Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 197 of 345
Found at i:56181577 original size:16 final size:16
Alignment explanation
Indices: 56181556--56181589 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
56181546 TAATAATTTT
56181556 TTTGAA-AATAATAAAA
1 TTTGAATAATAA-AAAA
56181572 TTTGAATAATAAAAAA
1 TTTGAATAATAAAAAA
56181588 TT
1 TT
56181590 AATCAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TTTGAATAATAAAAAA
Found at i:56184419 original size:17 final size:17
Alignment explanation
Indices: 56184397--56184430 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56184387 AGGTGGATGG
56184397 GTTAATTGAGCTCCTTT
1 GTTAATTGAGCTCCTTT
56184414 GTTAATTGAGCTCCTTT
1 GTTAATTGAGCTCCTTT
56184431 CAAAGGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (17 bp):
GTTAATTGAGCTCCTTT
Found at i:56185685 original size:12 final size:11
Alignment explanation
Indices: 56185657--56185690 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
56185647 AAATATTATG
56185657 AAATAAAAAAA
1 AAATAAAAAAA
56185668 AAATAAAAATAA
1 AAATAAAAA-AA
*
56185680 ACATAAAAAAA
1 AAATAAAAAAA
56185691 CACCATCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (11 bp):
AAATAAAAAAA
Found at i:56187592 original size:46 final size:46
Alignment explanation
Indices: 56187496--56187666 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
56187486 GGGGTCAGGT
* * * *
56187496 GCCGATGTCATGTCCCAGACATGGTCTTACACT-GATACATCTCGCA
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTACGTCTCG-A
56187542 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGA
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGC-TACGTCTCGA
* * * *
56187587 GGCCGATG-CATGTACCAAACAT-GTCTTACACTAGAACT-CGTCGT-AA
1 -GCCGATGCCATGTCCCAGACATAGTCTTACACT-G-GCTACGTC-TCGA
56187633 TGCCGATGCCATGTCCCAGACATAGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATAGTCTTACACT
56187667 AGCTCACAAT
Statistics
Matches: 108, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
44 10 0.09
45 16 0.15
46 56 0.52
47 15 0.14
48 11 0.10
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTACGTCTCGA
Found at i:56199703 original size:51 final size:51
Alignment explanation
Indices: 56199632--56199839 Score: 337
Period size: 51 Copynumber: 4.1 Consensus size: 51
56199622 ATCACATTTA
56199632 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * * *
56199683 TCACTTGTCACTGATTAGATAAGTGTAGCTAAA-CTACCACTTATTATTTA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
56199733 TCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * *
56199784 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
56199835 TCACT
1 TCACT
56199840 GATCAGAAGT
Statistics
Matches: 143, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 45 0.31
51 98 0.69
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:56199732 original size:101 final size:102
Alignment explanation
Indices: 56199627--56199828 Score: 352
Period size: 101 Copynumber: 2.0 Consensus size: 102
56199617 CACTGATCAC
* *
56199627 ATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTC
1 ATTTATCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
*
56199692 ACTGATTAGATAAGTGTAGCT-AAACTACCACTTATT
66 ACTGATCAGATAAGTGTAGCTGAAACTACCACTTATT
56199728 ATTTATCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
1 ATTTATCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
**
56199793 ACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
66 ACTGATCAGATAAGTGTAGCTGAAACTACCACTTAT
56199829 CACTTGTCAC
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 83 0.87
102 12 0.13
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (102 bp):
ATTTATCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
ACTGATCAGATAAGTGTAGCTGAAACTACCACTTATT
Found at i:56204904 original size:2 final size:2
Alignment explanation
Indices: 56204897--56204934 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
56204887 AAAATGTACA
56204897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56204935 TGGAGATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56205544 original size:30 final size:30
Alignment explanation
Indices: 56205504--56205566 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
56205494 ACTTAACAAG
*
56205504 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
*
56205534 CAAATTTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
56205564 CAA
1 CAA
56205567 CAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.32
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:56205651 original size:22 final size:21
Alignment explanation
Indices: 56205595--56205651 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
56205585 ATATCCAAAC
* *
56205595 AATAACAACAAAATAGTAGTAA
1 AATAA-AAGAAAATAGTAGCAA
* *
56205617 CATAATAGTAAAATAGTAGCAA
1 AATAAAAG-AAAATAGTAGCAA
56205639 AATAAGAAGAAAA
1 AATAA-AAGAAAA
56205652 CAATAAGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.18
Consensus pattern (21 bp):
AATAAAAGAAAATAGTAGCAA
Found at i:56208916 original size:24 final size:26
Alignment explanation
Indices: 56208888--56208953 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 26
56208878 AAAACCAAAC
*
56208888 AAAGCCTTTGTGGCGAATA-T-TC-GT
1 AAAGCCTTTGTGGCGAA-ACTCTCTAT
56208912 AAAGCCTTTGTGGC-AAACTCTCTAT
1 AAAGCCTTTGTGGCGAAACTCTCTAT
56208937 AAAGCCTTTGTGGCGAA
1 AAAGCCTTTGTGGCGAA
56208954 CTTTTTGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 1 0.03
23 3 0.08
24 16 0.43
25 15 0.41
26 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGAAACTCTCTAT
Found at i:56208964 original size:25 final size:25
Alignment explanation
Indices: 56208888--56208969 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
56208878 AAAACCAAAC
*
56208888 AAAGCCTTTGTGGCGAA-TATTCGT
1 AAAGCCTTTGTGGCGAACTATTTGT
* * * *
56208912 AAAGCCTTTGTGGCAAACTCTCTAT
1 AAAGCCTTTGTGGCGAACTATTTGT
*
56208937 AAAGCCTTTGTGGCGAACTTTTTGT
1 AAAGCCTTTGTGGCGAACTATTTGT
*
56208962 AAAACCTT
1 AAAGCCTT
56208970 CTTGGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 16 0.34
25 31 0.66
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (25 bp):
AAAGCCTTTGTGGCGAACTATTTGT
Found at i:56210665 original size:38 final size:38
Alignment explanation
Indices: 56210613--56210706 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 38
56210603 CCTGCGAAAC
*
56210613 TTTAAGCCCGGATATAGTACCAGCACTAAGCCTGCGGGA
1 TTTAA-CCCGGATATAGTACCAGCACGAAGCCTGCGGGA
*
56210652 TTTAACCCGGATATATATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGG--ATATAGTACCAGCACGAAGCCTGCGGGA
56210692 TTTAACCCGGATATA
1 TTTAACCCGGATATA
56210707 TAATATATCA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
38 10 0.20
39 5 0.10
40 36 0.71
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (38 bp):
TTTAACCCGGATATAGTACCAGCACGAAGCCTGCGGGA
Found at i:56210707 original size:40 final size:40
Alignment explanation
Indices: 56210624--56210708 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
56210614 TTAAGCCCGG
*
56210624 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
1 ATATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
56210664 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
56210704 ATATA
1 ATATA
56210709 ATATATCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
ATATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:56211525 original size:2 final size:2
Alignment explanation
Indices: 56211518--56211558 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
56211508 AAGCCGATTG
56211518 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA -A 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
56211559 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:56211563 original size:2 final size:2
Alignment explanation
Indices: 56211558--56211584 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56211548 CACAACACAC
56211558 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
56211585 CACGTAATTG
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:56213416 original size:15 final size:15
Alignment explanation
Indices: 56213398--56213435 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
56213388 TGGAATCCTG
56213398 TTTAGATTAATCAGA
1 TTTAGATTAATCAGA
*
56213413 TTTAGA-AAATCAGA
1 TTTAGATTAATCAGA
*
56213427 TTTACATTA
1 TTTAGATTA
56213436 TATATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (15 bp):
TTTAGATTAATCAGA
Found at i:56216370 original size:21 final size:21
Alignment explanation
Indices: 56216344--56216384 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56216334 AAATTGCATT
56216344 AAAAAAT-GAATAGAAATAAAA
1 AAAAAATCGAATA-AAATAAAA
*
56216365 AAAAAATCGCATAAAATAAA
1 AAAAAATCGAATAAAATAAA
56216385 GTTTTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAAAATCGAATAAAATAAAA
Found at i:56224910 original size:19 final size:20
Alignment explanation
Indices: 56224872--56224915 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
56224862 ACATAATTAT
*
56224872 AATAATATAATTAGAATAAA
1 AATAATATAATCAGAATAAA
*
56224892 AATAATTTAATCA-AATAAA
1 AATAATATAATCAGAATAAA
56224911 AATAA
1 AATAA
56224916 ATTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AATAATATAATCAGAATAAA
Found at i:56229801 original size:43 final size:45
Alignment explanation
Indices: 56229721--56229849 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 45
56229711 GTCTGAACTC
* * ** *
56229721 ATTCACCGGAATT-TCGCCTGCTAGGCTTGAAGGCCGATATCA-T
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATT
56229764 -TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAT-ATCATT
* * * *
56229808 ATTCACCAGC-TTAAAGCTTGCTAGG-CCGAGGCCCGAATATCA
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
56229850 CATTTTGATA
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
42 11 0.15
43 33 0.46
44 19 0.27
45 8 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (45 bp):
ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATT
Found at i:56231750 original size:14 final size:15
Alignment explanation
Indices: 56231721--56231750 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56231711 AAAAATTTAG
56231721 ACATGATACTTTCAC
1 ACATGATACTTTCAC
56231736 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
56231750 A
1 A
56231751 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:56234693 original size:40 final size:41
Alignment explanation
Indices: 56234648--56234758 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 41
56234638 CTGGAAATTA
* *
56234648 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATAC
*
56234689 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
56234728 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
56234759 ACGTGTTATA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 58 0.91
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
Found at i:56242677 original size:124 final size:124
Alignment explanation
Indices: 56242455--56242679 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
56242445 GAATTATGTG
* * ** * * *
56242455 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
56242520 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
* *
56242579 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
56242644 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
56242680 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:56242801 original size:40 final size:40
Alignment explanation
Indices: 56242674--56242803 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56242664 ATGCTGGAAA
* *
56242674 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
56242714 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
56242754 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
56242794 TTATATCCGG
1 TTATATCCGG
56242804 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:56242802 original size:80 final size:80
Alignment explanation
Indices: 56242636--56242803 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
56242626 CAATTGAATG
* * *
56242636 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
56242701 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
56242716 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
56242780 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
56242796 ATATCCGG
1 ATATCCGG
56242804 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:56246105 original size:6 final size:6
Alignment explanation
Indices: 56246076--56246137 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
56246066 AAAGAAAGTG
* * * * * *
56246076 AGAAAA ATAAAA ATGAAAT TGAAAA AGAAAG TGAAAA AGAAAA AGAGAA
1 AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
*
56246125 GGAAAA AGAAAA A
1 AGAAAA AGAAAA A
56246138 AAGATCGAGA
Statistics
Matches: 41, Mismatches: 14, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
6 38 0.93
7 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (6 bp):
AGAAAA
Found at i:56246105 original size:12 final size:12
Alignment explanation
Indices: 56246064--56246117 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
56246054 GAAACAAAGC
56246064 AAAAAGAAAGTG
1 AAAAAGAAAGTG
*
56246076 -AGAA-AAA-T-
1 AAAAAGAAAGTG
*
56246084 AAAAATGAAATTG
1 AAAAA-GAAAGTG
56246097 AAAAAGAAAGTG
1 AAAAAGAAAGTG
56246109 AAAAAGAAA
1 AAAAAGAAA
56246118 AAGAGAAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
9 4 0.12
10 3 0.09
11 6 0.18
12 16 0.47
13 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (12 bp):
AAAAAGAAAGTG
Found at i:56246129 original size:18 final size:18
Alignment explanation
Indices: 56246038--56246189 Score: 84
Period size: 18 Copynumber: 8.4 Consensus size: 18
56246028 AAAAAGCAAT
**
56246038 AAAAGAAAAAGAGTGTGAA
1 AAAAGAAAAAGAAAGTG-A
56246057 ACAAAGCAAAAAGAAAGTGA
1 A-AAAG-AAAAAGAAAGTGA
* *
56246077 GAAA-AATAA-AAA-TGA
1 AAAAGAAAAAGAAAGTGA
**
56246092 AATTGAAAAAGAAAGTGA
1 AAAAGAAAAAGAAAGTGA
56246110 AAAAGAAAAAGAGAAG-GA
1 AAAAGAAAAAGA-AAGTGA
56246128 AAAAG-AAAA-AAAGATCGA
1 AAAAGAAAAAGAAAG-T-GA
* ** *
56246146 GAGTGAAAAAGAATGTG-
1 AAAAGAAAAAGAAAGTGA
* *
56246163 AGAAGAAAAAGAAAATTGA
1 AAAAGAAAAAG-AAAGTGA
56246182 AAAAGAAA
1 AAAAGAAA
56246190 TTGAGTCTAA
Statistics
Matches: 99, Mismatches: 21, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
15 7 0.07
16 8 0.08
17 18 0.18
18 29 0.29
19 19 0.19
20 8 0.08
21 10 0.10
ACGTcount: A:0.66, C:0.02, G:0.22, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGAAAGTGA
Found at i:56248015 original size:28 final size:27
Alignment explanation
Indices: 56247952--56248021 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
56247942 ATAGTGAGTC
56247952 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
56247979 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
56248007 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56248022 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56255935 original size:28 final size:27
Alignment explanation
Indices: 56255872--56255941 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
56255862 ATAGTGAGTC
56255872 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
56255899 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
56255927 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56255942 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56262624 original size:14 final size:14
Alignment explanation
Indices: 56262605--56262647 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 14
56262595 CCCATCTTAA
56262605 ACACATAGTAGCCT
1 ACACATAGTAGCCT
56262619 ACAC--A-TAGCCT
1 ACACATAGTAGCCT
56262630 ACACATAGTA--CT
1 ACACATAGTAGCCT
56262642 ACACAT
1 ACACAT
56262648 GTGTTCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 10 0.38
12 9 0.35
13 1 0.04
14 6 0.23
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (14 bp):
ACACATAGTAGCCT
Found at i:56262629 original size:11 final size:11
Alignment explanation
Indices: 56262613--56262647 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
56262603 AAACACATAG
56262613 TAGCCTACACA
1 TAGCCTACACA
56262624 TAGCCTACACA
1 TAGCCTACACA
*
56262635 TAGTACTACACA
1 TAG-CCTACACA
56262647 T
1 T
56262648 GTGTTCTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.37, C:0.31, G:0.09, T:0.23
Consensus pattern (11 bp):
TAGCCTACACA
Found at i:56263628 original size:15 final size:15
Alignment explanation
Indices: 56263608--56263638 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56263598 ATGTGAGTGA
56263608 ACACATTTTTAAGAT
1 ACACATTTTTAAGAT
56263623 ACACATTTTTAAGAT
1 ACACATTTTTAAGAT
56263638 A
1 A
56263639 ACAAATTAGC
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:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
ACACATTTTTAAGAT
Found at i:56263698 original size:84 final size:84
Alignment explanation
Indices: 56263539--56263703 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 84
56263529 ATGTAAATGA
* * * * *
56263539 ACACATTTTCAAGACAACAAATTAGCCCTTTACAGCAGCACATTAAGCATCTAAAATTAATGTGA
1 ACACATTTTCAAGACAACAAATTAGCACTTTACAACAGCACATTAAGCATCTAAAATGAACGTAA
*
56263604 GTGAACACATTTTTAAGAT
66 ATGAACACATTTTTAAGAT
* * * *
56263623 ACACATTTTTAAGATAACAAATTAGCACTTTACAACATCACATTAAGCAT-TTAAATCGAACGTA
1 ACACATTTTCAAGACAACAAATTAGCACTTTACAACAGCACATTAAGCATCTAAAAT-GAACGTA
*
56263687 AATGAAGACATTTTTAA
65 AATGAACACATTTTTAA
56263704 TATAACAACT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
83 5 0.07
84 64 0.93
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (84 bp):
ACACATTTTCAAGACAACAAATTAGCACTTTACAACAGCACATTAAGCATCTAAAATGAACGTAA
ATGAACACATTTTTAAGAT
Found at i:56274143 original size:28 final size:28
Alignment explanation
Indices: 56274111--56274166 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
56274101 TAATTATAGA
56274111 CCTATAATCACAAGGTCATCACAAAATC
1 CCTATAATCACAAGGTCATCACAAAATC
56274139 CCTATAATCACAAGGTCATCACAAAATC
1 CCTATAATCACAAGGTCATCACAAAATC
56274167 ATTCTCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (28 bp):
CCTATAATCACAAGGTCATCACAAAATC
Found at i:56289791 original size:43 final size:43
Alignment explanation
Indices: 56289730--56289812 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
56289720 ACATGTATCA
*
56289730 CATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCG
56289773 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
56289813 CACATATATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.19
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCG
Found at i:56294939 original size:30 final size:29
Alignment explanation
Indices: 56294854--56294949 Score: 79
Period size: 30 Copynumber: 3.1 Consensus size: 29
56294844 AAAATATATT
*
56294854 TATATGCATGGACTTTATTAT-TATATAATA
1 TATATGCATGG--TTTATTGTATATATAATA
* * *
56294884 TATATACGTGGTTTTTGGTGTTATATATAATA
1 TATATGCATGGTTTAT--TG-TATATATAATA
56294916 TATATGCATGGTTCTATTGTATATAGT-ATA
1 TATATGCATGGTT-TATTGTATATA-TAATA
56294946 TATA
1 TATA
56294950 ATTATGGGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
28 4 0.08
30 23 0.43
31 4 0.08
32 20 0.38
33 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (29 bp):
TATATGCATGGTTTATTGTATATATAATA
Found at i:56295047 original size:2 final size:2
Alignment explanation
Indices: 56295040--56295074 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
56295030 TAGGTACGTG
56295040 TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56295075 GGTTATGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:56308774 original size:21 final size:21
Alignment explanation
Indices: 56308732--56308775 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
56308722 GTAAAGTTTG
**
56308732 TAATTTTACATAATTAGGTGT
1 TAATTTTACATAATTACATGT
* *
56308753 TAATTTTACATCATTTCATGT
1 TAATTTTACATAATTACATGT
56308774 TA
1 TA
56308776 TTATGCTACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (21 bp):
TAATTTTACATAATTACATGT
Found at i:56314133 original size:47 final size:47
Alignment explanation
Indices: 56314064--56314286 Score: 234
Period size: 47 Copynumber: 4.6 Consensus size: 47
56314054 TATAATGCCA
56314064 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCG
* *
56314111 ATGCCATGTACCAAACATGGTCTTACACTGGCTTATCCATTAAGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCG
* * ** * *
56314158 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATTGAAATCGAAGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCA-T-CCAT-TAAGTCG
* * * ** *
56314207 ACGCTATGTCCCAAACATGGTCTTACACTAGCTC-TCACATATCCGTGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATC-CAT-TAAGT--CG
*
56314257 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAAACATGGTCTTACACTG
56314287 ACACATCTCG
Statistics
Matches: 143, Mismatches: 26, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
46 1 0.01
47 76 0.53
48 6 0.04
49 33 0.23
50 27 0.19
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCG
Found at i:56314275 original size:99 final size:96
Alignment explanation
Indices: 56314059--56314288 Score: 261
Period size: 96 Copynumber: 2.4 Consensus size: 96
56314049 TAGGGTATAA
* * ** * * *
56314059 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCGATGCCATGTACCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTCATAAATGAAGCCGACGCCATGTACCA
*
56314124 AACATGGTCTTACACTGGCTTATCCATTAAG
66 AACATGGTCTTACACTAGCTTATCCATTAAG
* * *
56314155 T--CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATTGAAATCGAAGCCGACGCTATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTCA-T-AAAT-GAAGCCGACGCCATGTA
* **
56314217 CCAAACATGGTCTTACACTAGC-TCTCACATATCCG
63 CCAAACATGGTCTTACACTAGCTTATC-CAT-TAAG
56314252 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGAC
56314289 ACATCTCGTA
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
93 1 0.01
94 33 0.29
95 5 0.04
96 37 0.33
97 3 0.03
99 33 0.29
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (96 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTCATAAATGAAGCCGACGCCATGTACCA
AACATGGTCTTACACTAGCTTATCCATTAAG
Found at i:56314327 original size:143 final size:143
Alignment explanation
Indices: 56314069--56314327 Score: 323
Period size: 143 Copynumber: 1.8 Consensus size: 143
56314059 TGCCAATGCC
* *
56314069 ATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCGATGCCATGTACCAAACATGGTCT
1 ATGTCCCAAACATGGTCTTACACTAGCTCATCCATTAAGTCAATGCCATGTACCAAACATGGTCT
* ** *
56314134 TACACTGGCTTATCCATTAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGAAAT
66 TACACTGACACATCCAGTAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGAAAT
56314199 CGAAGCCGACGCT
131 CGAAGCCGACGCT
** * *
56314212 ATGTCCCAAACATGGTCTTACACTAGCTC-TCACATATCCGTGCCAATGCCATGTCCCAGACATG
1 ATGTCCCAAACATGGTCTTACACTAGCTCATC-CAT-TAAGT--CAATGCCATGTACCAAACATG
*
56314276 GTCTTACACTGACACATCTC-GT-AG-CTGATG-CATGTCCCAGGCAT-GTCTTACA
62 GTCTTACACTGACACATC-CAGTAAGTC-GATGCCATGTCCCAGACATGGTCTTACA
56314328 TTGGCTTACA
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
142 2 0.02
143 39 0.39
144 17 0.17
145 6 0.06
146 34 0.34
147 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (143 bp):
ATGTCCCAAACATGGTCTTACACTAGCTCATCCATTAAGTCAATGCCATGTACCAAACATGGTCT
TACACTGACACATCCAGTAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGAAAT
CGAAGCCGACGCT
Found at i:56317332 original size:15 final size:15
Alignment explanation
Indices: 56317297--56317326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56317287 AGTGTTAATG
*
56317297 GAATCTATTGGTTGT
1 GAATCTACTGGTTGT
56317312 GAATCTACTGGTTGT
1 GAATCTACTGGTTGT
56317327 ATATCTTACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (15 bp):
GAATCTACTGGTTGT
Found at i:56321121 original size:49 final size:49
Alignment explanation
Indices: 56321034--56321164 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 49
56321024 TATTGTGTGT
* * * * * *
56321034 CAGTATAAGACTTGTCTAGGATATGGCATCGACATCGATAAATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACACGACATCGACATCGATAAATGAAAGC
* * * * **
56321083 CAGTGTAAGACCTGTTTGGGACACGACATCGACCTCGATATATGAAATT
1 CAGTGTAAGACCTGTCTAGGACACGACATCGACATCGATAAATGAAAGC
*
56321132 CAGTGTAAGACCTGTCTAGGACATGACATCGAC
1 CAGTGTAAGACCTGTCTAGGACACGACATCGAC
56321165 TTTGATGTGC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACACGACATCGACATCGATAAATGAAAGC
Found at i:56325148 original size:16 final size:17
Alignment explanation
Indices: 56325114--56325149 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
56325104 TATAATGCGA
56325114 AAACATAAATAGATAAG
1 AAACATAAATAGATAAG
*
56325131 AAACATAAGTAG-TAAG
1 AAACATAAATAGATAAG
56325147 AAA
1 AAA
56325150 ATATATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.64, C:0.06, G:0.14, T:0.17
Consensus pattern (17 bp):
AAACATAAATAGATAAG
Found at i:56325261 original size:3 final size:3
Alignment explanation
Indices: 56325253--56325702 Score: 285
Period size: 3 Copynumber: 148.7 Consensus size: 3
56325243 TGATAGTGAC
56325253 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
56325301 AAT AAT AGT AAT AAT -AT TAT TAT TAT TAT TAT TAT ATT GAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * * *
56325349 AA- AAGG AAT AAA AAT AAT AGT AAT AAA AAT ATT AAC AAT AGT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
56325394 AAT AAC GAT AAT -AT AAAT ACT AAT ATAT ACAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT A-AT A-AT -AAT AAT AAT AAT AAT
* * *
56325442 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
56325490 ACATT AAT ATAT GAT AAT -AT CAAT AAT ATT AGT AAGT AA- AAA AAGGG
1 A-A-T AAT A-AT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AA--T
* * * * * *
56325537 AAT AAT AAT AGT AGT AAT AAT AAT AAC AAT AGT AAG AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
56325585 AAT -AT AAG AA- ACAT AGT AAT -AT AAT CAAT AA- AAT -AT AAT AGT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
** * ** * *
56325627 AAT GAA- AAT AAT GCT AAC GGT AAT AAT AAT AAT AAT GAT AGT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
56325672 -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56325703 GTAAAATGAT
Statistics
Matches: 351, Mismatches: 69, Indels: 54
0.74 0.15 0.11
Matches are distributed among these distances:
2 23 0.07
3 294 0.84
4 29 0.08
5 5 0.01
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56337620 original size:46 final size:46
Alignment explanation
Indices: 56337505--56337747 Score: 201
Period size: 46 Copynumber: 5.2 Consensus size: 46
56337495 CGATGCCTTG
* * ** *
56337505 GTCTTACACTGGCTCAT-ATCTC-AAGTCGATGCCATGAACCAAACAT
1 GTCTTACACTGGCTC-TCATCTCGTAGCCGATG-CATGTCCCAGACAT
** *
56337551 GGTCTTACACTGATTATCATCTCGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCTCTCATCTCGTAGCCGATGCATGTCCCAGACAT
* * * *
56337598 GTCTTAGACTGGCT-TACGTCTCG-AGTCCGATGCATGTCCTATACAT
1 GTCTTACACTGGCTCT-CATCTCGTAG-CCGATGCATGTCCCAGACAT
* *
56337644 GTCTTACACTAGCTCTCATCTC-AATGCCGATGCCATGTCCCAGACAT
1 GTCTTACACTGGCTCTCATCTCGTA-GCCGATG-CATGTCCCAGACAT
* * * *
56337691 GGTCTTACATTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCTCTCAT-CTCGTAGCCGATGCATGTCCCAGACAT
56337738 GTCTTACACT
1 GTCTTACACT
56337748 AGCCAACAAT
Statistics
Matches: 159, Mismatches: 26, Indels: 23
0.76 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 69 0.43
47 56 0.35
48 30 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GTCTTACACTGGCTCTCATCTCGTAGCCGATGCATGTCCCAGACAT
Found at i:56346838 original size:42 final size:42
Alignment explanation
Indices: 56346777--56346892 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
56346767 ACGTATCAAT
* * * *
56346777 GCCATACCCCAGATATGGTCTTACATGAAAT-ATCATATCGAC
1 GCCATATCCCAGACATGGTCTTACACGAAATCA-CATACCGAC
* * * *
56346819 GCCATGTCCCTGACATGGTCTTATACGAAATCACATACCGAT
1 GCCATATCCCAGACATGGTCTTACACGAAATCACATACCGAC
* * *
56346861 GCCATATCCCAGATATGGTCTTATACGGAATC
1 GCCATATCCCAGACATGGTCTTACACGAAATC
56346893 TCGGTAGTAC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACACGAAATCACATACCGAC
Found at i:56351240 original size:68 final size:67
Alignment explanation
Indices: 56351168--56351317 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
56351158 CATCATGTGT
* * * *
56351168 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
56351230 ATGTAG
62 ATGTAG
** * *
56351236 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
56351301 AG
66 AG
56351303 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
56351318 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:56351273 original size:64 final size:64
Alignment explanation
Indices: 56351192--56351375 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
56351182 AGACATTATG
* *
56351192 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
56351256 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
56351321 AA
63 AA
* * * *
56351323 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
56351376 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56353716 original size:20 final size:20
Alignment explanation
Indices: 56353683--56353723 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
56353673 AGCTCAATAC
56353683 ATAAGCTAGATGAATGGACA
1 ATAAGCTAGATGAATGGACA
* *
56353703 ATAAGTTAGCTGAATGGACA
1 ATAAGCTAGATGAATGGACA
56353723 A
1 A
56353724 CTTGTGTTCA
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:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
ATAAGCTAGATGAATGGACA
Found at i:56354259 original size:40 final size:39
Alignment explanation
Indices: 56354215--56354292 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
56354205 TTAACTCAAC
* *
56354215 CAGCTAATTAAGTTGTAATGAGCTAAGACATACTTAAATT
1 CAGCTAATTAAGTTGTAATAAGCTAAGACA-AATTAAATT
56354255 CAGCTAATTAAGTTGTAATAAGCTAAGACAAATTAAAT
1 CAGCTAATTAAGTTGTAATAAGCTAAGACAAATTAAAT
56354293 AGCTGTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 7 0.19
40 29 0.81
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (39 bp):
CAGCTAATTAAGTTGTAATAAGCTAAGACAAATTAAATT
Found at i:56354359 original size:47 final size:47
Alignment explanation
Indices: 56354278--56354434 Score: 233
Period size: 47 Copynumber: 3.3 Consensus size: 47
56354268 TGTAATAAGC
* * * *
56354278 TAAGACAAATTAAATAGCTGTACTAACTAAAACATATTAAATTAACT
1 TAAGACAAATTAAATAGCTGAACTAATTAGAACATATTAAATAAACT
* *
56354325 TAGGACATATTAAATAGCTGAACTAATTAGAACATATTAAATAAACT
1 TAAGACAAATTAAATAGCTGAACTAATTAGAACATATTAAATAAACT
* * *
56354372 TAAGACAAATTAAATTGCTGAACTAATCAGAACACATTAAATAAACT
1 TAAGACAAATTAAATAGCTGAACTAATTAGAACATATTAAATAAACT
56354419 TAAGACAAATTAAATA
1 TAAGACAAATTAAATA
56354435 CTTAAGCTAA
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (47 bp):
TAAGACAAATTAAATAGCTGAACTAATTAGAACATATTAAATAAACT
Found at i:56355353 original size:48 final size:48
Alignment explanation
Indices: 56355282--56355378 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
56355272 AGTAGAGCTC
56355282 TAGATGATTATGAGCCTTTAAATTTTGATTTCCCAAACGAGGGTTTGA
1 TAGATGATTATGAGCCTTTAAATTTTGATTTCCCAAACGAGGGTTTGA
56355330 TAGATGATTATGAGCCTTTAAATTTTGATTTCCCAAACGAGGGTTTGA
1 TAGATGATTATGAGCCTTTAAATTTTGATTTCCCAAACGAGGGTTTGA
56355378 T
1 T
56355379 GTATGTTATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (48 bp):
TAGATGATTATGAGCCTTTAAATTTTGATTTCCCAAACGAGGGTTTGA
Found at i:56357510 original size:49 final size:49
Alignment explanation
Indices: 56357438--56357613 Score: 176
Period size: 49 Copynumber: 3.6 Consensus size: 49
56357428 GTTGTTTGTT
* * *
56357438 AGTGTAAGACTTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACATCGATAGATGAAAGCC
* * * * *
56357487 AGTGTAAGACCTGCCTGTGACATGGCATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACATCGATAGATGAAAGCC
* * * ** **
56357536 AGTGTAAGACCTGTCTGAGACTTTGCATCGACTTTAAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACATCGATAGATGAAAGCC
* *
56357583 AGTGTAAGACCATGTCTGGGACATGACATCG
1 AGTGTAAGACC-TGTCTGAGACATGGCATCG
56357614 GCATTTTATC
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
47 16 0.15
48 15 0.14
49 73 0.70
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGAGACATGGCATCGACATCGATAGATGAAAGCC
Found at i:56376220 original size:13 final size:13
Alignment explanation
Indices: 56376202--56376230 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56376192 AATAGTTGTG
56376202 TGTTATTTAATTA
1 TGTTATTTAATTA
56376215 TGTTATTTAATTA
1 TGTTATTTAATTA
56376228 TGT
1 TGT
56376231 AGGTTAGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:56380600 original size:10 final size:10
Alignment explanation
Indices: 56380587--56380632 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
56380577 AGCTCACTTG
56380587 AGCTCGTTTT
1 AGCTCGTTTT
56380597 AGCTCGTTTT
1 AGCTCGTTTT
*
56380607 AGCTCGAATTT
1 AGCTCG-TTTT
*
56380618 AGCTCGTTTC
1 AGCTCGTTTT
56380628 AGCTC
1 AGCTC
56380633 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:56380875 original size:13 final size:13
Alignment explanation
Indices: 56380857--56380885 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56380847 AATAGTTGTG
56380857 TGTTATTTAATTA
1 TGTTATTTAATTA
56380870 TGTTATTTAATTA
1 TGTTATTTAATTA
56380883 TGT
1 TGT
56380886 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:56385271 original size:21 final size:20
Alignment explanation
Indices: 56385235--56385284 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
56385225 ATCAGCTCAC
*
56385235 TTGAGCTCATTTTAGCTAGT
1 TTGAGCTCAATTTAGCTAGT
*
56385255 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTC-AATTTAGCTAGT
*
56385276 TTCAGCTCA
1 TTGAGCTCA
56385285 TTCCTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGAGCTCAATTTAGCTAGT
Found at i:56385526 original size:13 final size:13
Alignment explanation
Indices: 56385508--56385536 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56385498 AATAGTTGTG
56385508 TGTTATTTAATTA
1 TGTTATTTAATTA
56385521 TGTTATTTAATTA
1 TGTTATTTAATTA
56385534 TGT
1 TGT
56385537 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:56396112 original size:46 final size:46
Alignment explanation
Indices: 56396014--56396138 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
56396004 GGTGGTAGGT
* *
56396014 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGA
1 GAGCTAGTGTAAGACATGTCTGGGATATGCATCGGCCACATCACGA
* * * *
56396060 GTGCTAGTGTAAGACATGTCTGGGATATGCATCGG-TA-TTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGATATGCATCGGCCACAT--CACGA
*
56396106 GAGCTAGTGTAAGACATGTCTAGGATATGCATC
1 GAGCTAGTGTAAGACATGTCTGGGATATGCATC
56396139 AGCCTCGGGA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 67 0.97
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGATATGCATCGGCCACATCACGA
Found at i:56396239 original size:49 final size:49
Alignment explanation
Indices: 56396154--56396266 Score: 113
Period size: 49 Copynumber: 2.3 Consensus size: 49
56396144 CGGGATATAC
* *** *
56396154 AAGCTAGTGTAAGACCTATCTGGGACATGGTATCGGCACT-GATAGATGA
1 AAGCCAGTGTAAGACCTATCTCAAACACGGTATCGGC-CTCGATAGATGA
* *
56396203 GAGCCAGTGTAAGACCTATCTCAAACACGGCT-TCGGCCTCGATATATGA
1 AAGCCAGTGTAAGACCTATCTCAAACACGG-TATCGGCCTCGATAGATGA
**
56396252 AAGTTAGTGTAAGAC
1 AAGCCAGTGTAAGAC
56396267 TTGTATGGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
48 2 0.04
49 49 0.94
50 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTATCTCAAACACGGTATCGGCCTCGATAGATGA
Found at i:56396932 original size:21 final size:21
Alignment explanation
Indices: 56396885--56396925 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
56396875 GGCTAATATT
**
56396885 AAAATTTTTTTTATGAATGCA
1 AAAATTTTTTCCATGAATGCA
56396906 AGAAATTTTTTCCATGAATG
1 A-AAATTTTTTCCATGAATG
56396926 TGAAAATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.06
22 16 0.94
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
AAAATTTTTTCCATGAATGCA
Found at i:56397556 original size:21 final size:20
Alignment explanation
Indices: 56397526--56397565 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
56397516 GTCATGATGG
56397526 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTT-CCCTT
*
56397547 CCACATGGGCGTGTTCCCT
1 CCACACGGGCGTGTTCCCT
56397566 GCTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (20 bp):
CCACACGGGCGTGTTCCCTT
Found at i:56399117 original size:21 final size:22
Alignment explanation
Indices: 56399091--56399148 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
56399081 CAGCTTGTCT
56399091 GAGCTTACTATT-AACTCGATA-
1 GAGCTTACTATTCAACTCG-TAC
*
56399112 GAGCTTACCATTTCAACTCGTAC
1 GAGCTTACTA-TTCAACTCGTAC
*
56399135 GAACTTACTATTCA
1 GAGCTTACTATTCA
56399149 TCAACTCAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 9 0.29
22 8 0.26
23 14 0.45
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (22 bp):
GAGCTTACTATTCAACTCGTAC
Found at i:56403237 original size:46 final size:46
Alignment explanation
Indices: 56403170--56403337 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 46
56403160 TGTAACCCGC
*
56403170 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
56403216 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--G-GAT-GC--
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * * *
56403256 CTAGTTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
56403302 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
56403338 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
40 28 0.27
41 2 0.02
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 62 0.61
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:56403282 original size:86 final size:86
Alignment explanation
Indices: 56403177--56403341 Score: 303
Period size: 86 Copynumber: 1.9 Consensus size: 86
56403167 CGCCCATAAG
* *
56403177 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56403242 ACGAGTTCGGATGCCTAGTTA
66 ACGAGTTCGGATGCCTAGTTA
*
56403263 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56403328 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56403342 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (86 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTA
Found at i:56403291 original size:20 final size:20
Alignment explanation
Indices: 56403228--56403293 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
56403218 ATAAGTGAAC
56403228 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
* * * **
56403248 TCGGA-TGCCTAGT-TACGAAC
1 TCGGACT--CAACTCAACGAGT
56403268 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
56403288 TCGGAC
1 TCGGAC
56403294 ATTCGCATCC
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 4 0.12
20 24 0.75
21 4 0.12
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:56410779 original size:46 final size:46
Alignment explanation
Indices: 56410712--56410879 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 46
56410702 TGTAACCCGC
*
56410712 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
56410758 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--G-GAT-GC--
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * * *
56410798 CTAGTTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
56410844 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
56410880 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
40 28 0.27
41 2 0.02
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 62 0.61
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:56410824 original size:86 final size:86
Alignment explanation
Indices: 56410719--56410883 Score: 303
Period size: 86 Copynumber: 1.9 Consensus size: 86
56410709 CGCCCATAAG
* *
56410719 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56410784 ACGAGTTCGGATGCCTAGTTA
66 ACGAGTTCGGATGCCTAGTTA
*
56410805 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56410870 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56410884 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (86 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTA
Found at i:56410833 original size:20 final size:20
Alignment explanation
Indices: 56410770--56410835 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
56410760 ATAAGTGAAC
56410770 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
* * * **
56410790 TCGGA-TGCCTAGT-TACGAAC
1 TCGGACT--CAACTCAACGAGT
56410810 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
56410830 TCGGAC
1 TCGGAC
56410836 ATTCGCATCC
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 4 0.12
20 24 0.75
21 4 0.12
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:56415079 original size:27 final size:27
Alignment explanation
Indices: 56415049--56415101 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
56415039 TATTCTACTA
56415049 TACAAGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACGGTCATTTTACAC
* *
56415076 TACAAGGGTATTTCGGTTATTTTACA
1 TACAAGGGTATTACGGTCATTTTACA
56415102 AATCGAGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAAGGGTATTACGGTCATTTTACAC
Found at i:56423816 original size:27 final size:27
Alignment explanation
Indices: 56423786--56423845 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
56423776 GGCATAATCA
56423786 TCATTCTACCA-TACAAGGGTATTGCGG
1 TCATT-TACCACTACAAGGGTATTGCGG
** *
56423813 TCATTTTTCACTACAAGGGTATTTCGG
1 TCATTTACCACTACAAGGGTATTGCGG
*
56423840 TGATTT
1 TCATTT
56423846 TACAAACCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
TCATTTACCACTACAAGGGTATTGCGG
Found at i:56423857 original size:26 final size:27
Alignment explanation
Indices: 56423798--56423858 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
56423788 ATTCTACCAT
* *
56423798 ACAAGGGTATTGCGGTCATTTTTCACT
1 ACAAGGGTATTGCGGTCATTTTACACA
* *
56423825 ACAAGGGTATTTCGGTGATTTTACA-A
1 ACAAGGGTATTGCGGTCATTTTACACA
*
56423851 ACCAGGGT
1 ACAAGGGT
56423859 CTTAACGACC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (27 bp):
ACAAGGGTATTGCGGTCATTTTACACA
Found at i:56430209 original size:24 final size:24
Alignment explanation
Indices: 56430182--56430239 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
56430172 AGCTCCCGTT
*
56430182 ATATGGCTCTTTGTGAGCTTCCTG
1 ATATGGCTCTTTGTGAACTTCCTG
* *
56430206 ATATGGTTCTTTGTGAACTTCTTG
1 ATATGGCTCTTTGTGAACTTCCTG
56430230 ACTATGGCTC
1 A-TATGGCTC
56430240 GTATGAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 22 0.76
25 7 0.24
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (24 bp):
ATATGGCTCTTTGTGAACTTCCTG
Found at i:56432464 original size:44 final size:42
Alignment explanation
Indices: 56432404--56432502 Score: 110
Period size: 44 Copynumber: 2.3 Consensus size: 42
56432394 TCCGAGATGC
* * *
56432404 AATTTCATGTAAGACCACATCTAGGACGTTGGCATCG-ATTT
1 AATTTCGTGTAAGACCACATCTAGGACATCGGCATCGTATTT
** *
56432445 GAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTT
1 -A-ATTT-CGTGTAAGACCACATCTAGGACATCGGCATCGTATTT
56432490 AATTTCGTGTAAG
1 AATTTCGTGTAAG
56432503 GCCTTGTCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
42 9 0.19
43 8 0.17
44 27 0.56
45 4 0.08
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
AATTTCGTGTAAGACCACATCTAGGACATCGGCATCGTATTT
Found at i:56432511 original size:42 final size:44
Alignment explanation
Indices: 56432411--56432558 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 44
56432401 TGCAATTTCA
** * * *
56432411 TGTAAGACCACATCTAGGACGTTGGCATCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATTTGAGATTTACG
56432455 TGTAAGACCATGTCTGGGACATCGGCATCGTATTT-A-ATTT-CG
1 TGTAAGACCATGTCTGGGACATCGGCATCG-ATTTGAGATTTACG
* * * * ** *
56432497 TGTAAGGCCTTGTCTGGGATAAT-GGCATTGATTTTTGA-TTACA
1 TGTAAGACCATGTCTGGGA-CATCGGCATCGATTTGAGATTTACG
*
56432540 TGTAAGACCACGTCTGGGA
1 TGTAAGACCATGTCTGGGA
56432559 TGTTGGCATT
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 4 0.05
42 27 0.32
43 24 0.28
44 26 0.31
45 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATTTGAGATTTACG
Found at i:56433885 original size:21 final size:20
Alignment explanation
Indices: 56433853--56433891 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56433843 CCTCTGTAAC
56433853 TTTGAAAATTTGT-TAAGTA
1 TTTGAAAATTTGTATAAGTA
56433872 TTTGAGAAATTTTGTATAAG
1 TTTGA-AAA-TTTGTATAAG
56433892 CTCGGTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 5 0.29
22 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TTTGAAAATTTGTATAAGTA
Found at i:56436230 original size:40 final size:40
Alignment explanation
Indices: 56436138--56436316 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
56436128 CGAATGGTAT
* * *
56436138 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
56436179 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
56436219 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
56436259 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
56436299 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
56436317 AAATCGAGCG
Statistics
Matches: 123, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 97 0.79
41 26 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:56443269 original size:44 final size:43
Alignment explanation
Indices: 56443221--56443344 Score: 153
Period size: 44 Copynumber: 2.9 Consensus size: 43
56443211 TGCAATTTCA
56443221 TGTAAGACCATGTCTGGGACATTGGCATC-AATTTGAGATTTAAG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAATTTGA-ATTT-AG
* * * *
56443265 TGTAAGACCATGTCTGGGATATCGGCATCGTATTT-AATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAATTTGAATTTAG
* *
56443307 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-ATTTGA
56443345 TTACATGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.40
43 8 0.12
44 29 0.43
45 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGAATTTGAATTTAG
Found at i:56443323 original size:42 final size:41
Alignment explanation
Indices: 56443214--56443359 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 41
56443204 TCCGATATGC
*
56443214 AATTTCATGTAAGACCATGTCTGGGACATTGGCATC-AATTT
1 AATTTCATGTAAGACCATGTCTGGGACA-TGGCATCGTATTT
* *
56443255 GAGATTTAAGTGTAAGACCATGTCTGGGATATCGGCATCGTATTT
1 -A-ATTTCA-TGTAAGACCATGTCTGGGACAT-GGCATCGTATTT
* *
56443300 AATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTT
1 AATTTCATGTAAGACCATGTCTGGGACA-TGGCATCG-TATTT
* *
56443343 GATTACATGTAAGACCA
1 AATTTCATGTAAGACCA
56443360 GGTCAAGGAC
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
42 27 0.31
43 29 0.33
44 27 0.31
45 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (41 bp):
AATTTCATGTAAGACCATGTCTGGGACATGGCATCGTATTT
Found at i:56445245 original size:46 final size:46
Alignment explanation
Indices: 56445110--56445283 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 46
56445100 GTTATTGTGA
* * ** *
56445110 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATAAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGAGT
* * ** * *
56445156 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGAGT
*
56445204 GCTAGTGTAAGACATGT-TTGGAACATGCATCGGCCTCGAGACGTAAGT
1 GCTAGTGTAAGACATGTCTAGG-ACATGCATCGGCCTCGAGACG--AGT
*
56445252 -C-AGTGTAAGATATGTCTAGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGC
56445284 TATGAGATGT
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
46 52 0.51
47 26 0.25
48 23 0.23
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGAGT
Found at i:56456811 original size:38 final size:38
Alignment explanation
Indices: 56456760--56456835 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
56456750 AGTGTTGTTG
*
56456760 CTTTAATTGACCTGGGGTTGACATATTCATATATCTGT
1 CTTTAATTGACCTGGGGTCGACATATTCATATATCTGT
56456798 CTTTAATTGACCTGGGGTCGACATATTCATATATCTGT
1 CTTTAATTGACCTGGGGTCGACATATTCATATATCTGT
56456836 ATGAGATTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (38 bp):
CTTTAATTGACCTGGGGTCGACATATTCATATATCTGT
Found at i:56460560 original size:40 final size:40
Alignment explanation
Indices: 56460515--56460682 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56460505 CGGAATATAA
56460515 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56460555 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56460595 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
56460635 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56460675 CCGGATAT
1 CCGGATAT
56460683 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56474365 original size:93 final size:93
Alignment explanation
Indices: 56474253--56474424 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56474243 GCCCATAAGT
* * *
56474253 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56474318 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56474346 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56474411 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56474425 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56474420 original size:46 final size:46
Alignment explanation
Indices: 56474245--56474420 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56474235 TGTAACCCGC
* * *
56474245 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56474291 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
56474341 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56474384 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56474421 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56478622 original size:44 final size:44
Alignment explanation
Indices: 56478552--56479042 Score: 160
Period size: 44 Copynumber: 10.6 Consensus size: 44
56478542 TACTATGGCG
* *
56478552 AATCTTATCTCCTTGAAGTT-TCAGTGGAGCAAGA-TAAAGCTACA
1 AATCTTATATCCCTGAAGTTGT-AGTGGAGC-AGATTAAAGCTACA
* * *
56478596 AATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACA
* * * * * *
56478640 ATTCATATACCCCTGAAGTTGCAGTGG-GTCAGAATGAAA-CTATGAGGGTA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAG-ATTAAAGC--T-A---CA
* * * *
56478690 AATCTTATTTCCCTGATGTTGCAGTGGAGCAAGA-TGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAGC-AGATTAAAGCTACA
* * ** ** * *
56478734 AATCTTATACCCCTAAAGTTACAGTGG-GTTGGAATAAAACTACGATAGCA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAG-AT-TAA--A-GCTA-CA
* * ** * *
56478784 AATCTTATCTCCCTAAAGTTGTAGTAAAGTAAGA-TGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAGATTAAAGCTACA
* * *
56478828 AATCCTATACCCCTGAAGTTGTAGT-GAGTCAGATTGAATCTACCATAGCA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAGATT-AA---AGC-TA-CA
* ** *
56478878 AATCTTATCTCTTTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACA
* * * *
56478922 AATCTTATACCCCTGAAGTTGCAGTAGGTTG--GATTAAATCTACTATAGCA
1 AATCTTATATCCCTGAAGTTGTAGT-GG-AGCAGATTAAA---GC--TA-CA
* * * *
56478972 AATCTTATCTCCCTGAAATTGTAGTAGAGCAGATTGAAA-TTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAGCAGATT-AAAGCTACA
* *
56479016 AATCTTATA-CATCTGAAGTTGCAGTGG
1 AATCTTATATC-CCTGAAGTTGTAGTGG
56479043 GTCAAATTGA
Statistics
Matches: 327, Mismatches: 78, Indels: 84
0.67 0.16 0.17
Matches are distributed among these distances:
43 12 0.04
44 157 0.48
45 15 0.05
46 6 0.02
47 3 0.01
48 6 0.02
49 11 0.03
50 105 0.32
51 12 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATATCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACA
Found at i:56478760 original size:138 final size:138
Alignment explanation
Indices: 56478507--56478760 Score: 341
Period size: 138 Copynumber: 1.8 Consensus size: 138
56478497 AAACAAATCC
* * * * * * *
56478507 TATACCCTTGAAGTTGCAGTGGGTCGGATTGAACCTACTATGGCGAATCTTATCTCCTTGAAGTT
1 TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACTAGGGCAAATCTTATCTCCCTGAAGTT
* * **
56478572 TCAGTGGAGCAAGATAAAGCTACAAATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCT
66 GCAGTGGAGCAAGATAAAGCTACAAATCTTATACCCCTGAAATTACAGTGGATCAGATTGAAGCT
56478637 ACAATTCA
131 ACAATTCA
* * *
56478645 TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTA-TGAGGGTAAATCTTATTTCCCTGATGT
1 TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACT-AGGGCAAATCTTATCTCCCTGAAGT
*
56478709 TGCAGTGGAGCAAGATGAAGCTACAAATCTTATACCCCT-AAAGTTACAGTGG
65 TGCAGTGGAGCAAGATAAAGCTACAAATCTTATACCCCTGAAA-TTACAGTGG
56478761 GTTGGAATAA
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
137 4 0.04
138 95 0.96
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (138 bp):
TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACTAGGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAAGATAAAGCTACAAATCTTATACCCCTGAAATTACAGTGGATCAGATTGAAGCT
ACAATTCA
Found at i:56478839 original size:188 final size:189
Alignment explanation
Indices: 56478594--56479176 Score: 687
Period size: 188 Copynumber: 3.1 Consensus size: 189
56478584 GATAAAGCTA
* * *
56478594 CAAATCTTATATCCCTGAAATTGTAGTGGA-TCAGATTGAAGCTACAATTCATATACCCCTGAAG
1 CAAATCTTATCTCCCTGAAATTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAAG
* ** * * * *
56478658 TTGCAGTGGGTCAGAATGAAACTATGAGGGTAAATCTTATTTCCCTGATGTTGCAGTGGAGCAAG
66 TTGCAGTGGGTCAGAATGAATCTAT-ATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAG
* * * * *
56478723 A-TGAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGGTTGGAATAAAACTACGATAG
130 ATTGAAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTTGGATTAAAACTACAATAG
* * *
56478782 CAAATCTTATCTCCCT-AAAGTTGTAGTAAAGTAAGA-TGAAGCTACAAATCCTATACCCCTGAA
1 CAAATCTTATCTCCCTGAAA-TTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAA
* * * * * *
56478845 GTTGTAGTGAGTCAGATTGAATCTACCATAGCAAATCTTATCTCTTTGAAGTTGTAGTGGAGC-A
65 GTTGCAGTGGGTCAGAATGAATCTA-TATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAA
* *
56478909 GATTGAAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTTGGATTAAATCTACTATAG
129 GATTGAAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTTGGATTAAAACTACAATAG
** * **
56478970 CAAATCTTATCTCCCTGAAATTGTAGTAGAG-CAGATTGAAATTACAAATCTTATACATCTGAAG
1 CAAATCTTATCTCCCTGAAATTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAAG
* * *
56479034 TTGCAGTGGGTCA-AATTGATTCTACTATAGCAAACCTTATCTCCTTGAAGTTGCAATGGAGCAA
66 TTGCAGTGGGTCAGAA-TGAATCTA-TATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAA
* * * * * * *
56479098 -ATTAAACCTACAAATCTTATACCCTTGAAGTTGCAGTAGATTAGATTGAAACTACAATAA
129 GATTGAAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTTGGATTAAAACTACAATAG
*
56479158 CAAATCTTATCTCCTTGAA
1 CAAATCTTATCTCCCTGAA
56479177 GTTGCAATGG
Statistics
Matches: 336, Mismatches: 51, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
187 10 0.03
188 318 0.95
189 8 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (189 bp):
CAAATCTTATCTCCCTGAAATTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAAG
TTGCAGTGGGTCAGAATGAATCTATATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA
TTGAAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTTGGATTAAAACTACAATAG
Found at i:56478901 original size:50 final size:48
Alignment explanation
Indices: 56478824--56479182 Score: 186
Period size: 50 Copynumber: 7.6 Consensus size: 48
56478814 AAGATGAAGC
* * *
56478824 TACAAATCCTATAC-CCCTGAAGTTGTAGTGAGTCAGATTGAATCTACCA
1 TACAAATCTTAT-CTCCTTGAAGTTGCAGTGAGTCAGATTGAA-CTACCA
* * *
56478873 TAGCAAATCTTATCTCTTTGAAGTTGTAGTGGAG-CAGATTG-A--AGC-
1 TA-CAAATCTTATCTCCTTGAAGTTGCAGT-GAGTCAGATTGAACTACCA
* ** * *
56478918 TACAAATCTTATAC-CCCTGAAGTTGCAGT-AGGTTGGATTAAATCTACTA
1 TACAAATCTTAT-CTCCTTGAAGTTGCAGTGA-GTCAGATTGAA-CTACCA
* * * *
56478967 TAGCAAATCTTATCTCCCTGAAATTGTAGTAGAG-CAGATTGAA--A--T
1 TA-CAAATCTTATCTCCTTGAAGTTGCAGT-GAGTCAGATTGAACTACCA
* * * *
56479012 TACAAATCTTATACAT-C-TGAAGTTGCAGTGGGTCAAATTGATTCTACTA
1 TACAAATCTTAT-C-TCCTTGAAGTTGCAGTGAGTCAGATTGA-ACTACCA
* * *
56479061 TAGCAAACCTTATCTCCTTGAAGTTGCAATGGAG-CAAATT-AA--ACC-
1 TA-CAAATCTTATCTCCTTGAAGTTGCAGT-GAGTCAGATTGAACTACCA
* *
56479106 TACAAATCTTATAC-CCTTGAAGTTGCAGT-AGATTAGATTGAAACTACAA
1 TACAAATCTTAT-CTCCTTGAAGTTGCAGTGAG-TCAGATTG-AACTACCA
56479155 TAACAAATCTTATCTCCTTGAAGTTGCA
1 T-ACAAATCTTATCTCCTTGAAGTTGCA
56479183 ATGGAGCAAG
Statistics
Matches: 239, Mismatches: 34, Indels: 73
0.69 0.10 0.21
Matches are distributed among these distances:
42 3 0.01
43 3 0.01
44 80 0.33
45 11 0.05
46 7 0.03
47 2 0.01
48 4 0.02
49 14 0.06
50 108 0.45
51 6 0.03
52 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (48 bp):
TACAAATCTTATCTCCTTGAAGTTGCAGTGAGTCAGATTGAACTACCA
Found at i:56479111 original size:282 final size:282
Alignment explanation
Indices: 56478593--56479190 Score: 650
Period size: 282 Copynumber: 2.1 Consensus size: 282
56478583 AGATAAAGCT
* * * * *
56478593 ACAAATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCTACAATTCATATACCCCTGAAG
1 ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCATATACCCCTGAAG
* * * * ** *
56478658 TTGCAGTGGGTCAGAATGAAACTATGAGGGTAAATCTTATTTCCCTGATGTTGCAGTGGAGCAAG
66 TTGCAGTAGGTCAGAATGAAACTATGAGAGCAAATCTTATCTCCCTGAAATTGCAGTAGAGCAAG
* * ** *
56478723 ATGAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGGTTGGAATAAAACTACGATAGCAAATC
131 ATGAAACTACAAATCTTATACACCTAAAGTTACAGTGGGTTCAAATAAAACTACGATAGCAAACC
* * * * * *
56478788 TTATCTCCCTAAAGTTGTAGTAAAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGT
196 TTATCTCCCTAAAGTTGCAATAAAGCAAGATAAACCTACAAATCCTATACCCCTGAAGTTGCAGT
* *
56478853 -GAGTCAGATTGAATCTACCATA
261 AGA-TCAGATTGAAACTACAATA
* * *
56478875 GCAAATCTTATCTCTTTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAG
1 ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCATATACCCCTGAAG
* * * * *
56478940 TTGCAGTAGGT-TGGATTAAATCTACT-ATAGCAAATCTTATCTCCCTGAAATTGTAGTAGAGC-
66 TTGCAGTAGGTCAGAATGAAA-CTA-TGAGAGCAAATCTTATCTCCCTGAAATTGCAGTAGAGCA
* * * * * ** *
56479002 AGATTGAAATTACAAATCTTATACATCTGAAGTTGCAGTGGG-TCAAATTGATTCTACTATAGCA
129 AGA-TGAAACTACAAATCTTATACACCTAAAGTTACAGTGGGTTCAAA-TAAAACTACGATAGCA
* * ** * *
56479066 AACCTTATCTCCTTGAAGTTGCAATGGAGCAA-ATTAAACCTACAAATCTTATACCCTTGAAGTT
192 AACCTTATCTCCCTAAAGTTGCAATAAAGCAAGA-TAAACCTACAAATCCTATACCCCTGAAGTT
*
56479130 GCAGTAGATTAGATTGAAACTACAATA
256 GCAGTAGATCAGATTGAAACTACAATA
* *
56479157 ACAAATCTTATCTCCTTGAAGTTGCAATGGAGCA
1 ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCA
56479191 AGATGAAACT
Statistics
Matches: 258, Mismatches: 52, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
281 13 0.05
282 242 0.94
283 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (282 bp):
ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCATATACCCCTGAAG
TTGCAGTAGGTCAGAATGAAACTATGAGAGCAAATCTTATCTCCCTGAAATTGCAGTAGAGCAAG
ATGAAACTACAAATCTTATACACCTAAAGTTACAGTGGGTTCAAATAAAACTACGATAGCAAACC
TTATCTCCCTAAAGTTGCAATAAAGCAAGATAAACCTACAAATCCTATACCCCTGAAGTTGCAGT
AGATCAGATTGAAACTACAATA
Found at i:56479191 original size:94 final size:94
Alignment explanation
Indices: 56478594--56479191 Score: 567
Period size: 94 Copynumber: 6.4 Consensus size: 94
56478584 GATAAAGCTA
* * * * * * *
56478594 CAAATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCTACAATTCATATACCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTGAAGT
* * * **
56478659 TGCAGTGGGTCAGAATGAAACTA-TGAGGG
66 TGCAGTAGGTTAGATTGAAACTACT-ATAG
* * * *
56478688 TAAATCTTATTTCCCTGATGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCTTATACCCCTAAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTGAAGCTACAAATCTTATACCCCTGAAG
* * * * * *
56478752 TTACAGTGGGTTGGAATAAAACTACGATAG
65 TTGCAGTAGGTTAGATTGAAACTACTATAG
* * ** * *
56478782 CAAATCTTATCTCCCTAAAGTTGTAGTAAAGTAAGA-TGAAGCTACAAATCCTATACCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTGAAGCTACAAATCTTATACCCCTGAAG
* * * *
56478846 TTGTAGT-GAGTCAGATTGAATCTACCATAG
65 TTGCAGTAG-GTTAGATTGAAACTACTATAG
** * *
56478876 CAAATCTTATCTCTTTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTGAAGT
*
56478941 TGCAGTAGGTTGGATT-AAATCTACTATAG
66 TGCAGTAGGTTAGATTGAAA-CTACTATAG
* * * * ** **
56478970 CAAATCTTATCTCCCTGAAATTGTAGTAGAGCAGATTGAAATTACAAATCTTATACATCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTGAAGT
* * * **
56479035 TGCAGTGGGTCAAATTGATTCTACTATAG
66 TGCAGTAGGTTAGATTGAAACTACTATAG
* * * * * *
56479064 CAAACCTTATCTCCTTGAAGTTGCAATGGAGCAAATTAAACCTACAAATCTTATACCCTTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTGAAGT
* * *
56479129 TGCAGTAGATTAGATTGAAACTACAATAA
66 TGCAGTAGGTTAGATTGAAACTACTATAG
* *
56479158 CAAATCTTATCTCCTTGAAGTTGCAATGGAGCAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAA
56479192 GATGAAACTA
Statistics
Matches: 413, Mismatches: 84, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
93 4 0.01
94 406 0.98
95 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (94 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTGAAGT
TGCAGTAGGTTAGATTGAAACTACTATAG
Found at i:56479198 original size:50 final size:49
Alignment explanation
Indices: 56479055--56479201 Score: 146
Period size: 50 Copynumber: 3.1 Consensus size: 49
56479045 CAAATTGATT
* * *
56479055 CTACTATAGCAAACCTTATCTCCTTGAAGTTGCAATGGAGCAA-ATTAAA
1 CTAC-ATAACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAA
* * **
56479104 C--C-T-ACAAATCTTATAC-CCTTGAAGTTGCAGTAGA-TTAGATTGAAA
1 CTACATAACAAATCTTAT-CTCCTTGAAGTTGCAATGGAGCAAGA-TGAAA
56479149 CTACAATAACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAA
1 CTAC-ATAACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAA
56479199 CTA
1 CTA
56479202 TAATGCTAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
43 1 0.01
44 26 0.34
45 7 0.09
47 2 0.03
49 3 0.04
50 35 0.45
51 3 0.04
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (49 bp):
CTACATAACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAA
Found at i:56482371 original size:14 final size:14
Alignment explanation
Indices: 56482352--56482378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56482342 AATTTTTATA
56482352 AAAAATTATTTTCT
1 AAAAATTATTTTCT
56482366 AAAAATTATTTTC
1 AAAAATTATTTTC
56482379 AATAAAACAA
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAAATTATTTTCT
Found at i:56482385 original size:15 final size:14
Alignment explanation
Indices: 56482351--56482385 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
56482341 CAATTTTTAT
56482351 AAAAAATTATTTTC
1 AAAAAATTATTTTC
*
56482365 TAAAAATTATTTTC
1 AAAAAATTATTTTC
56482379 AATAAAA
1 AA-AAAA
56482386 CAATCACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAAATTATTTTC
Found at i:56482727 original size:52 final size:52
Alignment explanation
Indices: 56482665--56482768 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
56482655 AACAAGGGCG
56482665 TGATGGGAAGGCATGAGATTGTTTTTGAGCCCTCTATGACTGGCTAAATGCC
1 TGATGGGAAGGCATGAGATTGTTTTTGAGCCCTCTATGACTGGCTAAATGCC
56482717 TGATGGGAAGGCATGAGATTGTTTTTGAGCCCTCTATGACTGGCTAAATGCC
1 TGATGGGAAGGCATGAGATTGTTTTTGAGCCCTCTATGACTGGCTAAATGCC
56482769 AAAACACCCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (52 bp):
TGATGGGAAGGCATGAGATTGTTTTTGAGCCCTCTATGACTGGCTAAATGCC
Found at i:56493632 original size:18 final size:19
Alignment explanation
Indices: 56493595--56493632 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
56493585 ATAAAATATA
*
56493595 AAAATATAATTTTATAATT
1 AAAATATAATTATATAATT
*
56493614 AAAATA-AATTATATTATT
1 AAAATATAATTATATAATT
56493632 A
1 A
56493633 GAGAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATAATTATATAATT
Found at i:56494828 original size:291 final size:291
Alignment explanation
Indices: 56494290--56494844 Score: 635
Period size: 291 Copynumber: 1.9 Consensus size: 291
56494280 TAAAGGTAAT
*
56494290 ATAATAAAATTAAAATGAAAAAGATATTAAAATAAAACTTTAATTGAGTGGTAAATTTAAGGTTT
1 ATAATAAAATTAAAATGAAAAAGATATTAAAATAAAACTTTAATTGAGTGGTAAATTAAAGGTTT
* * **
56494355 TGCTACCCCAATTATATGAGTTCAATTCCCATCATATGCATATTTTTATAAGTTTTTTTAAAAAA
66 TGCTAACCCAATTACACAAGTTCAATTCCCATCATATG-ATATTTTTATAAGTTTTTTT----AA
* * * *
56494420 AATAAAAAGAAGAAAGTACTCTCAAATAATATAACTTATTTTAAATATGAATGAATATTAAAGTA
126 AATAAAAAGAAGAAAATACTCTCAAATAATATAACTTATTTTAAATATGAATGAACATGAAACTA
56494485 ATTTTCCTTACTAAACTGAAACTCGGTTAATAGGTGACACCAACTCAGTAAAACG-TTTTATAAA
191 ATTTTCCTTACTAAACTGAAACTCGGTTAATAGGTGACACCAACTCAGTAAAA-GATTTTATAAA
56494549 TAGTATAAATATATAATTAATAGATGTAATAAAGAGC
255 TAGTATAAATATATAATTAATAGATGTAATAAAGAGC
* **
56494586 ATAATAAAATTAAAAT-ATATTAAAG-TATTAAAATAAAATTTTTGGTTGAGTGGTAAATTAAAG
1 ATAATAAAATTAAAATGA-A--AAAGATATTAAAATAAAA-CTTTAATTGAGTGGTAAATTAAAG
* * **
56494649 GTTTTGCTAACCCAATTGGCACAAGTTCGAATT-CTATCATATG-TATTTTTATTTG-TTTTTT-
62 GTTTTGCTAACCCAATT-ACACAAGTTC-AATTCCCATCATATGATATTTTTATAAGTTTTTTTA
** * * *
56494710 AAATAAAAAGACTAAAATA-TCCTCAAATAATATAATTTATTTTAAATGTGAATGGACATGAAAC
125 AAATAAAAAGAAGAAAATACT-CTCAAATAATATAACTTATTTTAAATATGAATGAACATGAAAC
* * ** * * * * *
56494774 TAATTTTCC-TAGTTGAGTTGGGAAC-CGGTTGATGGGTGACTCCAACTTAGTAAAAGATTTTAT
189 TAATTTTCCTTA-CTAAACT-GAAACTCGGTTAATAGGTGACACCAACTCAGTAAAAGATTTTAT
56494837 AAATAGTA
252 AAATAGTA
56494845 AGTATAGATA
Statistics
Matches: 219, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
290 4 0.02
291 105 0.48
292 4 0.02
295 1 0.00
296 23 0.11
297 23 0.11
298 40 0.18
299 15 0.07
300 4 0.02
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (291 bp):
ATAATAAAATTAAAATGAAAAAGATATTAAAATAAAACTTTAATTGAGTGGTAAATTAAAGGTTT
TGCTAACCCAATTACACAAGTTCAATTCCCATCATATGATATTTTTATAAGTTTTTTTAAAATAA
AAAGAAGAAAATACTCTCAAATAATATAACTTATTTTAAATATGAATGAACATGAAACTAATTTT
CCTTACTAAACTGAAACTCGGTTAATAGGTGACACCAACTCAGTAAAAGATTTTATAAATAGTAT
AAATATATAATTAATAGATGTAATAAAGAGC
Found at i:56498703 original size:46 final size:46
Alignment explanation
Indices: 56498653--56498825 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
56498643 TGGTTGAGCA
*
56498653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
56498699 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
56498746 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56498792 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56498826 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
46 66 0.65
47 35 0.35
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56498809 original size:93 final size:93
Alignment explanation
Indices: 56498650--56498820 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56498640 GGATGGTTGA
* *
56498650 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
56498715 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
56498743 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
56498808 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56498821 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56500637 original size:47 final size:47
Alignment explanation
Indices: 56500515--56500644 Score: 162
Period size: 46 Copynumber: 2.8 Consensus size: 47
56500505 TGTAACCTTC
*
56500515 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCGCTAGCAT
56500561 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GCGCTAG---CAT
* *
56500611 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56500645 ACTCAAATAT
Statistics
Matches: 76, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
46 36 0.47
47 32 0.42
48 4 0.05
49 1 0.01
50 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCGCTAGCAT
Found at i:56508080 original size:30 final size:30
Alignment explanation
Indices: 56508035--56508094 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56508025 ATTTAATACG
56508035 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
56508065 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
56508095 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:56510067 original size:25 final size:25
Alignment explanation
Indices: 56510039--56510151 Score: 70
Period size: 25 Copynumber: 4.6 Consensus size: 25
56510029 TCTCTCTCTC
56510039 GAGCCATATAACAGGAAACTCATAT
1 GAGCCATATAACAGGAAACTCATAT
* * ** *
56510064 GAGCCATGTAACGGGATGCTTAT-T
1 GAGCCATATAACAGGAAACTCATAT
* * * * *
56510088 CGGGCTATATAACGGGCAACTCATAA
1 -GAGCCATATAACAGGAAACTCATAT
* * *
56510114 GAGCCATA-ATCAGGAAGCTCATGT
1 GAGCCATATAACAGGAAACTCATAT
*
56510138 GAGCCA-ATAGCAGG
1 GAGCCATATAACAGG
56510152 TAGCTCTCAA
Statistics
Matches: 63, Mismatches: 22, Indels: 7
0.68 0.24 0.08
Matches are distributed among these distances:
23 1 0.02
24 22 0.35
25 40 0.63
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACAGGAAACTCATAT
Found at i:56512945 original size:20 final size:18
Alignment explanation
Indices: 56512898--56513004 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 18
56512888 CAAGATAAAC
56512898 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
56512915 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
56512935 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
56512954 ATTAAAATAAGTA-TT-AT
1 ATTAAATTAA-TATTTAAT
* *
56512971 ATTAAATTTAATATTGACCT
1 ATTAAA-TTAATATTTA-AT
*
56512991 ATTAAAATAATATT
1 ATTAAATTAATATT
56513005 CATTTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 17 0.25
18 6 0.09
19 22 0.32
20 24 0.35
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:56516420 original size:24 final size:24
Alignment explanation
Indices: 56516369--56516420 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
56516359 GAACTCTACT
* **
56516369 TTTTTACCTTTTACGATTTAGTTT
1 TTTTTACCTTTTACGATTTAATCC
*
56516393 TTTTTACCTTTTACTATTTAATCC
1 TTTTTACCTTTTACGATTTAATCC
56516417 TTTT
1 TTTT
56516421 CACTTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.04, T:0.63
Consensus pattern (24 bp):
TTTTTACCTTTTACGATTTAATCC
Found at i:56519215 original size:79 final size:80
Alignment explanation
Indices: 56519132--56519279 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
56519122 TATGGTAACC
* * * *
56519132 CGCACCAAGGCCTACGGGACTTA-ACCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAGACCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56519195 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56519211 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAGACCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56519276 CCGG
66 CCGG
56519280 TTATAATTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
79 20 0.36
80 36 0.64
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAGACCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56519221 original size:40 final size:38
Alignment explanation
Indices: 56519172--56519279 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56519162 ATCACGATTT
*
56519172 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56519212 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56519252 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56519280 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56528415 original size:80 final size:80
Alignment explanation
Indices: 56528331--56528479 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56528321 TATGGTAACC
* * * *
56528331 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56528395 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56528411 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56528476 CCGG
66 CCGG
56528480 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56528421 original size:40 final size:38
Alignment explanation
Indices: 56528372--56528479 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56528362 ATCACGATTT
*
56528372 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56528412 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56528452 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56528480 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56535160 original size:16 final size:16
Alignment explanation
Indices: 56535064--56535160 Score: 55
Period size: 16 Copynumber: 6.2 Consensus size: 16
56535054 TAAACAATTC
56535064 AAAAAAAAT-ATATAT
1 AAAAAAAATAATATAT
*
56535079 AAAAATACATAA-AT-T
1 AAAAA-AAATAATATAT
* *
56535094 CAAAAATATAATA-AT
1 AAAAAAAATAATATAT
*
56535109 AAATTTAAAA-AA-ATAT
1 AAA--AAAAATAATATAT
*
56535125 AAAAAAAATATTAT-T
1 AAAAAAAATAATATAT
*
56535140 GAAAAGAAATAATATAT
1 -AAAAAAAATAATATAT
56535157 AAAA
1 AAAA
56535161 TTTTAAAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 21
0.66 0.11 0.23
Matches are distributed among these distances:
14 9 0.15
15 17 0.28
16 30 0.49
17 5 0.08
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAAAAATAATATAT
Found at i:56535187 original size:22 final size:24
Alignment explanation
Indices: 56535095--56535186 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 24
56535085 ACATAAATTC
*
56535095 AAAA-ATATAATAAT-AA-ATTTA
1 AAAATATATAATAATAAATATTTT
* *
56535116 AAAAAATATAA-AAAAAATATTATT
1 AAAATATATAATAATAAATATT-TT
* *
56535140 GAAAAGAAATAATATATAAA-ATTTT
1 -AAAATATATAATA-ATAAATATTTT
56535165 AAAATATATAA-AATAAATATTT
1 AAAATATATAATAATAAATATTT
56535187 ACAATAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
21 6 0.11
22 13 0.23
23 8 0.14
24 10 0.18
25 11 0.20
26 4 0.07
27 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATATATAATAATAAATATTTT
Found at i:56535208 original size:13 final size:13
Alignment explanation
Indices: 56535166--56535199 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56535156 TAAAATTTTA
* *
56535166 AAATATATAAAAT
1 AAATATTTACAAT
56535179 AAATATTTACAAT
1 AAATATTTACAAT
56535192 AAATATTT
1 AAATATTT
56535200 TTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATATTTACAAT
Found at i:56546317 original size:19 final size:19
Alignment explanation
Indices: 56546293--56546331 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
56546283 AAAAATAGAG
56546293 ATAATTAATCTCAAATTTT
1 ATAATTAATCTCAAATTTT
56546312 ATAATTAATCTCAAATTTT
1 ATAATTAATCTCAAATTTT
56546331 A
1 A
56546332 AAGATATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTAATCTCAAATTTT
Found at i:56546691 original size:7 final size:7
Alignment explanation
Indices: 56546643--56546692 Score: 73
Period size: 7 Copynumber: 7.0 Consensus size: 7
56546633 TCAAACACTA
*
56546643 GGTTTAA
1 GGTTTAG
56546650 GGTTTAG
1 GGTTTAG
56546657 GGTTTAG
1 GGTTTAG
*
56546664 AGTTTAG
1 GGTTTAG
56546671 GGTTTAG
1 GGTTTAG
56546678 GGTTTTAG
1 GG-TTTAG
56546686 GGTTTAG
1 GGTTTAG
56546693 ACCAAGACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
7 32 0.82
8 7 0.18
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:56550160 original size:46 final size:46
Alignment explanation
Indices: 56550033--56550152 Score: 204
Period size: 46 Copynumber: 2.6 Consensus size: 46
56550023 TGTAACCCGC
* *
56550033 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
56550079 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
56550125 CCATAAGTTAACTCGAACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
56550153 AATCTCGGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:56557916 original size:79 final size:82
Alignment explanation
Indices: 56557776--56557960 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
56557766 TCGAATGATG
* * *
56557776 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
56557840 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
56557856 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
56557918 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
56557936 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56557961 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:56557968 original size:40 final size:40
Alignment explanation
Indices: 56557777--56557968 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
56557767 CGAATGATGT
* * * * *
56557777 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
56557817 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
56557857 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
56557896 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
56557936 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
56557969 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:56557991 original size:79 final size:79
Alignment explanation
Indices: 56557776--56557993 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
56557766 TCGAATGATG
* * * * ** *
56557776 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
56557839 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
56557856 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
56557921 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
56557936 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
56557994 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:56565945 original size:78 final size:81
Alignment explanation
Indices: 56565800--56565981 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 81
56565790 TCGAATGATG
* * * *
56565800 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
56565865 GTGCGAGTTAATA-AA
66 GTGCGAGTCAATATAA
* **
56565880 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
56565942 CGTGCGAGTCACTATAA
65 CGTGCGAGTCAATATAA
**
56565959 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56565982 TGAGCGAGTC
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 47 0.53
79 29 0.33
80 11 0.12
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTCAATATAA
Found at i:56565974 original size:40 final size:40
Alignment explanation
Indices: 56565853--56565991 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
56565843 GGACTAGGAT
* * * *
56565853 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGCTTAGTC
* *
56565892 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGG-TTAAGTC
1 CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGCTT-AGTC
*
56565931 CCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTCACTA-AACCCGGGCTTAGTC
* *
56565971 CCGAAGGCATTTGAGCGAGTC
1 CCGAAGGCATTCGTGCGAGTC
56565992 GTTATATCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
37 1 0.01
38 20 0.23
39 23 0.27
40 38 0.44
41 4 0.05
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGCTTAGTC
Found at i:56567875 original size:39 final size:40
Alignment explanation
Indices: 56567821--56567958 Score: 102
Period size: 40 Copynumber: 3.5 Consensus size: 40
56567811 GAATCACGTA
*
56567821 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAACAACAAGCACAATTG
* *** **
56567860 CCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAACAACAAGCACAATTG
* * * * * *
56567900 CCTTCGGGTCTTAGCCCAGACATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAA-CAACAAGCACAATTG
* *
56567940 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
56567959 GTATCATTCA
Statistics
Matches: 77, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.16
40 64 0.83
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAACAACAAGCACAATTG
Done.