Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 202 of 311
Found at i:69594351 original size:12 final size:12
Alignment explanation
Indices: 69594334--69594360 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
69594324 TTGATAAATG
69594334 TGATATGTGTTT
1 TGATATGTGTTT
69594346 TGATATGTGTTT
1 TGATATGTGTTT
69594358 TGA
1 TGA
69594361 ATAGGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.56
Consensus pattern (12 bp):
TGATATGTGTTT
Found at i:69603631 original size:43 final size:42
Alignment explanation
Indices: 69603559--69603708 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 42
69603549 TATCCCAGAT
* *
69603559 ATGGTCTTACATGTTATCAC-ATATTGATGCAACTGTCCTAGAC
1 ATGGTCTTACATGTAATCACAATA-CGATGCAA-TGTCCTAGAC
* * * * *
69603602 AGGGTCTTATATGAAATCATAATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACAATACGATG-CAATGTCCTAGAC
* *
69603645 ATGGTCTTACACGTAATCACAATACAATGCGAATGT-CTCAGAC
1 ATGGTCTTACATGTAATCACAATACGATGC-AATGTCCT-AGAC
69603688 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACATGTAATCACA
69603709 TCTTGATAAC
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.02
43 80 0.91
44 6 0.07
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCACAATACGATGCAATGTCCTAGAC
Found at i:69603696 original size:86 final size:85
Alignment explanation
Indices: 69603543--69603706 Score: 190
Period size: 86 Copynumber: 1.9 Consensus size: 85
69603533 AGCTCTCACA
* * * **
69603543 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATTGATGCAACTGTCCTAGACAGGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCAACTGTCCTAGACAGGGTC
*
69603608 TTATATGAAATCATAATACG
66 TTACATGAAATCATAATACG
* *
69603628 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCGAA-TGT-CTCAGACAT
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAATCACATAT-CAATGC-AACTGTCCT-AGACAG
*
69603690 GGTCTTACATGTAATCA
62 GGTCTTACATGAAATCA
69603707 CATCTTGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
85 9 0.14
86 55 0.83
87 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (85 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCAACTGTCCTAGACAGGGTC
TTACATGAAATCATAATACG
Found at i:69606919 original size:12 final size:12
Alignment explanation
Indices: 69606893--69606934 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
69606883 GGGGGGATTG
69606893 TATGAGG-GAG-
1 TATGAGGAGAGA
69606903 T-TGAGGAGAGA
1 TATGAGGAGAGA
69606914 TATGAGGAGAGA
1 TATGAGGAGAGA
*
69606926 TATTAGGAG
1 TATGAGGAG
69606935 GAAATCAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 4 0.14
11 1 0.04
12 18 0.64
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (12 bp):
TATGAGGAGAGA
Found at i:69608137 original size:54 final size:54
Alignment explanation
Indices: 69608045--69608482 Score: 427
Period size: 54 Copynumber: 8.1 Consensus size: 54
69608035 TCGGCCATGT
* * *
69608045 ATGACCGAAATACCCCCATAAGGTAAAATGA-TAGAAATACCCCCATAGGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAAATGACTA-AAATACCCCTATAGGGTAAA
* * * *
69608099 ATGATTGAAATACCTCTATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAAATGACTAAAATACCCCTATAGGGTAAA
* *
69608153 ATGA-TCGAAACAGCCCC-AT-AGGATAAAATGACCAAAATACCCCTATAGGGTAAA
1 ATGACT-GAAATA-CCCCTATAAGG-TAAAATGACTAAAATACCCCTATAGGGTAAA
* * * *
69608207 ATGACCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAAATGACTAAAATACCCCTATAGGGTAAA
** * * ** *
69608261 ATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCGATAGGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAAATGACTAAAATACCCCTATAGGGTAAA
* * * * ** *
69608315 ATGACTGTAATACCCCTGTACGGTAAATTGACTGTAATACCCCTGTAGGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAAATGACTAAAATACCCCTATAGGGTAAA
* * * * * * * *
69608369 ATAACTGTAATACCCCTGTAGGGAAAAATGACTATAATACCTCTGTAGGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAAATGACTAAAATACCCCTATAGGGTAAA
* * * * **
69608423 ATGACT-ATAATACCCTTGTAAGGTAAAATGACTATAATACCCCTGTAAAGTAAA
1 ATGACTGA-AATACCCCTATAAGGTAAAATGACTAAAATACCCCTATAGGGTAAA
69608477 ATGACT
1 ATGACT
69608483 TATTTGCCCT
Statistics
Matches: 332, Mismatches: 44, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
53 8 0.02
54 318 0.96
55 6 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (54 bp):
ATGACTGAAATACCCCTATAAGGTAAAATGACTAAAATACCCCTATAGGGTAAA
Found at i:69608428 original size:27 final size:27
Alignment explanation
Indices: 69608053--69608482 Score: 388
Period size: 27 Copynumber: 15.9 Consensus size: 27
69608043 GTATGACCGA
* * *
69608053 AATACCCCCATAAGGTAAAATGA-TAGA
1 AATACCCCTATAGGGTAAAATGACTA-T
* *
69608080 AATACCCCCATAGGGTAAAATGATTGA-
1 AATACCCCTATAGGGTAAAATGACT-AT
* * * *
69608107 AATACCTCTATAAGGTAAAATGACCAA
1 AATACCCCTATAGGGTAAAATGACTAT
* *
69608134 AATACCCCCATAGGGTAAAATGATCGA-
1 AATACCCCTATAGGGTAAAATGA-CTAT
* * * *
69608161 AACAGCCCC-ATAGGATAAAATGACCAA
1 AATA-CCCCTATAGGGTAAAATGACTAT
*
69608188 AATACCCCTATAGGGTAAAATGACCGA-
1 AATACCCCTATAGGGTAAAATGA-CTAT
69608215 AATACCCCTATAGGGTAAAATGACTGA-
1 AATACCCCTATAGGGTAAAATGACT-AT
* * *
69608242 AATACCCCTATAAGGTAAAATGACCAA
1 AATACCCCTATAGGGTAAAATGACTAT
* *
69608269 AATACCCCCATAGGGTAAAATGACCGA-
1 AATACCCCTATAGGGTAAAATGA-CTAT
* *
69608296 AATACCCCGATAGGGTAAAATGACTGT
1 AATACCCCTATAGGGTAAAATGACTAT
* * * *
69608323 AATACCCCTGTACGGTAAATTGACTGT
1 AATACCCCTATAGGGTAAAATGACTAT
* * *
69608350 AATACCCCTGTAGGGTAAAATAACTGT
1 AATACCCCTATAGGGTAAAATGACTAT
* *
69608377 AATACCCCTGTAGGGAAAAATGACTAT
1 AATACCCCTATAGGGTAAAATGACTAT
* *
69608404 AATACCTCTGTAGGGTAAAATGACTAT
1 AATACCCCTATAGGGTAAAATGACTAT
* * *
69608431 AATACCCTTGTAAGGTAAAATGACTAT
1 AATACCCCTATAGGGTAAAATGACTAT
* **
69608458 AATACCCCTGTAAAGTAAAATGACT
1 AATACCCCTATAGGGTAAAATGACT
69608483 TATTTGCCCT
Statistics
Matches: 349, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
26 10 0.03
27 327 0.94
28 11 0.03
29 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAATGACTAT
Found at i:69609857 original size:43 final size:43
Alignment explanation
Indices: 69609796--69609882 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
69609786 TCAACGATGC
**
69609796 ATCACAAAATGCTACAAACTCTTTACCCGATTCTGGCTATACT
1 ATCACAAAACACTACAAACTCTTTACCCGATTCTGGCTATACT
** *
69609839 ATCACAAAACACTACAAACTCTTTACTTGATTCTGGCTGTACT
1 ATCACAAAACACTACAAACTCTTTACCCGATTCTGGCTATACT
69609882 A
1 A
69609883 ACACTGGAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.31
Consensus pattern (43 bp):
ATCACAAAACACTACAAACTCTTTACCCGATTCTGGCTATACT
Found at i:69611072 original size:16 final size:16
Alignment explanation
Indices: 69611053--69611084 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69611043 CATGCAATGT
69611053 TAGCCAATCCACACCC
1 TAGCCAATCCACACCC
69611069 TAGCCAATCCACACCC
1 TAGCCAATCCACACCC
69611085 AGAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.50, G:0.06, T:0.12
Consensus pattern (16 bp):
TAGCCAATCCACACCC
Found at i:69614297 original size:43 final size:42
Alignment explanation
Indices: 69614232--69614398 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 42
69614222 AGCTCGCACA
* * * *
69614232 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-G
* * * * * *
69614274 ATGCCACTGTCCCAAACAGGGTCTTACATGAAATCATAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCA-CATATG
* *
69614317 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACAATATA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAC-ATATG
69614360 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
69614399 CTCGATAACC
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 7 0.07
43 94 0.90
44 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATG
Found at i:69615713 original size:42 final size:42
Alignment explanation
Indices: 69615626--69615774 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 42
69615616 CCGAGATGAA
* * * *
69615626 ATTACATGTAAGACCATGTCTAGAACATTGACATTGTATTGTG
1 ATTACATGTAAGACCATATCTAGGACATTGACATCGTA-TATG
69615669 ATTACATGTAAGACCATATCT-GGACATTGACATCGTTATATG
1 ATTACATGTAAGACCATATCTAGGACATTGACATCG-TATATG
* * * * * *
69615711 ATTTCGTATAAGACCATGTCTAGGGCATTGGCATCG-ATATGAG
1 ATTACATGTAAGACCATATCTAGGACATTGACATCGTATAT--G
*
69615754 ATAACATGTAAGACCATATCT
1 ATTACATGTAAGACCATATCT
69615775 GGGATATGGC
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 4 0.05
42 32 0.37
43 51 0.59
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (42 bp):
ATTACATGTAAGACCATATCTAGGACATTGACATCGTATATG
Found at i:69622743 original size:68 final size:63
Alignment explanation
Indices: 69622590--69622745 Score: 172
Period size: 63 Copynumber: 2.4 Consensus size: 63
69622580 ATATAGTTCG
* * *
69622590 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
* *
69622653 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTACCACCCATGCGACCTAGC--CAGT--T--TATC
*
69622716 TTGTA
59 TCGTA
*
69622721 GCTCTCTTGTACACATGATGTACAC
1 GCTCTCTTGTACACATGGTGTACAC
69622746 TCAGCACTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
62 1 0.01
63 43 0.55
64 1 0.01
65 2 0.03
66 1 0.01
68 29 0.37
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
Found at i:69623475 original size:30 final size:30
Alignment explanation
Indices: 69623441--69623501 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69623431 TCCTTAACTC
69623441 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
69623471 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
69623501 A
1 A
69623502 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:69628799 original size:7 final size:6
Alignment explanation
Indices: 69628771--69628821 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
69628761 TTTTATTGCA
* * *
69628771 TTTTAT TTTTGT TTTTAA TTTAAT TTTTAT TTTATAAT TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-T-AT TTTTAT TTTTAT
69628820 TT
1 TT
69628822 GCTTCTGGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
5 5 0.14
6 24 0.67
7 2 0.06
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:69628810 original size:14 final size:14
Alignment explanation
Indices: 69628791--69628819 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
69628781 GTTTTTAATT
69628791 TAATTTTTATTTTA
1 TAATTTTTATTTTA
69628805 TAATTTTTATTTTA
1 TAATTTTTATTTTA
69628819 T
1 T
69628820 TTGCTTCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TAATTTTTATTTTA
Found at i:69629666 original size:27 final size:27
Alignment explanation
Indices: 69629636--69629698 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
69629626 TAAAGCTGCT
*
69629636 AGTATCTGTATATGTGGCAAAGCCACC
1 AGTATCAGTATATGTGGCAAAGCCACC
*
69629663 AGTAACAGTATATGTGGCAAAGCCACC
1 AGTATCAGTATATGTGGCAAAGCCACC
69629690 AGTAT-AGTA
1 AGTATCAGTA
69629699 CACTTCCTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AGTATCAGTATATGTGGCAAAGCCACC
Found at i:69634684 original size:93 final size:93
Alignment explanation
Indices: 69634572--69634743 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
69634562 CGCCCATAAG
*
69634572 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
69634636 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
69634665 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
69634730 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
69634744 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:69634738 original size:46 final size:46
Alignment explanation
Indices: 69634565--69634740 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
69634555 TGTAACCCGC
* *
69634565 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
69634611 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
69634661 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
69634704 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
69634741 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:69642252 original size:93 final size:93
Alignment explanation
Indices: 69642140--69642311 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
69642130 CGCCCATAAG
* *
69642140 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
69642205 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
69642233 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
69642298 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
69642312 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:69642308 original size:46 final size:46
Alignment explanation
Indices: 69642133--69642308 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
69642123 TGTAACCCGC
* * *
69642133 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
69642179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
69642229 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
69642272 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
69642309 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:69657217 original size:43 final size:43
Alignment explanation
Indices: 69657118--69657218 Score: 102
Period size: 43 Copynumber: 2.3 Consensus size: 43
69657108 CTCGCATAAT
69657118 CACACATATCATACAATGCCAACGTCCCAGACGTGGTCTTACATG
1 CACACATAT-AT-CAATGCCAACGTCCCAGACGTGGTCTTACATG
* *
69657163 TA-ATCACATATCAATGCC-ACTGTCCCAGACAG-GGTCTTA-ATCG
1 CACA-CATATATCAATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-G
69657206 CACACATATATCA
1 CACACATATATCA
69657219 GAATCACATA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
42 4 0.09
43 33 0.70
44 5 0.11
45 5 0.11
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.24
Consensus pattern (43 bp):
CACACATATATCAATGCCAACGTCCCAGACGTGGTCTTACATG
Found at i:69659237 original size:3 final size:3
Alignment explanation
Indices: 69659229--69659290 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
69659219 CTCCTTGTTC
* *
69659229 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TCT- TTA TTA ATA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
69659273 TT- TT- TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TT
69659291 TCTTTTACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:69674046 original size:26 final size:26
Alignment explanation
Indices: 69674003--69674052 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
69673993 CCACTGAATC
* *
69674003 GGGGAATCATCACTTAGCAACCCCTG
1 GGGGAATCAGCACATAGCAACCCCTG
69674029 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
69674053 CTTTTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTG
Found at i:69674206 original size:104 final size:104
Alignment explanation
Indices: 69674082--69674305 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
69674072 AATGGATATC
69674082 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69674147 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
69674186 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69674251 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
69674290 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
69674306 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:69674665 original size:29 final size:29
Alignment explanation
Indices: 69674632--69674695 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
69674622 TAATCCACCA
69674632 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
69674661 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
69674691 CCCAA
1 CCCAA
69674696 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:69674669 original size:30 final size:30
Alignment explanation
Indices: 69674639--69674695 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
69674629 CCACCCAACT
69674639 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
69674668 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
69674696 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:69679094 original size:27 final size:27
Alignment explanation
Indices: 69679057--69679261 Score: 261
Period size: 27 Copynumber: 7.6 Consensus size: 27
69679047 TAAATTGTAC
69679057 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
69679084 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
69679111 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
69679137 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
69679165 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
69679193 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
69679220 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
69679247 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69679262 GACTCAATAT
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 24 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69685234 original size:104 final size:104
Alignment explanation
Indices: 69685112--69685335 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
69685102 AATGGATATC
69685112 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69685177 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
69685216 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69685281 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
69685320 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
69685336 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:69685690 original size:29 final size:29
Alignment explanation
Indices: 69685657--69685720 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
69685647 TAATCCACCA
69685657 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
69685686 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
69685716 CCCAA
1 CCCAA
69685721 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:69685694 original size:30 final size:30
Alignment explanation
Indices: 69685664--69685720 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
69685654 CCACCCAACT
69685664 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
69685693 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
69685721 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:69709455 original size:29 final size:29
Alignment explanation
Indices: 69709413--69709532 Score: 161
Period size: 29 Copynumber: 4.2 Consensus size: 29
69709403 CATGTATACA
69709413 AATGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
69709442 AATGTTATTTGGGCCTAATGGGCCATACG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
69709471 AATATGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
69709500 AATGAGA-TTAGGCCTAGTGGGCTATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
69709528 CATGT
1 AATGT
69709533 ATGTAGACTT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 21 0.27
29 58 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:69713691 original size:16 final size:16
Alignment explanation
Indices: 69713670--69713704 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
69713660 GCAAATCCCA
*
69713670 AAATGCTGAAAAGCCG
1 AAATGCCGAAAAGCCG
69713686 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
69713702 AAA
1 AAA
69713705 GTTTAGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.23, T:0.09
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:69713955 original size:29 final size:29
Alignment explanation
Indices: 69713913--69714036 Score: 144
Period size: 29 Copynumber: 4.3 Consensus size: 29
69713903 GAAAGCATGT
*
69713913 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
69713942 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
69713971 CTACGAATATGATTTGGGCCT-GTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* **
69713999 ATATGAATGAGA-TTGGGTATAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
69714027 ATATGCATGT
1 ATATGAATGT
69714037 ATGTAGACTT
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
27 6 0.08
28 27 0.35
29 45 0.58
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:69723175 original size:47 final size:46
Alignment explanation
Indices: 69723057--69723182 Score: 143
Period size: 46 Copynumber: 2.7 Consensus size: 46
69723047 GGATGGTTGA
* *
69723057 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GGATGCGAAT
*
69723105 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAA-T
*
69723148 AGGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCG
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
69723183 CTTATGGGCG
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.42
47 29 0.42
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAAT
Found at i:69728071 original size:46 final size:47
Alignment explanation
Indices: 69728020--69728150 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 47
69728010 ATGGTTGAGC
69728020 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAG
* * *
69728067 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G
69728112 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
69728151 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAG
Found at i:69728136 original size:47 final size:46
Alignment explanation
Indices: 69728018--69728143 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 46
69728008 GGATGGTTGA
* *
69728018 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GGATGCGAAT
*
69728066 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAA-T
69728109 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
69728144 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 30 0.43
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAAT
Found at i:69737613 original size:39 final size:39
Alignment explanation
Indices: 69737570--69737694 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
69737560 CTTTAACCCA
** *
69737570 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* * * *
69737609 GATATATTTCTAGCATATAGCCTGCGGATCTCATGTTCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
69737648 GATATTTTTCCAGCATATAGCCTACGGACCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
69737687 GATATTTT
1 GATATTTT
69737695 CAATCTCATA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:69757716 original size:44 final size:45
Alignment explanation
Indices: 69757661--69757782 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
69757651 CACAAATCAC
* * * * * *
69757661 ATCTCCCTGAAGTAGCAGTGGAGCAAATTGAAG-TTGTAGATCTT
1 ATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAAATCTT
* * *
69757705 ATCTCCTTGAAGTTGTAGTGGAGTAGACTGAAGATGGCAAATCTT
1 ATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAAATCTT
*
69757750 ATTTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
1 ATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
69757783 CTAAAAGTTG
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 27 0.42
45 37 0.58
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (45 bp):
ATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAAATCTT
Found at i:69759937 original size:15 final size:16
Alignment explanation
Indices: 69759917--69759946 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
69759907 TGTCTTTTTA
69759917 TTATTTT-TTACGCAT
1 TTATTTTATTACGCAT
69759932 TTATTTTATTACGCA
1 TTATTTTATTACGCA
69759947 CGTTATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (16 bp):
TTATTTTATTACGCAT
Found at i:69763502 original size:11 final size:9
Alignment explanation
Indices: 69763456--69763513 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
69763446 TTCATTCTAG
*
69763456 AATTATAAA
1 AATTATTAA
*
69763465 AATTATAAAA
1 AATTAT-TAA
*
69763475 AATCATTAA
1 AATTATTAA
69763484 AATTATTATA
1 AATTATTA-A
69763494 AATTAATTAA
1 AATT-ATTAA
*
69763504 AATCATTAA
1 AATTATTAA
69763513 A
1 A
69763514 CTAATAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
9 21 0.50
10 17 0.40
11 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTATTAA
Found at i:69764039 original size:82 final size:82
Alignment explanation
Indices: 69763887--69764039 Score: 200
Period size: 82 Copynumber: 1.9 Consensus size: 82
69763877 AAATAAATGG
* *
69763887 TATCCAAATTCAAATGAACTTCAACAATCATTTCTTCAAGTTCATTGATATACTTATTTTTAAAA
1 TATCCAAATTCAAATGAACTTCAACAACCATTTCGTCAAGTTCATTGATATACTTATTTTTAAAA
*
69763952 TAATTTAAAATAATTTT
66 GAATTTAAAATAATTTT
* * * * * * *
69763969 TATCTAAATTCAAATGAATTTGAACAACCGTTT-GTCAAGGTTCATTGGTGTACTTATTTTTAAG
1 TATCCAAATTCAAATGAACTTCAACAACCATTTCGTCAA-GTTCATTGATATACTTATTTTTAAA
69764033 AGAATTT
65 AGAATTT
69764040 TTAATTTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 4 0.07
82 56 0.93
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (82 bp):
TATCCAAATTCAAATGAACTTCAACAACCATTTCGTCAAGTTCATTGATATACTTATTTTTAAAA
GAATTTAAAATAATTTT
Found at i:69767441 original size:27 final size:28
Alignment explanation
Indices: 69767402--69767463 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
69767392 AGTTTAAATA
*
69767402 TTTATTTTCATTTTTTGTT-TTAATTATT
1 TTTATTTTCATTTTTAGTTATT-ATTATT
*
69767430 TTTATTTT-ATTTTTAGTTATTTTTATT
1 TTTATTTTCATTTTTAGTTATTATTATT
69767457 TTTATTT
1 TTTATTT
69767464 AAAAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTATTTTCATTTTTAGTTATTATTATT
Found at i:69767443 original size:21 final size:21
Alignment explanation
Indices: 69767403--69767463 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
69767393 GTTTAAATAT
* *
69767403 TTATTTTCATTTTTTGTTTTAA
1 TTATTTTTATTTTAT-TTTTAA
*
69767425 TTATTTTTATTTTATTTTTAG
1 TTATTTTTATTTTATTTTTAA
69767446 TTATTTTTATTTTTATTT
1 TTATTTTTA-TTTTATTT
69767464 AAAAAAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 14 0.40
22 21 0.60
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (21 bp):
TTATTTTTATTTTATTTTTAA
Found at i:69767464 original size:10 final size:10
Alignment explanation
Indices: 69767400--69767457 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
69767390 AAAGTTTAAA
69767400 TATTTATTTT
1 TATTTATTTT
* *
69767410 CATTTTTTGTTT
1 TA-TTTAT-TTT
*
69767422 TAATTATTTT
1 TATTTATTTT
69767432 TATTTTATTTT
1 TA-TTTATTTT
*
69767443 TAGTTATTTT
1 TATTTATTTT
69767453 TATTT
1 TATTT
69767458 TTATTTAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
10 17 0.46
11 16 0.43
12 4 0.11
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (10 bp):
TATTTATTTT
Found at i:69768368 original size:21 final size:21
Alignment explanation
Indices: 69768330--69768377 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
69768320 ATTCAAAGAA
*
69768330 CCATGTCCCTAGCTCACATGG
1 CCATGTCCCTAGCTCACACGG
* *
69768351 GCATGTGCCTTAGC-CACACGG
1 CCATGT-CCCTAGCTCACACGG
69768372 CCATGT
1 CCATGT
69768378 ACATCCTCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (21 bp):
CCATGTCCCTAGCTCACACGG
Found at i:69777840 original size:34 final size:34
Alignment explanation
Indices: 69777797--69777873 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
69777787 GAGGGAAGTG
69777797 CTAGAGAAAGTGTTT-GAGGCTAGGTTAGAGAGGA
1 CTAGAGAAAGT-TTTCGAGGCTAGGTTAGAGAGGA
69777831 CTAGAGAAAGTTTTCGAGGCTAGGTTAGAGAGGA
1 CTAGAGAAAGTTTTCGAGGCTAGGTTAGAGAGGA
69777865 CTAGAGAAA
1 CTAGAGAAA
69777874 TGCTTCAAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 3 0.07
34 39 0.93
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (34 bp):
CTAGAGAAAGTTTTCGAGGCTAGGTTAGAGAGGA
Found at i:69781249 original size:61 final size:58
Alignment explanation
Indices: 69781136--69781335 Score: 152
Period size: 58 Copynumber: 3.2 Consensus size: 58
69781126 ATCACTTTAA
* *
69781136 TATTAAATTAATATAATACTTATCAAGATAAGTATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
* *
69781194 TATTAAATTAATAGAATATTTATCTAAAAGATAAATATTTA-ATTTAATTTAATATTATGATAAT
1 TATTAAATTAATAGAATACTTATC---AAGATAAATA-TTAGATTAAATTTAATA-T-T-A-AAT
69781258 CAC
58 --C
* * * * * *
69781261 TTTAATGTTAAATTAATAAAATAC-TACCAAGATAAGTATTAAATTAAATTAAATATTAAATT
1 --T-A--TTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
*
69781323 TATTAAAATAATA
1 TATTAAATTAATA
69781336 TTATTTTTGG
Statistics
Matches: 114, Mismatches: 12, Indels: 33
0.72 0.08 0.21
Matches are distributed among these distances:
57 10 0.09
58 22 0.19
59 1 0.01
60 1 0.01
61 21 0.18
62 4 0.04
63 1 0.01
64 4 0.04
65 4 0.04
66 1 0.01
67 5 0.04
68 20 0.18
69 1 0.01
70 1 0.01
71 3 0.03
72 15 0.13
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
Found at i:69785780 original size:13 final size:13
Alignment explanation
Indices: 69785762--69785786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69785752 TATAATTTCT
69785762 AGTAATTTTCCAA
1 AGTAATTTTCCAA
69785775 AGTAATTTTCCA
1 AGTAATTTTCCA
69785787 TTGAACACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
AGTAATTTTCCAA
Found at i:69788185 original size:47 final size:46
Alignment explanation
Indices: 69788100--69788248 Score: 190
Period size: 47 Copynumber: 3.2 Consensus size: 46
69788090 TAGCTCAGCC
* ** *
69788100 ATGGTCTTACACGGATTACATATCACACTAATGCCATATCCCAGAT
1 ATGGTCTTACACGAAGCACATATCACACCAATGCCATATCCCAGAT
* *
69788146 ATGGTCTTACACAGAAGCACATATCACACCGATGTCATATCCCAGAT
1 ATGGTCTTACAC-GAAGCACATATCACACCAATGCCATATCCCAGAT
* * * *
69788193 ATGGTCTTATACGGAAGCTCATATCACACCAATGCCATAGCCCAGCT
1 ATGGTCTTACAC-GAAGCACATATCACACCAATGCCATATCCCAGAT
69788240 ATGGTCTTA
1 ATGGTCTTA
69788249 TATGTAACAC
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 12 0.13
47 77 0.87
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (46 bp):
ATGGTCTTACACGAAGCACATATCACACCAATGCCATATCCCAGAT
Found at i:69789237 original size:26 final size:27
Alignment explanation
Indices: 69789195--69789273 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 27
69789185 GCCTAGCATC
*
69789195 TTTT-AAT-AACTGAGGCA-AAGCCCT
1 TTTTCAATAAACTGGGGCATAAGCCCT
**
69789219 TTTTCGGTAAACTGGGGCATAAGCCC-
1 TTTTCAATAAACTGGGGCATAAGCCCT
*
69789245 TTTTCAATAAACTAGGGCATAA-CCCT
1 TTTTCAATAAACTGGGGCATAAGCCCT
69789271 TTT
1 TTT
69789274 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 4 0.09
25 4 0.09
26 31 0.69
27 6 0.13
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (27 bp):
TTTTCAATAAACTGGGGCATAAGCCCT
Found at i:69789352 original size:20 final size:20
Alignment explanation
Indices: 69789323--69789379 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
69789313 TTATGATTAC
*
69789323 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
* *
69789343 ATCGTGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
69789363 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
69789380 TCCCACGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:69789377 original size:11 final size:11
Alignment explanation
Indices: 69789323--69789378 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
69789313 TTATGATTAC
69789323 ATCATGTGCAT
1 ATCATGTGCAT
* *
69789334 TTCA--TACAT
1 ATCATGTGCAT
*
69789343 ATCGTGTGCAT
1 ATCATGTGCAT
69789354 ATCA--TGCAT
1 ATCATGTGCAT
69789363 ATCATGTGCAT
1 ATCATGTGCAT
69789374 ATCAT
1 ATCAT
69789379 ATCCCACGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:69794682 original size:51 final size:51
Alignment explanation
Indices: 69794622--69794720 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
69794612 ATTTAAGTTT
69794622 TTTTAAATGGTTAATTGAGTTAAAAATATTATTTAGATCAAGAAACAATTG
1 TTTTAAATGGTTAATTGAGTTAAAAATATTATTTAGATCAAGAAACAATTG
* * *
69794673 TTTTAAATGGTTAATTGGGTTAAAACTATTATTTATATCAAGAAACAA
1 TTTTAAATGGTTAATTGAGTTAAAAATATTATTTAGATCAAGAAACAA
69794721 ATCAACCTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (51 bp):
TTTTAAATGGTTAATTGAGTTAAAAATATTATTTAGATCAAGAAACAATTG
Found at i:69800486 original size:24 final size:24
Alignment explanation
Indices: 69800462--69800542 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
69800452 TTTTTATATT
*
69800462 ATTATTTATATAAATATATAAATTA
1 ATTATATATATAAATAT-TAAATTA
* *
69800487 ATTATAAAGTAT-ATTATTAAATTA
1 ATTATATA-TATAAATATTAAATTA
*
69800511 ATTATAT-TATAAATATTATATT-
1 ATTATATATATAAATATTAAATTA
69800533 ATTATATATA
1 ATTATATATA
69800543 AAAGAAACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 10 0.21
26 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTATATATATAAATATTAAATTA
Found at i:69800494 original size:11 final size:11
Alignment explanation
Indices: 69800478--69800516 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
69800468 TATATAAATA
69800478 TATAAATTAAT
1 TATAAATTAAT
*
69800489 TATAAAGTATAT
1 TATAAATTA-AT
69800501 TATTAAATTAAT
1 TA-TAAATTAAT
69800513 TATA
1 TATA
69800517 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:69800518 original size:17 final size:15
Alignment explanation
Indices: 69800461--69800541 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 15
69800451 ATTTTTATAT
69800461 TATTAT-TTATATAAA
1 TATTATATTAT-TAAA
*
69800476 TATATAAATTAATTATAA
1 TAT-TATATT-ATTA-AA
*
69800494 -AGTATATTATTAAA
1 TATTATATTATTAAA
69800508 TTAATTATATTA-TAAA
1 -T-ATTATATTATTAAA
*
69800524 TATTATATTATTATA
1 TATTATATTATTAAA
69800539 TAT
1 TAT
69800542 AAAAGAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
14 11 0.21
15 14 0.26
16 11 0.21
17 13 0.25
18 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
TATTATATTATTAAA
Found at i:69800528 original size:14 final size:16
Alignment explanation
Indices: 69800496--69800534 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
69800486 AATTATAAAG
69800496 TATATTATTAAATTAAT
1 TATATTA-TAAATTAAT
69800513 TATATTATAAA-T-AT
1 TATATTATAAATTAAT
69800527 TATATTAT
1 TATATTAT
69800535 TATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 4 0.18
17 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTATAAATTAAT
Found at i:69801869 original size:3 final size:3
Alignment explanation
Indices: 69801861--69801893 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
69801851 GTGAGGTAAG
69801861 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
69801894 GAGTTGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:69802077 original size:24 final size:27
Alignment explanation
Indices: 69802045--69802103 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
69802035 CGGATTAATT
69802045 ATTG-ATTGAAAG-GTG-GAAA-AATG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
**
69802068 ATTGAATTGAAAGTGTGAGAAAGTGTG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
69802095 ATTGAATTG
1 ATTGAATTG
69802104 GGATTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 3 0.10
26 4 0.13
27 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (27 bp):
ATTGAATTGAAAGTGTGAGAAAGAATG
Found at i:69802307 original size:37 final size:39
Alignment explanation
Indices: 69802248--69802343 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
69802238 CGGATAGATT
* * * *
69802248 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
69802285 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
69802324 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
69802344 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:69805270 original size:68 final size:68
Alignment explanation
Indices: 69805127--69805270 Score: 163
Period size: 68 Copynumber: 2.1 Consensus size: 68
69805117 TTATTTTAAC
* * *
69805127 AGTTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTG
1 AGTTTAATATTAAATTTAATTTAATACATATCTTAATAGTATTTAATAAATTTAATATTAAAGTG
69805192 ATT
66 ATT
* *
69805195 A-TCTTAATATTAAATTTAATTTAATGTACAT-TC-TACTA-T-TTTAATAAGATTTAATATTAT
1 AGT-TTAATATTAAATTTAATTTAA--TACATATCTTAATAGTATTTAATAA-ATTTAATATTAA
69805255 AGTGATT
62 AGTGATT
69805262 AAGTTTAAT
1 -AGTTTAAT
69805271 CATAGTTGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
66 6 0.09
67 20 0.31
68 32 0.49
69 3 0.05
70 4 0.06
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (68 bp):
AGTTTAATATTAAATTTAATTTAATACATATCTTAATAGTATTTAATAAATTTAATATTAAAGTG
ATT
Found at i:69808311 original size:79 final size:81
Alignment explanation
Indices: 69808213--69808396 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
69808203 TCCTCGTTCA
* *
69808213 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAA-CCCG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAAGCCCG
* *
69808275 GATTTAGTAAC-TCGCACC
64 GATATAGTAACTTAGCA-C
* *
69808293 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAAGCCCGGA
* *
69808357 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
69808373 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69808397 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 36 0.40
80 36 0.40
81 15 0.17
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAAGCCCGGA
TATAGTAACTTAGCAC
Found at i:69808328 original size:39 final size:40
Alignment explanation
Indices: 69808211--69808396 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
69808201 GCTCCTCGTT
*
69808211 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
69808251 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
69808291 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
69808330 CAAATGCCTTC-GGATCTTAAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTT-AGCCCGGATTTAGTAAC-TCGCA
69808372 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69808397 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 58 0.46
41 22 0.18
42 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:69816218 original size:39 final size:39
Alignment explanation
Indices: 69816173--69816393 Score: 215
Period size: 39 Copynumber: 5.6 Consensus size: 39
69816163 GCTCCTCGTT
*
69816173 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATCGCA
*
69816212 CAAATGCCTTCGGGACTTAACCCGGATT-T-GTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAA-TCGCA
*
69816251 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAA-TCGCA
* *
69816291 C-AATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA-ATCGCA
* * * * *
69816329 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-A-ATCGCA
69816370 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
69816394 ACATCATTCA
Statistics
Matches: 158, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
38 26 0.16
39 79 0.50
40 40 0.25
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATCGCA
Found at i:69816263 original size:78 final size:78
Alignment explanation
Indices: 69816173--69816394 Score: 265
Period size: 78 Copynumber: 2.8 Consensus size: 78
69816163 GCTCCTCGTT
* *
69816173 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
69816238 TTTGTAACTCGCA
66 TTAGTAACTCGCA
*
69816251 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCAC-AATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAA-TCGCACAAATGCCTTCGGGACTTAGCCCG
*
69816313 GAATTAGTATCTCGCA
64 G-ATTAGTAACTCGCA
* * * * *
69816329 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-A-ATCGCACAAATGCCTTCGGGACTTAGCCC
69816392 GGA
63 GGA
69816395 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
77 13 0.10
78 75 0.60
79 24 0.19
80 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTAGTAACTCGCA
Found at i:69818627 original size:35 final size:35
Alignment explanation
Indices: 69818581--69818650 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
69818571 GCCCTCTTGA
*
69818581 AGCTTAACTTAAAGCGAAGATATCATTGGAGAGAT
1 AGCTTAACTTAAAGCGAAGAAATCATTGGAGAGAT
*
69818616 AGCTTAACTTAAAGCGAAGAAATCGTTGGAGAGAT
1 AGCTTAACTTAAAGCGAAGAAATCATTGGAGAGAT
69818651 TCTGACTCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (35 bp):
AGCTTAACTTAAAGCGAAGAAATCATTGGAGAGAT
Found at i:69824223 original size:75 final size:77
Alignment explanation
Indices: 69824116--69824316 Score: 258
Period size: 75 Copynumber: 2.7 Consensus size: 77
69824106 TATGCCTAAT
* * *
69824116 CCTTCGGGACTTAGCCCGGTTAGTAACTCGCACAAGTGCCT-TGGAC-TAGCCCGGTTATAGTAA
1 CCTTCGGGACTTAGCCCGGTTAGTAACTCGCACAAATGCCTCGGGACTTAGCCCGGATATAGTAA
69824179 CT-GCAC-AATG
66 CTCGCACAAATG
69824189 CC-TCGGGACTATAGCCCGGTTATAGTAACTCGCACAAATGCCTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACT-TAGCCCGG-T-TAGTAACTCGCACAAATGCCTCGGGACTTAGCCCGGATATAG
*
69824253 TAACTCGTACAAATG
63 TAACTCGCACAAATG
* *
69824268 CCTTCGGG-CTTAGCCCAG-TAGT-ACTAGCACAAATGCCTC-GGACTTAGCC
1 CCTTCGGGACTTAGCCCGGTTAGTAACTCGCACAAATGCCTCGGGACTTAGCC
69824317 GGTATCACTG
Statistics
Matches: 114, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
72 8 0.07
73 20 0.18
74 17 0.15
75 24 0.21
76 4 0.04
77 18 0.16
78 10 0.09
79 8 0.07
80 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCCGGTTAGTAACTCGCACAAATGCCTCGGGACTTAGCCCGGATATAGTAA
CTCGCACAAATG
Found at i:69824243 original size:39 final size:38
Alignment explanation
Indices: 69824119--69824321 Score: 239
Period size: 39 Copynumber: 5.5 Consensus size: 38
69824109 GCCTAATCCT
*
69824119 TCGGGACTTAGCCCGGT-TAGTAACTCGCACAAGTGCC
1 TCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCC
*
69824156 T-TGGAC-TAGCCCGGTTATAGTAACT-GCAC-AATGCC
1 TCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCC
69824191 TCGGGACTATAGCCCGGTTATAGTAACTCGCACAAATGCC
1 TCGGGACT-TAGCCCGG-TATAGTAACTCGCACAAATGCC
*
69824231 TCGGGACTTAGCCCGGATATAGTAACTCGTACAAATGCC
1 TCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCC
* *
69824270 TTCGGG-CTTAGCCCAG--TAGT-ACTAGCACAAATGCC
1 -TCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCC
69824305 TC-GGACTTAG-CCGGTAT
1 TCGGGACTTAGCCCGGTAT
69824322 CACTGAATAT
Statistics
Matches: 146, Mismatches: 9, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
33 5 0.03
34 7 0.05
35 28 0.19
36 17 0.12
37 9 0.06
38 19 0.13
39 42 0.29
40 19 0.13
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (38 bp):
TCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCC
Found at i:69824998 original size:36 final size:40
Alignment explanation
Indices: 69824876--69825012 Score: 203
Period size: 40 Copynumber: 3.5 Consensus size: 40
69824866 GCTACTTGCT
*
69824876 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
69824916 CAAGTGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
69824956 CAAATGCCTTCGGGA-TTAGCCCGGATAT-G-AA-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
69824992 CAAATGCCTTCGGG-CTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
69825013 GTTAGTCACT
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
36 25 0.28
37 2 0.02
38 1 0.01
39 11 0.12
40 51 0.57
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:69825661 original size:40 final size:40
Alignment explanation
Indices: 69825613--69825800 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
69825603 GCTACTTGCT
*
69825613 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
69825653 CAAGTGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
69825693 CAAATGCTTTCGGGACTTATCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
69825733 CAAATGCCTTCAGG-CTTAGCTC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
69825772 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
69825801 CATCCAAATA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.02
39 29 0.23
40 93 0.74
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:69825710 original size:80 final size:79
Alignment explanation
Indices: 69825574--69825800 Score: 271
Period size: 79 Copynumber: 2.9 Consensus size: 79
69825564 ATTCCCAAAC
* * * * * *
69825574 CAAGTACCTTCGGAATTTAGCC-GGATATAGCTACTTGCTCAAATGCCTTCAGGACTTAGCCCGG
1 CAAGTGCCTTCGGGACTTAGCCTGGATATAG-TACTAGCACAAATGCCTTCGGGACTTAGCCCGG
69825638 TTATAGTAACTCGCA
65 TTATAGTAACTCGCA
* * * *
69825653 CAAGTGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCACAAATGCTTTCGGGACTTATCCCGG
1 CAAGTGCCTTCGGGACTTAGCCTGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
69825718 TTATAGTAACTCGCA
65 TTATAGTAACTCGCA
* * * *
69825733 CAAATGCCTTCAGG-CTTAG-CTCGAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAGTGCCTTCGGGACTTAGCCTGGATA-TAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCG
69825796 GTTAT
64 GTTAT
69825801 CATCCAAATA
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 4 0.03
79 62 0.49
80 61 0.48
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (79 bp):
CAAGTGCCTTCGGGACTTAGCCTGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
TATAGTAACTCGCA
Found at i:69828980 original size:46 final size:47
Alignment explanation
Indices: 69828930--69829102 Score: 168
Period size: 46 Copynumber: 3.8 Consensus size: 47
69828920 TGGTTGAGCA
*
69828930 TCCGAACTC-TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACG
* * * *
69828976 TCCGAACTCGTTGAG-TGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--A--CG
69829022 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG-TGCG--ACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACG
* *
69829066 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69829103 GGCGGGTTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 34 0.32
45 2 0.02
46 38 0.36
47 18 0.17
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACG
Found at i:69836424 original size:46 final size:46
Alignment explanation
Indices: 69836374--69836549 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
69836364 TGATTGAGCA
69836374 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69836420 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
69836465 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
69836513 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69836550 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:69836530 original size:93 final size:93
Alignment explanation
Indices: 69836371--69836542 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
69836361 GGATGATTGA
*
69836371 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
69836436 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
69836464 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
69836528 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
69836543 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69843935 original size:47 final size:47
Alignment explanation
Indices: 69843866--69843990 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 47
69843856 GTTAAATGTT
* *
69843866 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATTGATATAT-G
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAA-TCA-ACATGG
* * *
69843913 TAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAACATGG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAACATGG
*
69843960 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
69843991 TTTCCATTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 3 0.04
47 61 0.90
48 4 0.06
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAACATGG
Found at i:69854940 original size:101 final size:101
Alignment explanation
Indices: 69854816--69855107 Score: 408
Period size: 101 Copynumber: 2.9 Consensus size: 101
69854806 ATGGTACACG
* *
69854816 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * *
69854881 AGTACTACAGATGTGATCGAAATTAACGGGAACGCA
66 AGTACTACAGACGTGATCAAAACTAACGGGAACGCA
* *
69854917 TAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCATCTGATACACGTAGTAGCCTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * * *
69854982 AGTCCTACATACGTGATCAAAACTATCGGGCACGCA
66 AGTACTACAGACGTGATCAAAACTAACGGGAACGCA
* *
69855018 TAGTAGCCTGCACTTAGTACT--ACACGTACGACCTAACAATCTGGTACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGT--GACCTAACCATCTGATACACGTAGTAGCCTGCAC
* *
69855081 TTAGTACTACACACGTGACCTAAAACT
64 TTAGTACTACAGACGTGATC-AAAACT
69855108 GTCTCAAACA
Statistics
Matches: 170, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
99 5 0.03
101 159 0.94
102 6 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACAGACGTGATCAAAACTAACGGGAACGCA
Found at i:69855103 original size:50 final size:50
Alignment explanation
Indices: 69854766--69855103 Score: 331
Period size: 50 Copynumber: 6.7 Consensus size: 50
69854756 CTGGTATGCA
* * * * *
69854766 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * *
69854816 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * * * * * *
69854866 TAGTAGCCTGCACTTAGTACTACAGATGTGATCGAA-ATTAACGGGAACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA--ATCTGGTACACG
* * *
69854917 TAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * ** * * * * *
69854967 TAGTAGCCTGTACTTAGTCCTACATACGTGATCAAAACTATCGGGCACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCTGGTACACG
69855018 TAGTAGCCTGCACTTAGTACT--ACACGTACGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGT--GACCTAACAATCTGGTACACG
69855068 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
69855104 AACTGTCTCA
Statistics
Matches: 228, Mismatches: 52, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
49 5 0.02
50 147 0.64
51 70 0.31
52 6 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:69855515 original size:19 final size:20
Alignment explanation
Indices: 69855487--69855533 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
69855477 AAGAACATGT
69855487 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
69855508 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
69855527 TATATAT
1 TATATAT
69855534 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:69862362 original size:11 final size:11
Alignment explanation
Indices: 69862321--69862362 Score: 59
Period size: 10 Copynumber: 3.7 Consensus size: 11
69862311 ATGTTGCGAA
69862321 AAAAAAAGAGTTC
1 AAAAAAA-A-TTC
69862334 AAAAAAAATTC
1 AAAAAAAATTC
69862345 -AAAAAAATTC
1 AAAAAAAATTC
69862355 AAAAAAAA
1 AAAAAAAA
69862363 AGTTCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.36
11 10 0.36
12 1 0.04
13 7 0.25
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:69866285 original size:25 final size:25
Alignment explanation
Indices: 69866256--69866303 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
69866246 TTATAACATG
** *
69866256 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
69866281 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
69866304 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:69866391 original size:18 final size:19
Alignment explanation
Indices: 69866354--69866391 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
69866344 GATTTGATAC
69866354 GATATGCACATGTTATGTAT
1 GATATGCACATG-TATGTAT
69866374 GATATGCACATG-ATGTAT
1 GATATGCACATGTATGTAT
69866392 TCATTTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
GATATGCACATGTATGTAT
Found at i:69866478 original size:26 final size:25
Alignment explanation
Indices: 69866434--69866500 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 25
69866424 GAGGAAGTGC
*
69866434 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
69866459 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
69866485 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
69866501 GGTTATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 16 0.41
26 23 0.59
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:69866517 original size:24 final size:25
Alignment explanation
Indices: 69866433--69866517 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
69866423 GGAGGAAGTG
* *
69866433 CAAAAG-GGCTTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAGGTTAT
*
69866457 CGAAAAG-GGCTTTTGCCCCAGTTTAT
1 C-AAAAGAGGC-TTTGCCCCAGGTTAT
69866483 CAAAA-AGGGCTTTGCCCC-GGTTAT
1 CAAAAGA-GGCTTTGCCCCAGGTTAT
*
69866507 TAAAAGAGGCT
1 CAAAAGAGGCT
69866518 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
24 14 0.26
25 21 0.40
26 18 0.34
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGGTTAT
Found at i:69869117 original size:35 final size:35
Alignment explanation
Indices: 69869078--69869147 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
69869068 GCCTGTGAGA
69869078 ATGGTGCATTTGAAAATTTTTATAGGTACGAAGGT
1 ATGGTGCATTTGAAAATTTTTATAGGTACGAAGGT
69869113 ATGGTGCATTTGAAAATTTTTATAGGTACGAAGGT
1 ATGGTGCATTTGAAAATTTTTATAGGTACGAAGGT
69869148 TTTCTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (35 bp):
ATGGTGCATTTGAAAATTTTTATAGGTACGAAGGT
Found at i:69878855 original size:46 final size:46
Alignment explanation
Indices: 69878788--69878950 Score: 149
Period size: 46 Copynumber: 3.5 Consensus size: 46
69878778 AACCCGCCCC
69878788 TAAGTGAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCA
* * *
69878834 TAAGTGAACTCAGACTCAACTCAACT-AGCTAGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAA-TGAGCTTGG--G-C--GTTCGCATCCA
* * * * *
69878882 TCA-CGAACTCGGACTCAACTCAATGAG-TTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCATCCA
69878927 TAAGTGAACTCGGACTCAACTCAA
1 TAAGTGAACTCGGACTCAACTCAA
69878951 CGAGTTCTGA
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 50 0.54
47 22 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCA
Found at i:69878979 original size:46 final size:45
Alignment explanation
Indices: 69878886--69878971 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
69878876 TACATCTCAC
* * *
69878886 GAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGA-ATGCGCAACCATAAGT
* *
69878932 GAACTCGGACTCAACTCAACGAGTTCTG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCAGAATGCGCAACCAT
69878972 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCAGAATGCGCAACCATAAGT
Found at i:69879417 original size:30 final size:30
Alignment explanation
Indices: 69879383--69879443 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
69879373 CATTTAATAC
69879383 AAAC-TTTGAAAAAATTACACTTTTGCCCCT
1 AAACTTTTG-AAAAATTACACTTTTGCCCCT
* *
69879413 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTTGCCCCT
69879443 A
1 A
69879444 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:69880380 original size:14 final size:14
Alignment explanation
Indices: 69880361--69880388 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
69880351 TTCTTGCACA
69880361 CTTTATCAACAAAC
1 CTTTATCAACAAAC
69880375 CTTTATCAACAAAC
1 CTTTATCAACAAAC
69880389 ACATTCTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
CTTTATCAACAAAC
Found at i:69884752 original size:104 final size:104
Alignment explanation
Indices: 69884630--69884853 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
69884620 AATGGATATC
69884630 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69884695 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
69884734 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69884799 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
69884838 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
69884854 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:69885215 original size:29 final size:29
Alignment explanation
Indices: 69885182--69885245 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
69885172 TAATCCACCA
69885182 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
69885211 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
69885241 CCCAA
1 CCCAA
69885246 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:69885219 original size:30 final size:30
Alignment explanation
Indices: 69885189--69885245 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
69885179 CCACCCAACT
69885189 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
69885218 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
69885246 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:69892313 original size:104 final size:104
Alignment explanation
Indices: 69892191--69892414 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
69892181 AATGGATATC
69892191 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69892256 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
69892295 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
69892360 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
69892399 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
69892415 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:69892776 original size:29 final size:29
Alignment explanation
Indices: 69892743--69892806 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
69892733 TAATCCACCA
69892743 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
69892772 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
69892802 CCCAA
1 CCCAA
69892807 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:69892780 original size:30 final size:30
Alignment explanation
Indices: 69892750--69892806 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
69892740 CCACCCAACT
69892750 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
69892779 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
69892807 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:69895117 original size:40 final size:40
Alignment explanation
Indices: 69895019--69895248 Score: 338
Period size: 40 Copynumber: 5.8 Consensus size: 40
69895009 GGATGATAAT
* * * * **
69895019 CGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
69895059 CGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
69895098 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
69895138 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* * *
69895178 CAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATC
* *
69895218 CGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
69895249 AGCTATATCC
Statistics
Matches: 175, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 33 0.19
40 140 0.80
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:69897286 original size:21 final size:21
Alignment explanation
Indices: 69897262--69897313 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
69897252 AATAGGGCAT
*
69897262 ACGCCCGTGTGGGAGGGTAAC
1 ACGCCCGTGTGAGAGGGTAAC
69897283 ACGCCCGTGTGAGAGGGTAAC
1 ACGCCCGTGTGAGAGGGTAAC
* *
69897304 ATGCTCGTGT
1 ACGCCCGTGT
69897314 AGAATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.23, G:0.38, T:0.19
Consensus pattern (21 bp):
ACGCCCGTGTGAGAGGGTAAC
Found at i:69898636 original size:46 final size:46
Alignment explanation
Indices: 69898539--69898746 Score: 174
Period size: 46 Copynumber: 4.5 Consensus size: 46
69898529 GTGTCGATGC
* *
69898539 CATGTCCC-AACAGGGTCTTACACTGGC--ACATCTCGTA-GCCAATG
1 CATGTCCCAAACA-TGTCTTACACTGGCTTACATCACG-AGGCCAATG
*
69898583 CATGTCCCAAACATGTCTTACACTGGCTTACGTCACGAGGCCAATG
1 CATGTCCCAAACATGTCTTACACTGGCTTACATCACGAGGCCAATG
* * * * * * * *
69898629 CATGTCCCAAACATGTCTCACACTAGCTTACGTCTCAATGTCGATG
1 CATGTCCCAAACATGTCTTACACTGGCTTACATCACGAGGCCAATG
* * * * * *
69898675 CCATGTCCCATACATGGTCTTACACTGGCTCT-CATAATGTGGCTAGTG
1 -CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCACGAGGCCAATG
*
69898723 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
69898747 AGCACACAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
44 21 0.16
45 5 0.04
46 62 0.47
47 26 0.20
48 17 0.13
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTGGCTTACATCACGAGGCCAATG
Found at i:69900589 original size:32 final size:32
Alignment explanation
Indices: 69900548--69900613 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
69900538 GGGTGTTCGA
69900548 CACTTACACCCATATAAAGCCTCATAAGGCGC
1 CACTTACACCCATATAAAGCCTCATAAGGCGC
69900580 CACTTACACCCATATAAAGCCTCATAAGGCGC
1 CACTTACACCCATATAAAGCCTCATAAGGCGC
69900612 CA
1 CA
69900614 TTTTCAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.18
Consensus pattern (32 bp):
CACTTACACCCATATAAAGCCTCATAAGGCGC
Found at i:69906361 original size:46 final size:46
Alignment explanation
Indices: 69906260--69906469 Score: 167
Period size: 46 Copynumber: 4.5 Consensus size: 46
69906250 GTGTCGATAC
* * * *
69906260 CATGTCCCAGACAGGGTCTTACACTGAC--ACATCTCGTA-GCCGGTG
1 CATGTCCCAGACA-TGTCTTACACTAACTTACATCACG-AGGCCGATG
** *
69906305 CATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAACTTACATCACGAGGCCGATG
* * * * * * *
69906351 CATGTCCCAGACATGTCTCACACTAGCTTACGTCTCAATGCCTATG
1 CATGTCCCAGACATGTCTTACACTAACTTACATCACGAGGCCGATG
* * * * *
69906397 CCATGTCACAGACATGGTCTTACACTAACTCT-CATAATGTGGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAACT-TACATCACGAGGCCGATG
*
69906445 CATGTCCCAGACATGTTTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
69906470 GCATACAAAT
Statistics
Matches: 134, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 62 0.46
47 26 0.19
48 19 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAACTTACATCACGAGGCCGATG
Found at i:69910361 original size:19 final size:19
Alignment explanation
Indices: 69910337--69910373 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
69910327 TTATTTTCAA
* *
69910337 ATTTATCTACCTAAATAAT
1 ATTTATATACCAAAATAAT
69910356 ATTTATATACCAAAATAA
1 ATTTATATACCAAAATAA
69910374 CTTTAAAATA
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:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTATATACCAAAATAAT
Found at i:69912861 original size:50 final size:51
Alignment explanation
Indices: 69912784--69912912 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
69912774 GACCATGGCA
69912784 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
69912835 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
69912885 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
69912913 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:69912926 original size:31 final size:31
Alignment explanation
Indices: 69912888--69913036 Score: 230
Period size: 31 Copynumber: 4.8 Consensus size: 31
69912878 ACAAATGACA
*
69912888 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
69912919 AGTGAAAAGTGGTAGCTTCTGCTACCTGGTC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
69912950 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
69912981 AGTGAAATA-TGGTAGCTTCGGCTACCTGATC
1 AGTGAAA-AGTGGTAGCTTCGGCTACCTGATC
*
69913012 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
69913037 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
30 3 0.03
31 103 0.94
32 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:69913131 original size:47 final size:46
Alignment explanation
Indices: 69913061--69913226 Score: 153
Period size: 47 Copynumber: 3.7 Consensus size: 46
69913051 AAGTGATTTC
* * *
69913061 CGTATAAGACCATATCTGGGATATGGCATCTGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
69913107 CTGTATAAGACCATATCTGGGATATGGCCTCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
69913154 CGTGTAAGACCGTAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
69913196 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
69913227 TTATGTGAAG
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 7 0.07
42 30 0.29
46 25 0.25
47 40 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:69913179 original size:46 final size:42
Alignment explanation
Indices: 69913155--69913271 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
69913145 TATGTGATTC
* *
69913155 GTGTAAGACCGTAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGAGATATGAATAT
* * *
69913197 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-GATATGAATAT
* ** *
69913239 GTGTAAGACCATAGTTGAACTATTGCATCGAGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGAGA
69913272 AAACGAAGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGAGATATGAATAT
Found at i:69913267 original size:42 final size:42
Alignment explanation
Indices: 69913155--69913252 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
69913145 TATGTGATTC
* *
69913155 GTGTAAGACCGTAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
*
69913197 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
69913239 GTGTAAGACCATAG
1 GTGTAAGACCATAG
69913253 TTGAACTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:69917612 original size:19 final size:19
Alignment explanation
Indices: 69917588--69917628 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
69917578 TGATTTATTG
69917588 TAAGATTTATCTACCGAAA
1 TAAGATTTATCTACCGAAA
*
69917607 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCGAAA
69917626 TAA
1 TAA
69917629 CTTTACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (19 bp):
TAAGATTTATCTACCGAAA
Found at i:69918395 original size:22 final size:22
Alignment explanation
Indices: 69918344--69918395 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
69918334 GAGATTGTTC
*
69918344 GAAAATGTGCCCATATTTGTTG
1 GAAAATGTGCCCATATTTGTAG
*
69918366 GGAAATGTGCCCATA-TTGTAG
1 GAAAATGTGCCCATATTTGTAG
*
69918387 TAAACATGT
1 GAAA-ATGT
69918396 AATTGTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (22 bp):
GAAAATGTGCCCATATTTGTAG
Found at i:69918481 original size:16 final size:16
Alignment explanation
Indices: 69918460--69918490 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69918450 TTCACTATTA
*
69918460 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
69918476 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
69918491 GCATGCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:69920074 original size:39 final size:39
Alignment explanation
Indices: 69920021--69920121 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
69920011 GGACTTTAGC
* * *
69920021 CCGGACATATTTCCAGCACGTAGCCTGCAAACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCAAACCTTAAGT
* *
69920060 CCGGTTATAATTCCAGCACATAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCAAACCTTAAGT
69920099 CCGGATATAATTCCAGCACATAG
1 CCGGATATAATTCCAGCACATAG
69920122 TGTAATAGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCAAACCTTAAGT
Found at i:69920970 original size:30 final size:30
Alignment explanation
Indices: 69920936--69920996 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69920926 TTCCTGAGCC
69920936 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
69920966 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
69920996 T
1 T
69920997 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:69927829 original size:55 final size:55
Alignment explanation
Indices: 69927745--69927858 Score: 219
Period size: 55 Copynumber: 2.1 Consensus size: 55
69927735 GAAAAAGCCC
*
69927745 GTTTGAACCTTGGGAATAGGTTAGAATACAAGTGACATGTCACTAAGATATTTGA
1 GTTTGAACCTTGGGAATAGATTAGAATACAAGTGACATGTCACTAAGATATTTGA
69927800 GTTTGAACCTTGGGAATAGATTAGAATACAAGTGACATGTCACTAAGATATTTGA
1 GTTTGAACCTTGGGAATAGATTAGAATACAAGTGACATGTCACTAAGATATTTGA
69927855 GTTT
1 GTTT
69927859 CGAGCTCGTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (55 bp):
GTTTGAACCTTGGGAATAGATTAGAATACAAGTGACATGTCACTAAGATATTTGA
Found at i:69933367 original size:53 final size:54
Alignment explanation
Indices: 69933228--69933386 Score: 196
Period size: 53 Copynumber: 3.0 Consensus size: 54
69933218 TTATCTTCTT
* * * **
69933228 TCCCCACATGACGCCATAATCCCAAACTAGGTCTTACACTATGTGGTCTTCTTT
1 TCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGGTCTTCTCA
* * *
69933282 TCCCTATATGATGCCAT-AGCCTCAAACTAGGTCTTACACTTTATGGTCTT-TCA
1 TCCCCATATGATGCCATAATCC-CAAACTAGGTCTTACACTATATGGTCTTCTCA
* * *
69933335 TCCCCATATGATGCCATAATCCCAGACTAGGTCTTACAATATATAGTCTTCT
1 TCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGGTCTTCT
69933387 TGCCATGACC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 44 0.50
54 44 0.50
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (54 bp):
TCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGGTCTTCTCA
Found at i:69934175 original size:20 final size:22
Alignment explanation
Indices: 69934129--69934176 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
69934119 GAAGGCAACC
**
69934129 CTTCTTTAACTTAACCTGAGTA
1 CTTCTTTAACTTAACCCCAGTA
69934151 C-TCTTTAA-TTAACCCCAGT-
1 CTTCTTTAACTTAACCCCAGTA
69934170 CTTCTTT
1 CTTCTTT
69934177 GGAACTAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 7 0.30
22 1 0.04
ACGTcount: A:0.23, C:0.27, G:0.06, T:0.44
Consensus pattern (22 bp):
CTTCTTTAACTTAACCCCAGTA
Found at i:69935628 original size:27 final size:27
Alignment explanation
Indices: 69935598--69935775 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
69935588 ATATTGAGCC
* * *
69935598 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
69935625 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
69935652 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
69935680 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
69935707 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
69935734 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
69935761 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69935776 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:69935691 original size:55 final size:55
Alignment explanation
Indices: 69935598--69935775 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
69935588 ATATTGAGCC
* * *
69935598 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
69935652 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
69935707 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
69935761 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69935776 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:69935737 original size:82 final size:81
Alignment explanation
Indices: 69935619--69935774 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
69935609 TGCTATACAA
* * *
69935619 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
69935684 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
69935701 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
69935765 CACTTAGTGC
65 CACTTAGTGC
69935775 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:69943526 original size:27 final size:27
Alignment explanation
Indices: 69943496--69943673 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
69943486 ATATTGAGCC
* * *
69943496 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
69943523 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
69943550 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
69943578 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
69943605 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
69943632 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
69943659 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69943674 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:69943589 original size:55 final size:55
Alignment explanation
Indices: 69943496--69943673 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
69943486 ATATTGAGCC
* * *
69943496 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
69943550 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
69943605 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
69943659 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69943674 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:69943635 original size:82 final size:81
Alignment explanation
Indices: 69943517--69943672 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
69943507 TGCTATACAA
* * *
69943517 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
69943582 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
69943599 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
69943663 CACTTAGTGC
65 CACTTAGTGC
69943673 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:69945431 original size:29 final size:30
Alignment explanation
Indices: 69945384--69945458 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
69945374 ATTCTTTTAG
69945384 TTTATTTCTCTCATAGGTTACCAGTCAGAT
1 TTTATTTCTCTCATAGGTTACCAGTCAGAT
* *
69945414 TTTATTT-TCTCATGGGTTACCAGTTAGAT
1 TTTATTTCTCTCATAGGTTACCAGTCAGAT
* *
69945443 TTCATTTATCGTCATA
1 TTTATTTCTC-TCATA
69945459 ATCTGACTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 26 0.67
30 9 0.23
31 4 0.10
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (30 bp):
TTTATTTCTCTCATAGGTTACCAGTCAGAT
Found at i:69947817 original size:11 final size:11
Alignment explanation
Indices: 69947801--69947826 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69947791 CTAACCAACA
69947801 AAAATCGTGTG
1 AAAATCGTGTG
69947812 AAAATCGTGTG
1 AAAATCGTGTG
69947823 AAAA
1 AAAA
69947827 GAAACCTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (11 bp):
AAAATCGTGTG
Done.