097 TTTATTTATGTATCCAT
1 TTTATTTATGTATCCAT
25835114 T
1 T
25835115 GTCGGAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTATTTATGTATCCAT
Found at i:25835623 original size:16 final size:17
Alignment explanation
Indices: 25835592--25835624 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25835582 TTCATAAGTA
25835592 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
25835609 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
25835625 ACTCTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:25835936 original size:45 final size:46
Alignment explanation
Indices: 25835885--25836077 Score: 133
Period size: 46 Copynumber: 4.2 Consensus size: 46
25835875 TCTCCCATCC
* * *
25835885 ACGGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACT
1 ACGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
* * * * *
25835930 ACGGTCTTACTCATTTTCTGTCATGCTGCCATGGTATCTTTCAACC
1 ACGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
** * * * * * *
25835976 ATTGTCTTATTCAT-TTCCCGTCATGTTGCCATGGTATCTTTCAACC
1 ACGGTCTTACTCATCTT-CTGACATGATGCCATAGTATCTTTCAACT
* * * * *
25836022 ATGGTCTTACACAT-TTCAT-ATCATGTTGCCATGGTATCTTTCAACC
1 ACGGTCTTACTCATCTTC-TGA-CATGATGCCATAGTATCTTTCAACT
*
25836068 ATGGTCTTAC
1 ACGGTCTTAC
25836078 ACGTTTCATA
Statistics
Matches: 126, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
45 17 0.13
46 109 0.87
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
ACGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
Found at i:25835970 original size:46 final size:46
Alignment explanation
Indices: 25835905--25836175 Score: 364
Period size: 46 Copynumber: 5.9 Consensus size: 46
25835895 TTATCTTTGA
* * * * * * *
25835905 CATGATGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ** ***
25835951 CATGCTGCCATGGTATCTTTCAACCATTGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
25835997 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
25836043 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
25836089 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
25836135 CACGTTGCCATGGTATCTTTCAACCATGGACTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
25836176 AATTTCAAAG
Statistics
Matches: 203, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 199 0.98
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:25842871 original size:9 final size:9
Alignment explanation
Indices: 25842854--25842890 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25842844 TGAGTTTTCG
25842854 AATTCGAAT
1 AATTCGAAT
*
25842863 AACTCGAAT
1 AATTCGAAT
25842872 AATTCGAAT
1 AATTCGAAT
25842881 AATTCGAAT
1 AATTCGAAT
25842890 A
1 A
25842891 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25854395 original size:3 final size:3
Alignment explanation
Indices: 25854389--25854419 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25854379 GTTTATGTTG
25854389 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25854420 AACCTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25857484 original size:27 final size:28
Alignment explanation
Indices: 25857453--25857519 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
25857443 TCAAATTCCA
*
25857453 TATGTATAATTACACA-AAATCAAAATT
1 TATGTATAATTACACATAAAACAAAATT
*
25857480 TATGTATCAAATTGCACATTAAAACAAAATT
1 TATGTAT--AATTACACA-TAAAACAAAATT
25857511 TATGTATAA
1 TATGTATAA
25857520 ATTTGATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.21
29 10 0.29
31 17 0.50
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.34
Consensus pattern (28 bp):
TATGTATAATTACACATAAAACAAAATT
Found at i:25864420 original size:30 final size:29
Alignment explanation
Indices: 25864363--25864420 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25864353 CCTTTTTACT
* *
25864363 TTTCCCTCAAAACTTTTACTCCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTCCCAC
*
25864392 TTTCCCCCCAAACTTTTACTCCCCTCCCA
1 TTTCCCCCAAAACTTTTACT-CCCTCCCA
25864421 TCCCAACCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.19, C:0.47, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:25864796 original size:17 final size:17
Alignment explanation
Indices: 25864776--25864822 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
25864766 CACATTTTAT
*
25864776 ATTATTTATATTATTGA
1 ATTATTTATATTATCGA
25864793 ATTATTTAGTCA-TATCGA
1 ATTATTTA-T-ATTATCGA
25864811 A-TATTTATATTA
1 ATTATTTATATTA
25864823 AAATTGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 14 0.54
18 7 0.27
19 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTATTTATATTATCGA
Found at i:25866793 original size:49 final size:49
Alignment explanation
Indices: 25866703--25866798 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 49
25866693 GTCGCATTGC
* * * * *
25866703 AACTTGGGTTCCCAAATGACAGTGGTTATACGGTCACGAGTTGAAGTAT
1 AACTAGGGCTCCCAAATGACAGTAGTTATACGATCACGAGTTCAAGTAT
* * * *
25866752 AACTAGGGCTCCCAATTGACGGTAGTTATGCGATCATGAGTTCAAGT
1 AACTAGGGCTCCCAAATGACAGTAGTTATACGATCACGAGTTCAAGT
25866799 TTTATGCCAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
AACTAGGGCTCCCAAATGACAGTAGTTATACGATCACGAGTTCAAGTAT
Found at i:25868833 original size:21 final size:21
Alignment explanation
Indices: 25868807--25868850 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
25868797 AATGAAAGTT
25868807 AAACAATATTTATATTGTATG
1 AAACAATATTTATATTGTATG
25868828 AAACAATATTTATATTGTATG
1 AAACAATATTTATATTGTATG
25868849 AA
1 AA
25868851 CTTGCTTAGA
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:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
AAACAATATTTATATTGTATG
Found at i:25869672 original size:15 final size:15
Alignment explanation
Indices: 25869652--25869681 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25869642 CCTTGTACCA
25869652 TGATCAACTTTCTAT
1 TGATCAACTTTCTAT
25869667 TGATCAACTTTCTAT
1 TGATCAACTTTCTAT
25869682 CAAATTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TGATCAACTTTCTAT
Found at i:25876832 original size:43 final size:43
Alignment explanation
Indices: 25876771--25877198 Score: 241
Period size: 43 Copynumber: 9.9 Consensus size: 43
25876761 GATTCTTTAT
* * *
25876771 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTC
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTATGTC
* *
25876814 TTTAATCTGCTCCGCTGTAACCTCAGGGAAATAAGATCTGCAAT-TC
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-T---ATGTC
*** * * * *
25876860 TTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATG-C
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGA--TTATGTC
* * * * * * *
25876904 ---GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT-
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT--TATGTC
* * *
25876945 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTC
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTATGTC
*
25876988 TTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTACAAT-TC
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-T---ATGTC
** * * * * *
25877034 TCCAGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATG-C
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGA--TTATGTC
* * * * * * *
25877078 ---GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT-
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT--TATGTC
* * *
25877119 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTC
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTATGTC
** *
25877162 TTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT
1 TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
25877199 CTGAAATTTC
Statistics
Matches: 296, Mismatches: 61, Indels: 56
0.72 0.15 0.14
Matches are distributed among these distances:
39 2 0.01
41 55 0.19
42 6 0.02
43 96 0.32
44 64 0.22
46 67 0.23
47 4 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTATGTC
Found at i:25877024 original size:174 final size:174
Alignment explanation
Indices: 25876731--25877210 Score: 863
Period size: 174 Copynumber: 2.8 Consensus size: 174
25876721 CTTGGACGTA
** *
25876731 ATCTACTCTACTGCCACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
*
25876796 GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAAATAAGATCTGCAATTCT
66 GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCT
* *
25876861 TCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
131 CCAGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
25876905 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
*
25876970 GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTACAATTCT
66 GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCT
25877035 CCAGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
131 CCAGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
25877079 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
** *
25877144 GGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATT-T
66 GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCT
25877208 CCA
131 CCA
25877211 ACCTATTCCA
Statistics
Matches: 295, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
173 4 0.01
174 291 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (174 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCT
CCAGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
Found at i:25877168 original size:87 final size:87
Alignment explanation
Indices: 25876731--25877199 Score: 383
Period size: 87 Copynumber: 5.4 Consensus size: 87
25876721 CTTGGACGTA
* ** * *
25876731 ATCTACTCTACTGCCACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
**
25876796 GGGAGATAGGATTATGTCTTTA
66 GGGAGATAGGATTATGTCTTCG
* * * * ** ** ** * *
25876818 ATCTGCTCCGCTGTAACCTCAGGGAAATAAGAT-CTGCAATTCTTCGGTCTACTCCGCTGTAACC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAACT
* * ** * *
25876882 TCAGGGAAATAAGA-CCTG-ATGCG
63 TCAGGGAGATAGGATTATGTCTTCG
* *
25876905 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
**
25876970 GGGAGATAGGATTATGTCTTTA
66 GGGAGATAGGATTATGTCTTCG
* * * ** * * ** * *
25876992 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTACAATTCTCCAGTCTACTCCGCTGTAACC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT-TTATT-T-TAATCCGCTCCACTGTAACT
* * ** * *
25877056 TCAGGGAAATAAGA-CCTG-ATGCG
63 TCAGGGAGATAGGATTATGTCTTCG
* *
25877079 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
25877144 GGGAGATAGGATTATGTCTTCG
66 GGGAGATAGGATTATGTCTTCG
* * *
25877166 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGATC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATC
25877200 TGAAATTTCC
Statistics
Matches: 279, Mismatches: 91, Indels: 24
0.71 0.23 0.06
Matches are distributed among these distances:
85 51 0.18
86 11 0.04
87 155 0.56
88 11 0.04
89 51 0.18
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (87 bp):
ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
GGGAGATAGGATTATGTCTTCG
Found at i:25877578 original size:44 final size:46
Alignment explanation
Indices: 25877503--25877629 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 46
25877493 AGATAAGATC
* * * * * *
25877503 CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T--ACTAT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-T
*
25877547 CTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
* *
25877593 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
25877630 CCTGTATAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.46
45 1 0.01
46 35 0.50
47 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (46 bp):
CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
Found at i:25885353 original size:14 final size:14
Alignment explanation
Indices: 25885334--25885360 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25885324 TTCTCTTCTA
25885334 GAGAGGTAGAAAAG
1 GAGAGGTAGAAAAG
25885348 GAGAGGTAGAAAA
1 GAGAGGTAGAAAA
25885361 TAAAATCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.41, T:0.07
Consensus pattern (14 bp):
GAGAGGTAGAAAAG
Found at i:25894433 original size:22 final size:22
Alignment explanation
Indices: 25894408--25894462 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
25894398 GGGGATGATG
*
25894408 GTATTTGAGGAAGAAG-TCGATT
1 GTATTTGAGGAA-AAGCTCAATT
*
25894430 GTATTTTGGGGAAAAGCTCAATT
1 GTA-TTTGAGGAAAAGCTCAATT
*
25894453 GTATTAGAGG
1 GTATTTGAGG
25894463 GGGGTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.33
Consensus pattern (22 bp):
GTATTTGAGGAAAAGCTCAATT
Found at i:25894442 original size:23 final size:23
Alignment explanation
Indices: 25894411--25894457 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25894401 GATGATGGTA
*
25894411 TTTGAGGAAGAAG-TCGATTGTAT
1 TTTGAGGAA-AAGCTCAATTGTAT
*
25894434 TTTGGGGAAAAGCTCAATTGTAT
1 TTTGAGGAAAAGCTCAATTGTAT
25894457 T
1 T
25894458 AGAGGGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (23 bp):
TTTGAGGAAAAGCTCAATTGTAT
Found at i:25895104 original size:35 final size:37
Alignment explanation
Indices: 25895065--25895135 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
25895055 TTTATAATAA
* *
25895065 TATAATAACA-AAATAG-ATTGGGGAATAGTTTTAAT
1 TATAATAAAACAAATAGTATGGGGGAATAGTTTTAAT
*
25895100 TATAATAAAACAAATAGTATGGGGGAGTAGTTTTAA
1 TATAATAAAACAAATAGTATGGGGGAATAGTTTTAA
25895136 CATATTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 9 0.29
36 6 0.19
37 16 0.52
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (37 bp):
TATAATAAAACAAATAGTATGGGGGAATAGTTTTAAT
Found at i:25900643 original size:24 final size:23
Alignment explanation
Indices: 25900590--25900643 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
25900580 ATGAATAAGA
*
25900590 TTATAAAAATAAAAAGGTAAGTG
1 TTATAAAAATAAAAACGTAAGTG
* *
25900613 TACTATAAAATTAAAAACGTATATTG
1 T--TATAAAAATAAAAACGTA-AGTG
25900639 TTATA
1 TTATA
25900644 TGCATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.04
24 4 0.16
25 16 0.64
26 4 0.16
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (23 bp):
TTATAAAAATAAAAACGTAAGTG
Found at i:25902069 original size:15 final size:15
Alignment explanation
Indices: 25902051--25902092 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
25902041 TTGTTGGGGC
25902051 CTTGTTTGTAATGGG
1 CTTGTTTGTAATGGG
* *
25902066 CTTGTTTGGATTGGG
1 CTTGTTTGTAATGGG
*
25902081 CTTGTTTTTAAT
1 CTTGTTTGTAAT
25902093 TTGGTTCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.12, C:0.07, G:0.29, T:0.52
Consensus pattern (15 bp):
CTTGTTTGTAATGGG
Found at i:25902912 original size:187 final size:183
Alignment explanation
Indices: 25902533--25902929 Score: 429
Period size: 187 Copynumber: 2.1 Consensus size: 183
25902523 TTGGTAACTC
* **
25902533 TCAGGGAGATAGAGATTATGGTCTTTAATGCTCTTCCGTGTATACCTCAGGGAAATAAGATCTTG
1 TCAGGGAGATAG-GATTAT-GTCTTTAATGCTCTCCCGTGTATACCTCAGGGAAATAAGATCTAA
* * *
25902598 CAAATCTTCGGTCTACTGCGCTGTACAATCAGGGAAATAAGACCTGATGCGATCTACTTCTACTG
64 CAAATCTCCAGTCTACTCCGCTGTACAATCAGGGAAATAAGACCTGATGCGATCTACTTCTACTG
25902663 AAACTTCAGAGGAGATAAGATCCGTTTATTTTAATACCGCTCGGCCATCTGTATACT
129 AAACTTCAGAGGAGATAAGATCCG-TTATTTTAATACCGCTC-GCCATCTGTATACT
*
25902720 TCAGGGAGATAGGATTATGTCTTTAAT-C-CTGCCCGCTGTAATGACCT-AGGGAGATAAAGATC
1 TCAGGGAGATAGGATTATGTCTTTAATGCTCT-CCCG-TGT-AT-ACCTCAGGGAAAT-AAGATC
* *
25902782 TAACAATTCTCCTAGTCTACTCCGCTGTA-AACCTCAGGGAAATGAGACCTTGATGTCGATCATA
61 TAACAAATCTCC-AGTCTACTCCGCTGTACAA--TCAGGGAAATAAGACC-TGATG-CGATC-TA
* * * *
25902846 GC-TCTTAGCATGTAACTTCAGA-GAGATAAGATCC-TTATTTTTATTCCGCT-TCCA-CTGTA-
120 -CTTC-TA-C-TGAAACTTCAGAGGAGATAAGATCCGTTATTTTAATACCGCTCGCCATCTGTAT
25902905 A-T
181 ACT
25902907 TCAGGGAGATAGGATTATGTCTT
1 TCAGGGAGATAGGATTATGTCTT
25902930 CGATTGCTGG
Statistics
Matches: 182, Mismatches: 13, Indels: 30
0.81 0.06 0.13
Matches are distributed among these distances:
183 2 0.01
184 4 0.02
185 12 0.07
186 15 0.08
187 56 0.31
188 15 0.08
189 20 0.11
190 8 0.04
191 5 0.03
192 18 0.10
193 3 0.02
194 13 0.07
195 11 0.06
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (183 bp):
TCAGGGAGATAGGATTATGTCTTTAATGCTCTCCCGTGTATACCTCAGGGAAATAAGATCTAACA
AATCTCCAGTCTACTCCGCTGTACAATCAGGGAAATAAGACCTGATGCGATCTACTTCTACTGAA
ACTTCAGAGGAGATAAGATCCGTTATTTTAATACCGCTCGCCATCTGTATACT
Found at i:25911081 original size:15 final size:15
Alignment explanation
Indices: 25911061--25911091 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25911051 GTTTACTTTC
25911061 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
25911076 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
25911091 A
1 A
25911092 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:25919610 original size:205 final size:204
Alignment explanation
Indices: 25919005--25919773 Score: 1199
Period size: 205 Copynumber: 3.8 Consensus size: 204
25918995 TAGGCCGCAG
* *
25919005 CATAACAGATCT-GACCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCG-CCTTCAGATGTTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
25919069 TTTACAATGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACATGATTACGATGAAGCAAATCT
65 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
* *
25919134 AAGATGATTAGTCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGG
130 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
25919199 AGAGCAGACA
195 AGAGCAGACA
* *
25919209 CATAGCAGATCTCGCCTTCAAATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
25919274 TTTACAAGGAGCAAATCGAAGAC--AGCTGATTTGGTTTTCACGTGATTACGATGAAGCAAATCT
65 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
25919337 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
130 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
*
25919402 AGAGCAAACA
195 AGAGCAGACA
*
25919412 CATAGCAGATCTCGCCTTCAGATGATTTTACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
25919477 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATC
65 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATC
* *
25919541 TAAGATGATTTGTCGTCTCTGTATCGTTAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
129 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
25919606 GAGAGCAGACA
194 GAGAGCAGACA
* ** * *
25919617 CATAGCAGATCTCGCCTTCGGATGTTTATGTTGAAGCGGATCCAAGATGGTTTGGCATCCTTATG
1 CATAGCAGATCTCGCCTTCAGATGTTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * * *
25919682 CTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTAC-ATTAAAGCAAATC
65 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-TGAAGCAAATC
* *
25919745 TAAGATGATTTGGCATCTCTGTATTGTCA
129 TAAGATGATTTGTCGTCTCTGTATTGTCA
25919774 AGGAACAAAT
Statistics
Matches: 522, Mismatches: 35, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
203 195 0.37
204 84 0.16
205 243 0.47
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (204 bp):
CATAGCAGATCTCGCCTTCAGATGTTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
GAGCAGACA
Found at i:25919935 original size:44 final size:43
Alignment explanation
Indices: 25919886--25920015 Score: 208
Period size: 44 Copynumber: 3.0 Consensus size: 43
25919876 GATTTCAGCA
*
25919886 TGGCATCCCTGTGTTTATATGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA-AGCAGATT
25919930 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA-AGCAGATT
*
25919974 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGAAGCAGAT
25920016 CGAAGAACTC
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
43 9 0.11
44 73 0.89
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAAGCAGATT
Found at i:25920016 original size:13 final size:13
Alignment explanation
Indices: 25919998--25920022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25919988 TTATAGGGAA
25919998 CAGATCGAAGAAG
1 CAGATCGAAGAAG
25920011 CAGATCGAAGAA
1 CAGATCGAAGAA
25920023 CTCAAAACTC
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:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (13 bp):
CAGATCGAAGAAG
Found at i:25920505 original size:22 final size:23
Alignment explanation
Indices: 25920473--25920529 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
25920463 AGATGGGGGG
*
25920473 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
25920495 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
**
25920518 AGAGATTGTATT
1 ATCGATTGTATT
25920530 AGAGGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:25920524 original size:23 final size:22
Alignment explanation
Indices: 25920480--25920529 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
25920470 GGGATCGATG
**
25920480 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
25920502 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
25920525 GTATT
1 GTATT
25920530 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:25921254 original size:39 final size:39
Alignment explanation
Indices: 25921139--25921255 Score: 198
Period size: 39 Copynumber: 3.0 Consensus size: 39
25921129 ATAAAATATG
*
25921139 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
25921179 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
* *
25921218 GTTTTAATTAATAATAAAACAAAGTAGCATGGGGGAGT
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGT
25921256 GGAATCAACT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 59 0.80
40 15 0.20
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
Found at i:25926020 original size:42 final size:42
Alignment explanation
Indices: 25925973--25926057 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
25925963 TAGTCTCTCC
25925973 CTGTTTTGTTTTAGGATGAGAGAATCTCCATTGTATAATCCG
1 CTGTTTTGTTTTAGGATGAGAGAATCTCCATTGTATAATCCG
25926015 CTGTTTTGTTTTAGGATGAGAGAATCTCCATTGTATAATCCG
1 CTGTTTTGTTTTAGGATGAGAGAATCTCCATTGTATAATCCG
25926057 C
1 C
25926058 ACTACGGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (42 bp):
CTGTTTTGTTTTAGGATGAGAGAATCTCCATTGTATAATCCG
Found at i:25926732 original size:6 final size:6
Alignment explanation
Indices: 25926721--25926745 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25926711 GTCTTCTGTC
25926721 TTGTAG TTGTAG TTGTAG TTGTAG T
1 TTGTAG TTGTAG TTGTAG TTGTAG T
25926746 CGTACACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTGTAG
Found at i:25938009 original size:26 final size:26
Alignment explanation
Indices: 25937973--25938025 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25937963 GGGAGAACCT
25937973 ATGAAAATTGGGTGAAATTTCATGAG
1 ATGAAAATTGGGTGAAATTTCATGAG
25937999 ATGAAAATTGGGTGAAATTTCATGAG
1 ATGAAAATTGGGTGAAATTTCATGAG
25938025 A
1 A
25938026 AATATATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (26 bp):
ATGAAAATTGGGTGAAATTTCATGAG
Found at i:25940619 original size:3 final size:3
Alignment explanation
Indices: 25940611--25940657 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
25940601 TATTCCAATT
25940611 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
25940656 TT
1 TT
25940658 TCTTTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:25941513 original size:12 final size:12
Alignment explanation
Indices: 25941496--25941520 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25941486 AGTGTCGAAT
25941496 CGGTAACAGTAA
1 CGGTAACAGTAA
25941508 CGGTAACAGTAA
1 CGGTAACAGTAA
25941520 C
1 C
25941521 AATAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:25943356 original size:43 final size:43
Alignment explanation
Indices: 25943308--25943462 Score: 283
Period size: 43 Copynumber: 3.6 Consensus size: 43
25943298 CCGGCATTAC
25943308 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
25943351 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
25943394 GCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
25943437 GCCTGCTAGGTACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
25943463 TAATACCAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:25943440 original size:86 final size:85
Alignment explanation
Indices: 25943295--25943483 Score: 299
Period size: 86 Copynumber: 2.2 Consensus size: 85
25943285 ACATATCATT
* * *
25943295 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
25943360 GCACGAAGGCCCGAATACACA
66 GCACGAAGGCCCGAATACA-A
25943381 TCACCGGCACTAAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
* *
25943446 GTACGAAGGCCCGAATATAA
66 GCACGAAGGCCCGAATACAA
* *
25943466 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
25943484 GGGATTTATC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 15 0.16
85 2 0.02
86 79 0.82
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.13
Consensus pattern (85 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
GCACGAAGGCCCGAATACAA
Found at i:25943503 original size:38 final size:38
Alignment explanation
Indices: 25943455--25943538 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
25943445 GGTACGAAGG
* * *
25943455 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
25943493 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
25943531 CCCGAATA
1 CCCGAATA
25943539 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:25952652 original size:96 final size:96
Alignment explanation
Indices: 25952488--25952721 Score: 328
Period size: 96 Copynumber: 2.4 Consensus size: 96
25952478 TAGGGTAAAT
* * * *
25952488 TGCCGATACCAGGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
* **
25952553 AGACATGGTCTTACATTAGCT-CTAGTC-TCAA
66 AGACATGGTCTTACACTAG-TAC-ACACATCAA
* *
25952584 TGCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
25952649 AGACATGGTCTTACACTAGTACACACATCAA
66 AGACATGGTCTTACACTAGTACACACATCAA
* * *
25952680 TGCCAATGCCATGTCCCAGACATTGTCTTACATTGGCTCTCA
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCA
25952722 CAACATCACC
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 3 0.02
96 120 0.98
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGTACACACATCAA
Found at i:25952817 original size:144 final size:143
Alignment explanation
Indices: 25952500--25952822 Score: 364
Period size: 144 Copynumber: 2.2 Consensus size: 143
25952490 CCGATACCAG
* * ** *
25952500 GTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGACATGGTCTT
1 GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGACATGGTCTT
* * * ** * * *
25952565 ACATTAGCTCTAGTCTCAATGCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTT
66 ACATTAGCTCTAG-CACAATACCGATGCCATATCCCAAACATAGTCTTACACTAGCTCTCATATC
*
25952630 GTGGCCGATGCCAT
130 GTGGCCGACGCCAT
* * * * *
25952644 GTCCCAGACATGGTCTTACACTAGTACACACATCAATGCCAATGCCATGTCCCAGACATTGTCTT
1 GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGACATGGTCTT
* * *
25952709 ACATTGGCTCT--CACAACATCACCGATGCTATATTCCAAACAT-GATCTTACACTAGCTCTCAT
66 ACATTAGCTCTAGCAC-A-AT-ACCGATGCCATATCCCAAACATAG-TCTTACACTAGCTCTCAT
*
25952771 ATCGTGGCTGACGCCAT
127 ATCGTGGCCGACGCCAT
*
25952788 GTCCCAGACATGGTCTTATACTGGCACACATATCA
1 GTCCCAGACATGGTCTTACACTGGCACACATATCA
25952823 CCCAAATATC
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
141 2 0.01
142 1 0.01
143 3 0.02
144 142 0.96
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (143 bp):
GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGACATGGTCTT
ACATTAGCTCTAGCACAATACCGATGCCATATCCCAAACATAGTCTTACACTAGCTCTCATATCG
TGGCCGACGCCAT
Found at i:25952820 original size:48 final size:48
Alignment explanation
Indices: 25952489--25952822 Score: 264
Period size: 48 Copynumber: 7.0 Consensus size: 48
25952479 AGGGTAAATT
* * * *
25952489 GCCGATACCAGGTCCCAGACATGGTCTTACACTGGCTCACATGTTGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCATG
* * * *
25952537 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCTA-GTCTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACATATC-ATG
* * * * **
25952585 GCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* *
25952633 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TACACACATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATC-ATG
* * * * * * *
25952681 GCCAATGCCATGTCCCAGACATTGTCTTACATTGGCTCTCACAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * * * * * * *
25952729 ACCGATGCTATATTCCAAACATGATCTTACACTAGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * *
25952777 GCTGACGCCATGTCCCAGACATGGTCTTATACTGGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
25952823 CCCAAATATC
Statistics
Matches: 220, Mismatches: 57, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
47 5 0.02
48 212 0.96
49 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
Found at i:25958622 original size:24 final size:23
Alignment explanation
Indices: 25958561--25958628 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
25958551 AATCTTTCTT
*
25958561 TCTTTCTTCCTCTGTTTCTGTTTC
1 TCTTTCTT-CTCTGTTTCTGTTAC
25958585 TCTTTC-TCATTCTGTTTCTGTTAC
1 TCTTTCTTC--TCTGTTTCTGTTAC
25958609 TCTTATCTTCTCTGCTTTCT
1 TCTT-TCTTCTCTG-TTTCT
25958629 ATCTATAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 27 0.71
25 7 0.18
26 2 0.05
ACGTcount: A:0.04, C:0.28, G:0.07, T:0.60
Consensus pattern (23 bp):
TCTTTCTTCTCTGTTTCTGTTAC
Found at i:25959171 original size:22 final size:22
Alignment explanation
Indices: 25959126--25959171 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
25959116 ATTAGCAAAT
*
25959126 ATATTTTTAAAAAATTATAGAA
1 ATATTTTTAAAAAATTATAAAA
*
25959148 ATATTATTTAATAAATT-TAAAA
1 ATATT-TTTAAAAAATTATAAAA
25959170 AT
1 AT
25959172 TAACATGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATTTTTAAAAAATTATAAAA
Found at i:25964336 original size:46 final size:46
Alignment explanation
Indices: 25964269--25964443 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
25964259 TGTAACCCGC
25964269 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
25964315 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
25964365 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
25964408 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
25964444 ATGCCTAAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:25964389 original size:93 final size:93
Alignment explanation
Indices: 25964277--25964450 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
25964267 GCCCATAAGT
** *
25964277 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25964342 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
25964370 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25964435 CGAGCTCGGATGCCTA
66 CGAGCTCGGATGCCTA
25964451 AATATCCCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:25981367 original size:9 final size:9
Alignment explanation
Indices: 25981353--25981377 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25981343 CTTGGGTCAG
25981353 AACCTCTTC
1 AACCTCTTC
25981362 AACCTCTTC
1 AACCTCTTC
25981371 AACCTCT
1 AACCTCT
25981378 AATTCCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (9 bp):
AACCTCTTC
Done.