Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 214 of 226
Found at i:67234647 original size:2 final size:2
Alignment explanation
Indices: 67234640--67234674 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
67234630 ACGTATGAAG
67234640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67234675 CAAACTTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67239628 original size:84 final size:84
Alignment explanation
Indices: 67239487--67239655 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
67239477 AATTTGTTTG
*
67239487 ACTTGAGAAGAAAATACATACGACTCGTTTATCAATTGTTGTCCAGTGTGAATTTATCGAGAGAA
1 ACTTGAGAAAAAAATACATACGACTCGTTTATCAATTGTTGTCCAGTGTGAATTTATCGAGAGAA
67239552 GTTCACCATTGTAAAATGA
66 GTTCACCATTGTAAAATGA
67239571 ACTTGAGAAAAAAATACATACGACTCGTTTATCAATTGTTGTCCAGTGTGAATTTATCGAGAGAA
1 ACTTGAGAAAAAAATACATACGACTCGTTTATCAATTGTTGTCCAGTGTGAATTTATCGAGAGAA
67239636 GTTCACCATTGTAAAATGA
66 GTTCACCATTGTAAAATGA
67239655 A
1 A
67239656 AGTGATCTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (84 bp):
ACTTGAGAAAAAAATACATACGACTCGTTTATCAATTGTTGTCCAGTGTGAATTTATCGAGAGAA
GTTCACCATTGTAAAATGA
Found at i:67244691 original size:7 final size:7
Alignment explanation
Indices: 67244681--67244705 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
67244671 AGATAATATA
67244681 TATCAAG
1 TATCAAG
67244688 TATCAAG
1 TATCAAG
67244695 TATCAAG
1 TATCAAG
67244702 TATC
1 TATC
67244706 TAATGGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (7 bp):
TATCAAG
Found at i:67244869 original size:9 final size:9
Alignment explanation
Indices: 67244821--67244880 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
67244811 ATTCAAGTTT
67244821 TTATGTAAG
1 TTATGTAAG
*
67244830 TTATGATATG
1 TTATG-TAAG
* * *
67244840 ATATAT-AT
1 TTATGTAAG
67244848 TTATGT-A-
1 TTATGTAAG
67244855 TTATGTAAG
1 TTATGTAAG
67244864 TTATGTAAG
1 TTATGTAAG
67244873 TTATGTAA
1 TTATGTAA
67244881 AGTGATTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
7 6 0.15
8 6 0.15
9 23 0.56
10 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:67247252 original size:21 final size:21
Alignment explanation
Indices: 67247226--67247270 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
67247216 GTGGGCAGGG
67247226 CAGGCTCAAGTCCATACAATT
1 CAGGCTCAAGTCCATACAATT
67247247 CAGGCTCAAGTCCATACAATT
1 CAGGCTCAAGTCCATACAATT
67247268 CAG
1 CAG
67247271 TTCTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (21 bp):
CAGGCTCAAGTCCATACAATT
Found at i:67248350 original size:18 final size:18
Alignment explanation
Indices: 67248327--67248363 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
67248317 AACAGGCTGA
67248327 GAAAGAAAAGGGAATCGG
1 GAAAGAAAAGGGAATCGG
67248345 GAAAGAAAAGGGAATCGG
1 GAAAGAAAAGGGAATCGG
67248363 G
1 G
67248364 GGTGAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAAGAAAAGGGAATCGG
Found at i:67248459 original size:9 final size:9
Alignment explanation
Indices: 67248445--67248475 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
67248435 GTTAAACGAA
67248445 TCGAGTTAT
1 TCGAGTTAT
*
67248454 TCGAGTTAA
1 TCGAGTTAT
67248463 TCGAGTTAT
1 TCGAGTTAT
67248472 TCGA
1 TCGA
67248476 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:67248672 original size:5 final size:5
Alignment explanation
Indices: 67248662--67248686 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
67248652 AAAACTTTTA
67248662 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
67248687 AACCCCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:67248820 original size:30 final size:31
Alignment explanation
Indices: 67248786--67248845 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
67248776 AAATCTTTTA
67248786 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
* *
67248816 TTTTCCCCTAAAATTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCA
67248846 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
Found at i:67249604 original size:5 final size:5
Alignment explanation
Indices: 67249594--67249619 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
67249584 CTCGAAAATT
67249594 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
67249620 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:67252299 original size:43 final size:41
Alignment explanation
Indices: 67252250--67252331 Score: 128
Period size: 43 Copynumber: 2.0 Consensus size: 41
67252240 CTATTTGTGT
*
67252250 TAAATACAATTTATGTATGCATGATTAATATGTTATATGCTCA
1 TAAATACAATTTATGTACGCATGATT-A-ATGTTATATGCTCA
*
67252293 TAAATACGATTTATGTACGCATGATTAATGTTATATGCT
1 TAAATACAATTTATGTACGCATGATTAATGTTATATGCT
67252332 TAATATGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 12 0.32
42 1 0.03
43 24 0.65
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (41 bp):
TAAATACAATTTATGTACGCATGATTAATGTTATATGCTCA
Found at i:67252359 original size:21 final size:21
Alignment explanation
Indices: 67252335--67252385 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
67252325 ATATGCTTAA
67252335 TATGATTTGTATTATGATAAG
1 TATGATTTGTATTATGATAAG
*
67252356 TATGATTCGTATTATGATAAG
1 TATGATTTGTATTATGATAAG
* *
67252377 CATGGTTTG
1 TATGATTTG
67252386 AACTTGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (21 bp):
TATGATTTGTATTATGATAAG
Found at i:67253240 original size:18 final size:18
Alignment explanation
Indices: 67253219--67253253 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67253209 TAATATTGTA
67253219 AAATAAAATAATTATTTC
1 AAATAAAATAATTATTTC
* *
67253237 AAATATAATTATTATTT
1 AAATAAAATAATTATTT
67253254 TTACAAGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAAATAATTATTTC
Found at i:67261510 original size:36 final size:35
Alignment explanation
Indices: 67261444--67261514 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
67261434 CAAACTCGAT
* * *
67261444 AATAATATTTAAATTATTATATATTTTTATTTCAAG
1 AATAATATTTAAATGATTATATACTATTA-TTCAAG
67261480 AATAATATTTAAATGATTATATACTATTATTCAAG
1 AATAATATTTAAATGATTATATACTATTATTCAAG
67261515 TTAATTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (35 bp):
AATAATATTTAAATGATTATATACTATTATTCAAG
Found at i:67262981 original size:46 final size:46
Alignment explanation
Indices: 67262930--67263022 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
67262920 TTCGGCATTA
67262930 TTGTTGTTATGGTAGATGTTCTCAAGTTCATCTTCGATCTCTTTGG
1 TTGTTGTTATGGTAGATGTTCTCAAGTTCATCTTCGATCTCTTTGG
67262976 TTGTTGTTATGGTAGATGTTCTCAAGTTCATCTTCGATCTCTTTGG
1 TTGTTGTTATGGTAGATGTTCTCAAGTTCATCTTCGATCTCTTTGG
67263022 T
1 T
67263023 GAATCGGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (46 bp):
TTGTTGTTATGGTAGATGTTCTCAAGTTCATCTTCGATCTCTTTGG
Found at i:67272279 original size:3 final size:3
Alignment explanation
Indices: 67272271--67272316 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
67272261 TTCACCAATC
67272271 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
67272317 CCGAGGAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:67273213 original size:94 final size:94
Alignment explanation
Indices: 67273052--67273239 Score: 340
Period size: 94 Copynumber: 2.0 Consensus size: 94
67273042 CAGAAACCGT
*
67273052 AATTTTACTTCCACATTTAAATCCACATTGTTAAGCTCCGATCCATGCACGTTGAGTGGCGGCAA
1 AATTTTACTTCCACATTTAAATCCACATTGTTAAGCTCCGATCCATGCACGTTGAGTGGAGGCAA
67273117 AAGTGGGGATTTCAGAAAATTTATAACAC
66 AAGTGGGGATTTCAGAAAATTTATAACAC
* * *
67273146 AATTTTACTTCCACGTTTAATTCCACATTGTTAAGCTCCGATCCATGCACGTTGAGTGGAGGTAA
1 AATTTTACTTCCACATTTAAATCCACATTGTTAAGCTCCGATCCATGCACGTTGAGTGGAGGCAA
67273211 AAGTGGGGATTTCAGAAAATTTATAACAC
66 AAGTGGGGATTTCAGAAAATTTATAACAC
67273240 GTTGTTTTAA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (94 bp):
AATTTTACTTCCACATTTAAATCCACATTGTTAAGCTCCGATCCATGCACGTTGAGTGGAGGCAA
AAGTGGGGATTTCAGAAAATTTATAACAC
Found at i:67274002 original size:24 final size:24
Alignment explanation
Indices: 67273974--67274025 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
67273964 TTAGTAAGTC
* *
67273974 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
67273998 AAATATATTATACTAGTAAATACT
1 AAATAAACTATACTAATAAATACT
67274022 AAAT
1 AAAT
67274026 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:67274165 original size:27 final size:27
Alignment explanation
Indices: 67274135--67274193 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
67274125 TTACAACGTC
67274135 ATCTTTGCCAAAGCCCGCCAC-GAGCCT
1 ATCTTTGCCAAAGCCCGCCACAG-GCCT
*
67274162 ATCTTTGCCAAAGTCCGCCACAGGCCT
1 ATCTTTGCCAAAGCCCGCCACAGGCCT
67274189 ATCTT
1 ATCTT
67274194 GAACTATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (27 bp):
ATCTTTGCCAAAGCCCGCCACAGGCCT
Found at i:67276000 original size:24 final size:24
Alignment explanation
Indices: 67275972--67276023 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
67275962 TTAGTAAGTC
* *
67275972 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
67275996 AAATATATTATACTAATAAGTACT
1 AAATAAACTATACTAATAAATACT
67276020 AAAT
1 AAAT
67276024 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:67276526 original size:2 final size:2
Alignment explanation
Indices: 67276514--67276551 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
67276504 AGAAGAAATC
67276514 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67276552 ATAAAGCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:67279707 original size:31 final size:31
Alignment explanation
Indices: 67279669--67279729 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
67279659 AGCCCATTTT
*
67279669 TATTTTAAAAATTTTTTAAAATTAAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAG
67279700 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
67279730 TTAAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:67279736 original size:40 final size:40
Alignment explanation
Indices: 67279686--67279851 Score: 273
Period size: 40 Copynumber: 4.1 Consensus size: 40
67279676 AAAATTTTTT
67279686 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAA
1 AAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTTAAA
67279726 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAA
1 AAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTTAAA
67279766 AACAATTAAAAAAGTATTTTAAAAATATTTTAAAATTTAAA
1 AA-AATTAAAAAAGTATTTTAAAAATATTTTAAAATTTAAA
* *
67279807 AAAATTAAAAAAGTATGTAAAAAATATTTTAAAATTTAAA
1 AAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTTAAA
67279847 AAAAT
1 AAAAT
67279852 ATATATTTAT
Statistics
Matches: 122, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
40 111 0.91
41 11 0.09
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTTAAA
Found at i:67279840 original size:11 final size:11
Alignment explanation
Indices: 67279669--67279800 Score: 65
Period size: 11 Copynumber: 12.9 Consensus size: 11
67279659 AGCCCATTTT
67279669 TATTTTAAAAA
1 TATTTTAAAAA
*
67279680 T-TTTT-TAAA
1 TATTTTAAAAA
**
67279689 -ATTAAAAAAA
1 TATTTTAAAAA
67279699 GTATTTTAAAAA
1 -TATTTTAAAAA
67279711 TATTTT--AAA
1 TATTTTAAAAA
67279720 -A--TTAAAAA
1 TATTTTAAAAA
* **
67279728 AATTAAAAAAA
1 TATTTTAAAAA
67279739 GTATTTTAAAAA
1 -TATTTTAAAAA
67279751 TATTTT--AAA
1 TATTTTAAAAA
67279760 -A--TTAAAAA
1 TATTTTAAAAA
* * *
67279768 CAATTAAAAAA
1 TATTTTAAAAA
67279779 GTATTTTAAAAA
1 -TATTTTAAAAA
67279791 TATTTTAAAA
1 TATTTTAAAA
67279801 TTTAAAAAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 32
0.66 0.11 0.23
Matches are distributed among these distances:
6 4 0.04
8 8 0.09
9 13 0.14
10 7 0.08
11 34 0.38
12 24 0.27
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:67283593 original size:2 final size:2
Alignment explanation
Indices: 67283586--67283610 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67283576 CTATTTAACT
67283586 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
67283611 GAGGTATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67287209 original size:29 final size:29
Alignment explanation
Indices: 67287159--67287214 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
67287149 ACCTGACGAG
* * *
67287159 CTCGTGTGGTCTATACGTCCAGACACATA
1 CTCGTGTGGCCTACACGGCCAGACACATA
*
67287188 CTCGTGTGGCCTACATGGCCAGACACA
1 CTCGTGTGGCCTACACGGCCAGACACA
67287215 CGTCCGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (29 bp):
CTCGTGTGGCCTACACGGCCAGACACATA
Found at i:67291555 original size:6 final size:6
Alignment explanation
Indices: 67291546--67291599 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
67291536 TATATTTTAT
* *
67291546 TTAATA TTAATATA TTTATA TTTAT- TTAATA TTAATA TTAATA -TAATA
1 TTAATA TT-A-ATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
67291594 -TAATA T
1 TTAATA T
67291600 AAAATTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 14 0.33
6 22 0.52
7 1 0.02
8 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAATA
Found at i:67291574 original size:19 final size:20
Alignment explanation
Indices: 67291536--67291577 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
67291526 AAGGAGGATT
67291536 TATATTTTATTTAATATTAA
1 TATATTTTATTTAATATTAA
67291556 TATATTTATATTT-AT-TTAA
1 TATATTT-TATTTAATATTAA
67291575 TAT
1 TAT
67291578 TAATATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTTTATTTAATATTAA
Found at i:67291575 original size:25 final size:26
Alignment explanation
Indices: 67291533--67291583 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
67291523 GGGAAGGAGG
67291533 ATTTATATTTTATTTAATATTAATAT
1 ATTTATATTTTATTTAATATTAATAT
67291559 ATTTATA-TTTATTTAATATTAATAT
1 ATTTATATTTTATTTAATATTAATAT
67291584 TAATATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTATATTTTATTTAATATTAATAT
Found at i:67291583 original size:17 final size:17
Alignment explanation
Indices: 67291546--67291599 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
67291536 TATATTTTAT
67291546 TTAATATTAATAT-AT-
1 TTAATATTAATATAATA
* *
67291561 TT-ATATTTATTTAATA
1 TTAATATTAATATAATA
67291577 TTAATATTAATATAATA
1 TTAATATTAATATAATA
67291594 -TAATAT
1 TTAATAT
67291600 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 8 0.25
15 4 0.12
16 8 0.25
17 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAATATTAATATAATA
Found at i:67296216 original size:16 final size:15
Alignment explanation
Indices: 67296191--67296236 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
67296181 TTTACTTTCG
67296191 GTGACTAAAATAAAA
1 GTGACTAAAATAAAA
*
67296206 GTGATCTAAAA-ATTAA
1 GTGA-CTAAAATA-AAA
67296222 GTGACTAAAATAAAA
1 GTGACTAAAATAAAA
67296237 TGTGTAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.24
Consensus pattern (15 bp):
GTGACTAAAATAAAA
Found at i:67302393 original size:3 final size:3
Alignment explanation
Indices: 67302382--67302416 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
67302372 TACATTTTTT
67302382 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
67302417 ATTTTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:67304702 original size:21 final size:21
Alignment explanation
Indices: 67304678--67304733 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
67304668 TGCAAGATAT
* *
67304678 ACATGCCCGTGTGGAAGAAAC
1 ACATGCCCATGTGAAAGAAAC
* * *
67304699 ACATGGCCATATGAAAGAGAC
1 ACATGCCCATGTGAAAGAAAC
67304720 ACATGCCCATGTGA
1 ACATGCCCATGTGA
67304734 CCGAGTTACA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (21 bp):
ACATGCCCATGTGAAAGAAAC
Found at i:67308854 original size:643 final size:644
Alignment explanation
Indices: 67307383--67309367 Score: 3184
Period size: 643 Copynumber: 3.0 Consensus size: 644
67307373 TGTTACTCTT
67307383 ATTTGTATATGGTGTTTTGTTTGATCTTTGTTTGAGTTTAGTTATACAATTAGCTTCATAGCTCA
1 ATTTGTATATGGTGTTTTGTTTGATCTTTGTTTGAGTTTAGTTATACAATTAGCTTCATAGCTCA
* *
67307448 CCCCTTTGTTTTATCTTTGTCTATTCAGGTAAACCTCAGACTTAGGATCGGACGGCGTGTGGGAG
66 CCCCTTTGTTTTATCTTTGTCTGTTCAGGTAAACCTCAGACTTAGGATCGGACAGCGTGTGGGAG
* *
67307513 CTTAGATTATTTTTGCACTTAGTGTAAATACAATGAATTCCATAATTATATGTTTTGGTCTTTTG
131 CTTAGATTATTTTTGCACTTAATGTAAATACAATGAATTCCATAATTATATGTTTTGATCTTTTG
* *
67307578 GGTTTGTAATTTGTTTCTAAACTCGTTTTGGGTTTTGCTTAATTCATCGGTAATTGATATTTTCT
196 GGTTTGTAATCTGTTTCTAAACTCGTTTTGGGTTTTGCTTAATTCGTCGGTAATTGATATTTTCT
67307643 AGCGTGAGACTGCAAAATCACTTAAGTCGATAAAATAGATTTTGGTTTTTAAAACTAAAACTCCT
261 AGCGTGAGACTGCAAAATCACTTAAGTCGATAAAATAGATTTTGGTTTTTAAAACTAAAACTCCT
*
67307708 AAAAAGGTTTTTGCTGTAAATTAAGTAATTTCTTAAGTGGTTTCTGAAAGTGAAAAAATAGGTTT
326 AAAAAGGTTTTTGCTGTAAATTAAGTAATTTCTTAAGTGGTTTCTGAAAGAGAAAAAATA-G---
* *
67307773 CTATTTTTTCGCTTAACACTTACTGAAATCAATTTTCAGAGTGAGTCAATGCAAATTCTCCAGAT
387 ----------G-TTAACACTTACTGAAATCAATTTTCAGAGTGAGTCGATGCAATTTCTCCAGAT
* * *
67307838 TCGGTTATAACTTTTAGGCCAGGTTTGGGATGTTACATTTAGTGGTATCAAAACCAAGCTACGAA
441 TCGATTATAACTTTTAGGCCAGGTTTGGGATGTTACATTTAGTGGTATCAAAACCAAGTTACAAA
67307903 ACTTGGACTGTGATTTTTGGGTTCAAAAATCTCTCTGAAAAATGTTTTAAGTAAATTGAATTTCT
506 ACTTGGACTGTGATTTTTGGGTTCAAAAATCTCTCTGAAAAATGTTTTAAGTAAATTGAATTTCT
* *
67307968 TGTT-ACTTTGATAATTGGGGTTTATGAAAAAAGAGCGTTCATATTTTGATTATTTTTGAGTTTG
571 TGTTAACTTTGATAATTGGGATTTATGAAAAAAGAGCGTTCAAATTTTGATTATTTTTGAGTTTG
67308032 ATAATTAAG
636 ATAATTAAG
* * *
67308041 ATTTGTATATGGTGTTTTATTTTATCTTTGTTTGAGTTTAGTTATACAATTAGCTTTATAGCTCA
1 ATTTGTATATGGTGTTTTGTTTGATCTTTGTTTGAGTTTAGTTATACAATTAGCTTCATAGCTCA
67308106 CCCCTTTGTTTTATCTTTGTCTGTTCAGGTAAACCTCAGACTTAGGATCGGACAGCGTGTGGGAG
66 CCCCTTTGTTTTATCTTTGTCTGTTCAGGTAAACCTCAGACTTAGGATCGGACAGCGTGTGGGAG
67308171 CTTAGATTATTTTTGCACTTAATGTAAATACAATGAATTCCATAATTATATGTTTTGATCTTTTG
131 CTTAGATTATTTTTGCACTTAATGTAAATACAATGAATTCCATAATTATATGTTTTGATCTTTTG
*
67308236 GGTTTGTAATCTGTTTCTAAACTCGTTTTGGGTTTTGCTTAATTCGTTGGTAATTGATATTTTCT
196 GGTTTGTAATCTGTTTCTAAACTCGTTTTGGGTTTTGCTTAATTCGTCGGTAATTGATATTTTCT
*
67308301 AGCGTGAGACTGCAAAATCACTTAAGTCGATAAAATAGATTTTGGTTTTTAAAACTACAACTCCT
261 AGCGTGAGACTGCAAAATCACTTAAGTCGATAAAATAGATTTTGGTTTTTAAAACTAAAACTCCT
* * *
67308366 AAAAAGGTTTTTTCTGCAAATTAAGTAATTTCTTAAGTGGTTTCTGAAAGCGAAAAAATAGGTT-
326 AAAAAGGTTTTTGCTGTAAATTAAGTAATTTCTTAAGTGGTTTCTGAAAGAGAAAAAATAGGTTA
* *
67308430 ACACTTACTGAAATCAATTTTCAGAGTGAGTCGATTCAATTTCTCCAGATTCAATTATAACTTTT
391 ACACTTACTGAAATCAATTTTCAGAGTGAGTCGATGCAATTTCTCCAGATTCGATTATAACTTTT
*
67308495 AGGCCAGGTTTGGGATGTTACATTTAGTGGCATCAAAACCAAGTTACAAAACTTGGACTGTGATT
456 AGGCCAGGTTTGGGATGTTACATTTAGTGGTATCAAAACCAAGTTACAAAACTTGGACTGTGATT
67308560 TTTGGGTTCAAAAATCTCTCTGAAAAATGTTTTAAGTAAATTGAATTTCTTGTTAACTTTGATAA
521 TTTGGGTTCAAAAATCTCTCTGAAAAATGTTTTAAGTAAATTGAATTTCTTGTTAACTTTGATAA
* *
67308625 TTGGGATTTATGAAAAAAGAGCGTTCAAATTTTAATTATTTTTGAGTTTGATAAATAAG
586 TTGGGATTTATGAAAAAAGAGCGTTCAAATTTTGATTATTTTTGAGTTTGATAATTAAG
67308684 ATTTGTATATGGTGTTTTGTTTGATCTTTGTTTGAGTTTAGTTATACAATTAGCTTCATAGCTCA
1 ATTTGTATATGGTGTTTTGTTTGATCTTTGTTTGAGTTTAGTTATACAATTAGCTTCATAGCTCA
67308749 CCCCTTTGTTTTATCTTTGTCTGTTCAGGTAAACCTCAGACTTAGGATCGGACAGCGTGTGGGAG
66 CCCCTTTGTTTTATCTTTGTCTGTTCAGGTAAACCTCAGACTTAGGATCGGACAGCGTGTGGGAG
67308814 CTTAGATTATTTTTGCACTTAATGTAAATACAATGAATTCCATAATTATATGTTTTGATCTTTTG
131 CTTAGATTATTTTTGCACTTAATGTAAATACAATGAATTCCATAATTATATGTTTTGATCTTTTG
67308879 GGTTTGTAATCTGTTTCTAAACTCGTTTTGGGTTTTGCTTAATTCGTCGGTAATTGATATTTTCT
196 GGTTTGTAATCTGTTTCTAAACTCGTTTTGGGTTTTGCTTAATTCGTCGGTAATTGATATTTTCT
67308944 AGCGTGAGACTGCAAAATCACTTAAGTCGATAAAATAGATTTTGGTTTTTAAAACTAAAACTCCT
261 AGCGTGAGACTGCAAAATCACTTAAGTCGATAAAATAGATTTTGGTTTTTAAAACTAAAACTCCT
67309009 AAAAAGGTTTTTGCTGTAAATTAAGTAATTTACAAAACTAAATGTCTAAAAGCGAAAAAATAGGT
326 AAAAAGGTTTTTGCTGTAAATTAAGTAATTT------C------T-T--AA--G------T-GGT
* * * * *
67309074 TTCTAATGATTATTTGAGAAAGTCTTATTTGCTTAACACTTACTGAAATCAATTTTCCA-AGTGA
367 TTC---TGA--A--AGAGAAA----AAATAGGTTAACACTTACTGAAATCAATTTT-CAGAGTGA
67309138 GTCGATGCAATTTCTCCAGATTCGATTATAACTTTTAGGCCAGGTTTGGGATGTTACATTTAGTG
420 GTCGATGCAATTTCTCCAGATTCGATTATAACTTTTAGGCCAGGTTTGGGATGTTACATTTAGTG
67309203 GTATCAAAACCAAGTTACAAAACTTGGACTGTGATTTTTGGGTTCAAAAATCTCTCTGAAAAATG
485 GTATCAAAACCAAGTTACAAAACTTGGACTGTGATTTTTGGGTTCAAAAATCTCTCTGAAAAATG
* *
67309268 TTTTAAGTAAATTGAATTTCTTGTTAACTTTGATAATTGGGATTTATGAAAAACGAGTGTTCAAA
550 TTTTAAGTAAATTGAATTTCTTGTTAACTTTGATAATTGGGATTTATGAAAAAAGAGCGTTCAAA
67309333 TTTTGATTATTTTTGAGTTTGATAATTAAG
615 TTTTGATTATTTTTGAGTTTGATAATTAAG
67309363 ATTTG
1 ATTTG
67309368 ATCAATCTGT
Statistics
Matches: 1243, Mismatches: 46, Indels: 55
0.92 0.03 0.04
Matches are distributed among these distances:
642 176 0.14
643 416 0.33
644 1 0.00
649 1 0.00
655 1 0.00
656 1 0.00
657 1 0.00
658 373 0.30
660 1 0.00
666 1 0.00
667 6 0.00
670 3 0.00
672 1 0.00
674 5 0.00
678 5 0.00
679 249 0.20
680 2 0.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (644 bp):
ATTTGTATATGGTGTTTTGTTTGATCTTTGTTTGAGTTTAGTTATACAATTAGCTTCATAGCTCA
CCCCTTTGTTTTATCTTTGTCTGTTCAGGTAAACCTCAGACTTAGGATCGGACAGCGTGTGGGAG
CTTAGATTATTTTTGCACTTAATGTAAATACAATGAATTCCATAATTATATGTTTTGATCTTTTG
GGTTTGTAATCTGTTTCTAAACTCGTTTTGGGTTTTGCTTAATTCGTCGGTAATTGATATTTTCT
AGCGTGAGACTGCAAAATCACTTAAGTCGATAAAATAGATTTTGGTTTTTAAAACTAAAACTCCT
AAAAAGGTTTTTGCTGTAAATTAAGTAATTTCTTAAGTGGTTTCTGAAAGAGAAAAAATAGGTTA
ACACTTACTGAAATCAATTTTCAGAGTGAGTCGATGCAATTTCTCCAGATTCGATTATAACTTTT
AGGCCAGGTTTGGGATGTTACATTTAGTGGTATCAAAACCAAGTTACAAAACTTGGACTGTGATT
TTTGGGTTCAAAAATCTCTCTGAAAAATGTTTTAAGTAAATTGAATTTCTTGTTAACTTTGATAA
TTGGGATTTATGAAAAAAGAGCGTTCAAATTTTGATTATTTTTGAGTTTGATAATTAAG
Found at i:67312790 original size:7 final size:7
Alignment explanation
Indices: 67312756--67312782 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
67312746 CATATACATT
67312756 TTTTTTC
1 TTTTTTC
67312763 TTTTTTC
1 TTTTTTC
67312770 TTTTTTC
1 TTTTTTC
67312777 TTTTTT
1 TTTTTT
67312783 TCATTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:67320819 original size:5 final size:5
Alignment explanation
Indices: 67320809--67320836 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
67320799 TACTGACGTA
67320809 TTTTG TTTTG TTTTG TTTTG TTTTG TTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTT
67320837 ATGATTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:67321353 original size:19 final size:19
Alignment explanation
Indices: 67321329--67321373 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
67321319 TATTTCTTTT
*
67321329 TGCATTA-ATTCCATGCATC
1 TGCATTACATTCCAT-CATA
*
67321348 TGCATTACATTGCATCATA
1 TGCATTACATTCCATCATA
67321367 TGCATTA
1 TGCATTA
67321374 GATTTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (19 bp):
TGCATTACATTCCATCATA
Found at i:67324414 original size:14 final size:15
Alignment explanation
Indices: 67324388--67324420 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
67324378 TGCCAAACTC
*
67324388 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
67324403 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
67324417 GGAA
1 GGAA
67324421 AAGCATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:67324528 original size:8 final size:8
Alignment explanation
Indices: 67324517--67324560 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
67324507 TAAAAAAATT
67324517 AAAAAAGA
1 AAAAAAGA
67324525 AAAAAAG-
1 AAAAAAGA
67324532 -AAAAAGA
1 AAAAAAGA
67324539 AAAAAAGAA
1 AAAAAAG-A
67324548 AAGAAAAGA
1 AA-AAAAGA
67324557 AAAA
1 AAAA
67324561 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.19
8 15 0.47
9 6 0.19
10 5 0.16
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:67324535 original size:14 final size:14
Alignment explanation
Indices: 67324518--67324554 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
67324508 AAAAAAATTA
67324518 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
67324532 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
67324546 -AAAAGAAAA
1 AAAAAGAAAA
67324555 GAAAAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:67325902 original size:44 final size:44
Alignment explanation
Indices: 67325837--67326178 Score: 149
Period size: 44 Copynumber: 7.8 Consensus size: 44
67325827 CCACCAGTCT
* * * *
67325837 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATTGTAGATCC
* * * * *
67325881 TGTCTCCCTAAGCAGTAGTGGAGCAGATCAATGATGGT-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATTGTAG-ATCC
* * ** *****
67325925 TATCTTTCC-AAGGTAGTAG-GGAAGCAGATTTGAGCCACCAG-TCC
1 TATC-TCCCTAA-GCAGTAGTGG-AGCAGATTAAAGATTGTAGATCC
* * * * *
67325969 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATTGTAGATCC
* * * ** **
67326013 TGTCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGGT-GAATTT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATTGTAG-ATCC
* * * *****
67326057 TATCTTCCTAAGGTAGTAG-GGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAA-GCAGTAGTGG-AGCAGATTAAAGATTGTAGATCC
* * * * *
67326101 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATTGTAGATCC
* * * *
67326145 TGTCTCCTTAAGCAGTAGTGGAGCATATTGAAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGA
67326179 CAGCGAATCT
Statistics
Matches: 206, Mismatches: 78, Indels: 28
0.66 0.25 0.09
Matches are distributed among these distances:
43 36 0.17
44 134 0.65
45 34 0.17
46 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATTGTAGATCC
Found at i:67325987 original size:132 final size:132
Alignment explanation
Indices: 67325750--67326169 Score: 725
Period size: 132 Copynumber: 3.2 Consensus size: 132
67325740 GCGGATTGAA
* * *
67325750 GTCTCCCTAAACAGTAGTGGAGCAGATAAAAAATGGTGAATCTTATCTTCCTAAGGTAGTAGGGA
1 GTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCTAAGGTAGTAGGGA
* *
67325815 AGCAGATTTAAGCCACCAGTCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATC
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATC
67325880 CT
131 CT
*
67325882 GTCTCCCTAAGCAGTAGTGGAGCAGATCAATGATGGTGAATCTTATCTTTCC-AAGGTAGTAGGG
1 GTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC-TTCCTAAGGTAGTAGGG
*
67325946 AAGCAGATTTGAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
65 AAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
67326011 CCT
130 CCT
* * *
67326014 GTCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGGTGAATTTTATCTTCCTAAGGTAGTAGGGA
1 GTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCTAAGGTAGTAGGGA
67326079 AGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATC
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATC
67326144 CT
131 CT
*
67326146 GTCTCCTTAAGCAGTAGTGGAGCA
1 GTCTCCCTAAGCAGTAGTGGAGCA
67326170 TATTGAAGAC
Statistics
Matches: 272, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 4 0.01
132 264 0.97
133 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (132 bp):
GTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCTAAGGTAGTAGGGA
AGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATC
CT
Found at i:67326553 original size:44 final size:44
Alignment explanation
Indices: 67326455--67326585 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 44
67326445 GAATATAACA
67326455 AATCTTATCTCCCTGAAGTTGTAGTAGGAGCACG-TTGAAGATACC
1 AATCTTATCTCCCTGAAGTTGTAGT-GGAGCA-GATTGAAGATACC
* * **
67326500 AA-CTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATT
1 AATC-TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATACC
* * * * *
67326544 AATCCTATCTCCCTAAAGTTGTAGTGAAGCAGACTGTAGATA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATA
67326586 GCGGATCTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.01
44 48 0.67
45 23 0.32
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATACC
Found at i:67330721 original size:160 final size:160
Alignment explanation
Indices: 67330457--67330778 Score: 626
Period size: 160 Copynumber: 2.0 Consensus size: 160
67330447 TTATGTTTAA
67330457 TTTGACTTTTCGGACTTTTGGACTTTACTTTTCATTTTGACTTACTTTTTTGAATTAAGTACTAT
1 TTTGACTTTTCGGACTTTTGGACTTTACTTTTCATTTTGACTTACTTTTTTGAATTAAGTACTAT
67330522 TATAATTCTGTATGCAAAATGATTTGTTGCAAATTAAACCCCGGTTTTCAAAACCTTATAACTTA
66 TATAATTCTGTATGCAAAATGATTTGTTGCAAATTAAACCCCGGTTTTCAAAACCTTATAACTTA
*
67330587 GTAAATTCCGCTGGAAAACGAGATGATCAC
131 GTAAATTCCGCTGCAAAACGAGATGATCAC
67330617 TTTGACTTTTCGGACTTTTGGACTTTACTTTTCATTTTGACTTACTTTTTTGAATTAAGTACTAT
1 TTTGACTTTTCGGACTTTTGGACTTTACTTTTCATTTTGACTTACTTTTTTGAATTAAGTACTAT
*
67330682 TATAATTCTGTATGCAAAATGATTTGTTGCAAATTAAACCCTGGTTTTCAAAACCTTATAACTTA
66 TATAATTCTGTATGCAAAATGATTTGTTGCAAATTAAACCCCGGTTTTCAAAACCTTATAACTTA
67330747 GTAAATTCCGCTGCAAAACGAGATGATCAC
131 GTAAATTCCGCTGCAAAACGAGATGATCAC
67330777 TT
1 TT
67330779 AAATGTTTTC
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (160 bp):
TTTGACTTTTCGGACTTTTGGACTTTACTTTTCATTTTGACTTACTTTTTTGAATTAAGTACTAT
TATAATTCTGTATGCAAAATGATTTGTTGCAAATTAAACCCCGGTTTTCAAAACCTTATAACTTA
GTAAATTCCGCTGCAAAACGAGATGATCAC
Found at i:67335903 original size:30 final size:31
Alignment explanation
Indices: 67335869--67335927 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
67335859 GATTATTTTT
67335869 TATTTAGGCATT-AATTTTTAAATTTATACC
1 TATTTAGGCATTAAATTTTTAAATTTATACC
**
67335899 TATTTAGGTTTTAAATTTTTAAATTTATA
1 TATTTAGGCATTAAATTTTTAAATTTATA
67335928 TTGAAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (31 bp):
TATTTAGGCATTAAATTTTTAAATTTATACC
Found at i:67337001 original size:23 final size:24
Alignment explanation
Indices: 67336957--67337002 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
67336947 AATTTTTAAA
67336957 AAATAGAAAATAAAAATTATTTTT
1 AAATAGAAAATAAAAATTATTTTT
67336981 AAATA-AAAATAGAAAA-TATTTT
1 AAATAGAAAATA-AAAATTATTTT
67337003 CGAAAACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAGAAAATAAAAATTATTTTT
Found at i:67338043 original size:2 final size:2
Alignment explanation
Indices: 67338036--67338088 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
67338026 NNNNNNNNAC
67338036 AT AT 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 AT AT
67338078 AT AT AT AT AT A
1 AT AT AT AT AT A
67338089 ATTGCAATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67341677 original size:2 final size:2
Alignment explanation
Indices: 67341670--67341718 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
67341660 AAGCTTTGTT
67341670 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67341712 TA TA TA T
1 TA TA TA T
67341719 TAACATTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67345801 original size:23 final size:20
Alignment explanation
Indices: 67345760--67345799 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67345750 CCTTCTACAC
*
67345760 GGGCATGTGCCCCTCCACAT
1 GGGCATGTGCCCCCCCACAT
*
67345780 GGGCATGTTGACCCCCCACA
1 GGGCATG-TGCCCCCCCACA
67345800 CAGCCTAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.40, G:0.25, T:0.17
Consensus pattern (20 bp):
GGGCATGTGCCCCCCCACAT
Found at i:67345819 original size:19 final size:19
Alignment explanation
Indices: 67345795--67345838 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
67345785 TGTTGACCCC
*
67345795 CCACACAGCCTAGGCATTT
1 CCACACAGCCTAGGAATTT
* *
67345814 CCACACGGTCTAGGAATTT
1 CCACACAGCCTAGGAATTT
67345833 CCACAC
1 CCACAC
67345839 GGTTGTATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.20
Consensus pattern (19 bp):
CCACACAGCCTAGGAATTT
Found at i:67345839 original size:19 final size:19
Alignment explanation
Indices: 67345804--67345841 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
67345794 CCCACACAGC
*
67345804 CTAGGCATTTCCACACGGT
1 CTAGGAATTTCCACACGGT
67345823 CTAGGAATTTCCACACGGT
1 CTAGGAATTTCCACACGGT
67345842 TGTATGGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (19 bp):
CTAGGAATTTCCACACGGT
Found at i:67347623 original size:3 final size:3
Alignment explanation
Indices: 67347615--67347645 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
67347605 AACTGCTCGT
67347615 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
67347646 AAAGTTCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:67348159 original size:92 final size:92
Alignment explanation
Indices: 67347998--67348182 Score: 271
Period size: 92 Copynumber: 2.0 Consensus size: 92
67347988 AAAGCAAAAG
* * * * *
67347998 AATGGCTTTATAGGATCACTTCGGTGATCAATGTAATGCCTTCAACCTAGCTGAAACTCCTAAGC
1 AATGGCTTTACAAGATCACTTCGGTGATCAATATAACGCCTTCAACCTAGCCGAAACTCCTAAGC
*
67348063 CGGGTCGAGGGTGTTACAAACTTGTAT
66 CGGGTCGAGGGTGTTACAAACCTGTAT
* * * * *
67348090 AATGGCTTTACAAGATCATTTCGGTGATCAATATAACGCCTTCGACTTAGCCGAAAGTCCTAAGT
1 AATGGCTTTACAAGATCACTTCGGTGATCAATATAACGCCTTCAACCTAGCCGAAACTCCTAAGC
67348155 CGGGTCGAGGGTGTTACAAACCTGTAT
66 CGGGTCGAGGGTGTTACAAACCTGTAT
67348182 A
1 A
67348183 GGTCGGTACA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (92 bp):
AATGGCTTTACAAGATCACTTCGGTGATCAATATAACGCCTTCAACCTAGCCGAAACTCCTAAGC
CGGGTCGAGGGTGTTACAAACCTGTAT
Found at i:67348406 original size:30 final size:28
Alignment explanation
Indices: 67348370--67348435 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
67348360 TATTTTGTGC
*
67348370 ATTAATAATACTTTATATTATATATATTAA
1 ATTAATAATACTTTATATTAT-TA-ACTAA
* *
67348400 ATTAATAAAACTTTATTTTATTAACTAA
1 ATTAATAATACTTTATATTATTAACTAA
67348428 A-TAATAAT
1 ATTAATAAT
67348436 TAAAATTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 6 0.19
28 5 0.16
29 2 0.06
30 19 0.59
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAATAATACTTTATATTATTAACTAA
Found at i:67348884 original size:29 final size:27
Alignment explanation
Indices: 67348808--67348871 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 27
67348798 TCTTTGTACT
67348808 CTTTCTACATTTAAAATTTAGTCCATTTA
1 CTTT-TAC-TTTAAAATTTAGTCCATTTA
* *
67348837 CTTTTACTTCCAGAAATTTAGTCCCTTTA
1 CTTTTACTT-TA-AAATTTAGTCCATTTA
67348866 CTTTTA
1 CTTTTA
67348872 GGGTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.06
28 4 0.13
29 25 0.81
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (27 bp):
CTTTTACTTTAAAATTTAGTCCATTTA
Found at i:67349803 original size:14 final size:15
Alignment explanation
Indices: 67349772--67349804 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
67349762 GGCAAATGTG
*
67349772 AAAACAACAAACAAC
1 AAAAAAACAAACAAC
67349787 AAAAAAACAAA-AAC
1 AAAAAAACAAACAAC
67349801 AAAA
1 AAAA
67349805 TAGATTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAACAAC
Found at i:67351441 original size:19 final size:19
Alignment explanation
Indices: 67351417--67351458 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
67351407 TTGAATACAT
67351417 AAATTA-AAAATAAACAAAA
1 AAATTATAAAAT-AACAAAA
*
67351436 AAATTATAAAATAACATAA
1 AAATTATAAAATAACAAAA
67351455 AAAT
1 AAAT
67351459 GAATATATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATTATAAAATAACAAAA
Found at i:67355342 original size:19 final size:20
Alignment explanation
Indices: 67355318--67355356 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
67355308 AGAACAAAAT
67355318 AATTGAAGAGAAA-ATGATC
1 AATTGAAGAGAAATATGATC
67355337 AATTGAAGAGAAATATGATC
1 AATTGAAGAGAAATATGATC
67355357 GATCATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (20 bp):
AATTGAAGAGAAATATGATC
Found at i:67356105 original size:31 final size:30
Alignment explanation
Indices: 67356068--67356140 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
67356058 AATGGATGAC
67356068 TGATTTGTCACTTTTC-GATAATGTT-AGTGAT
1 TGATTTGTCA-TTTTCTGA-AA-GTTGAGTGAT
*
67356099 TGATTTGTTATTTTCTGAAAGTTGAGTGAT
1 TGATTTGTCATTTTCTGAAAGTTGAGTGAT
*
67356129 TGTTTTGTCATT
1 TGATTTGTCATT
67356141 GAGATCAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 3 0.08
30 23 0.62
31 11 0.30
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (30 bp):
TGATTTGTCATTTTCTGAAAGTTGAGTGAT
Found at i:67360194 original size:10 final size:10
Alignment explanation
Indices: 67360179--67360242 Score: 58
Period size: 10 Copynumber: 6.2 Consensus size: 10
67360169 TTTTTTAGAT
67360179 AATTATAAAA
1 AATTATAAAA
67360189 AATTATAGAAA
1 AATTATA-AAA
*
67360200 AA-TACTTAAAT
1 AATTA--TAAAA
* *
67360211 AATTATTAAG
1 AATTATAAAA
*
67360221 AATTATAAGA
1 AATTATAAAA
67360231 AATTATAAAA
1 AATTATAAAA
67360241 AA
1 AA
67360243 ATATTAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
10 30 0.70
11 9 0.21
12 4 0.09
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (10 bp):
AATTATAAAA
Found at i:67360458 original size:21 final size:22
Alignment explanation
Indices: 67360422--67360466 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
67360412 TGCATAATTT
67360422 ATTTTAAATAATTATTAAAAAA
1 ATTTTAAATAATTATTAAAAAA
* *
67360444 ATTTT-AATGATTATTTAAAAA
1 ATTTTAAATAATTATTAAAAAA
67360465 AT
1 AT
67360467 CACATCCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTTAAATAATTATTAAAAAA
Found at i:67361520 original size:25 final size:25
Alignment explanation
Indices: 67361486--67361539 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
67361476 TGTGCTATTG
67361486 AAGTTTATTTTTATCATCTTGGACC
1 AAGTTTATTTTTATCATCTTGGACC
67361511 AAGTTTATTTTTATCATCTTGGACC
1 AAGTTTATTTTTATCATCTTGGACC
67361536 AAGT
1 AAGT
67361540 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (25 bp):
AAGTTTATTTTTATCATCTTGGACC
Found at i:67369320 original size:33 final size:33
Alignment explanation
Indices: 67369283--67369345 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
67369273 CAAAAGTATT
* *
67369283 TTTAAAAGT-ATTTTAATTTTTTTTATTTTTTCA
1 TTTAAAAGTAAATTT-ATTTTTTTTAATTTTTCA
*
67369316 TTTAAATGTAAATTTATTTTTTTTAATTTT
1 TTTAAAAGTAAATTTATTTTTTTTAATTTT
67369346 AATACATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (33 bp):
TTTAAAAGTAAATTTATTTTTTTTAATTTTTCA
Found at i:67370864 original size:2 final size:2
Alignment explanation
Indices: 67370857--67370881 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67370847 NNNNNNNNNT
67370857 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
67370882 GAGAGATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67371109 original size:3 final size:3
Alignment explanation
Indices: 67371101--67371135 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
67371091 ACAGCTGCAC
* *
67371101 CTT CTT CTT CTT CTT CTT CTT CTT CCT CAT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
67371136 GTTCTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:67374306 original size:16 final size:16
Alignment explanation
Indices: 67374282--67374321 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
67374272 GAGATACAAT
*
67374282 TAAAGTGATCAAAACC
1 TAAAATGATCAAAACC
*
67374298 TAAAATGATCTAAACC
1 TAAAATGATCAAAACC
*
67374314 TATAATGA
1 TAAAATGA
67374322 CCCGATTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (16 bp):
TAAAATGATCAAAACC
Found at i:67377017 original size:14 final size:14
Alignment explanation
Indices: 67377000--67377059 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
67376990 ATTTATAATT
*
67377000 TTTTAAAAATATAA
1 TTTTAAAAATAAAA
**
67377014 TTTTATGAATAAAA
1 TTTTAAAAATAAAA
67377028 TTCTATAAAAATTAAAA
1 TT-T-TAAAAA-TAAAA
*
67377045 TTTTATAAATAAAA
1 TTTTAAAAATAAAA
67377059 T
1 T
67377060 AATATATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 19 0.51
15 6 0.16
16 5 0.14
17 7 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (14 bp):
TTTTAAAAATAAAA
Found at i:67380997 original size:22 final size:22
Alignment explanation
Indices: 67380969--67381028 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
67380959 TTTATTGTTC
67380969 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
*
67380991 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTG
**
67381013 AGCCATGAGAGCTTAG
1 AAACATGAGAGCTTAG
67381029 AAAATTAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:67386048 original size:10 final size:10
Alignment explanation
Indices: 67386033--67386067 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
67386023 AATAAATTAT
67386033 AAAAATTAAA
1 AAAAATTAAA
67386043 AAAAATTAAA
1 AAAAATTAAA
67386053 AAAACATTAGAA
1 AAAA-ATTA-AA
67386065 AAA
1 AAA
67386068 TAGAGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.61
11 4 0.17
12 5 0.22
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:67386461 original size:29 final size:31
Alignment explanation
Indices: 67386407--67386491 Score: 115
Period size: 30 Copynumber: 2.8 Consensus size: 31
67386397 TATATGATTG
*
67386407 AATTTTACCACTAAACTTTGAA-TTTT-ATTA
1 AATTTTACCACTCAACTTT-AATTTTTAATTA
67386437 AATTTTACCA-TCAACTTTAATTTTTAATTA
1 AATTTTACCACTCAACTTTAATTTTTAATTA
67386467 AATTTTACCACTCAA-TATTAATTTT
1 AATTTTACCACTCAACT-TTAATTTT
67386492 GATGATTTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
28 2 0.04
29 11 0.22
30 25 0.50
31 12 0.24
ACGTcount: A:0.36, C:0.14, G:0.01, T:0.48
Consensus pattern (31 bp):
AATTTTACCACTCAACTTTAATTTTTAATTA
Found at i:67386860 original size:5 final size:5
Alignment explanation
Indices: 67386850--67386874 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
67386840 AAAAATATTA
67386850 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
67386875 GATTACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:67387979 original size:20 final size:20
Alignment explanation
Indices: 67387943--67387984 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
67387933 AATATTTTTT
*
67387943 ATAATTTTTATACTTTTTAA
1 ATAATTTTTATACTTTTCAA
67387963 ATAATTTTTAT-CATTTTCAA
1 ATAATTTTTATAC-TTTTCAA
67387983 AT
1 AT
67387985 TTTCAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATTTTTATACTTTTCAA
Found at i:67392812 original size:17 final size:17
Alignment explanation
Indices: 67392777--67392824 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
67392767 CTGTTGACGT
* *
67392777 CACACAGCCGTGTGCGC
1 CACACGGCCATGTGCGC
* *
67392794 CACTCGGCCATGTGTGC
1 CACACGGCCATGTGCGC
*
67392811 CACACGGTCATGTG
1 CACACGGCCATGTG
67392825 ACAAGTTGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (17 bp):
CACACGGCCATGTGCGC
Found at i:67393663 original size:19 final size:19
Alignment explanation
Indices: 67393641--67393677 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67393631 TTCTATTCGT
*
67393641 TTTTTATTTTTATTTTTTA
1 TTTTCATTTTTATTTTTTA
*
67393660 TTTTCCTTTTTATTTTTT
1 TTTTCATTTTTATTTTTT
67393678 TACTTGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTCATTTTTATTTTTTA
Found at i:67394449 original size:15 final size:15
Alignment explanation
Indices: 67394386--67394449 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
67394376 ATCATTTTCT
67394386 TTATTATTT-TAATGTA
1 TTATTATTTAT-AT-TA
*
67394402 TTATCATTTATTATTA
1 TTATTATTTA-TATTA
* *
67394418 CTATTATTTATAATA
1 TTATTATTTATATTA
*
67394433 TTATTATTTATCTTA
1 TTATTATTTATATTA
67394448 TT
1 TT
67394450 TTTACTTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 18 0.46
16 18 0.46
17 2 0.05
18 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATTATTTATATTA
Found at i:67394721 original size:24 final size:23
Alignment explanation
Indices: 67394693--67394746 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
67394683 TATATTATCT
*
67394693 TATTTTATTTTTATA-ATGCACATA
1 TATTTTATTTATATACAT--ACATA
*
67394717 TATTTT-TTTATCTACATACATA
1 TATTTTATTTATATACATACATA
67394739 TATTTTAT
1 TATTTTAT
67394747 GTTTCGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.42
23 7 0.27
24 8 0.31
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTTATTTATATACATACATA
Found at i:67397029 original size:9 final size:9
Alignment explanation
Indices: 67396990--67397164 Score: 69
Period size: 9 Copynumber: 18.7 Consensus size: 9
67396980 TTTTTTTGAC
67396990 AAAAATTATT
1 AAAAATTA-T
67397000 AAAAA-T-T
1 AAAAATTAT
67397007 -AAAATTGAT
1 AAAAATT-AT
67397016 ATAAAATTTAT
1 A-AAAA-TTAT
*
67397027 AAAAATAAT
1 AAAAATTAT
*
67397036 AAAAATTCT
1 AAAAATTAT
67397045 AATAAATTAT
1 AA-AAATTAT
67397055 -AAAATTAAT
1 AAAAATT-AT
*
67397064 AAAAACATATTT
1 -AAAA-AT-TAT
*
67397076 AAAATTTTAT
1 AAAA-ATTAT
*
67397086 GAAAAGTTA-
1 -AAAAATTAT
**
67397095 AAAAACCAT
1 AAAAATTAT
67397104 AAAAGATTAT
1 AAAA-ATTAT
*
67397114 AAAAAAATAT
1 -AAAAATTAT
67397124 AAAATATCTA-
1 AAAA-AT-TAT
*
67397134 ATAAATTAT
1 AAAAATTAT
67397143 -AAAATTAT
1 AAAAATTAT
*
67397151 TAAAATTA-
1 AAAAATTAT
67397159 AAAAAT
1 AAAAAT
67397165 AGAAATTATA
Statistics
Matches: 126, Mismatches: 19, Indels: 42
0.67 0.10 0.22
Matches are distributed among these distances:
6 4 0.03
7 2 0.02
8 24 0.19
9 34 0.27
10 31 0.25
11 25 0.20
12 5 0.04
13 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:67397290 original size:20 final size:19
Alignment explanation
Indices: 67397265--67397313 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
67397255 ATTGCTGCTC
67397265 TTATTTTTATTGAT-AAATT
1 TTATTTTTATT-ATAAAATT
67397284 GTTATTTTTATTATAAAATT
1 -TTATTTTTATTATAAAATT
67397304 TGTATTTTTA
1 T-TATTTTTA
67397314 ATTTTGTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTATTTTTATTATAAAATT
Found at i:67397828 original size:16 final size:15
Alignment explanation
Indices: 67397806--67397845 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
67397796 CAATAAATAA
67397806 AATTTTATAATTTAT
1 AATTTTATAATTTAT
*
67397821 ATATTTTAATATTTTAT
1 A-ATTTT-ATAATTTAT
67397838 AATTTTAT
1 AATTTTAT
67397846 TTAAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 10 0.45
17 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTATAATTTAT
Found at i:67397840 original size:10 final size:10
Alignment explanation
Indices: 67397816--67397968 Score: 59
Period size: 10 Copynumber: 16.5 Consensus size: 10
67397806 AATTTTATAA
67397816 TTTAT-ATA-
1 TTTATAATAT
67397824 TTT-TAATAT
1 TTTATAATAT
67397833 TTTATAAT-T
1 TTTATAATAT
* *
67397842 TTATTTAAAAT
1 TT-TATAATAT
*
67397853 TGT--AAT-T
1 TTTATAATAT
*
67397860 TTTAGAATA-
1 TTTATAATAT
67397869 TTTATAAGT-T
1 TTTATAA-TAT
67397879 TTTATAATA-
1 TTTATAATAT
* **
67397888 TTCATAAGGT
1 TTTATAATAT
*
67397898 TTTATGAATTT
1 TTTAT-AATAT
67397909 TTTATAAT-T
1 TTTATAATAT
67397918 TTTATAAGT-T
1 TTTATAA-TAT
*
67397928 TATATAA-A-
1 TTTATAATAT
67397936 TTT-TAATAT
1 TTTATAATAT
* *
67397945 TTTATGATTT
1 TTTATAATAT
67397955 TTTATAAT-T
1 TTTATAATAT
67397964 TTTAT
1 TTTAT
67397969 GTGAAAAATA
Statistics
Matches: 110, Mismatches: 17, Indels: 35
0.68 0.10 0.22
Matches are distributed among these distances:
7 7 0.06
8 11 0.10
9 39 0.35
10 43 0.39
11 10 0.09
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (10 bp):
TTTATAATAT
Found at i:67397880 original size:19 final size:19
Alignment explanation
Indices: 67397858--67397921 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
67397848 AAAATTGTAA
67397858 TTTTTAGAATATTTATAAG
1 TTTTTAGAATATTTATAAG
* *
67397877 TTTTTATAATATTCATAAG
1 TTTTTAGAATATTTATAAG
* *
67397896 GTTTTATGAATTTTTTATAA-
1 TTTTTA-GAA-TATTTATAAG
67397916 TTTTTA
1 TTTTTA
67397922 TAAGTTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 22 0.61
20 7 0.19
21 7 0.19
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTTTAGAATATTTATAAG
Found at i:67397913 original size:11 final size:10
Alignment explanation
Indices: 67397869--67397966 Score: 62
Period size: 10 Copynumber: 10.2 Consensus size: 10
67397859 TTTTAGAATA
*
67397869 TTTATAAGTT
1 TTTATAATTT
*
67397879 TTTATAA-TA
1 TTTATAATTT
* **
67397888 TTCATAAGGT
1 TTTATAATTT
67397898 TTTATGAATTT
1 TTTAT-AATTT
67397909 TTTATAA-TT
1 TTTATAATTT
*
67397918 TTTATAAGTT
1 TTTATAATTT
* *
67397928 TATATAA--A
1 TTTATAATTT
*
67397936 TTT-TAATAT
1 TTTATAATTT
*
67397945 TTTATGATTT
1 TTTATAATTT
67397955 TTTATAATTT
1 TTTATAATTT
67397965 TT
1 TT
67397967 ATGTGAAAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
7 3 0.04
8 2 0.03
9 19 0.28
10 36 0.53
11 8 0.12
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (10 bp):
TTTATAATTT
Found at i:67397913 original size:30 final size:28
Alignment explanation
Indices: 67397869--67397939 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
67397859 TTTTAGAATA
*
67397869 TTTATAAGTTTTTATAATATTCATAAGGT
1 TTTATAATTTTTTATAATATTCATAA-GT
* *
67397898 TTTATGAATTTTTTATAATTTTTATAAGT
1 TTTAT-AATTTTTTATAATATTCATAAGT
*
67397927 TTATATAAATTTT
1 TT-TATAATTTTT
67397940 AATATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTATAATTTTTTATAATATTCATAAGT
Found at i:67397919 original size:9 final size:9
Alignment explanation
Indices: 67397808--67397968 Score: 82
Period size: 9 Copynumber: 17.7 Consensus size: 9
67397798 ATAAATAAAA
67397808 TTTTATAAT
1 TTTTATAAT
*
67397817 TTATAT-AT
1 TTTTATAAT
*
67397825 TTTAAT-A-
1 TTTTATAAT
67397832 TTTTATAAT
1 TTTTATAAT
*
67397841 TTTATTTAA-
1 TTT-TATAAT
** *
67397850 AATTGTAAT
1 TTTTATAAT
*
67397859 TTTTAGAAT
1 TTTTATAAT
*
67397868 ATTTATAAGT
1 TTTTATAA-T
67397878 TTTTATAAT
1 TTTTATAAT
* * *
67397887 ATTCATAAGG
1 TTTTATAA-T
67397897 TTTTATGAATT
1 TTTTAT-AA-T
67397908 TTTTATAAT
1 TTTTATAAT
67397917 TTTTATAAGT
1 TTTTATAA-T
*
67397927 TTATATAA-
1 TTTTATAAT
*
67397935 ATTT-TAAT
1 TTTTATAAT
*
67397943 ATTTTATGATT
1 -TTTTAT-AAT
67397954 TTTTATAAT
1 TTTTATAAT
67397963 TTTTAT
1 TTTTAT
67397969 GTGAAAAATA
Statistics
Matches: 112, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
7 8 0.07
8 14 0.12
9 47 0.42
10 33 0.29
11 10 0.09
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:67397933 original size:19 final size:20
Alignment explanation
Indices: 67397897--67397940 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
67397887 ATTCATAAGG
* * *
67397897 TTTTATGAATTTTTTATAAT
1 TTTTATGAAGTTTATATAAA
67397917 TTTTAT-AAGTTTATATAAA
1 TTTTATGAAGTTTATATAAA
67397936 TTTTA
1 TTTTA
67397941 ATATTTTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTATGAAGTTTATATAAA
Found at i:67397946 original size:28 final size:27
Alignment explanation
Indices: 67397808--67397947 Score: 69
Period size: 30 Copynumber: 5.1 Consensus size: 27
67397798 ATAAATAAAA
67397808 TTTTATAATTTATAT--ATTTTAATA-
1 TTTTATAATTTATATAAATTTTAATAT
* *
67397832 TTTTATAATTTTATTTAAAATTGT-A-AT
1 TTTTATAA-TTTATAT-AAATTTTAATAT
* * *
67397859 TTTTAGAATATT-TATAAGTTTTTATAAT
1 TTTTATAAT-TTATATAAATTTTAAT-AT
* * * *
67397887 ATTCATAAGGTTT-TATGAATTTTTTATAAT
1 TTTTATAA--TTTATAT-AAATTTTAAT-AT
67397917 TTTTATAAGTTTATATAAATTTTAATAT
1 TTTTATAA-TTTATATAAATTTTAATAT
67397945 TTT
1 TTT
67397948 ATGATTTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
24 8 0.09
25 11 0.12
26 5 0.06
27 10 0.11
28 16 0.18
29 17 0.19
30 22 0.25
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTTATAATTTATATAAATTTTAATAT
Found at i:67398465 original size:18 final size:18
Alignment explanation
Indices: 67398428--67398463 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
67398418 AAATAATTTT
*
67398428 TTAATTAATTAAATTAAA
1 TTAATTAATTAAAATAAA
67398446 TTAATTAATTAATAATAA
1 TTAATTAATTAA-AATAA
67398464 TTTTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAATTAAAATAAA
Found at i:67398480 original size:14 final size:15
Alignment explanation
Indices: 67398454--67398494 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
67398444 AATTAATTAA
*
67398454 TTAATAATA-ATTTT
1 TTAATATTATATTTT
*
67398468 TTATTA-TATATTTT
1 TTAATATTATATTTT
67398482 TTAATATTATATT
1 TTAATATTATATT
67398495 CTTATCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 15 0.65
15 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATATTATATTTT
Found at i:67402057 original size:21 final size:21
Alignment explanation
Indices: 67402031--67402070 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
67402021 TGACAATACA
67402031 TATATAATAATGTGGTTGGTG
1 TATATAATAATGTGGTTGGTG
67402052 TATATAATAATGTGGTTGG
1 TATATAATAATGTGGTTGG
67402071 CGCATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (21 bp):
TATATAATAATGTGGTTGGTG
Found at i:67409525 original size:30 final size:30
Alignment explanation
Indices: 67409485--67409628 Score: 139
Period size: 30 Copynumber: 4.9 Consensus size: 30
67409475 AAATTTAAAA
* * ** *
67409485 AAATTGCATTTTGACCCCTGTACTTTCTCG
1 AAATTACATTTCGACCCCTAAACTTTCTCT
* *
67409515 AAATTACATTTCAACCCCTAAACTTT-TAT
1 AAATTACATTTCGACCCCTAAACTTTCTCT
* * *
67409544 AAATTAC-TTTTGACCCCTAAATTTTCTCA
1 AAATTACATTTCGACCCCTAAACTTTCTCT
* *
67409573 AAATTACCTTTCGACCCCTAAACTTTTTCT
1 AAATTACATTTCGACCCCTAAACTTTCTCT
* * *
67409603 AAATTACGTTTCGGCCCCAAAACTTT
1 AAATTACATTTCGACCCCTAAACTTT
67409629 TGCTGTATTT
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
28 15 0.16
29 16 0.17
30 62 0.67
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.38
Consensus pattern (30 bp):
AAATTACATTTCGACCCCTAAACTTTCTCT
Found at i:67409590 original size:58 final size:59
Alignment explanation
Indices: 67409493--67409628 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 59
67409483 AAAAATTGCA
** *
67409493 TTTTGACCCCTGTACTTTCTCGAAATTACATTTCAACCCCTAAAC-TTTTATAAATTAC
1 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTTATAAATTAC
* * * *
67409551 TTTTGACCCCTAAATTTTCTCAAAATTACCTTTCGACCCCTAAACTTTTTCTAAATTAC
1 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTTATAAATTAC
* * *
67409610 GTTTCGGCCCCAAAACTTT
1 -TTTTGACCCCTAAACTTT
67409629 TGCTGTATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 39 0.60
59 12 0.18
60 14 0.22
ACGTcount: A:0.28, C:0.27, G:0.06, T:0.39
Consensus pattern (59 bp):
TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTTATAAATTAC
Found at i:67410191 original size:10 final size:10
Alignment explanation
Indices: 67410178--67410251 Score: 71
Period size: 10 Copynumber: 7.2 Consensus size: 10
67410168 GAGAAGAAGG
67410178 AAGAAAAAGA
1 AAGAAAAAGA
67410188 AAGAAAAAGA
1 AAGAAAAAGA
67410198 AGGAGAAAAAGA
1 A--AGAAAAAGA
*
67410210 GAGAAAAA-A
1 AAGAAAAAGA
*
67410219 AGAGAGAAA-A
1 A-AGAAAAAGA
*
67410229 AAGAAAAAAA
1 AAGAAAAAGA
67410239 AAGAAAAGAGA
1 AAGAAAA-AGA
67410250 AA
1 AA
67410252 AAGCAAAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
9 7 0.13
10 34 0.63
11 4 0.07
12 9 0.17
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:67410214 original size:22 final size:22
Alignment explanation
Indices: 67410171--67410238 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
67410161 GAAGAAGGAG
*
67410171 AAGAAGGAAGAAAAAGAAAGAAA
1 AAGAAGG-AGAAAAAGAGAGAAA
67410194 AAGAAGGAGAAAAAGAGAGAAA
1 AAGAAGGAGAAAAAGAGAGAAA
*
67410216 AA-AAGAGAGAAAAA-AGAAAAA
1 AAGAAG-GAGAAAAAGAGAGAAA
67410237 AA
1 AA
67410239 AAGAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.26
22 24 0.57
23 7 0.17
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (22 bp):
AAGAAGGAGAAAAAGAGAGAAA
Found at i:67410243 original size:17 final size:19
Alignment explanation
Indices: 67410187--67410253 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 19
67410177 GAAGAAAAAG
67410187 AAAGAAAAAGAAG-GAGAAAA
1 AAAGAAAAA-AAGAGAG-AAA
67410207 AGAGAGAAAAAAAGAGAGAAA
1 A-A-AGAAAAAAAGAGAGAAA
67410228 AAAGAAAAAAA-A-AGAAA
1 AAAGAAAAAAAGAGAGAAA
*
67410245 AGAGAAAAA
1 AAAGAAAAA
67410254 GCAAAATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
17 13 0.30
18 1 0.02
19 9 0.21
20 2 0.05
21 8 0.19
22 10 0.23
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAAAGAGAGAAA
Found at i:67410252 original size:12 final size:11
Alignment explanation
Indices: 67410178--67410252 Score: 59
Period size: 12 Copynumber: 6.7 Consensus size: 11
67410168 GAGAAGAAGG
67410178 AAGAAAAAG-A
1 AAGAAAAAGAA
67410188 AAGAAAAAGAA
1 AAGAAAAAGAA
*
67410199 GGAGAAAAAGAGA
1 -AAGAAAAAGA-A
67410212 GAA-AAAAAG-A
1 -AAGAAAAAGAA
*
67410222 GAGAAAAAAGAA
1 AAG-AAAAAGAA
67410234 AA-AAAAAGAA
1 AAGAAAAAGAA
67410244 AAGAGAAAA
1 AAGA-AAAA
67410253 AGCAAAATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
9 1 0.02
10 20 0.38
11 8 0.15
12 21 0.40
13 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:67410259 original size:22 final size:23
Alignment explanation
Indices: 67410179--67410254 Score: 93
Period size: 22 Copynumber: 3.3 Consensus size: 23
67410169 AGAAGAAGGA
*
67410179 AGAAAAAGAAAGAAAAAG-AAGG
1 AGAAAAAGAAAGAAAAAGAAAAG
* *
67410201 AGAAAAAGAGAGAAAAA-AAGAG
1 AGAAAAAGAAAGAAAAAGAAAAG
*
67410223 AGAAAAAAGAAAAAAAAAGAAAAG
1 AG-AAAAAGAAAGAAAAAGAAAAG
67410247 AGAAAAAG
1 AGAAAAAG
67410255 CAAAATCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 20 0.44
23 19 0.42
24 6 0.13
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AGAAAAAGAAAGAAAAAGAAAAG
Found at i:67410379 original size:26 final size:26
Alignment explanation
Indices: 67410344--67410396 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
67410334 CCCAGGCCCG
* *
67410344 AAAAAAAAAACAGCAAAGCAAAAAAA
1 AAAAAAAAAAAAACAAAGCAAAAAAA
*
67410370 AAAAAAAAAAAAACAAAGCAGAAAAA
1 AAAAAAAAAAAAACAAAGCAAAAAAA
67410396 A
1 A
67410397 GAAAGAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.83, C:0.09, G:0.08, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAAACAAAGCAAAAAAA
Found at i:67410524 original size:16 final size:16
Alignment explanation
Indices: 67410503--67410545 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
67410493 GGCCCAGCAG
67410503 AGAAGAAAAAAAAAAC
1 AGAAGAAAAAAAAAAC
* *
67410519 AGAAGAAAAAAAGAAG
1 AGAAGAAAAAAAAAAC
67410535 A-AAGAAAAAAA
1 AGAAGAAAAAAA
67410546 GAAAAGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (16 bp):
AGAAGAAAAAAAAAAC
Found at i:67410533 original size:11 final size:11
Alignment explanation
Indices: 67410512--67410550 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
67410502 GAGAAGAAAA
67410512 AAAAAACAGAAG
1 AAAAAA-AGAAG
67410524 AAAAAAAGAAG
1 AAAAAAAGAAG
*
67410535 AAAGAAAAAAAG
1 AAA-AAAAGAAG
67410547 AAAA
1 AAAA
67410551 GGGTTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:67410546 original size:15 final size:15
Alignment explanation
Indices: 67410503--67410548 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
67410493 GGCCCAGCAG
67410503 AGAAGAAA-AAAAAA
1 AGAAGAAAGAAAAAA
*
67410517 A-CAG-AAGAAAAAA
1 AGAAGAAAGAAAAAA
67410530 AGAAGAAAGAAAAAA
1 AGAAGAAAGAAAAAA
67410545 AGAA
1 AGAA
67410549 AAGGGTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 2 0.07
13 9 0.33
14 3 0.11
15 13 0.48
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAAAAAA
Found at i:67411357 original size:21 final size:22
Alignment explanation
Indices: 67411320--67411361 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
67411310 TCGTCTTTCG
67411320 AAATTCTCATGTTTTCAAAATA
1 AAATTCTCATGTTTTCAAAATA
*
67411342 AAATTC-CATTTTTTCAAAAT
1 AAATTCTCATGTTTTCAAAAT
67411362 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.43
Consensus pattern (22 bp):
AAATTCTCATGTTTTCAAAATA
Found at i:67411379 original size:19 final size:18
Alignment explanation
Indices: 67411352--67411556 Score: 101
Period size: 18 Copynumber: 11.6 Consensus size: 18
67411342 AAATTCCATT
*
67411352 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
67411370 TTTTCAAAAAATTTC-TG
1 TTTTCAAAAATTTTCGTG
*
67411387 TGTTTCAAAAATATTCGTG
1 T-TTTCAAAAATTTTCGTG
* *
67411406 TTTTTTAAAAAAATTTCCGTG
1 --TTTT-CAAAAATTTTCGTG
**
67411427 TTTT-TTAAA---TCGTG
1 TTTTCAAAAATTTTCGTG
* *
67411441 -TTTCAAAAAAAAAATGTCGTG
1 TTTTC----AAAAATTTTCGTG
67411462 TTTT-AAAAATTTTCGT-
1 TTTTCAAAAATTTTCGTG
* *
67411478 TCTTCTAAAAATTTTCGCG
1 TTTTC-AAAAATTTTCGTG
*
67411497 -TTTCTAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* *
67411514 -TTT-ACAAATTCTCGTG
1 TTTTCAAAAATTTTCGTG
* *
67411530 TTTTTAAAAATTCTCGTG
1 TTTTCAAAAATTTTCGTG
67411548 TTTT-AAAAA
1 TTTTCAAAAA
67411557 AAAACTTTCG
Statistics
Matches: 145, Mismatches: 23, Indels: 39
0.70 0.11 0.19
Matches are distributed among these distances:
13 3 0.02
14 4 0.03
16 13 0.09
17 38 0.26
18 58 0.40
19 6 0.04
20 3 0.02
21 17 0.12
22 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:67411398 original size:17 final size:17
Alignment explanation
Indices: 67411353--67411408 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
67411343 AATTCCATTT
*
67411353 TTTC-AAAATTTTTCGTG
1 TTTCAAAAATTTCT-GTG
67411370 TTTTCAAAAAATTTCTGTG
1 -TTTC-AAAAATTTCTGTG
67411389 TTTCAAAAATATTC-GTG
1 TTTCAAAAAT-TTCTGTG
67411406 TTT
1 TTT
67411409 TTTAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 12 0.35
18 11 0.32
19 3 0.09
20 8 0.24
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (17 bp):
TTTCAAAAATTTCTGTG
Found at i:67411418 original size:21 final size:21
Alignment explanation
Indices: 67411393--67411435 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
67411383 TCTGTGTTTC
67411393 AAAAATATT-CGTGTTTTTTAA
1 AAAAAT-TTCCGTGTTTTTTAA
67411414 AAAAATTTCCGTGTTTTTTAA
1 AAAAATTTCCGTGTTTTTTAA
67411435 A
1 A
67411436 TCGTGTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (21 bp):
AAAAATTTCCGTGTTTTTTAA
Found at i:67411538 original size:51 final size:51
Alignment explanation
Indices: 67411457--67411555 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 51
67411447 AAAAAAAATG
* *
67411457 TCGTGTTTTAAAAATTTTCGTTCTTCTAAAAATTTTCGCGTTTCTAAAATTT
1 TCGTGTTTTAAAAATTCTCGTTCTTCTAAAAATTCTCGCGTTT-TAAAATTT
* * *
67411509 TCGTG-TTTACAAATTCTCGTGT-TTTTAAAAATTCTCGTGTTTTAAAA
1 TCGTGTTTTAAAAATTCTCGT-TCTTCTAAAAATTCTCGCGTTTTAAAA
67411556 AAAAACTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 5 0.12
51 30 0.73
52 6 0.15
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.48
Consensus pattern (51 bp):
TCGTGTTTTAAAAATTCTCGTTCTTCTAAAAATTCTCGCGTTTTAAAATTT
Found at i:67411557 original size:18 final size:17
Alignment explanation
Indices: 67411457--67411556 Score: 107
Period size: 18 Copynumber: 5.8 Consensus size: 17
67411447 AAAAAAAATG
67411457 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
67411474 TCGT-TCTTCTAAAAATTT
1 TCGTGT-TT-TAAAAATTT
*
67411492 TCGCGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* *
67411509 TCGTG-TTTACAAATTC
1 TCGTGTTTTAAAAATTT
*
67411525 TCGTGTTTTTAAAAATTC
1 TCGTG-TTTTAAAAATTT
67411543 TCGTGTTTTAAAAA
1 TCGTGTTTTAAAAA
67411557 AAAACTTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
15 1 0.01
16 13 0.18
17 26 0.36
18 31 0.43
19 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (17 bp):
TCGTGTTTTAAAAATTT
Found at i:67415102 original size:10 final size:10
Alignment explanation
Indices: 67415087--67415119 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
67415077 AATTCAAATG
67415087 AATATATATA
1 AATATATATA
67415097 AATATATATA
1 AATATATATA
*
67415107 TATATATATA
1 AATATATATA
67415117 AAT
1 AAT
67415120 GTCCAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATATATA
Found at i:67417061 original size:20 final size:20
Alignment explanation
Indices: 67417025--67417062 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67417015 ATTTGTTATT
*
67417025 TTAGTTTTATTATTATTAAA
1 TTAGTTTTATTAATATTAAA
67417045 TTAGTTATT-TTAATATTA
1 TTAGTT-TTATTAATATTA
67417063 TTAATACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTAGTTTTATTAATATTAAA
Found at i:67417075 original size:23 final size:23
Alignment explanation
Indices: 67417029--67417075 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
67417019 GTTATTTTAG
* *
67417029 TTTTATTATTATTAAATTAGTTA
1 TTTTAATATTATTAAACTAGTTA
67417052 TTTTAATATTATTAATACTA-TTA
1 TTTTAATATTATTAA-ACTAGTTA
67417075 T
1 T
67417076 GTGGCATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTAAACTAGTTA
Found at i:67417571 original size:3 final size:3
Alignment explanation
Indices: 67417563--67417613 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
67417553 TTATCTTTTC
67417563 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
67417611 ATT
1 ATT
67417614 GTTCTTGATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:67426117 original size:2 final size:2
Alignment explanation
Indices: 67426110--67426134 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67426100 TTCTAAAATA
67426110 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
67426135 AACAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67427231 original size:19 final size:20
Alignment explanation
Indices: 67427204--67427243 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
67427194 ACAAAATATT
*
67427204 TTTAAAAATATTTA-ATTAA
1 TTTAAAAATAGTTATATTAA
*
67427223 TTTAGAAATAGTTATATTAA
1 TTTAAAAATAGTTATATTAA
67427243 T
1 T
67427244 ACTATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTAAAAATAGTTATATTAA
Found at i:67427880 original size:33 final size:34
Alignment explanation
Indices: 67427816--67427881 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
67427806 TCTTATTTGA
*
67427816 TTGTTAATTTTGCTACTATTTTAGATGCATTTAC
1 TTGTTAATTTTGCTACTATGTTAGATGCATTTAC
67427850 TTGTTAA-TTTGC-ATCTATGTTAG-TGTCATTTA
1 TTGTTAATTTTGCTA-CTATGTTAGATG-CATTTA
67427882 AGTATAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 3 0.10
33 19 0.66
34 7 0.24
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.53
Consensus pattern (34 bp):
TTGTTAATTTTGCTACTATGTTAGATGCATTTAC
Found at i:67447624 original size:24 final size:24
Alignment explanation
Indices: 67447595--67447645 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
67447585 TAATTACTTT
*
67447595 AATATTAAATTTAATCTAATATCA
1 AATATTAAATTAAATCTAATATCA
* * *
67447619 AATATTAGATTAAATTTAATATTA
1 AATATTAAATTAAATCTAATATCA
67447643 AAT
1 AAT
67447646 CTTATTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
AATATTAAATTAAATCTAATATCA
Found at i:67454242 original size:17 final size:16
Alignment explanation
Indices: 67454222--67454261 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
67454212 TTCAAAAACA
67454222 AAAAATTAAAAAACTTT
1 AAAAATTAAAAAA-TTT
* *
67454239 AAAAATGAAAATATTT
1 AAAAATTAAAAAATTT
67454255 AAAAATT
1 AAAAATT
67454262 TATTTTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAAATTAAAAAATTT
Found at i:67454298 original size:20 final size:20
Alignment explanation
Indices: 67454273--67454314 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
67454263 ATTTTTTGAC
*
67454273 AAAATATATACAAAACTATA
1 AAAATACATACAAAACTATA
* *
67454293 AAAATACATATAAAATTATA
1 AAAATACATACAAAACTATA
67454313 AA
1 AA
67454315 TGAATGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATACATACAAAACTATA
Found at i:67455075 original size:17 final size:17
Alignment explanation
Indices: 67455039--67455071 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
67455029 AAAAATAAAC
67455039 TTTTAAATAATTTTTTA
1 TTTTAAATAATTTTTTA
*
67455056 TTTTAAA-AGTTTTTTA
1 TTTTAAATAATTTTTTA
67455072 ATTTCTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTAAATAATTTTTTA
Found at i:67458650 original size:39 final size:39
Alignment explanation
Indices: 67458578--67458788 Score: 190
Period size: 45 Copynumber: 5.0 Consensus size: 39
67458568 ATTTGCCGGC
* * *
67458578 TTACTGATTAGGCAC-TTATGTGTCGACTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
67458616 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
*
67458655 TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTAC---T---GATTCGGCACTTTGTGTGTCGAATACTGTTACTG
67458700 TTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTG
1 TTAC-----T-GATTCGGCACTTTGTGTGTCGAATAC---T---GTTACTG
* * *
67458751 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACT
67458789 ACTACCGTTA
Statistics
Matches: 148, Mismatches: 10, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
38 14 0.09
39 31 0.21
42 2 0.01
45 87 0.59
47 2 0.01
48 1 0.01
51 11 0.07
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:67458673 original size:45 final size:45
Alignment explanation
Indices: 67458605--67458788 Score: 305
Period size: 45 Copynumber: 4.1 Consensus size: 45
67458595 ATGTGTCGAC
*
67458605 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
67458650 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
67458695 TACTGTTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * * *
67458740 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
67458785 TACT
1 TACT
67458789 ACTACCGTTA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 129 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:67461347 original size:27 final size:27
Alignment explanation
Indices: 67461297--67461373 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
67461287 AGAAAGTTAT
*
67461297 TAAAACTATTAAAAAATT-TGTAAAACA
1 TAAAAATATTAAAAAATTAT-TAAAACA
* **
67461324 TAAAAATATTATAAAATTATTAAAATT
1 TAAAAATATTAAAAAATTATTAAAACA
*
67461351 TAAAAATATT-GAAAATTAATTAA
1 TAAAAATATTAAAAAATT-ATTAA
67461374 TTTCTAATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 6 0.14
27 36 0.84
28 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAAAATATTAAAAAATTATTAAAACA
Done.