Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 60 of 93
Found at i:7823650 original size:46 final size:47
Alignment explanation
Indices: 7823577--7823668 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 47
7823567 AATCAGAGGC
* *
7823577 TTTGAAAATTTGGATGTGAAATCCTAAAA-TTTTTTTAATGAGAATT
1 TTTGAAAATTTGGATGTCAAATACTAAAATTTTTTTTAATGAGAATT
* *
7823623 TTTGAAATTTTGGATGTCAAATACTAAAATTTTTTTTAATGTGAAT
1 TTTGAAAATTTGGATGTCAAATACTAAAATTTTTTTTAATGAGAAT
7823669 CCCTAAGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 26 0.63
47 15 0.37
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (47 bp):
TTTGAAAATTTGGATGTCAAATACTAAAATTTTTTTTAATGAGAATT
Found at i:7823951 original size:110 final size:111
Alignment explanation
Indices: 7823779--7824081 Score: 262
Period size: 110 Copynumber: 2.7 Consensus size: 111
7823769 ATATGAATCC
* * ** * * *
7823779 ATATGAAAATTTAAATTTTATATGTGAATCACTAACAAAAATCTTTTGAATGCGAATCTTTGAAT
1 ATATGAAACTTTAAAATTTGGATGTGAAT-ACTAA-TAAAAT-TTTTGAATGAGAATATTTGAAT
*
7823844 CTGGTATGTGAATTTTGAAAT-TTTGGATATAAATTCCT-AAATTTTTCA
63 CTAGTATGTGAATTTTGAAATCTTT-GATATAAATTCCTGAAATTTTTCA
** *
7823892 A-ATGAAAATCTTTAACTTTTTTGG-TGTGAAT-CT-CTAAAATTTTTGAATGAGAATATTTGAA
1 ATATG-AAA-CTTTAA--AATTTGGATGTGAATACTAATAAAATTTTTGAATGAGAATATTTGAA
** * * * *
7823953 TTCTAGT-TGT-AAGCCTTGAAATCTTTGATGTGAATTCCTGAATTTTTTGA
62 -TCTAGTATGTGAA-TTTTGAAATCTTTGATATAAATTCCTGAAATTTTTCA
*
7824003 ATATGAAACTTTAAAATTTGGATGTGAATCACTAATAAAATTTTTTTGAATGTGAATATTTGAAT
1 ATATGAAACTTTAAAATTTGGATGTGAAT-ACTAATAAAA--TTTTTGAATGAGAATATTTGAAT
*
7824068 CTTGTATGTGAATT
63 CTAGTATGTGAATT
7824082 ATAGTCTATG
Statistics
Matches: 151, Mismatches: 22, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
108 5 0.03
109 9 0.06
110 46 0.30
111 27 0.18
112 11 0.07
113 11 0.07
114 29 0.19
115 9 0.06
116 4 0.03
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.43
Consensus pattern (111 bp):
ATATGAAACTTTAAAATTTGGATGTGAATACTAATAAAATTTTTGAATGAGAATATTTGAATCTA
GTATGTGAATTTTGAAATCTTTGATATAAATTCCTGAAATTTTTCA
Found at i:7824148 original size:17 final size:17
Alignment explanation
Indices: 7824128--7824198 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
7824118 TGTTGTGAAC
7824128 CTGAAATTCTTACGAAT
1 CTGAAATTCTTACGAAT
* *
7824145 CTGAAAGTCTTACAAAT
1 CTGAAATTCTTACGAAT
* **
7824162 CTTTAAATTCTTGTGAAT
1 C-TGAAATTCTTACGAAT
* * *
7824180 TTTAAATTCTTATGAAT
1 CTGAAATTCTTACGAAT
7824197 CT
1 CT
7824199 TTGAATTATG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 32 0.74
18 11 0.26
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (17 bp):
CTGAAATTCTTACGAAT
Found at i:7824223 original size:18 final size:18
Alignment explanation
Indices: 7824202--7824238 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7824192 TGAATCTTTG
7824202 AATTATGGTGAATCTAAA
1 AATTATGGTGAATCTAAA
* *
7824220 AATTTTTGTGAATCTAAA
1 AATTATGGTGAATCTAAA
7824238 A
1 A
7824239 CTTGTGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (18 bp):
AATTATGGTGAATCTAAA
Found at i:7824320 original size:18 final size:18
Alignment explanation
Indices: 7824292--7824344 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
7824282 ATCTAGAACC
*
7824292 TTTGAAAATCTTGAAATT
1 TTTGCAAATCTTGAAATT
* *
7824310 TTTTCAAATCTTGGAACTT
1 TTTGCAAATCTT-GAAATT
*
7824329 TTTGC-GATCTTGAAAT
1 TTTGCAAATCTTGAAAT
7824345 CTTGCAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 4 0.14
18 15 0.54
19 9 0.32
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (18 bp):
TTTGCAAATCTTGAAATT
Found at i:7824664 original size:12 final size:12
Alignment explanation
Indices: 7824617--7824673 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
7824607 AGTCCAAAAT
7824617 TTTTAATTTTGA
1 TTTTAATTTTGA
*
7824629 GTTGTAA-TTTGA
1 -TTTTAATTTTGA
* *
7824641 TTTCAATCTTGA
1 TTTTAATTTTGA
*
7824653 TTTTGATTTTGA
1 TTTTAATTTTGA
7824665 TTTTAATTT
1 TTTTAATTT
7824674 AGATATAGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
11 4 0.11
12 26 0.74
13 5 0.14
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.61
Consensus pattern (12 bp):
TTTTAATTTTGA
Found at i:7824768 original size:24 final size:24
Alignment explanation
Indices: 7824725--7824771 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7824715 GATCTATTGT
**
7824725 GGTAAAAAAAAAAGTTAAAGTCAA
1 GGTAAAAAAAAAAGAAAAAGTCAA
*
7824749 GGTAAAAAAAAGAGAAAAAGTCA
1 GGTAAAAAAAAAAGAAAAAGTCA
7824772 GAAAACCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.64, C:0.04, G:0.19, T:0.13
Consensus pattern (24 bp):
GGTAAAAAAAAAAGAAAAAGTCAA
Found at i:7829437 original size:23 final size:23
Alignment explanation
Indices: 7829405--7829451 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
7829395 TGATCAAATC
7829405 TGTGCCTTTCAGTATATAGAACT
1 TGTGCCTTTCAGTATATAGAACT
*
7829428 TGTGCTTTTCAGTATATAGAACT
1 TGTGCCTTTCAGTATATAGAACT
7829451 T
1 T
7829452 TTGGTGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (23 bp):
TGTGCCTTTCAGTATATAGAACT
Found at i:7830142 original size:42 final size:41
Alignment explanation
Indices: 7830069--7830155 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
7830059 GATCTTTTGT
* *
7830069 ATAATTATGACATTTATAAATAATAATTTATTTATATTTAA
1 ATAATTATAACATTTATAAATAATAATTTATTTATATTCAA
* * *
7830110 ATAATTATAACCATTTATCATATGATAA-TTATTTTTATTCAA
1 ATAATTATAA-CATTTAT-AAATAATAATTTATTTATATTCAA
7830152 ATAA
1 ATAA
7830156 AATTATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 9 0.23
42 23 0.59
43 7 0.18
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (41 bp):
ATAATTATAACATTTATAAATAATAATTTATTTATATTCAA
Found at i:7835805 original size:11 final size:12
Alignment explanation
Indices: 7835789--7835854 Score: 57
Period size: 12 Copynumber: 5.4 Consensus size: 12
7835779 ACATATAAAA
7835789 AATTATTT-TTT
1 AATTATTTATTT
7835800 AATTATTTATTT
1 AATTATTTATTT
7835812 AATT-TTATATTT
1 AATTATT-TATTT
*
7835824 ATATATATTTATAT
1 A-AT-TATTTATTT
*
7835838 AATT-TATATTT
1 AATTATTTATTT
7835849 ATATTA
1 A-ATTA
7835855 AAAAATAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 16 0.36
12 17 0.38
13 4 0.09
14 6 0.13
15 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:7835819 original size:25 final size:27
Alignment explanation
Indices: 7835791--7835848 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
7835781 ATATAAAAAA
*
7835791 TTATTTTTTA-AT-TATTTATTTAATT
1 TTATTTTTTATATATATTTATATAATT
*
7835816 TTA-TATTTATATATATTTATATAATT
1 TTATTTTTTATATATATTTATATAATT
7835842 TATATTT
1 T-TATTT
7835849 ATATTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 5 0.19
25 5 0.19
26 13 0.50
27 2 0.08
28 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATTTTTTATATATATTTATATAATT
Found at i:7835824 original size:16 final size:18
Alignment explanation
Indices: 7835803--7835846 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
7835793 ATTTTTTAAT
*
7835803 TATTTATTTA-ATTT-TA
1 TATTTATATATATTTATA
7835819 TATTTATATATATTTATA
1 TATTTATATATATTTATA
7835837 TAATTTATAT
1 T-ATTTATAT
7835847 TTATATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 4 0.17
18 3 0.12
19 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTATATATATTTATA
Found at i:7835830 original size:10 final size:10
Alignment explanation
Indices: 7835817--7835846 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7835807 TATTTAATTT
7835817 TATATTTATA
1 TATATTTATA
7835827 TATATTTATA
1 TATATTTATA
7835837 TA-ATTTATA
1 TATATTTATA
7835846 T
1 T
7835847 TTATATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTTATA
Found at i:7835849 original size:25 final size:26
Alignment explanation
Indices: 7835803--7835852 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
7835793 ATTTTTTAAT
*
7835803 TATTTATTTAATTTTATATTTATATA
1 TATTTATATAATTTTATATTTATATA
7835829 TATTTATATAA-TTTATATTTATAT
1 TATTTATATAATTTTATATTTATAT
7835853 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTTATATAATTTTATATTTATATA
Found at i:7840459 original size:15 final size:16
Alignment explanation
Indices: 7840441--7840471 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7840431 GTTTTCTTAG
7840441 TTTAGG-TTTTGGTTT
1 TTTAGGTTTTTGGTTT
7840456 TTTAGGTTTTTGGTTT
1 TTTAGGTTTTTGGTTT
7840472 GAACAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.68
Consensus pattern (16 bp):
TTTAGGTTTTTGGTTT
Found at i:7842704 original size:17 final size:16
Alignment explanation
Indices: 7842673--7842703 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7842663 TTTTTATTTA
7842673 AAAAAATCACTTTTTC
1 AAAAAATCACTTTTTC
7842689 AAAAAATCACTTTTT
1 AAAAAATCACTTTTT
7842704 TATCTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAAATCACTTTTTC
Found at i:7850131 original size:19 final size:18
Alignment explanation
Indices: 7850107--7850142 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7850097 TTTTCCTTCT
7850107 CTTTTTTTATTATTTTTAG
1 CTTTTTTT-TTATTTTTAG
*
7850126 CTTTTTTTTTCTTTTTA
1 CTTTTTTTTTATTTTTA
7850143 ATTTTACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (18 bp):
CTTTTTTTTTATTTTTAG
Found at i:7855424 original size:16 final size:18
Alignment explanation
Indices: 7855393--7855425 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
7855383 TAATGGGAAA
7855393 GCAAAATCTCTAATAATT
1 GCAAAATCTCTAATAATT
7855411 GCAAAAT-T-TAATAAT
1 GCAAAATCTCTAATAAT
7855426 CATAGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (18 bp):
GCAAAATCTCTAATAATT
Found at i:7860105 original size:25 final size:24
Alignment explanation
Indices: 7860068--7860114 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
7860058 CCAACTTTTT
*
7860068 CTTTTTTTTTTTTTTACTTTTTCAG
1 CTTTTTTTCTTTTTT-CTTTTTCAG
7860093 CTTTTTTTCTTTTTTCTTTTTC
1 CTTTTTTTCTTTTTTCTTTTTC
7860115 GGTTTGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (24 bp):
CTTTTTTTCTTTTTTCTTTTTCAG
Found at i:7863527 original size:8 final size:8
Alignment explanation
Indices: 7863500--7863536 Score: 51
Period size: 7 Copynumber: 4.8 Consensus size: 8
7863490 ACTATAAGCC
7863500 AAAAA-AA
1 AAAAAGAA
7863507 AAAAA-AA
1 AAAAAGAA
7863514 AAAAAGAA
1 AAAAAGAA
7863522 AAAAAGAA
1 AAAAAGAA
7863530 AGAAAAG
1 A-AAAAG
7863537 TAAAGATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 12 0.43
8 11 0.39
9 5 0.18
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:7863531 original size:12 final size:11
Alignment explanation
Indices: 7863500--7863535 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
7863490 ACTATAAGCC
7863500 AAAAAAAAA-A
1 AAAAAAAAAGA
7863510 AAAAAAAAAGA
1 AAAAAAAAAGA
7863521 AAAAAAGAAAGA
1 AAAAAA-AAAGA
7863533 AAA
1 AAA
7863536 GTAAAGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.38
11 7 0.29
12 8 0.33
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:7864033 original size:20 final size:19
Alignment explanation
Indices: 7864010--7864092 Score: 94
Period size: 20 Copynumber: 4.2 Consensus size: 19
7864000 ATAACGAAAA
7864010 TTTGAATTTATTTGTGAAT
1 TTTGAATTTATTTGTGAAT
* *
7864029 GTTTGAATTTCTTTTGTAAAT
1 -TTTGAATTT-ATTTGTGAAT
*
7864050 CTTTGAATTTATTTATGAAT
1 -TTTGAATTTATTTGTGAAT
*
7864070 TTTTAATTTTATTTGTGAAT
1 TTTGAA-TTTATTTGTGAAT
7864090 TTT
1 TTT
7864093 AGCAAATGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.09
20 31 0.58
21 17 0.32
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.60
Consensus pattern (19 bp):
TTTGAATTTATTTGTGAAT
Found at i:7866042 original size:27 final size:25
Alignment explanation
Indices: 7865997--7866050 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
7865987 ATTTCATATA
* *
7865997 ATATCAAATATGGTGATTTATAACATT
1 ATATCAAATATGATAATTTA-AA-ATT
*
7866024 ATATTAAATATGATAATTTAAAATT
1 ATATCAAATATGATAATTTAAAATT
7866049 AT
1 AT
7866051 TGATGATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 2 0.08
27 17 0.71
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (25 bp):
ATATCAAATATGATAATTTAAAATT
Found at i:7869817 original size:23 final size:22
Alignment explanation
Indices: 7869775--7869818 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
7869765 TTTAGTACCA
*
7869775 ATTTATTTTCTTTTCATTTTTC
1 ATTTATTTTCTTTCCATTTTTC
*
7869797 ATTTATTTTTCTTTCCTTTTTT
1 ATTTA-TTTTCTTTCCATTTTT
7869819 GGAATGCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (22 bp):
ATTTATTTTCTTTCCATTTTTC
Found at i:7870429 original size:23 final size:21
Alignment explanation
Indices: 7870403--7870444 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
7870393 AGCAAAAACA
*
7870403 TTTTGCACATATTTATGAAAAAT
1 TTTTGAACA-ATTT-TGAAAAAT
7870426 TTTTGAACAATTTTGAAAA
1 TTTTGAACAATTTTGAAAA
7870445 TAATTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTTGAACAATTTTGAAAAAT
Found at i:7877162 original size:53 final size:52
Alignment explanation
Indices: 7877029--7877186 Score: 140
Period size: 53 Copynumber: 3.0 Consensus size: 52
7877019 TATAACTATA
* * * **
7877029 CAAATTTATCTATTAAGAATC-TCTTTCATTTTAGAATTCTTCTATTGTAAGT
1 CAAACTTACCTATTAAGAATCTTCTTTC-TCTTAGAATTCTTCTATTACAAGT
* * * *
7877081 CAAACTTGCCTATTAAGAATAATT-TTTCTCCTTAGAATTCTTTTTTTACAAGT
1 CAAACTTACCTATTAAGAAT-CTTCTTTCT-CTTAGAATTCTTCTATTACAAGT
* * * * * *
7877134 CAAACTTACTTATTAAGAATCTTCTTTCTTTTAGAGTTATTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTATTACAAGT
7877186 C
1 C
7877187 TTCTTATCCA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
52 39 0.46
53 45 0.53
54 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTATTACAAGT
Found at i:7878293 original size:17 final size:18
Alignment explanation
Indices: 7878271--7878305 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7878261 TGATTCATCA
*
7878271 GTTTTTAT-TTTTATTTT
1 GTTTTTATATATTATTTT
7878288 GTTTTTATATATTATTTT
1 GTTTTTATATATTATTTT
7878306 TAATAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
GTTTTTATATATTATTTT
Found at i:7879774 original size:19 final size:20
Alignment explanation
Indices: 7879732--7879774 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7879722 AATTAAGGCA
**
7879732 AAAAGAAAAAATCTAGAAAG
1 AAAAGAAAAAATAAAGAAAG
7879752 -AAAGAAAAAA-AAAGAAAG
1 AAAAGAAAAAATAAAGAAAG
7879770 AAAAG
1 AAAAG
7879775 TTGTTGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAAGAAAAAATAAAGAAAG
Found at i:7880656 original size:29 final size:28
Alignment explanation
Indices: 7880571--7880656 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
7880561 TAAAAATTTA
*
7880571 ATAATCAATTAAAGTTTTGATATTTTATT
1 ATAATTAATTAAA-TTTTGATATTTTATT
* *
7880600 -CAATTAATTAAAATTTTGATATTCTATT
1 ATAATTAATT-AAATTTTGATATTTTATT
*
7880628 ATAATTAATTAAATTTTATATATTTTATT
1 ATAATTAATTAAATTTT-GATATTTTATT
7880657 TCCCATAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 28 0.58
29 20 0.42
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (28 bp):
ATAATTAATTAAATTTTGATATTTTATT
Found at i:7880810 original size:25 final size:26
Alignment explanation
Indices: 7880782--7880833 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
7880772 AAAAACTTAA
*
7880782 TTAATGAA-AATAAATATTTAAA-AAT
1 TTAATGAATAAAAAAT-TTTAAATAAT
*
7880807 TTAATTAATAAAAAATTTTAAATAAT
1 TTAATGAATAAAAAATTTTAAATAAT
7880833 T
1 T
7880834 ATTGAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TTAATGAATAAAAAATTTTAAATAAT
Found at i:7881486 original size:23 final size:23
Alignment explanation
Indices: 7881443--7881487 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7881433 AAATGTTTTG
**
7881443 AATAATTATTTAATTTATTTTAA
1 AATAATTATTTAATAGATTTTAA
7881466 AATAATTATTTAA-AGAGTTTTA
1 AATAATTATTTAATAGA-TTTTA
7881488 TATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AATAATTATTTAATAGATTTTAA
Found at i:7881972 original size:15 final size:17
Alignment explanation
Indices: 7881940--7881971 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7881930 TATTATATAT
7881940 TATATATTTTTTAAAAA
1 TATATATTTTTTAAAAA
7881957 TATATA-TTTTTAAAA
1 TATATATTTTTTAAAA
7881972 TTTAAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATTTTTTAAAAA
Found at i:7887659 original size:8 final size:8
Alignment explanation
Indices: 7887646--7887680 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
7887636 TCTTCAATAG
7887646 TATATAAA
1 TATATAAA
7887654 TATATAAA
1 TATATAAA
*
7887662 TAAATAAA
1 TATATAAA
*
7887670 TATATATA
1 TATATAAA
7887678 TAT
1 TAT
7887681 TGAGAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATATAAA
Found at i:7897527 original size:51 final size:48
Alignment explanation
Indices: 7897373--7897552 Score: 177
Period size: 51 Copynumber: 3.7 Consensus size: 48
7897363 TATCTAATTA
* * * * *
7897373 TTTCACTATTTGTGCCAAATTAAAAATATATTTTTTTAATTTTT-AAAT
1 TTTCACCATTTGGGCCTATTTAAAAAT-TTTTTTTTTAATTTTTAAAAT
* * *
7897421 TCTCCACCATTTGGGCCTATTTAGAAA-TTTTTTTTT-ATTTTTAAATT
1 T-TTCACCATTTGGGCCTATTTAAAAATTTTTTTTTTAATTTTTAAAAT
* * *
7897468 TTTTACCATTTGGGTCAATTTAAAAATTTTTTTTTTCAAAATTTTTAAAAT
1 TTTCACCATTTGGGCCTATTTAAAAATTTTTTTTTT---AATTTTTAAAAT
* *
7897519 TTTCACCATTTGGGCCTGTTTAAAAATTCTTTTT
1 TTTCACCATTTGGGCCTATTTAAAAATTTTTTTT
7897553 ATCTTTTTTT
Statistics
Matches: 106, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
46 26 0.25
47 21 0.20
48 1 0.01
49 19 0.18
51 39 0.37
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (48 bp):
TTTCACCATTTGGGCCTATTTAAAAATTTTTTTTTTAATTTTTAAAAT
Found at i:7897973 original size:16 final size:16
Alignment explanation
Indices: 7897952--7897982 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7897942 ATTCATGCAA
*
7897952 AAAATACATTAAAAAT
1 AAAATAAATTAAAAAT
7897968 AAAATAAATTAAAAA
1 AAAATAAATTAAAAA
7897983 AATACAAAAA
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:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAAATTAAAAAT
Found at i:7900131 original size:62 final size:64
Alignment explanation
Indices: 7900065--7900264 Score: 176
Period size: 64 Copynumber: 3.2 Consensus size: 64
7900055 AATTACAATA
*
7900065 GATTATTGAAGGTATTTTCTAC-ACAAAACACCTCCAATAATTCC-CTC-ATAAAAAA-TGGAGA
1 GATTATTGAAGGTATTTTCTACAAAAAAACACCTCCAATAA-TCCTCTCTA-AAAAAATTGGAGA
7900126 G
64 G
* * * * ** *
7900127 GATTATTGAATGCATTTTTTTACAAAAAAATACCTTTAATAATCCTCTCTAAAAAAATTGGATAG
1 GATTATTGAAGGTA-TTTTCTACAAAAAAACACCTCCAATAATCCTCTCTAAAAAAATTGGAGAG
* * *** * * * **
7900192 GATTATTAAAGGTATTTTTTTGTAAAAAACGCCTTCAATAATCATCTCT-AAAAAATTTAAGAG
1 GATTATTGAAGGTATTTTCTACAAAAAAACACCTCCAATAATCCTCTCTAAAAAAATTGGAGAG
7900255 GATTATTGAA
1 GATTATTGAA
7900265 AGCTTTTTTT
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
62 12 0.11
63 30 0.27
64 51 0.46
65 18 0.16
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (64 bp):
GATTATTGAAGGTATTTTCTACAAAAAAACACCTCCAATAATCCTCTCTAAAAAAATTGGAGAG
Found at i:7900180 original size:63 final size:63
Alignment explanation
Indices: 7900089--7900298 Score: 196
Period size: 64 Copynumber: 3.3 Consensus size: 63
7900079 TTTTCTACAC
* *
7900089 AAAACACCTCCAATAATTCC-CTCATAAAAAA-TGGAGAGGATTATTGAATGCATTTTTTTACAA
1 AAAACACCTTCAATAA-TCCTCTC-TAAAAAATTGGAGAGGATTATTGAAAGCATTTTTTT-CAA
7900152 A
63 A
* * * * **
7900153 AAAATACCTTTAATAATCCTCTCTAAAAAAATTGGATAGGATTATT-AAAGGTATTTTTTTGTAA
1 AAAACACCTTCAATAATCCTCTCT-AAAAAATTGGAGAGGATTATTGAAA-GCATTTTTTTCAAA
* * ** **
7900217 AAAACGCCTTCAATAATCATCTCTAAAAAATTTAAGAGGATTATTGAAAGC-TTTTTTTGC-TT
1 AAAACACCTTCAATAATCCTCTCTAAAAAATTGGAGAGGATTATTGAAAGCATTTTTTT-CAAA
*
7900279 GAAACACCTTCAATAATCCT
1 AAAACACCTTCAATAATCCT
7900299 TTTTACAAAT
Statistics
Matches: 118, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
62 24 0.20
63 23 0.19
64 49 0.42
65 22 0.19
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (63 bp):
AAAACACCTTCAATAATCCTCTCTAAAAAATTGGAGAGGATTATTGAAAGCATTTTTTTCAAA
Found at i:7900291 original size:62 final size:62
Alignment explanation
Indices: 7900017--7900296 Score: 180
Period size: 62 Copynumber: 4.5 Consensus size: 62
7900007 ATTCAATGTG
** * * * * *
7900017 TTTTTTGCTTGAAACTCCTTTAATAATCTCTCATAAAAAATTACAATA-GATTATTG-AAGGT
1 TTTTTTGCTAAAAACACCTTCAATAATCTCTCATAAAAAATT-GAAGAGGATTATTGAAAGCT
* * * * * *
7900078 ATTTTCTAC-ACAAAACACCTCCAATAATTCCCTCATAAAAAA-TGGAGAGGATTATTGAATGCA
1 -TTTTTTGCTA-AAAACACCTTCAATAA-TCTCTCATAAAAAATTGAAGAGGATTATTGAAAGC-
7900141 T
62 T
* * * * * *
7900142 TTTTTTACAAAAAAATACCTTTAATAATCCTCTC-TAAAAAAATTGGATAGGATTATT-AAAGGT
1 TTTTTTGC-TAAAAACACCTTCAATAAT-CTCTCAT-AAAAAATTGAAGAGGATTATTGAAA-G-
*
7900205 AT
61 CT
* *
7900207 TTTTTTG-TAAAAAACGCCTTCAATAATCATCTC-TAAAAAATTTAAGAGGATTATTGAAAGCT
1 TTTTTTGCT-AAAAACACCTTCAATAATC-TCTCATAAAAAATTGAAGAGGATTATTGAAAGCT
**
7900269 TTTTTTGCTTGAAACACCTTCAATAATC
1 TTTTTTGCTAAAAACACCTTCAATAATC
7900297 CTTTTTACAA
Statistics
Matches: 169, Mismatches: 33, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
61 2 0.01
62 51 0.30
63 45 0.27
64 49 0.29
65 22 0.13
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (62 bp):
TTTTTTGCTAAAAACACCTTCAATAATCTCTCATAAAAAATTGAAGAGGATTATTGAAAGCT
Found at i:7903189 original size:34 final size:34
Alignment explanation
Indices: 7903104--7903189 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
7903094 AAAATGTCAC
* * *
7903104 TAATATAGCAACATTTTTCAGATGTAAATACCGT
1 TAATATAGCGACATTTTTCAAATATAAATACCGT
* *
7903138 TATATTAAAG-G-CTTTTTTCAAATATAAATACCGT
1 TA-A-TATAGCGACATTTTTCAAATATAAATACCGT
7903172 TAATATAGCGACATTTTT
1 TAATATAGCGACATTTTT
7903190 TTGAAAATGC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
32 4 0.10
33 2 0.05
34 30 0.73
35 1 0.02
36 4 0.10
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (34 bp):
TAATATAGCGACATTTTTCAAATATAAATACCGT
Found at i:7904092 original size:18 final size:18
Alignment explanation
Indices: 7904069--7904104 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7904059 CAACGTTCAT
*
7904069 GCCTTCCCAGTGGCAGTC
1 GCCTTCCCAGCGGCAGTC
7904087 GCCTTCCCAGCGGCAGTC
1 GCCTTCCCAGCGGCAGTC
7904105 TGCCCTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.42, G:0.28, T:0.19
Consensus pattern (18 bp):
GCCTTCCCAGCGGCAGTC
Found at i:7905293 original size:23 final size:23
Alignment explanation
Indices: 7905263--7905308 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7905253 TCAAACAGTA
7905263 CACATCTTTGTTGTAGGTGCATT
1 CACATCTTTGTTGTAGGTGCATT
7905286 CACATCTTTGTTGTAGGTGCATT
1 CACATCTTTGTTGTAGGTGCATT
7905309 TGAAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (23 bp):
CACATCTTTGTTGTAGGTGCATT
Found at i:7906260 original size:24 final size:24
Alignment explanation
Indices: 7906231--7906285 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
7906221 AATCTAATAT
7906231 ATTAAATTCATAATAAAA-G-AAAAA
1 ATTAAATT-AT-ATAAAATGTAAAAA
7906255 ATTAAATTATATAAAATGTTAAAAA
1 ATTAAATTATATAAAATG-TAAAAA
7906280 ATTAAA
1 ATTAAA
7906286 AAAACATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.21
23 3 0.11
24 8 0.29
25 11 0.39
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
ATTAAATTATATAAAATGTAAAAA
Found at i:7906355 original size:16 final size:16
Alignment explanation
Indices: 7906334--7906368 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
7906324 ATTAGTTTGA
7906334 AATATAAAATAATTAT
1 AATATAAAATAATTAT
7906350 AATATAAAATAATTAT
1 AATATAAAATAATTAT
7906366 AAT
1 AAT
7906369 TTTAAGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:7907354 original size:12 final size:11
Alignment explanation
Indices: 7907328--7907360 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
7907318 TTATATTTTT
7907328 ATTATAATT-A
1 ATTATAATTAA
7907338 ATTATAATTACA
1 ATTATAATTA-A
7907350 ATTATAATTAA
1 ATTATAATTAA
7907361 GTAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
12 11 0.52
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTATAATTAA
Found at i:7910631 original size:64 final size:64
Alignment explanation
Indices: 7910536--7910711 Score: 264
Period size: 64 Copynumber: 2.8 Consensus size: 64
7910526 TTTCAACGAC
* *
7910536 ATTTGGTACTGCTTT-GTAAAAAATATGGCATTTAAGGCAAGATTTGACTTGAGACCCAACATT
1 ATTTGGTACTGATTTGGCAAAAAATATGGCATTTAAGGCAAGATTTGACTTGAGACCCAACATT
* * *
7910599 ATTTTGTGCTGATTTGGCAAAAAATATGGCATTGAAGGCAAGATTTGACTTGAGACCCAACATT
1 ATTTGGTACTGATTTGGCAAAAAATATGGCATTTAAGGCAAGATTTGACTTGAGACCCAACATT
** * *
7910663 ATTTGGTACTGATTTGTTAAAAAAAATGGCATTTTAGGCAAGATTTGAC
1 ATTTGGTACTGATTTGGCAAAAAATATGGCATTTAAGGCAAGATTTGAC
7910712 GCTGGAAACC
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 12 0.12
64 88 0.88
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (64 bp):
ATTTGGTACTGATTTGGCAAAAAATATGGCATTTAAGGCAAGATTTGACTTGAGACCCAACATT
Found at i:7916091 original size:60 final size:59
Alignment explanation
Indices: 7915984--7916097 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 59
7915974 GTCCCAAAGT
* *
7915984 TTTCATTTAGGTTTCATTTTGATTTTAATCTTTAAATTATTCTATGATAGTCTCAAATC
1 TTTCATTTAGGTTTCATTTTGATTTTAATCTTTAAATTATTCCATGATAATCTCAAATC
*
7916043 TTTCATTT-GAGTTTCATTTTGATTCTTAATTTTTAAATTATTCCATGATAATCTC
1 TTTCATTTAG-GTTTCATTTTGATT-TTAATCTTTAAATTATTCCATGATAATCTC
7916098 TAACTTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 1 0.02
59 22 0.44
60 27 0.54
ACGTcount: A:0.26, C:0.12, G:0.08, T:0.54
Consensus pattern (59 bp):
TTTCATTTAGGTTTCATTTTGATTTTAATCTTTAAATTATTCCATGATAATCTCAAATC
Found at i:7919950 original size:22 final size:23
Alignment explanation
Indices: 7919920--7919964 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
7919910 ACATATTTTC
7919920 CCTTATA-TTTCTCTATCTTCTTT
1 CCTTATATTTTCTC-ATCTTCTTT
*
7919943 CCTT-TATTTTCTCATTTTCTTT
1 CCTTATATTTTCTCATCTTCTTT
7919965 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.64
Consensus pattern (23 bp):
CCTTATATTTTCTCATCTTCTTT
Found at i:7919953 original size:23 final size:23
Alignment explanation
Indices: 7919916--7919964 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
7919906 TTCAACATAT
7919916 TTTCCCTTATATTTCTCTATCTTC
1 TTTCCCTTATATTTCTC-ATCTTC
* *
7919940 TTTCCTTTAT-TTTCTCATTTTC
1 TTTCCCTTATATTTCTCATCTTC
7919962 TTT
1 TTT
7919965 TTTTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 9 0.39
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTCCCTTATATTTCTCATCTTC
Found at i:7923484 original size:18 final size:18
Alignment explanation
Indices: 7923461--7923500 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7923451 ATATATATAT
7923461 TTTAAAAAAATTTAATTA
1 TTTAAAAAAATTTAATTA
** *
7923479 TTTAAAATTATTTATTTA
1 TTTAAAAAAATTTAATTA
7923497 TTTA
1 TTTA
7923501 CTTATTTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAAAAAAATTTAATTA
Found at i:7941902 original size:2 final size:2
Alignment explanation
Indices: 7941889--7941930 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7941879 TTACGTATAT
*
7941889 CA CA CT CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7941931 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.50, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:7942754 original size:22 final size:22
Alignment explanation
Indices: 7942677--7942791 Score: 115
Period size: 22 Copynumber: 5.2 Consensus size: 22
7942667 AGTATAGTAC
* * *
7942677 TAAATCAATGATAACTTAACAA
1 TAAATTAATGATAACTTAATAG
* * *
7942699 AAAATAAATGATAACTTAGTAG
1 TAAATTAATGATAACTTAATAG
* * * *
7942721 TTAACTATTGATAACTTAATAA
1 TAAATTAATGATAACTTAATAG
*
7942743 TAAATTAATGATAACATAATAG
1 TAAATTAATGATAACTTAATAG
7942765 TAAATTAATGATAA-TTCAATAG
1 TAAATTAATGATAACTT-AATAG
7942787 TAAAT
1 TAAAT
7942792 CAGTTTCAGT
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
21 1 0.01
22 73 0.99
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (22 bp):
TAAATTAATGATAACTTAATAG
Found at i:7942947 original size:22 final size:22
Alignment explanation
Indices: 7942921--7942962 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7942911 ATAAAATAGT
* *
7942921 AATAACTTGGTAATGAATCATA
1 AATAACTTAGTAATAAATCATA
*
7942943 AATAATTTAGTAATAAATCA
1 AATAACTTAGTAATAAATCA
7942963 ATGATAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (22 bp):
AATAACTTAGTAATAAATCATA
Found at i:7942969 original size:22 final size:22
Alignment explanation
Indices: 7942944--7943133 Score: 77
Period size: 22 Copynumber: 8.8 Consensus size: 22
7942934 TGAATCATAA
7942944 ATAATTTAGTAATAAATCAATG
1 ATAATTTAGTAATAAATCAATG
* * *
7942966 ATAATTTTGTGATAAA-CAATT
1 ATAATTTAGTAATAAATCAATG
* * *
7942987 AAAAGTTCAATAATAAATCAATG
1 ATAA-TTTAGTAATAAATCAATG
** * *
7943010 ATAACATAATAATAAAT-ATATA
1 ATAATTTAGTAATAAATCA-ATG
* * * * * *
7943032 AAAATATAATAGTAAAGCATTG
1 ATAATTTAGTAATAAATCAATG
*
7943054 ATAATTTAGTAGTAAAT---TG
1 ATAATTTAGTAATAAATCAATG
* * * * * * *
7943073 GTAACTTAATTATAAATTACTA
1 ATAATTTAGTAATAAATCAATG
* *
7943095 ATAACTTAGCT-GTAAATCAATG
1 ATAATTTAG-TAATAAATCAATG
7943117 ATAATTTAGTAATAAAT
1 ATAATTTAGTAATAAAT
7943134 TATTTAATCA
Statistics
Matches: 121, Mismatches: 38, Indels: 18
0.68 0.21 0.10
Matches are distributed among these distances:
19 14 0.12
21 9 0.07
22 89 0.74
23 9 0.07
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAATTTAGTAATAAATCAATG
Found at i:7943216 original size:22 final size:22
Alignment explanation
Indices: 7943139--7943262 Score: 76
Period size: 22 Copynumber: 5.7 Consensus size: 22
7943129 TAAATTATTT
* * *
7943139 AATCATTGATAACTTTTTTGTA
1 AATCATTAATAACTTTATAGTA
* *
7943161 AATCATTAGTAA-ATTAGTAGTA
1 AATCATTAATAACTTTA-TAGTA
* *
7943183 AATCAGCT-ATAACTTTATAATA
1 AATCA-TTAATAACTTTATAGTA
* *
7943205 AATCATTAATAACTTAATGGTA
1 AATCATTAATAACTTTATAGTA
** * *
7943227 AATCACCAATAA--TGATTGGTA
1 AATCATTAATAACTTTA-TAGTA
7943248 AATCATTAATAACTT
1 AATCATTAATAACTT
7943263 AACAACAAAT
Statistics
Matches: 77, Mismatches: 18, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
20 2 0.03
21 18 0.23
22 52 0.68
23 5 0.06
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (22 bp):
AATCATTAATAACTTTATAGTA
Found at i:7943258 original size:21 final size:22
Alignment explanation
Indices: 7943203--7943261 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
7943193 AACTTTATAA
*
7943203 TAAATCATTAATAACTTAATGG
1 TAAATCATTAATAACTGAATGG
** *
7943225 TAAATCACCAATAA-TGATTGG
1 TAAATCATTAATAACTGAATGG
7943246 TAAATCATTAATAACT
1 TAAATCATTAATAACT
7943262 TAACAACAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (22 bp):
TAAATCATTAATAACTGAATGG
Found at i:7943880 original size:22 final size:22
Alignment explanation
Indices: 7943852--7943916 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
7943842 TTAGTAGTAG
* *
7943852 TTAATCATTATTACCTTAATAA
1 TTAATCATTAATAACTTAATAA
* *
7943874 TTAATCAATAATAACTTAATAG
1 TTAATCATTAATAACTTAATAA
* *
7943896 TAAATCA-TAGATAATTTAATA
1 TTAATCATTA-ATAACTTAATA
7943917 TAAATCAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (22 bp):
TTAATCATTAATAACTTAATAA
Found at i:7943922 original size:21 final size:21
Alignment explanation
Indices: 7943867--7943933 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
7943857 CATTATTACC
* *
7943867 TTAATAATTAATCAATA-ATAAC
1 TTAAT-ATAAATC-ATAGATAAT
7943889 TTAATAGTAAATCATAGATAAT
1 TTAATA-TAAATCATAGATAAT
7943911 TTAATATAAATCA-ATGATAAT
1 TTAATATAAATCATA-GATAAT
7943932 TT
1 TT
7943934 GAAAATGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.03
21 19 0.47
22 20 0.50
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (21 bp):
TTAATATAAATCATAGATAAT
Found at i:7944163 original size:22 final size:22
Alignment explanation
Indices: 7944138--7944203 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
7944128 AGTAGCAAAT
* *
7944138 TAGTTAATCATTGATAACTTTG
1 TAGTAAATCATTGATAACTTTA
* * *
7944160 TAGTAAATTATTGATAAATTAA
1 TAGTAAATCATTGATAACTTTA
7944182 TAGTAAATCAATT-ATAACTTTA
1 TAGTAAATC-ATTGATAACTTTA
7944204 CAACAAATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 32 0.91
23 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (22 bp):
TAGTAAATCATTGATAACTTTA
Found at i:7944222 original size:95 final size:95
Alignment explanation
Indices: 7944050--7944237 Score: 211
Period size: 95 Copynumber: 2.0 Consensus size: 95
7944040 ATAATAGTAC
* * * ****
7944050 ATCATTGATAATTTGATATAAATTATTGATAACGTAATAGTAAATCACTAATAATTTTATTGTAA
1 ATCATTGATAATTTGATATAAATTATTGATAAAGTAATAGTAAATCAATAATAACTTTACAACAA
*
7944115 ATAAGTGATAATT-AGTAGCAAATTAGTTA
66 ATAAGTGATAATTCAATAGCAAATTAGTTA
* *
7944144 ATCATTGATAACTTTG-TAGTAAATTATTGATAAATTAATAGTAAATCAATTATAACTTTACAAC
1 ATCATTGATAA-TTTGATA-TAAATTATTGATAAAGTAATAGTAAATCAATAATAACTTTACAAC
* * *
7944208 AAATCA-TTAGTAATTCAATAGTAAATTAGT
64 AAATAAGTGA-TAATTCAATAGCAAATTAGT
7944238 AACAATTTAG
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
94 15 0.19
95 50 0.65
96 12 0.16
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (95 bp):
ATCATTGATAATTTGATATAAATTATTGATAAAGTAATAGTAAATCAATAATAACTTTACAACAA
ATAAGTGATAATTCAATAGCAAATTAGTTA
Found at i:7944258 original size:11 final size:11
Alignment explanation
Indices: 7944229--7944318 Score: 81
Period size: 11 Copynumber: 8.2 Consensus size: 11
7944219 AATTCAATAG
7944229 TAAATTAGTAA
1 TAAATTAGTAA
* *
7944240 CAATTTAGTAA
1 TAAATTAGTAA
*
7944251 TAAATTAGTCA
1 TAAATTAGTAA
* *
7944262 TAACTTAGTAG
1 TAAATTAGTAA
* * *
7944273 TAAATAAATAC
1 TAAATTAGTAA
*
7944284 TAATTTAGTAA
1 TAAATTAGTAA
*
7944295 TAAATTATTAA
1 TAAATTAGTAA
*
7944306 TAATTTAGTAA
1 TAAATTAGTAA
7944317 TA
1 TA
7944319 TATCATTAAT
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 59 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (11 bp):
TAAATTAGTAA
Found at i:7944269 original size:22 final size:22
Alignment explanation
Indices: 7944229--7944344 Score: 115
Period size: 22 Copynumber: 5.3 Consensus size: 22
7944219 AATTCAATAG
*
7944229 TAAATTAGTAACAATTTAGTAA
1 TAAATTAGTAATAATTTAGTAA
* * *
7944251 TAAATTAGTCATAACTTAGTAG
1 TAAATTAGTAATAATTTAGTAA
* * *
7944273 TAAATAAATACTAATTTAGTAA
1 TAAATTAGTAATAATTTAGTAA
*
7944295 TAAATTATTAATAATTTAGTAA
1 TAAATTAGTAATAATTTAGTAA
* * * * *
7944317 TATATCATTAATAGTTTAGTAG
1 TAAATTAGTAATAATTTAGTAA
7944339 TAAATT
1 TAAATT
7944345 GTTGATAATA
Statistics
Matches: 75, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 75 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.41
Consensus pattern (22 bp):
TAAATTAGTAATAATTTAGTAA
Found at i:7944335 original size:44 final size:44
Alignment explanation
Indices: 7944163--7944375 Score: 140
Period size: 44 Copynumber: 4.8 Consensus size: 44
7944153 AACTTTGTAG
* * * * * *
7944163 TAAATTATTGATAAATTAATAGTAAATCAATTATAACTTTA-CAA
1 TAAATTATTAATAATTTAGTAATAAATCAATAATAA-TTTAGTAA
* * * * * * * * *
7944207 CAAATCATTAGTAATTCAATAGTAAATTAGTAACAATTTAGTAA
1 TAAATTATTAATAATTTAGTAATAAATCAATAATAATTTAGTAA
* * * * * *
7944251 TAAATTAGTCATAACTTAGTAGTAAATAAATACTAATTTAGTAA
1 TAAATTATTAATAATTTAGTAATAAATCAATAATAATTTAGTAA
* * * *
7944295 TAAATTATTAATAATTTAGTAATATATCATTAATAGTTTAGTAG
1 TAAATTATTAATAATTTAGTAATAAATCAATAATAATTTAGTAA
* * * * *
7944339 TAAATTGTTGATAATATAATAATAAATCAATGATAAT
1 TAAATTATTAATAATTTAGTAATAAATCAATAATAAT
7944376 CATTGATAAA
Statistics
Matches: 127, Mismatches: 41, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
43 4 0.03
44 123 0.97
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (44 bp):
TAAATTATTAATAATTTAGTAATAAATCAATAATAATTTAGTAA
Found at i:7944659 original size:20 final size:20
Alignment explanation
Indices: 7944636--7944683 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
7944626 AAATTTATCA
7944636 ATAATTAGTAAAAATA-TATT
1 ATAATTA-TAAAAATATTATT
*
7944656 ATAAGTTATCAAAATATTATT
1 ATAA-TTATAAAAATATTATT
*
7944677 AAAATTA
1 ATAATTA
7944684 CATTAAGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAATTATAAAAATATTATT
Found at i:7944886 original size:19 final size:20
Alignment explanation
Indices: 7944834--7944901 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 20
7944824 AATTTACTAA
7944834 TATTATATTAAAATTAAAATTGAAT
1 TATT-TATTAAAA-TAAAATT---T
7944859 TA-TTATTATAATATAAAATTT
1 TATTTATTA-AA-ATAAAATTT
*
7944880 TATTTATTAAAATAAATTTT
1 TATTTATTAAAATAAAATTT
7944900 TA
1 TA
7944902 AAAATAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 10 0.26
21 5 0.13
22 6 0.15
23 5 0.13
24 10 0.26
25 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (20 bp):
TATTTATTAAAATAAAATTT
Found at i:7944900 original size:20 final size:22
Alignment explanation
Indices: 7944861--7944901 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
7944851 AATTGAATTA
7944861 TTATTATAATATAAAATTTTAT
1 TTATTATAATATAAAATTTTAT
*
7944883 TTATTA-AA-ATAAATTTTTA
1 TTATTATAATATAAAATTTTA
7944902 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATTATAATATAAAATTTTAT
Found at i:7968853 original size:13 final size:13
Alignment explanation
Indices: 7968837--7968861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7968827 GATGTGATAT
7968837 AAAAATAATATAA
1 AAAAATAATATAA
7968850 AAAAATAATATA
1 AAAAATAATATA
7968862 TATATATATT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAATATAA
Found at i:7972438 original size:24 final size:24
Alignment explanation
Indices: 7972411--7972458 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7972401 AATAAGTTTT
**
7972411 TAAAAAGTACTTAAAATAAAAAAA
1 TAAAAAGTACCAAAAATAAAAAAA
*
7972435 TAAAAATTACCAAAAATAAAAAAA
1 TAAAAAGTACCAAAAATAAAAAAA
7972459 ATCAATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAAAGTACCAAAAATAAAAAAA
Found at i:7979317 original size:18 final size:18
Alignment explanation
Indices: 7979290--7979331 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7979280 TTTTTAATCT
*
7979290 AAAT-AAATAAAAATATA
1 AAATAAAATAAAAATACA
7979307 AAATAAAATAAAAATACA
1 AAATAAAATAAAAATACA
7979325 AAA-AAAA
1 AAATAAAA
7979332 AAATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAATAAAAATACA
Found at i:7980656 original size:35 final size:35
Alignment explanation
Indices: 7980607--7980679 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
7980597 AAGAAGACAC
*
7980607 ATTGATTTCATCTGATTGCTATTGACACTGATCAG
1 ATTGATTTCATCTGATTGCTACTGACACTGATCAG
* * *
7980642 ATTGATTTCTTCTGATTGTTACTGACATTGATCAG
1 ATTGATTTCATCTGATTGCTACTGACACTGATCAG
7980677 ATT
1 ATT
7980680 CTCCTATGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (35 bp):
ATTGATTTCATCTGATTGCTACTGACACTGATCAG
Found at i:7984493 original size:4 final size:4
Alignment explanation
Indices: 7984484--7984511 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
7984474 AAAGTGGCAG
7984484 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
7984512 ATTGAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:7986415 original size:14 final size:14
Alignment explanation
Indices: 7986396--7986425 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7986386 CTTGGACCCA
7986396 CGAACCTAGAACCT
1 CGAACCTAGAACCT
*
7986410 CGAACCTGGAACCT
1 CGAACCTAGAACCT
7986424 CG
1 CG
7986426 CTCTGATACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.37, G:0.20, T:0.13
Consensus pattern (14 bp):
CGAACCTAGAACCT
Found at i:7986975 original size:2 final size:2
Alignment explanation
Indices: 7986937--7986963 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7986927 CATCCTTTAG
7986937 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7986964 ATAGTCTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7988422 original size:15 final size:14
Alignment explanation
Indices: 7988394--7988420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7988384 TAAGTACCGC
7988394 TGCCTTTCAAAAAG
1 TGCCTTTCAAAAAG
7988408 TGCCTTTCAAAAA
1 TGCCTTTCAAAAA
7988421 AGAGTACAAG
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:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (14 bp):
TGCCTTTCAAAAAG
Found at i:8001138 original size:34 final size:34
Alignment explanation
Indices: 8001095--8001160 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
8001085 CAACTCAAAG
*
8001095 TCACTAGAAGGAACAGACATCTTTTTC-AGAGGGC
1 TCACTAGAAGGAACAGACA-CATTTTCTAGAGGGC
* *
8001129 TCACTAGAAGTAACATACACATTTTCTAGAGG
1 TCACTAGAAGGAACAGACACATTTTCTAGAGG
8001161 AAATGGACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (34 bp):
TCACTAGAAGGAACAGACACATTTTCTAGAGGGC
Found at i:8002210 original size:129 final size:129
Alignment explanation
Indices: 8001980--8002247 Score: 414
Period size: 129 Copynumber: 2.1 Consensus size: 129
8001970 GACTCTAGAT
* * *
8001980 TACCTATAATGGAAGTAAAGAGCATATCTCAAAGGACATAGTCAGTCCAGACAAGCGGGTGCCTA
1 TACCTAGAATGGAAGTAAAGAGCATATCTCAAAGGACACAGTCAGTCCAGACAAGCGGGTGCCAA
* *
8002045 GGAGGAAAAATTCAATAAAATCCAGCCAAATCATGCAATATTAAACATCTTACT-GTCTGATATA
66 GGAGCAAAAATTCAATAAAATCCAGCCAAATCATGCAATATTAAACATCTTACTCG-CCGATATA
* * *
8002109 TACCTAGAAT-GAATTAAAGAGGCATATCTCAAAGGACGCAGTCAGTCCAGACAAGTGGGTGCCA
1 TACCTAGAATGGAAGTAAAGA-GCATATCTCAAAGGACACAGTCAGTCCAGACAAGCGGGTGCCA
* *
8002173 AGGAGCAAAAATTCAATGAAATCCAGCCAAATCATGCAATTTTAAACATCTTACTCGCCGATATA
65 AGGAGCAAAAATTCAATAAAATCCAGCCAAATCATGCAATATTAAACATCTTACTCGCCGATATA
8002238 TACCTAGAAT
1 TACCTAGAAT
8002248 TCTCTAATCT
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
128 9 0.07
129 117 0.92
130 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.23
Consensus pattern (129 bp):
TACCTAGAATGGAAGTAAAGAGCATATCTCAAAGGACACAGTCAGTCCAGACAAGCGGGTGCCAA
GGAGCAAAAATTCAATAAAATCCAGCCAAATCATGCAATATTAAACATCTTACTCGCCGATATA
Found at i:8003852 original size:13 final size:14
Alignment explanation
Indices: 8003836--8003869 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8003826 GATATTTAAA
8003836 TATTTTA-TTAGAT
1 TATTTTATTTAGAT
*
8003849 TATTTTATTTAGTT
1 TATTTTATTTAGAT
8003863 TATTTTA
1 TATTTTA
8003870 ATATACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
TATTTTATTTAGAT
Found at i:8005424 original size:10 final size:10
Alignment explanation
Indices: 8005406--8005436 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8005396 ATAAGGAAAC
8005406 AAAACAAAAT
1 AAAACAAAAT
*
8005416 AAAATAAAAT
1 AAAACAAAAT
8005426 AAAACAAAAT
1 AAAACAAAAT
8005436 A
1 A
8005437 TAAGCTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:8009223 original size:22 final size:22
Alignment explanation
Indices: 8009198--8009243 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8009188 TAAAATTTTA
*
8009198 TTTTATTAATTAATA-AATAATT
1 TTTTATTAAATAATATAA-AATT
8009220 TTTTATTAAATAATATAAAATT
1 TTTTATTAAATAATATAAAATT
8009242 TT
1 TT
8009244 ACTTTAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTATTAAATAATATAAAATT
Found at i:8009287 original size:52 final size:47
Alignment explanation
Indices: 8009186--8009288 Score: 118
Period size: 47 Copynumber: 2.1 Consensus size: 47
8009176 TCCTTATCTC
* *
8009186 TATAAAATTTTATTTTATTAATTAATAAATAATTTTTTATTAAATAA
1 TATAAAATTTTATTTGATTAATTAATAAATAATTTTTTATTAAAAAA
*
8009233 TATAAAATTTTACTTTAGATTAATTAA-AACTAATATATTTTCATTTAAAAAA
1 TATAAAATTTTA-TTT-GATTAATTAATAAATAAT-T-TTTT-A-TTAAAAAA
8009285 TATA
1 TATA
8009289 TATTAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
47 12 0.26
48 9 0.19
49 10 0.21
50 4 0.09
51 1 0.02
52 11 0.23
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (47 bp):
TATAAAATTTTATTTGATTAATTAATAAATAATTTTTTATTAAAAAA
Found at i:8009577 original size:20 final size:21
Alignment explanation
Indices: 8009530--8009585 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
8009520 TAACCCATTT
* *
8009530 TTTTTTTCTTTTTTCATTCTTT
1 TTTTTTT-TTCTTTCATTCTTC
8009552 TATTTTTTTTCTTTCA-TCTTC
1 T-TTTTTTTTCTTTCATTCTTC
*
8009573 TTTTTTGTTCTTT
1 TTTTTTTTTCTTT
8009586 TTTTTCTCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 11 0.37
21 5 0.17
22 8 0.27
23 6 0.20
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTCTTTCATTCTTC
Found at i:8009577 original size:25 final size:23
Alignment explanation
Indices: 8009527--8009601 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 23
8009517 ATCTAACCCA
*
8009527 TTTTTTTTTTCTTTTTTCATTCTTT
1 TTTTTTTTTTC-TTTCTC-TTCTTT
*
8009552 TATTTTTTTTCTTTCATCTTCTTT
1 TTTTTTTTTTCTTTC-TCTTCTTT
8009576 TTTGTTCTTTTT-TTTCTCTCTCTTT
1 TTT-TT-TTTTTCTTTCTCT-TCTTT
8009601 T
1 T
8009602 CCCTTCTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
24 14 0.33
25 24 0.56
26 5 0.12
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTTCTTTCTCTTCTTT
Found at i:8012459 original size:30 final size:30
Alignment explanation
Indices: 8012425--8012489 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
8012415 AGGGCCTCCA
*
8012425 GCTCCACCACCTCCAAGGCCTGGAATGCCT
1 GCTCCACCACCACCAAGGCCTGGAATGCCT
* *
8012455 GCTCCACCTCCACCACGGCCTGGAATGCCT
1 GCTCCACCACCACCAAGGCCTGGAATGCCT
*
8012485 CCTCC
1 GCTCC
8012490 GCCTGGTGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.17, C:0.48, G:0.18, T:0.17
Consensus pattern (30 bp):
GCTCCACCACCACCAAGGCCTGGAATGCCT
Found at i:8018759 original size:29 final size:26
Alignment explanation
Indices: 8018722--8018776 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 26
8018712 AATGAATAAA
*
8018722 TTTATAATTTAAATATCATATTAAAAATT
1 TTTAAAATTTAAATA--AT-TTAAAAATT
8018751 TTTAAAATTTAAATAATTTAAAAATT
1 TTTAAAATTTAAATAATTTAAAAATT
8018777 ATTCATGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 9 0.36
27 2 0.08
29 14 0.56
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTAAAATTTAAATAATTTAAAAATT
Found at i:8023776 original size:12 final size:12
Alignment explanation
Indices: 8023754--8023830 Score: 72
Period size: 12 Copynumber: 6.4 Consensus size: 12
8023744 AAATATTATT
8023754 TAAAATATAAATA
1 TAAAAT-TAAATA
8023767 TAAAATTAAATA
1 TAAAATTAAATA
*
8023779 TATATAA-AAATATA
1 TA-A-AATTAA-ATA
8023793 TAAAATTAAATA
1 TAAAATTAAATA
8023805 TAAAATTAAA-A
1 TAAAATTAAATA
*
8023816 -AAAA-TAAATT
1 TAAAATTAAATA
8023826 TAAAA
1 TAAAA
8023831 AATAATTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
9 4 0.07
10 4 0.07
11 5 0.09
12 23 0.42
13 12 0.22
14 7 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:8023807 original size:22 final size:21
Alignment explanation
Indices: 8023756--8023831 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 21
8023746 ATATTATTTA
* *
8023756 AAATATAAATATAAAATTAAAT
1 AAATATAAAAATAAAA-AAAAT
* * *
8023778 ATATATAAAAATATATAAAATT
1 AAATATAAAAATA-AAAAAAAT
*
8023800 AAATATAAAATTAAAAAAAAT
1 AAATATAAAAATAAAAAAAAT
*
8023821 AAATTTAAAAA
1 AAATATAAAAA
8023832 ATAATTTTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
21 15 0.36
22 25 0.60
23 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATATAAAAATAAAAAAAAT
Found at i:8023818 original size:21 final size:22
Alignment explanation
Indices: 8023754--8023835 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 22
8023744 AAATATTATT
*
8023754 TAAA-ATATAAATATAAAATTAAA
1 TAAATATAAAAATATAAAA--AAA
* * *
8023777 TATATATAAAAATATATAAAAT
1 TAAATATAAAAATATAAAAAAA
*
8023799 TAAATATAAAATTA-AAAAAAA
1 TAAATATAAAAATATAAAAAAA
*
8023820 TAAATTTAAAAA-ATAA
1 TAAATATAAAAATATAA
8023836 TTTTTTTATA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
20 1 0.02
21 17 0.36
22 14 0.30
23 3 0.06
24 12 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATATAAAAATATAAAAAAA
Found at i:8023824 original size:26 final size:26
Alignment explanation
Indices: 8023766--8023829 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
8023756 AAATATAAAT
* *
8023766 ATAAAATTAAATATATATAAAAATAT
1 ATAAAATTAAATATAAATAAAAATAA
8023792 ATAAAATTAAATATAAAATTAAAAA-AA
1 ATAAAATTAAATAT-AAA-TAAAAATAA
*
8023819 ATAAATTTAAA
1 ATAAAATTAAA
8023830 AAATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.42
27 13 0.39
28 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
ATAAAATTAAATATAAATAAAAATAA
Found at i:8024712 original size:16 final size:15
Alignment explanation
Indices: 8024693--8024821 Score: 68
Period size: 16 Copynumber: 8.2 Consensus size: 15
8024683 TCTTTTGTAT
8024693 TTTATGTATTTTATTA
1 TTTAT-TATTTTATTA
8024709 TTTATTATTATTATTA
1 TTTATTATT-TTATTA
* * *
8024725 TGTATTAATATATATA
1 TTTATTATTTTAT-TA
*
8024741 TTTATTTTTTTTATTA
1 TTTA-TTATTTTATTA
* *
8024757 TTAGATTAGATTTA-TA
1 TT-TATTA-TTTTATTA
* *
8024773 TGTA-TATAGTTATATA
1 TTTATTAT-TTTAT-TA
8024789 TTTATTA--TTATTA
1 TTTATTATTTTATTA
8024802 TATTATTATTATTATTA
1 T-TTATTATT-TTATTA
8024819 TTT
1 TTT
8024822 TTGTTTTTGT
Statistics
Matches: 85, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
13 3 0.04
14 15 0.18
15 8 0.09
16 39 0.46
17 20 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TTTATTATTTTATTA
Found at i:8024716 original size:3 final size:3
Alignment explanation
Indices: 8024690--8024820 Score: 69
Period size: 3 Copynumber: 42.3 Consensus size: 3
8024680 GTTTCTTTTG
*
8024690 TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT TAT GTAT TAA TA-
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
8024735 TAT ATATT TAT TTT TTT TAT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T
8024783 TAT ATATT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT T
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8024821 TTTGTTTTTG
Statistics
Matches: 103, Mismatches: 9, Indels: 32
0.72 0.06 0.22
Matches are distributed among these distances:
2 11 0.11
3 64 0.62
4 25 0.24
5 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8024753 original size:48 final size:50
Alignment explanation
Indices: 8024694--8024820 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 50
8024684 CTTTTGTATT
8024694 TTATGTATTTTATTATTTATTATTATTATTATGTAT-TAATATATATATTTA
1 TTAT-TATTTTATTATTTATTATTATTATTATGTATATAAT-TATATATTTA
* * *
8024745 TT-TT-TTTTATTATTAGATTA-GATT-TATATGTATATAGTTATATATTTA
1 TTATTATTTTATTATT-TATTATTATTAT-TATGTATATAATTATATATTTA
*
8024793 TTATTATTATATTA-TTATTATTATTATT
1 TTATTATTTTATTATTTATTATTATTATT
8024821 TTTGTTTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
47 1 0.02
48 36 0.57
49 15 0.24
50 9 0.14
51 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (50 bp):
TTATTATTTTATTATTTATTATTATTATTATGTATATAATTATATATTTA
Found at i:8025839 original size:10 final size:10
Alignment explanation
Indices: 8025820--8025877 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
8025810 TAATATTCTT
*
8025820 TTTATCTTTA
1 TTTATTTTTA
8025830 TTTATTTTTA
1 TTTATTTTTA
*
8025840 TTTTTGTTTTA
1 TTTAT-TTTTA
*
8025851 CTTT-TCTTTA
1 -TTTATTTTTA
8025861 TTTATTTTTA
1 TTTATTTTTA
8025871 TTTATTT
1 TTTATTT
8025878 ATTTTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 3 0.07
10 29 0.71
11 6 0.15
12 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:8026000 original size:66 final size:65
Alignment explanation
Indices: 8025891--8026145 Score: 225
Period size: 59 Copynumber: 4.1 Consensus size: 65
8025881 TTATTATTCT
*
8025891 ATTTTCTTTAAATAAAAATAAAAAATTCCAAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATC
1 ATTTTCTTTAAAAAAAAATAAAAAATTCCAAAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATC
8025955 A
65 A
* *
8025956 ATTTTC-TTAAAAAAATAATAAATAAATTTTC-AAAGAAATATTTTTGGGAAAAAGTTGAAAGTA
1 ATTTTCTTTAAAAAAA-AATAAA-AAA-TTCCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTA
8026019 TCA
63 TCA
* * * * *
8026022 ATTTTCCTT----AGAAAT--AAATTTTCAAAAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATC
1 ATTTTCTTTAAAAAAAAATAAAAAATTCCAAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATC
8026080 A
65 A
* * * * * * *
8026081 ATTTTCCTT----GAAAATCAAAATTTTCAAAAAATATTTTTTTGGG-AAAAGTTGAAAGTATCA
1 ATTTTCTTTAAAAAAAAATAAAAAATTCCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCA
8026141 ATTTT
1 ATTTT
8026146 TCCTACACAA
Statistics
Matches: 169, Mismatches: 12, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
58 4 0.02
59 45 0.27
60 27 0.16
61 21 0.12
62 3 0.02
63 2 0.01
64 8 0.05
65 15 0.09
66 39 0.23
67 5 0.03
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (65 bp):
ATTTTCTTTAAAAAAAAATAAAAAATTCCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCA
Found at i:8026068 original size:59 final size:58
Alignment explanation
Indices: 8025975--8026145 Score: 247
Period size: 59 Copynumber: 2.9 Consensus size: 58
8025965 AAAAAATAAT
*
8025975 AAATAAATTTTC-AAAGAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-A
1 AAATAAATTTTCAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTGA
*
8026032 GAAATAAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 -AAATAAATTTTCAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGA
* *
8026092 AAATCAAAATTTTCAAAAAATATTTTTTTGGGAAAAGTTGAAAGTATCAATTTT
1 AAAT--AAATTTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT
8026146 TCCTACACAA
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
58 12 0.12
59 43 0.42
60 27 0.26
61 21 0.20
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (58 bp):
AAATAAATTTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
Found at i:8026199 original size:13 final size:13
Alignment explanation
Indices: 8026183--8026208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8026173 CATTCCTTTC
8026183 TATTTTGATTTTT
1 TATTTTGATTTTT
8026196 TATTTTGATTTTT
1 TATTTTGATTTTT
8026209 CTTTGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TATTTTGATTTTT
Found at i:8030004 original size:11 final size:12
Alignment explanation
Indices: 8029996--8030037 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
8029986 GATGAAAAAT
*
8029996 GAAAAAAAAGAT
1 GAAAAAAAAGAA
8030008 GAAAAAAAAGAA
1 GAAAAAAAAGAA
8030020 GAAAAAAAA-AA
1 GAAAAAAAAGAA
8030031 GAAAAAA
1 GAAAAAA
8030038 GAAAAATGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
GAAAAAAAAGAA
Found at i:8030011 original size:12 final size:11
Alignment explanation
Indices: 8029990--8030042 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 11
8029980 ACAATGGATG
*
8029990 AAAAATGAAAA
1 AAAAAAGAAAA
*
8030001 AAAAGATGAAAA
1 AAAA-AAGAAAA
8030013 AAAAGAAGAAAA
1 AAAA-AAGAAAA
8030025 AAAAAAGAAAA
1 AAAAAAGAAAA
8030036 AAGAAAA
1 AA-AAAA
8030043 ATGAGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
11 13 0.33
12 26 0.67
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:8030016 original size:14 final size:13
Alignment explanation
Indices: 8029997--8030058 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 13
8029987 ATGAAAAATG
8029997 AAAAAAAAGATGAA
1 AAAAAAAAGA-GAA
*
8030011 AAAAAAGA-AGAA
1 AAAAAAAAGAGAA
8030023 AAAAAAAAGA-AA
1 AAAAAAAAGAGAA
8030035 AAAGAAAAATGAGAA
1 AAA-AAAAA-GAGAA
8030050 AATAAAAAA
1 AA-AAAAAA
8030059 ATGATATTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
12 15 0.37
13 7 0.17
14 9 0.22
15 9 0.22
16 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:8030024 original size:21 final size:21
Alignment explanation
Indices: 8029991--8030056 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
8029981 CAATGGATGA
*
8029991 AAAATGAAAAAAAAGATGAAAA-
1 AAAA-GAAGAAAAAGA-GAAAAG
8030013 AAAAGAAGAAAAA-A-AAAAG
1 AAAAGAAGAAAAAGAGAAAAG
*
8030032 AAAA-AAGAAAAATGAGAAAAT
1 AAAAGAAGAAAAA-GAGAAAAG
8030053 AAAA
1 AAAA
8030057 AAATGATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 12 0.32
19 4 0.11
20 2 0.05
21 16 0.42
22 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (21 bp):
AAAAGAAGAAAAAGAGAAAAG
Found at i:8030049 original size:16 final size:16
Alignment explanation
Indices: 8030030--8030062 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8030020 GAAAAAAAAA
8030030 AGAAAA-AAGAAAAATG
1 AGAAAATAA-AAAAATG
8030046 AGAAAATAAAAAAATG
1 AGAAAATAAAAAAATG
8030062 A
1 A
8030063 TATTCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (16 bp):
AGAAAATAAAAAAATG
Found at i:8030057 original size:21 final size:20
Alignment explanation
Indices: 8029987--8030058 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 20
8029977 TCAACAATGG
* *
8029987 ATGAAAAATGAAAAA-AAAG
1 ATGAAAAATAAAAAAGAAAA
*
8030006 ATGAAAAA-AAAGAAGAAAA
1 ATGAAAAATAAAAAAGAAAA
*
8030025 A--AAAAAGAAAAAAGAAAA
1 ATGAAAAATAAAAAAGAAAA
8030043 ATGAGAAAATAAAAAA
1 ATGA-AAAATAAAAAA
8030059 ATGATATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 5 0.12
18 15 0.35
19 12 0.28
20 1 0.02
21 10 0.23
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (20 bp):
ATGAAAAATAAAAAAGAAAA
Found at i:8031346 original size:39 final size:39
Alignment explanation
Indices: 8031292--8031401 Score: 168
Period size: 39 Copynumber: 2.7 Consensus size: 39
8031282 GTCTAGGAGT
8031292 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAGTTCGTTGCCTCTGTTTAGAGGAGCA
8031332 ATTTACTTTTCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8031371 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTT
1 ATTTACTTTTC-AAGTTCGT--TGCCTCTGTT
8031402 CGTTGCCTCT
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
39 43 0.65
40 13 0.20
41 10 0.15
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (39 bp):
ATTTACTTTTCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:8031427 original size:54 final size:54
Alignment explanation
Indices: 8031345--8031452 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
8031335 TACTTTTCAA
8031345 GTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCT
1 GTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCT
*
8031399 GTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT
1 GTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCT
8031453 ATTTAGAAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (54 bp):
GTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCT
Found at i:8031465 original size:41 final size:41
Alignment explanation
Indices: 8031405--8031711 Score: 447
Period size: 41 Copynumber: 7.5 Consensus size: 41
8031395 CTCTGTTCGT
8031405 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* * * *
8031446 TGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAGTTC-TGT
1 TGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAG-TCGTGG
* *
8031488 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCATGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
** *
8031529 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTTTTGT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
8031569 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* *
8031611 TGCCTCTGTTTAGAGGAGTAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
8031652 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
8031693 AGCCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
8031712 TTTGGTCAAA
Statistics
Matches: 238, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
40 38 0.16
41 128 0.54
42 70 0.29
43 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:8031542 original size:83 final size:81
Alignment explanation
Indices: 8031399--8031711 Score: 441
Period size: 83 Copynumber: 3.8 Consensus size: 81
8031389 TGGTGCCTCT
* * *
8031399 GTTC-GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAAGA
1 GTTCTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
8031463 GCAATTTATTTTTTCAAA
66 GCAATTTA--TTTTCAAA
*
8031481 GTTCTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGA
1 GTTCTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
*
8031546 GCAATTTACTTTCAAA
66 GCAATTTATTTTCAAA
* *
8031562 GTTTTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGG
1 GTTCTGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGG
* *
8031627 AGTAATTTACTTTCCAAA
65 AGCAATTTA-TTTTCAAA
* * * * *
8031645 G-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGG
1 GTTC-TGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGG
8031709 AGC
65 AGC
8031712 TTTGGTCAAA
Statistics
Matches: 208, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
81 39 0.19
82 71 0.34
83 98 0.47
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (81 bp):
GTTCTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
GCAATTTATTTTCAAA
Found at i:8031960 original size:9 final size:10
Alignment explanation
Indices: 8031946--8031989 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
8031936 CTGTTTCTTT
8031946 TGTATT-TTA
1 TGTATTATTA
8031955 TGTATT-TTA
1 TGTATTATTA
8031964 T-TATTTATTA
1 TGTA-TTATTA
8031974 T-TATTATTA
1 TGTATTATTA
8031983 TGTATTA
1 TGTATTA
8031990 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 2 0.06
9 19 0.59
10 11 0.34
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (10 bp):
TGTATTATTA
Found at i:8031970 original size:16 final size:15
Alignment explanation
Indices: 8031951--8032016 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
8031941 TCTTTTGTAT
8031951 TTTATGTATTTTATTA
1 TTTAT-TATTTTATTA
8031967 TTTATTATTATTATTA
1 TTTATTATT-TTATTA
* * *
8031983 TGTATTAATATATATA
1 TTTATTATTTTAT-TA
*
8031999 TTTATTTTTTTTATTA
1 TTTA-TTATTTTATTA
8032015 TT
1 TT
8032017 AGATTAGATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 7 0.17
16 27 0.68
17 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTATTATTTTATTA
Found at i:8032037 original size:38 final size:39
Alignment explanation
Indices: 8031946--8032066 Score: 112
Period size: 38 Copynumber: 3.2 Consensus size: 39
8031936 CTGTTTCTTT
8031946 TGTATTT-TATGTAT-TTTATTATTTATTATTATTATTA
1 TGTATTTATATGTATATTTATTATTTATTATTATTATTA
* * *
8031983 TGTATTAATATATATATTTATT-TTTTTTATTATTAGATTA
1 TGTATTTATATGTATATTTATTATTTATTATTATT--ATTA
*
8032023 -G-ATTTATATGTATATAGCTATATATTTATTATTA-TATTA
1 TGTATTTATATGTATAT--TTAT-TATTTATTATTATTATTA
8032062 T-TATT
1 TGTATT
8032067 ATTATTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
37 6 0.09
38 29 0.43
39 11 0.16
40 10 0.15
41 2 0.03
42 9 0.13
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (39 bp):
TGTATTTATATGTATATTTATTATTTATTATTATTATTA
Found at i:8032596 original size:19 final size:19
Alignment explanation
Indices: 8032574--8032620 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
8032564 AATTTCTAGA
8032574 TTCCGACGAAAATTGAAGT
1 TTCCGACGAAAATTGAAGT
*
8032593 TTCCGACGAACATTGAAGT
1 TTCCGACGAAAATTGAAGT
8032612 TTCCGACGA
1 TTCCGACGA
8032621 CCTGCCCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (19 bp):
TTCCGACGAAAATTGAAGT
Found at i:8033086 original size:22 final size:21
Alignment explanation
Indices: 8033061--8033140 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
8033051 TTAGATTAGG
8033061 TTTATTTAATATTTTTTTTAT
1 TTTATTTAATATTTTTTTTAT
* * *
8033082 CTTTATTTTATTTTTATTTTTGT
1 -TTTATTTAATATTT-TTTTTAT
*
8033105 TTTACTTTATTTATTTTTATTTAT
1 TTTA-TTTA-ATATTTTT-TTTAT
*
8033129 TTT-TTTATTATT
1 TTTATTTAATATT
8033141 CTATTTTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 5 0.11
22 20 0.43
23 11 0.23
24 11 0.23
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTATTTAATATTTTTTTTAT
Found at i:8033092 original size:11 final size:11
Alignment explanation
Indices: 8033061--8033131 Score: 51
Period size: 11 Copynumber: 6.7 Consensus size: 11
8033051 TTAGATTAGG
*
8033061 TTTATTTAATA
1 TTTATTTTATA
* *
8033072 TTTTTTTTATC
1 TTTATTTTATA
*
8033083 TTTATTTTATT
1 TTTATTTTATA
*
8033094 TTTATTTT-TG
1 TTTATTTTATA
*
8033104 TTT-TACTT-TA
1 TTTAT-TTTATA
8033114 TTTATTTT-TA
1 TTTATTTTATA
8033124 TTTATTTT
1 TTTATTTT
8033132 TTTATTATTC
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
9 1 0.02
10 22 0.45
11 26 0.53
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:8033096 original size:6 final size:6
Alignment explanation
Indices: 8033075--8033147 Score: 53
Period size: 6 Copynumber: 11.7 Consensus size: 6
8033065 TTTAATATTT
* *
8033075 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTATTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --TT-TTTA TTTTTA
8033124 TTTATT- TTTTTA TTATTCTA TTTT
1 TTT-TTA TTTTTA TT-TT-TA TTTT
8033148 CTTTAAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
5 10 0.19
6 27 0.50
7 8 0.15
8 5 0.09
9 4 0.07
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:8033117 original size:26 final size:25
Alignment explanation
Indices: 8033072--8033133 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 25
8033062 TTATTTAATA
8033072 TTTTTTTTATCTTTATTTTATTTTTAT
1 TTTTTTTTA-CTTTA-TTTATTTTTAT
8033099 TTTTGTTTTACTTTATTTATTTTTAT
1 TTTT-TTTTACTTTATTTATTTTTAT
8033125 TTATTTTTT
1 TT-TTTTTT
8033134 TATTATTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
26 17 0.52
27 11 0.33
28 5 0.15
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTTTTTACTTTATTTATTTTTAT
Found at i:8033145 original size:26 final size:25
Alignment explanation
Indices: 8033088--8033147 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 25
8033078 TTATCTTTAT
8033088 TTTATTTTTATTTTTGTTTTACTTTA
1 TTTATTTTTATTTTTGTTTTAC-TTA
*
8033114 TTTATTTTTATTTATTTTTTTA-TTA
1 TTTATTTTTATTT-TTGTTTTACTTA
8033139 TTCTATTTT
1 TT-TATTTT
8033148 CTTTAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 5 0.16
26 19 0.61
27 7 0.23
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTATTTTTATTTTTGTTTTACTTA
Found at i:8033372 original size:59 final size:57
Alignment explanation
Indices: 8033229--8033399 Score: 263
Period size: 58 Copynumber: 2.9 Consensus size: 57
8033219 AAAAATAAAT
*
8033229 AAATAAATTTTCAAAGAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAATAAATTTTCAAA-AAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
* *
8033287 AAATAAATTTTCAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTT-G
1 AAATAAATTTTCAAAAAATAT-TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
8033344 AAAATCGAAATTTTCAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
1 -AAAT--AAATTTTCAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
8033400 CTACACAAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
57 6 0.06
58 51 0.49
59 31 0.30
60 16 0.15
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (57 bp):
AAATAAATTTTCAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
Found at i:8033451 original size:13 final size:13
Alignment explanation
Indices: 8033435--8033460 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8033425 CATTCCTTTC
8033435 TATTTTGATTTTT
1 TATTTTGATTTTT
8033448 TATTTTGATTTTT
1 TATTTTGATTTTT
8033461 CTTTGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TATTTTGATTTTT
Found at i:8038163 original size:16 final size:16
Alignment explanation
Indices: 8038142--8038174 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8038132 TATATAAAAC
8038142 TTTTAATT-TTATATTT
1 TTTTAATTATTA-ATTT
8038158 TTTTAATTATTAATTT
1 TTTTAATTATTAATTT
8038174 T
1 T
8038175 AATAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTAATTATTAATTT
Found at i:8038319 original size:2 final size:2
Alignment explanation
Indices: 8038312--8038336 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8038302 TTGTTGCATA
8038312 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8038337 AATACATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8057241 original size:2 final size:2
Alignment explanation
Indices: 8057234--8057327 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
8057224 TTTATTTTTA
8057234 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8057276 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8057318 TC TC TC TC TC
1 TC TC TC TC TC
8057328 ACTCAATAGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8058161 original size:21 final size:21
Alignment explanation
Indices: 8058128--8058174 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
8058118 ATAAATATGC
*
8058128 AATATATTCAAAAAT-CAAATA
1 AATAAATTCAAAAATACAAA-A
* *
8058149 AATAAATTTAAAAGTACAAAA
1 AATAAATTCAAAAATACAAAA
8058170 AATAA
1 AATAA
8058175 TATCATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAAATTCAAAAATACAAAA
Found at i:8058404 original size:18 final size:18
Alignment explanation
Indices: 8058377--8058411 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8058367 TTTGAAAAAA
*
8058377 TAAAATATAAAAAAATTT
1 TAAAAGATAAAAAAATTT
*
8058395 TAAAAGATAAAGAAATT
1 TAAAAGATAAAAAAATT
8058412 CAATTTTTAA
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:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
TAAAAGATAAAAAAATTT
Done.