Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 214 of 230
Found at i:63589120 original size:18 final size:18
Alignment explanation
Indices: 63589094--63589159 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
63589084 TGTTCGTTCT
63589094 AGGATTTCTCCTCCTCCC
1 AGGATTTCTCCTCCTCCC
*
63589112 -GGCATTTCTCCTCCCCCC
1 AGG-ATTTCTCCTCCTCCC
*
63589130 AGGATTTCTCCTTCTCCC
1 AGGATTTCTCCTCCTCCC
**
63589148 ATTATTTCTCCT
1 AGGATTTCTCCT
63589160 TCCATGTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
17 2 0.05
18 37 0.90
19 2 0.05
ACGTcount: A:0.11, C:0.42, G:0.09, T:0.38
Consensus pattern (18 bp):
AGGATTTCTCCTCCTCCC
Found at i:63591885 original size:30 final size:31
Alignment explanation
Indices: 63591818--63591883 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
63591808 ATTAATAAAA
*
63591818 ATAAAATTATACTTTGATCTCTTTAAAAATG
1 ATAAAATTATACTTTAATCTCTTTAAAAATG
63591849 ATAAAATTATGA-TTTAATC-CTTTAAAAAT-
1 ATAAAATTAT-ACTTTAATCTCTTTAAAAATG
63591878 ATAAAA
1 ATAAAA
63591884 ATACATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 6 0.18
30 10 0.30
31 16 0.48
32 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (31 bp):
ATAAAATTATACTTTAATCTCTTTAAAAATG
Found at i:63599606 original size:21 final size:20
Alignment explanation
Indices: 63599580--63599636 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
63599570 TTAAATCCTT
63599580 TTATTTTTCCTTCTTTTTACA
1 TTATTTTTCCTTCTTTTT-CA
* *
63599601 TTATTTATCTCTAT-TTTTTCT
1 TTATTTTTC-CT-TCTTTTTCA
*
63599622 TTATTTTTCTTTCTT
1 TTATTTTTCCTTCTT
63599637 CTTCCTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 1 0.03
20 3 0.10
21 17 0.59
22 7 0.24
23 1 0.03
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTTCCTTCTTTTTCA
Found at i:63616139 original size:20 final size:20
Alignment explanation
Indices: 63616114--63616155 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
63616104 AGTTTTTAGT
63616114 TTTAGG-ATTAGTAACTTTTA
1 TTTAGGAATTAG-AACTTTTA
*
63616134 TTTAGGAATTAGAATTTTTA
1 TTTAGGAATTAGAACTTTTA
63616154 TT
1 TT
63616156 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTAGGAATTAGAACTTTTA
Found at i:63618299 original size:21 final size:21
Alignment explanation
Indices: 63618247--63618299 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
63618237 TATAATAGCA
*
63618247 AAACAACTA-CAAAACAATAAC
1 AAACAA-TAGCAAAACAACAAC
**
63618268 AAACAGCAGCAAAACAACAAC
1 AAACAATAGCAAAACAACAAC
63618289 AAACAATAGCA
1 AAACAATAGCA
63618300 GGGAAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.64, C:0.25, G:0.06, T:0.06
Consensus pattern (21 bp):
AAACAATAGCAAAACAACAAC
Found at i:63619920 original size:21 final size:22
Alignment explanation
Indices: 63619895--63619941 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
63619885 TAATTTTAAA
*
63619895 CTTATTGA-TACAATAATTGAT
1 CTTATTCACTACAATAATTGAT
*
63619916 CTTA-TCACTATAATAATTGAT
1 CTTATTCACTACAATAATTGAT
63619937 CTTAT
1 CTTAT
63619942 CGTTACCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (22 bp):
CTTATTCACTACAATAATTGAT
Found at i:63631414 original size:45 final size:45
Alignment explanation
Indices: 63631345--63631446 Score: 152
Period size: 45 Copynumber: 2.3 Consensus size: 45
63631335 GCTTTCCCTG
* *
63631345 GTGGTTGGGGTGCTTCAGGAACTGAAAGTGG-AGGTGGCAGCGGCA
1 GTGGCTGGGGTGCTTCAGGAACTGAAAGTGGCA-ATGGCAGCGGCA
* *
63631390 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGCAATGGCAGTGGCA
1 GTGGCTGGGGTGCTTCAGGAACTGAAAGTGGCAATGGCAGCGGCA
63631435 GTGGCTGGGGTG
1 GTGGCTGGGGTG
63631447 GCAGTGGTGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.47, T:0.22
Consensus pattern (45 bp):
GTGGCTGGGGTGCTTCAGGAACTGAAAGTGGCAATGGCAGCGGCA
Found at i:63631449 original size:15 final size:14
Alignment explanation
Indices: 63631429--63631473 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
63631419 GGCAATGGCA
63631429 GTGGCAGTGGCTGGG
1 GTGGCAGTGG-TGGG
63631444 GTGGCAGTGGT--G
1 GTGGCAGTGGTGGG
63631456 GTGGCAGTGGTTGGG
1 GTGGCAGTGG-TGGG
63631471 GTG
1 GTG
63631474 CTTCTGGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.41
13 1 0.04
14 1 0.04
15 14 0.52
ACGTcount: A:0.07, C:0.09, G:0.60, T:0.24
Consensus pattern (14 bp):
GTGGCAGTGGTGGG
Found at i:63631458 original size:12 final size:13
Alignment explanation
Indices: 63631429--63631466 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
63631419 GGCAATGGCA
63631429 GTGGCAGTGGCTGGG
1 GTGGCAGTGG-T-GG
63631444 GTGGCAGTGGT-G
1 GTGGCAGTGGTGG
63631456 GTGGCAGTGGT
1 GTGGCAGTGGT
63631467 TGGGGTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
14 1 0.04
15 10 0.43
ACGTcount: A:0.08, C:0.11, G:0.58, T:0.24
Consensus pattern (13 bp):
GTGGCAGTGGTGG
Found at i:63631488 original size:72 final size:75
Alignment explanation
Indices: 63631386--63631526 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 75
63631376 AGGTGGCAGC
63631386 GGCAGTGGCTGGGGTGCTTCTGGAACTG-AA-A-GTGGCAATGGCAGTGGCAGTGGCTGGGGTGG
1 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGAGGTGGCAATGGCAGTGGCAGTGGCTGGGGTGG
63631448 CAGTGGTGGT
66 CAGTGGTGGT
* *
63631458 GGCAGTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCAGTGGCAGTGGTTGGGG
1 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAA---GAGGTGGCAATGGCAGTGGCAGTGGCTGGGG
63631523 TGGC
63 TGGC
63631527 GGTAGTGGAG
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
72 27 0.44
73 2 0.03
77 1 0.02
78 31 0.51
ACGTcount: A:0.16, C:0.13, G:0.49, T:0.23
Consensus pattern (75 bp):
GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGAGGTGGCAATGGCAGTGGCAGTGGCTGGGGTGG
CAGTGGTGGT
Found at i:63631525 original size:27 final size:27
Alignment explanation
Indices: 63631417--63631526 Score: 84
Period size: 27 Copynumber: 4.2 Consensus size: 27
63631407 GGAACTGAAA
*
63631417 GTGGCAATGGCAGTGGCAGTGGCTGGG
1 GTGGCAATGGCAGTGGCAGTGGTTGGG
* **
63631444 GTGGCAGTGGTGGTGGCAGTGGTTGGG
1 GTGGCAATGGCAGTGGCAGTGGTTGGG
** * * ** *
63631471 GT-GCTTCTGGAACTGAAAGT-G--GAG
1 GTGGC-AATGGCAGTGGCAGTGGTTGGG
63631495 GTGGCAATGGCAGTGGCAGTGGTTGGG
1 GTGGCAATGGCAGTGGCAGTGGTTGGG
63631522 GTGGC
1 GTGGC
63631527 GGTAGTGGAG
Statistics
Matches: 59, Mismatches: 19, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
24 13 0.22
25 3 0.05
26 3 0.05
27 40 0.68
ACGTcount: A:0.15, C:0.12, G:0.51, T:0.23
Consensus pattern (27 bp):
GTGGCAATGGCAGTGGCAGTGGTTGGG
Found at i:63631540 original size:72 final size:69
Alignment explanation
Indices: 63631386--63631542 Score: 176
Period size: 72 Copynumber: 2.2 Consensus size: 69
63631376 AGGTGGCAGC
*
63631386 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGCAATGGCAGTGGCAGTGGCTGGGGTGGCAG
1 GGCAG-GGTTGGGGTGCTTCTGGAACTGAAAGTGGCAATGGCAGTGGCAGTGGCTGGGGTGGCA-
*
63631451 TGGTGGT
64 -GGTAGT
*
63631458 GGCAGTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCAGTGGCAGTGGTTGGGG
1 GGCAG-GGTTGGGGTGCTTCTGGAACTG-AA----A-GTGGCAATGGCAGTGGCAGTGGCTGGGG
63631523 TGGC-GGTAGT
59 TGGCAGGTAGT
63631533 GG-A-GGTTGGG
1 GGCAGGGTTGGG
63631543 ACCAAGCAAG
Statistics
Matches: 76, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
72 34 0.45
73 2 0.03
74 1 0.01
75 7 0.09
77 1 0.01
78 31 0.41
ACGTcount: A:0.15, C:0.11, G:0.50, T:0.23
Consensus pattern (69 bp):
GGCAGGGTTGGGGTGCTTCTGGAACTGAAAGTGGCAATGGCAGTGGCAGTGGCTGGGGTGGCAGG
TAGT
Found at i:63633233 original size:106 final size:107
Alignment explanation
Indices: 63633043--63633264 Score: 392
Period size: 106 Copynumber: 2.1 Consensus size: 107
63633033 TAAGATATTT
* * *
63633043 TTAATAACAAGCATAAAAAAAATAAGCATGTTGCATACTTCATAACTTTATTCGTAGGCAGAATT
1 TTAATAATAAGCATAAAAAAAATAAGCATATTGCATACTTCATAACTTTATTCGTAGGCAAAATT
*
63633108 AAGATGATCCATAATTTAAAGAGTACATGGAAAAAGAATATC
66 AAGATGATCCATAAGTTAAAGAGTACATGGAAAAAGAATATC
63633150 TTAATAATAAGCAT-AAAAAAATAAGCATATTGCATACTTCATAACTTTATTCGTAGGCAAAATT
1 TTAATAATAAGCATAAAAAAAATAAGCATATTGCATACTTCATAACTTTATTCGTAGGCAAAATT
*
63633214 AAGATGATCCATAAGTTAAAGAGTACGTGGAAAAAGAATATC
66 AAGATGATCCATAAGTTAAAGAGTACATGGAAAAAGAATATC
63633256 TTAATAATA
1 TTAATAATA
63633265 TTAATAATAC
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
106 97 0.88
107 13 0.12
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (107 bp):
TTAATAATAAGCATAAAAAAAATAAGCATATTGCATACTTCATAACTTTATTCGTAGGCAAAATT
AAGATGATCCATAAGTTAAAGAGTACATGGAAAAAGAATATC
Found at i:63641111 original size:30 final size:31
Alignment explanation
Indices: 63641076--63641134 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
63641066 TAGTAAATTG
63641076 TAAAATTTT-ACTTTAA-CTCTTAAAAAATGA
1 TAAAATTTTGA-TTTAATCTCTTAAAAAATGA
*
63641106 TAAAATTTTGATTTAATCTTTTAAAAAAT
1 TAAAATTTTGATTTAATCTCTTAAAAAAT
63641135 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (31 bp):
TAAAATTTTGATTTAATCTCTTAAAAAATGA
Found at i:63642819 original size:15 final size:15
Alignment explanation
Indices: 63642800--63642829 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63642790 AACCTTTTAT
63642800 ATTTTT-TAATTTTG
1 ATTTTTATAATTTTG
63642814 ATTTTTATAATTTTG
1 ATTTTTATAATTTTG
63642829 A
1 A
63642830 ATTGTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTATAATTTTG
Found at i:63644375 original size:31 final size:30
Alignment explanation
Indices: 63644332--63644391 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
63644322 GGGCCCAAAA
63644332 TTTTTTTATCAACTTTTAAGGAACCTAAAT
1 TTTTTTTATCAACTTTTAAGGAACCTAAAT
* *
63644362 TTTTTTTCTTCAACTTTTAAGGAATCTAAA
1 TTTTTTT-ATCAACTTTTAAGGAACCTAAA
63644392 GTCCTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTTTTTATCAACTTTTAAGGAACCTAAAT
Found at i:63646551 original size:75 final size:75
Alignment explanation
Indices: 63646461--63646610 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
63646451 AACTTGTTAG
63646461 GCCACAATCTGTAAATAATGCAAATTGAGCAATTGCATCATCATTTTCTCTAATTTTGGTTACGT
1 GCCACAATCTGTAAATAATGCAAATTGAGCAATTGCATCATCATTTTCTCTAATTTTGGTTACGT
63646526 CATAATTTTA
66 CATAATTTTA
63646536 GCCACAATCTGTAAATAATGCAAATTGAGCAATTGCATCATCATTTTCTCTAATTTTGGTTACGT
1 GCCACAATCTGTAAATAATGCAAATTGAGCAATTGCATCATCATTTTCTCTAATTTTGGTTACGT
63646601 CATAATTTTA
66 CATAATTTTA
63646611 CATCCATGCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (75 bp):
GCCACAATCTGTAAATAATGCAAATTGAGCAATTGCATCATCATTTTCTCTAATTTTGGTTACGT
CATAATTTTA
Found at i:63649187 original size:107 final size:107
Alignment explanation
Indices: 63648999--63649204 Score: 358
Period size: 107 Copynumber: 1.9 Consensus size: 107
63648989 CCATACTTTG
* *
63648999 AAGTTTTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCAC
1 AAGTTTAAAAAGGATATTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCAC
* *
63649064 GTTTTCTCGATCTTCCAAACGCAAAATATTGCCTTATTTTAA
66 GTTTTCTCGATCTTCCAAAAGCAAAACATTGCCTTATTTTAA
*
63649106 AAGTTTAAAAAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
1 AAGTTTAAAAAGGATATTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCAC
*
63649171 GTTTTCTCGATTTTCCAAAAGCAAAACATTGCCT
66 GTTTTCTCGATCTTCCAAAAGCAAAACATTGCCT
63649205 CTTTTTGAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (107 bp):
AAGTTTAAAAAGGATATTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCAC
GTTTTCTCGATCTTCCAAAAGCAAAACATTGCCTTATTTTAA
Found at i:63659081 original size:8 final size:7
Alignment explanation
Indices: 63659053--63659078 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
63659043 AATATTTTTA
63659053 AAAAATT
1 AAAAATT
63659060 AAAAATT
1 AAAAATT
63659067 AAAAATT
1 AAAAATT
63659074 AAAAA
1 AAAAA
63659079 ATTTTCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:63664656 original size:39 final size:40
Alignment explanation
Indices: 63664602--63664713 Score: 172
Period size: 39 Copynumber: 2.8 Consensus size: 40
63664592 GGCGTTGTTT
*
63664602 TAATGCTCGGGATTTAGTGGCGTTTTTGAAAA-GCGCTGC
1 TAATGCTCGGGATTTAGTGGCGTTTTTGAAAATGCGCCGC
63664641 TAATGCTCGGGATTTAGTGGCGTTTTTGAAAATGCGCCGC
1 TAATGCTCGGGATTTAGTGGCGTTTTTGAAAATGCGCCGC
* * *
63664681 TAATGCTCGAGGTTTTAGCGACGTTTTTGAAAA
1 TAATGCTCG-GGATTTAGTGGCGTTTTTGAAAA
63664714 AGTGCAGCTA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 32 0.48
40 15 0.22
41 20 0.30
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (40 bp):
TAATGCTCGGGATTTAGTGGCGTTTTTGAAAATGCGCCGC
Found at i:63665086 original size:7 final size:7
Alignment explanation
Indices: 63665067--63665121 Score: 101
Period size: 7 Copynumber: 7.7 Consensus size: 7
63665057 GTTTAGGGAG
63665067 TATGGATT
1 TATGGA-T
63665075 TATGGAT
1 TATGGAT
63665082 TATGGAT
1 TATGGAT
63665089 TATGGAT
1 TATGGAT
63665096 TATGGAT
1 TATGGAT
63665103 TATGGAT
1 TATGGAT
63665110 TATGGAT
1 TATGGAT
63665117 TATGG
1 TATGG
63665122 TTTAAGGGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (7 bp):
TATGGAT
Found at i:63665158 original size:7 final size:7
Alignment explanation
Indices: 63665148--63665191 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
63665138 TAAGGTTTAA
63665148 GGGTTAG
1 GGGTTAG
63665155 GGGTTAG
1 GGGTTAG
63665162 GGGTTAG
1 GGGTTAG
**
63665169 ACGTTAG
1 GGGTTAG
*
63665176 GGGTTAA
1 GGGTTAG
*
63665183 GAGTTAG
1 GGGTTAG
63665190 GG
1 GG
63665192 ATTTAAGGTT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.20, C:0.02, G:0.50, T:0.27
Consensus pattern (7 bp):
GGGTTAG
Found at i:63665188 original size:21 final size:21
Alignment explanation
Indices: 63665150--63665189 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63665140 AGGTTTAAGG
* *
63665150 GTTAGGGGTTAGGGGTTAGAC
1 GTTAGGGGTTAAGAGTTAGAC
63665171 GTTAGGGGTTAAGAGTTAG
1 GTTAGGGGTTAAGAGTTAG
63665190 GGATTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.45, T:0.30
Consensus pattern (21 bp):
GTTAGGGGTTAAGAGTTAGAC
Found at i:63665206 original size:15 final size:14
Alignment explanation
Indices: 63665179--63665214 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
63665169 ACGTTAGGGG
63665179 TTAAGAGTTAGGGAT
1 TTAAG-GTTAGGGAT
63665194 TTAAGGTTGAGGGAT
1 TTAAGGTT-AGGGAT
63665209 TTAAGG
1 TTAAGG
63665215 GTCGGGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (14 bp):
TTAAGGTTAGGGAT
Found at i:63666302 original size:7 final size:7
Alignment explanation
Indices: 63666256--63666289 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
63666246 CCTCCTATTA
63666256 CCCTTTC
1 CCCTTTC
63666263 CCCTTTC
1 CCCTTTC
63666270 CCCTTTC
1 CCCTTTC
*
63666277 CCCTCT-
1 CCCTTTC
63666283 CCCTTTC
1 CCCTTTC
63666290 TCTCTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (7 bp):
CCCTTTC
Found at i:63670103 original size:43 final size:42
Alignment explanation
Indices: 63670048--63670199 Score: 205
Period size: 43 Copynumber: 3.5 Consensus size: 42
63670038 AAAAGTGTCA
* * *
63670048 CTAAAGGTCATGATTTTTAGCGGCGTTTGTAGTAGAAGCGTAG
1 CTAAAGGTCATGATCTTTAGCGGCGTTTGT-GTAGAAGAGTCG
* *
63670091 CTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGTGTCG
1 CTAAAGGTCATGATCTTTAGCGGCGTTTGTG-TAGAAGAGTCG
* *
63670134 CTAAAGATCATGATCTTTAGCGGCGTTTGTGGTAGAAGAGCCG
1 CTAAAGGTCATGATCTTTAGCGGCGTTTGT-GTAGAAGAGTCG
*
63670177 CTAAAGGTTATGATCTTTAGCGG
1 CTAAAGGTCATGATCTTTAGCGG
63670200 TATTTTTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 95 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (42 bp):
CTAAAGGTCATGATCTTTAGCGGCGTTTGTGTAGAAGAGTCG
Found at i:63670169 original size:86 final size:85
Alignment explanation
Indices: 63670008--63670199 Score: 251
Period size: 86 Copynumber: 2.3 Consensus size: 85
63669998 TATATTTTTT
* * * * * *
63670008 TAAAAGTCATG-TTTTTAGCAGTGTTTGGGAAAAAGTGTCACTAAAGGTCATGATTTTTAGCGGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGGGAAAAAGTGTCACTAAAGATCATGATCTTTAGCGGC
* *
63670072 GTTTGTAGTAGAAGCGTAGC
66 GTTTGTAGTAGAAGAGCAGC
* *
63670092 TAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGTGTCGCTAAAGATCATGATCTTTAGCGG
1 TAAAGGTCATGATCTTTAGCGGCGTTTGGGA-AAAAGTGTCACTAAAGATCATGATCTTTAGCGG
* *
63670157 CGTTTGTGGTAGAAGAGCCGC
65 CGTTTGTAGTAGAAGAGCAGC
*
63670178 TAAAGGTTATGATCTTTAGCGG
1 TAAAGGTCATGATCTTTAGCGG
63670200 TATTTTTTTA
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 10 0.11
85 15 0.16
86 68 0.73
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (85 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGGGAAAAAGTGTCACTAAAGATCATGATCTTTAGCGGC
GTTTGTAGTAGAAGAGCAGC
Found at i:63675411 original size:17 final size:16
Alignment explanation
Indices: 63675383--63675435 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
63675373 TTTGGTTCGC
63675383 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
63675399 TGTATTAGGATTAGAGA
1 TGTATT-GGATTAGAGG
63675416 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
63675432 TGTA
1 TGTA
63675436 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:63675504 original size:44 final size:45
Alignment explanation
Indices: 63675415--63675506 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 45
63675405 AGGATTAGAG
* * *
63675415 ATGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGA
***
63675460 ATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGA
63675504 ATG
1 ATG
63675507 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 19 0.46
45 22 0.54
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (45 bp):
ATGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGA
Found at i:63675689 original size:16 final size:16
Alignment explanation
Indices: 63675652--63675706 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
63675642 TTAATCATAT
*
63675652 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
63675668 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
63675683 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
63675701 -TAAAAT
1 TTAAAAT
63675707 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:63675699 original size:18 final size:18
Alignment explanation
Indices: 63675658--63675706 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
63675648 ATATTTAAAC
63675658 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
63675676 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
63675692 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
63675707 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:63675825 original size:67 final size:67
Alignment explanation
Indices: 63675754--63675966 Score: 161
Period size: 67 Copynumber: 3.1 Consensus size: 67
63675744 ATTGTTAATG
*
63675754 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATAATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATAATATTTAAACATAAT
63675819 TA
66 TA
* * * * ***
63675821 TTATTAAATATATTTTAATTAAAATATATAATT-T-AAT-A-AAAT-TCTT-ATAATTAGCAGAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATTTTAATAA-TA-TTTAA
** * *
63675880 ATTTGTTATTG
59 A--CATAATTA
* * *
63675891 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATAATATTTAAACATAAT
63675956 TA
66 TA
63675958 TTA-TTAAAT
1 TTATTTAAAT
63675967 ACATTATAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
65 5 0.05
66 16 0.15
67 29 0.28
68 8 0.08
69 8 0.08
70 24 0.23
71 9 0.09
72 6 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATAATATTTAAACATAAT
TA
Found at i:63675843 original size:156 final size:156
Alignment explanation
Indices: 63675559--63675891 Score: 603
Period size: 156 Copynumber: 2.1 Consensus size: 156
63675549 TAGAATACCC
* * *
63675559 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTTGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
63675624 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATAATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
63675689 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
63675715 TTAGCAGAAAATTGTTTTTGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTTGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
63675780 TTATCAGTAATAAATATTTTAATAATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATAATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
63675845 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
63675871 TTAGCAGAAATTTGTTATTGT
1 TTAGCAGAAAATTGTTTTTGT
63675892 TATTTAAATT
Statistics
Matches: 170, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 170 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTTGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATAATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:63675849 original size:18 final size:17
Alignment explanation
Indices: 63675828--63675862 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63675818 TTATTATTAA
*
63675828 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
63675846 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
63675863 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:63675851 original size:137 final size:136
Alignment explanation
Indices: 63675745--63676004 Score: 394
Period size: 137 Copynumber: 1.9 Consensus size: 136
63675735 TAAATGATTA
* * *
63675745 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATAATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATAATATTT
* * *
63675810 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAG
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTAT-ATTAG
63675875 CAGAAAT
130 CAGAAAT
* *
63675882 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATAATATTT
**** *
63675947 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTA
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTA
63676005 ATAATTCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
137 112 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (136 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATAATATTT
AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTATATTAGC
AGAAAT
Found at i:63676044 original size:137 final size:135
Alignment explanation
Indices: 63675766--63676044 Score: 330
Period size: 137 Copynumber: 2.0 Consensus size: 135
63675756 ATTTAAATTT
* * *
63675766 TAATAAGATTATTATTATCAGTAATAAATATTTTAATAATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATAATATTTAAACATAATTATTATTAAATA
* * * *
63675831 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* **
63675896 TAAATTT
129 CAAATCA
*
63675903 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATAATATTTAAACATAATTATTATTAAATA
**** *
63675968 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---TT
63676030 ACTCAAATCA
126 ACTCAAATCA
63676040 TAATA
1 TAATA
63676045 TATGATACTA
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 104 0.86
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATAATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:63676144 original size:26 final size:26
Alignment explanation
Indices: 63676068--63676146 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
63676058 GAAAATTTGA
63676068 AATAATTAA-TATTAAATAT-ATTT-T
1 AATAA-TAATTATTAAATATAATTTCT
* * *
63676092 AATTAAAATATATGATTTAATACAATTTCT
1 AA-T--AATA-ATTATTAAATATAATTTCT
63676122 AATAATAATTATTAAATATAATTTC
1 AATAATAATTATTAAATATAATTTC
63676147 ATAAAATGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
24 2 0.05
25 1 0.02
26 17 0.40
27 7 0.17
28 7 0.17
29 5 0.12
30 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (26 bp):
AATAATAATTATTAAATATAATTTCT
Found at i:63681949 original size:14 final size:14
Alignment explanation
Indices: 63681930--63681959 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
63681920 TCAAATCACC
63681930 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
63681944 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
63681958 GG
1 GG
63681960 CCTAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.13, G:0.47, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:63687074 original size:14 final size:14
Alignment explanation
Indices: 63687055--63687084 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
63687045 TCAAATCACC
63687055 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
63687069 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
63687083 GG
1 GG
63687085 CCTAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.13, G:0.47, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:63689409 original size:27 final size:27
Alignment explanation
Indices: 63689377--63689530 Score: 210
Period size: 27 Copynumber: 5.8 Consensus size: 27
63689367 CAATGGAAAG
63689377 ATGACAACAGATGCAAACCATTGTGTA
1 ATGACAACAGATGCAAACCATTGTGTA
* **
63689404 ATGACAA-A-A-GCATAGA-AATTG-GGG
1 ATGACAACAGATGCA-A-ACCATTGTGTA
* *
63689428 CTGACAACAGATGCAAACTATTGTGTA
1 ATGACAACAGATGCAAACCATTGTGTA
63689455 ATGACAACAGATGCAAACCATTGTGTA
1 ATGACAACAGATGCAAACCATTGTGTA
63689482 ATGACAACAGATGCAAACCATTGTGTA
1 ATGACAACAGATGCAAACCATTGTGTA
63689509 ATGACAACAGATGCAAACCATT
1 ATGACAACAGATGCAAACCATT
63689531 ATGAAGAAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.09
25 8 0.07
26 8 0.07
27 85 0.77
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (27 bp):
ATGACAACAGATGCAAACCATTGTGTA
Found at i:63691152 original size:15 final size:15
Alignment explanation
Indices: 63691133--63691162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63691123 AAACTTTTAT
63691133 ATTTTT-TAATTTTG
1 ATTTTTATAATTTTG
63691147 ATTTTTATAATTTTG
1 ATTTTTATAATTTTG
63691162 A
1 A
63691163 ATTGTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTATAATTTTG
Found at i:63691580 original size:27 final size:25
Alignment explanation
Indices: 63691535--63691586 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
63691525 TACTTTTAAG
*
63691535 TTTATAATACTTATATTATGTTATT
1 TTTATAATACTTATATTATCTTATT
63691560 TTTAT-ATACTATATAAGTTATCTTATT
1 TTTATAATACT-TAT-A-TTATCTTATT
63691587 GATAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 8 0.35
26 1 0.04
27 9 0.39
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTATAATACTTATATTATCTTATT
Found at i:63692132 original size:20 final size:19
Alignment explanation
Indices: 63692107--63692152 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
63692097 AAAAGCTATA
*
63692107 ATTTTTTTGATAATTTTTTT
1 ATTTTTTT-ATAATATTTTT
*
63692127 ATTTTTCTATAATATTTTT
1 ATTTTTTTATAATATTTTT
63692146 ATTTTTT
1 ATTTTTT
63692153 AAAAGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTTTTATAATATTTTT
Found at i:63693163 original size:32 final size:30
Alignment explanation
Indices: 63693112--63693175 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
63693102 TTTAAAGGGT
*
63693112 CTAAAATTTTTTTATCAACTCTTAAGGGAC
1 CTAAAATTTTTTTATCAACTCTTAAGGAAC
* *
63693142 CTAAAATTTTTTTTCTCCAACTTTTAAGGAAC
1 CTAAAA-TTTTTTTAT-CAACTCTTAAGGAAC
63693174 CT
1 CT
63693176 CAAGCGCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.21
31 8 0.28
32 15 0.52
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (30 bp):
CTAAAATTTTTTTATCAACTCTTAAGGAAC
Found at i:63703120 original size:19 final size:19
Alignment explanation
Indices: 63703081--63703120 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
63703071 TGCATTATTT
*
63703081 AAAATTCAAAATTAAATTA
1 AAAATTCAAAATAAAATTA
63703100 AAAATTCAAAA-AAAATATA
1 AAAATTCAAAATAAAAT-TA
63703119 AA
1 AA
63703121 TTATTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATTCAAAATAAAATTA
Found at i:63705909 original size:17 final size:17
Alignment explanation
Indices: 63705862--63705909 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
63705852 TGATTTGATA
63705862 AAAAATAAATATAATATT
1 AAAAATAAATA-AATATT
**
63705880 AAATTTAAATAAATATT
1 AAAAATAAATAAATATT
*
63705897 AAAAATAATTAAA
1 AAAAATAAATAAA
63705910 AAATAATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATAAATAAATATT
Found at i:63706848 original size:19 final size:19
Alignment explanation
Indices: 63706802--63706857 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 19
63706792 AATCTTTAAG
63706802 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
63706821 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
63706842 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
63706858 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:63706879 original size:23 final size:22
Alignment explanation
Indices: 63706802--63706880 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
63706792 AATCTTTAAG
*
63706802 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
63706824 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
63706842 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
63706864 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
63706881 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
21 12 0.24
22 8 0.16
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:63707805 original size:3 final size:3
Alignment explanation
Indices: 63707797--63707823 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
63707787 TTATCTTTTC
63707797 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
63707824 GTTCTTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:63709874 original size:5 final size:5
Alignment explanation
Indices: 63709866--63709896 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
63709856 GAGATGGAAT
63709866 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
63709897 ATATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:63721211 original size:18 final size:19
Alignment explanation
Indices: 63721188--63721225 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
63721178 TAATGAAAAA
63721188 TCAAT-AGACAATAATTTC
1 TCAATAAGACAATAATTTC
*
63721206 TCAATACATACAATAATTTC
1 TCAATA-AGACAATAATTTC
63721226 ATATTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (19 bp):
TCAATAAGACAATAATTTC
Found at i:63721278 original size:3 final size:3
Alignment explanation
Indices: 63721270--63721301 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
63721260 TGGTTGGTTT
63721270 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
63721302 TATTAGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:63721357 original size:13 final size:13
Alignment explanation
Indices: 63721339--63721386 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
63721329 TCTTCATTAT
63721339 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
63721352 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
63721364 TTCTGGAGAAGTGC
1 TT-TTGAAAAGTGC
63721378 TTTTGAAAA
1 TTTTGAAAA
63721387 ATTTGAGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:63730114 original size:48 final size:48
Alignment explanation
Indices: 63730062--63730205 Score: 161
Period size: 48 Copynumber: 3.0 Consensus size: 48
63730052 GAAAAACAAT
*
63730062 GGACGAGATTTTGGGGTTTTCAAGCAATGAAAAGATTGAGAAA-AAAAG
1 GGACGAGATTTTGGGG-TTTCAAGCAAAGAAAAGATTGAGAAAGAAAAG
* * *
63730110 GGACGGGATTTTGGGGTTTCAATCAAAGAAAAGTCTTGA-AAAGAAAAG
1 GGACGAGATTTTGGGGTTTCAAGCAAAGAAAAG-ATTGAGAAAGAAAAG
* *
63730158 GGA-AATG-TTTTGGGGGGTTTCTAGCAAAGAAAAGATTGAGAAAGAAAA
1 GGACGA-GATTTT--GGGGTTTCAAGCAAAGAAAAGATTGAGAAAGAAAA
63730206 TAATTCGTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
47 22 0.27
48 32 0.40
49 27 0.33
ACGTcount: A:0.41, C:0.06, G:0.30, T:0.23
Consensus pattern (48 bp):
GGACGAGATTTTGGGGTTTCAAGCAAAGAAAAGATTGAGAAAGAAAAG
Found at i:63731721 original size:17 final size:17
Alignment explanation
Indices: 63731701--63731740 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
63731691 TATTATTTCT
*
63731701 TTTTTACTTTGTTTAAA
1 TTTTAACTTTGTTTAAA
* *
63731718 TTTTAATTTTTTTTAAA
1 TTTTAACTTTGTTTAAA
63731735 TTTTAA
1 TTTTAA
63731741 ACTCTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAACTTTGTTTAAA
Found at i:63732046 original size:29 final size:29
Alignment explanation
Indices: 63732013--63732087 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
63732003 GAATGCCTTA
* *
63732013 AAACACACAGACATACGATAGTAATAAGC
1 AAACACACACACAGACGATAGTAATAAGC
*
63732042 AAACACACACACAGAGGATAGTAATAAGC
1 AAACACACACACAGACGATAGTAATAAGC
*
63732071 AAACAGACACACAGACG
1 AAACACACACACAGACG
63732088 CAGTAATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.52, C:0.23, G:0.16, T:0.09
Consensus pattern (29 bp):
AAACACACACACAGACGATAGTAATAAGC
Found at i:63733718 original size:6 final size:6
Alignment explanation
Indices: 63733707--63733746 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
63733697 TATATTACAA
63733707 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
63733747 TAATTATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:63735198 original size:14 final size:14
Alignment explanation
Indices: 63735179--63735205 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63735169 AATATATCGC
63735179 AAAGAAAAATAAAA
1 AAAGAAAAATAAAA
63735193 AAAGAAAAATAAA
1 AAAGAAAAATAAA
63735206 GAACACACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAGAAAAATAAAA
Found at i:63735614 original size:29 final size:29
Alignment explanation
Indices: 63735547--63735604 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
63735537 AATTCTTAAT
*
63735547 GAACAAGTTCTTCATCGCGAACTTTCAAC
1 GAACAAGTTTTTCATCGCGAACTTTCAAC
63735576 GAACAAGTTTTTCATCGCGAACTTTCAAC
1 GAACAAGTTTTTCATCGCGAACTTTCAAC
63735605 TTAAGGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
GAACAAGTTTTTCATCGCGAACTTTCAAC
Found at i:63740079 original size:3 final size:3
Alignment explanation
Indices: 63740071--63740108 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
63740061 GAGTATAAAC
63740071 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
63740109 TTGAAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:63740221 original size:12 final size:12
Alignment explanation
Indices: 63740201--63740233 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
63740191 CTAAAAAAGA
63740201 AATATATAATAT
1 AATATATAATAT
63740213 -ATAATATAATAT
1 AAT-ATATAATAT
63740225 AATATATAA
1 AATATATAA
63740234 AAAGGTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.11
12 15 0.79
13 2 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATATAATAT
Found at i:63741449 original size:14 final size:14
Alignment explanation
Indices: 63741423--63741450 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63741413 GTTATTGGGC
63741423 TAATTGTTTTGGTT
1 TAATTGTTTTGGTT
63741437 TAATTGTTTTGGTT
1 TAATTGTTTTGGTT
63741451 CCTTGGGCCC
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:0.14, C:0.00, G:0.21, T:0.64
Consensus pattern (14 bp):
TAATTGTTTTGGTT
Found at i:63741880 original size:16 final size:14
Alignment explanation
Indices: 63741867--63741914 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 14
63741857 AAAAAAAATG
63741867 AATGAAAATGAAAAA
1 AATGAAAATG-AAAA
63741882 AATTGAAAAATGAAAA
1 AA-TG-AAAATGAAAA
*
63741898 AATGAAAA-GTAAA
1 AATGAAAATGAAAA
63741911 AATG
1 AATG
63741915 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 8 0.27
14 4 0.13
15 4 0.13
16 8 0.27
17 6 0.20
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.17
Consensus pattern (14 bp):
AATGAAAATGAAAA
Found at i:63741903 original size:15 final size:16
Alignment explanation
Indices: 63741845--63741905 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
63741835 TTTGAGTCAA
63741845 GAAAAAAATGTAAAAA-
1 GAAAAAAATG-AAAAAT
*
63741861 -AAAATGAATG-AAAAT
1 GAAAA-AAATGAAAAAT
63741876 GAAAAAAATTGAAAAAT
1 GAAAAAAA-TGAAAAAT
63741893 G-AAAAAATGAAAA
1 GAAAAAAATGAAAA
63741906 GTAAAAATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 16 0.42
17 6 0.16
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (16 bp):
GAAAAAAATGAAAAAT
Found at i:63743168 original size:46 final size:46
Alignment explanation
Indices: 63743101--63743818 Score: 1044
Period size: 46 Copynumber: 15.6 Consensus size: 46
63743091 AACAGATCAA
* * * *
63743101 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAAAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * * * * *
63743147 CGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAACGAAGGAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * * *
63743193 CGAAGATAGCAGATCTTATCTTCCTGTATTCGGCAGCGGAGGAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
63743239 CAAAGATATAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
1 CGAAGA-A-AGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
63743287 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGTGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * *
63743333 CAAAGAAAGCAGATCTTTTCTTCCTGTATTAGGCAGTGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* *
63743379 CAAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCAGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* *
63743425 CGAAGAAAGCAGATCTTGTCTTCCTATATTAGGCAGCGAAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
63743471 CGAAGAAAGCAGATCTTGTCTTCTTGTATTAGGCAGCGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
63743517 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGTAGCGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* *
63743563 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCATCAGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * *
63743609 CGAAGGAAGCAGATCTTGTCTTCTTGTATTAGGCAGTGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
63743655 CGAAGATATAACAGATCTTGTCTTCCTGTATTA-G-AGCGGAGTAGAT
1 CGAAGA-A-AGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
63743701 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * * *
63743747 CGAAGAAAGTAGATCTTGTCTTCCTGTATTAGGTAGTGAAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * *
63743793 CGAAGATAGTAGATCTTGCCTTCCTG
1 CGAAGAAAGCAGATCTTGTCTTCCTG
63743819 CCTTGACAGC
Statistics
Matches: 617, Mismatches: 49, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
44 23 0.04
45 2 0.00
46 526 0.85
47 3 0.00
48 63 0.10
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
Found at i:63743895 original size:88 final size:88
Alignment explanation
Indices: 63743803--63744117 Score: 540
Period size: 88 Copynumber: 3.6 Consensus size: 88
63743793 CGAAGATAGT
*
63743803 AGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
63743868 TAGTGGAGCTGGTTGAAGACAAC
66 TAGTGGAGCTGGTTGAAGACAAC
63743891 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
63743956 TAGTGGAGCTGGTTGAAGACAAC
66 TAGTGGAGCTGGTTGAAGACAAC
* * *
63743979 AGATCTTGCCTTCATGCATTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCTCTCTCGGTAG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
** * *
63744044 TAACGGAGCTAGTTGAAGATAAC
66 TAGTGGAGCTGGTTGAAGACAAC
* *
63744067 AAATCTTGCCTTCCTGCATTGACAGCGAAGCATATCGAAGACACAAACCTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTT
63744118 ATCTCCCTAA
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 215 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TAGTGGAGCTGGTTGAAGACAAC
Found at i:63744031 original size:44 final size:43
Alignment explanation
Indices: 63743807--63744117 Score: 188
Period size: 44 Copynumber: 7.1 Consensus size: 43
63743797 GATAGTAGAT
*
63743807 CTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTT-CTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * * * * * * *
63743851 CTTGCCTCTCT-CGGTTG-TAGTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCT-TCTGC-ATTGACAGCGAAGCAGATCGAAGAC-ACAAAC
63743895 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTT-CTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * * * * * * *
63743939 CTTGCCTCTCT-CGGTTG-TAGTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCT-TCTGC-ATTGACAGCGAAGCAGATCGAAGAC-ACAAAC
*
63743983 CTTGCCTTCATGCATTGACAGCGAAGCAGATCAAAGACACAAAC
1 CTTGCCTTC-TGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * * * *
63744027 CTTGCCTCTCT-CGGTAGTA-A-CGGAGCTAG-TTGAAGATAACAAAT
1 CTTGCCT-TCTGC-ATTG-ACAGCGAAGC-AGATCGAAGA-CACAAAC
*
63744071 CTTGCCTTCCTGCATTGACAGCGAAGCATATCGAAGACACAAAC
1 CTTGCCTT-CTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
63744115 CTT
1 CTT
63744118 ATCTCCCTAA
Statistics
Matches: 194, Mismatches: 51, Indels: 44
0.67 0.18 0.15
Matches are distributed among these distances:
43 46 0.24
44 102 0.53
45 46 0.24
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:63744448 original size:14 final size:14
Alignment explanation
Indices: 63744415--63744442 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63744405 GGGCCCAAGG
63744415 AACCAAAACAATTA
1 AACCAAAACAATTA
63744429 AACCAAAACAATTA
1 AACCAAAACAATTA
63744443 GCCCAATAAC
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:0.64, C:0.21, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCAAAACAATTA
Found at i:63745644 original size:12 final size:12
Alignment explanation
Indices: 63745629--63745661 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
63745619 CATTACCTTT
63745629 TTATATATTATA
1 TTATATATTATA
63745641 TTATAT-TATATA
1 TTATATAT-TATA
63745653 TTATATATT
1 TTATATATT
63745662 TCTTTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATATATTATA
Found at i:63745761 original size:3 final size:3
Alignment explanation
Indices: 63745753--63745817 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
63745743 ATGATTTCAA
63745753 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
63745801 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
63745818 GTTTATACTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:63747873 original size:7 final size:6
Alignment explanation
Indices: 63747843--63747872 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
63747833 TATCGCAAAG
63747843 AAAAAT AAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
63747873 ACACACAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:63750858 original size:14 final size:14
Alignment explanation
Indices: 63750839--63750869 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63750829 CTAACACTTG
63750839 TAAATGCTAACTGC
1 TAAATGCTAACTGC
*
63750853 TAAATGCTAATTGC
1 TAAATGCTAACTGC
63750867 TAA
1 TAA
63750870 CAACAACCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (14 bp):
TAAATGCTAACTGC
Found at i:63751252 original size:32 final size:32
Alignment explanation
Indices: 63751210--63751285 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
63751200 TGCATGTGTG
* *
63751210 TAACTTTTCATCTTCAAGTCTCTTCGCATTTT
1 TAACTCTTCATATTCAAGTCTCTTCGCATTTT
* **
63751242 TAACTCTTCATATTCAAGTCTTTTCGCATTCA
1 TAACTCTTCATATTCAAGTCTCTTCGCATTTT
*
63751274 TAACTTTTCATA
1 TAACTCTTCATA
63751286 ATTTAATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCGCATTTT
Found at i:63753620 original size:19 final size:19
Alignment explanation
Indices: 63753593--63753630 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
63753583 CCGCAAGGTG
*
63753593 TTAATTTTCAACCCAGTAA
1 TTAAATTTCAACCCAGTAA
*
63753612 TTAAATTTCATCCCAGTAA
1 TTAAATTTCAACCCAGTAA
63753631 AGCTTTCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (19 bp):
TTAAATTTCAACCCAGTAA
Found at i:63758095 original size:39 final size:36
Alignment explanation
Indices: 63758013--63758098 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
63758003 GAGTTGTAAG
* * * *
63758013 TGACTATTCATCTATATCACTAAATGCTAAGAGTTG
1 TGACTATTCATCTACATAACTAAATACTAAGAGTTA
* *
63758049 TAACTATTCATTTACATAACTTAAATACTATAGAAGTTA
1 TGACTATTCATCTACATAAC-TAAATACTA-AG-AGTTA
63758088 TGACTATTCAT
1 TGACTATTCAT
63758099 GCATGTGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 16 0.40
37 8 0.20
38 2 0.05
39 14 0.35
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (36 bp):
TGACTATTCATCTACATAACTAAATACTAAGAGTTA
Found at i:63758176 original size:32 final size:32
Alignment explanation
Indices: 63758108--63758169 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
63758098 TGCATGTGTG
* * *
63758108 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
63758140 TAACTCTTCATATTCAAGTCTTTTCACATT
1 TAACTCTTCATATTCAAGTCTCTTCACATT
63758170 CATAACTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:63758183 original size:32 final size:32
Alignment explanation
Indices: 63758108--63758183 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
63758098 TGCATGTGTG
* * *
63758108 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTTCTCATATTCAAGTCTCTTCACATTAT
*
63758140 TAAC-TCTTCATATTCAAGTCTTTTCACATTCA-
1 TAACTTC-TCATATTCAAGTCTCTTCACATT-AT
63758172 TAACTTCTCATA
1 TAACTTCTCATA
63758184 ATTTAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 1 0.03
32 33 0.89
33 3 0.08
ACGTcount: A:0.26, C:0.25, G:0.04, T:0.45
Consensus pattern (32 bp):
TAACTTCTCATATTCAAGTCTCTTCACATTAT
Found at i:63758887 original size:27 final size:27
Alignment explanation
Indices: 63758857--63758921 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
63758847 AATAGTTTTC
* *
63758857 CATTTTAAGGGTGTAAGGAGTAATATT
1 CATTTTAAGGGTCTAAAGAGTAATATT
*
63758884 CATTTTAAGGGTCTAAAGAGTAATTTT
1 CATTTTAAGGGTCTAAAGAGTAATATT
63758911 CATTTTAAGGG
1 CATTTTAAGGG
63758922 GACTACGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (27 bp):
CATTTTAAGGGTCTAAAGAGTAATATT
Found at i:63759642 original size:21 final size:21
Alignment explanation
Indices: 63759613--63759664 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
63759603 AGCGATGGCG
63759613 ATGAAATTAATTACTATAGCA
1 ATGAAATTAATTACTATAGCA
* * * *
63759634 ATGAGATTAGTTATTATAGCG
1 ATGAAATTAATTACTATAGCA
*
63759655 ATGATATTAA
1 ATGAAATTAA
63759665 AAATAGTGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (21 bp):
ATGAAATTAATTACTATAGCA
Found at i:63766021 original size:19 final size:19
Alignment explanation
Indices: 63765999--63766038 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
63765989 TTTTATAAAT
*
63765999 AAAAATAT-TAAAATTGTTG
1 AAAAATATGGAAAA-TGTTG
63766018 AAAAATATGGAAAATGTTG
1 AAAAATATGGAAAATGTTG
63766037 AA
1 AA
63766039 TGGGATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (19 bp):
AAAAATATGGAAAATGTTG
Found at i:63769785 original size:13 final size:13
Alignment explanation
Indices: 63769767--63769791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63769757 TTCAATTTAT
63769767 TTTTTGATATTTG
1 TTTTTGATATTTG
63769780 TTTTTGATATTT
1 TTTTTGATATTT
63769792 TTAATCTTTT
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:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
TTTTTGATATTTG
Found at i:63771052 original size:50 final size:48
Alignment explanation
Indices: 63770947--63771052 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 48
63770937 ATACATCATG
* *
63770947 TGTATATAACCGATCATATATATATACTAAATAAACATTATAACCGAA
1 TGTATATAACCGAACATATATATATACTAAACAAACATTATAACCGAA
* * * * * *
63770995 TGCATATAACCGAACATGTATATATATACTAAACACATATTATATCTGAT
1 TGTATATAACCGAACA--TATATATATACTAAACAAACATTATAACCGAA
63771045 TGTATATA
1 TGTATATA
63771053 TATACTCGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 14 0.30
50 33 0.70
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (48 bp):
TGTATATAACCGAACATATATATATACTAAACAAACATTATAACCGAA
Found at i:63779239 original size:39 final size:39
Alignment explanation
Indices: 63779196--63779435 Score: 338
Period size: 39 Copynumber: 6.1 Consensus size: 39
63779186 TCTTGTTACA
* * *
63779196 CATATAATCACCTAACATCCAAACATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * *
63779235 CATATAATCACATAACATTTAAGCATATATCAAAATATT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
*
63779274 CATATAATCACATAACATTTAAGCATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
*
63779313 CATATAATCACATAACATTCAAGCATATATCACAATATATAT
1 CATATAATCACATAACATTCAAGCATATATCAC-A-ATA-CT
63779355 ACATATAATCACATAACATTCAAGCATATATCACAATA-T
1 -CATATAATCACATAACATTCAAGCATATATCACAATACT
* *
63779394 ACATATAATCTCATAACATTTAAGCATATATCACAATACT
1 -CATATAATCACATAACATTCAAGCATATATCACAATACT
63779434 CA
1 CA
63779436 AAACATCTTT
Statistics
Matches: 184, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 141 0.77
40 2 0.01
41 6 0.03
42 2 0.01
43 33 0.18
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (39 bp):
CATATAATCACATAACATTCAAGCATATATCACAATACT
Found at i:63779402 original size:121 final size:117
Alignment explanation
Indices: 63779196--63779435 Score: 372
Period size: 121 Copynumber: 2.0 Consensus size: 117
63779186 TCTTGTTACA
* * *
63779196 CATATAATCACCTAACATCCAAACATATATCACAATACTCATATAATCACATAACATTTAAGCAT
1 CATATAATCACATAACATCCAAACATATATCACAATAATCATATAATCACATAACATTCAAGCAT
*
63779261 ATATCAAAATATTCATATAATCACATAACATTTAAGCATATATCACAATACT
66 ATATCAAAATATACATATAATCACATAACATTTAAGCATATATCACAATACT
* *
63779313 CATATAATCACATAACATTCAAGCATATATCACAATATATATACATATAATCACATAACATTCAA
1 CATATAATCACATAACATCCAAACATATATCAC-A-ATA-AT-CATATAATCACATAACATTCAA
* *
63779378 GCATATATCACAATATACATATAATCTCATAACATTTAAGCATATATCACAATACT
62 GCATATATCAAAATATACATATAATCACATAACATTTAAGCATATATCACAATACT
63779434 CA
1 CA
63779436 AAACATCTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
117 30 0.27
118 1 0.01
119 3 0.03
120 1 0.01
121 76 0.68
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (117 bp):
CATATAATCACATAACATCCAAACATATATCACAATAATCATATAATCACATAACATTCAAGCAT
ATATCAAAATATACATATAATCACATAACATTTAAGCATATATCACAATACT
Found at i:63787573 original size:23 final size:23
Alignment explanation
Indices: 63787547--63787668 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
63787537 ATAAGTGCAA
63787547 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
63787570 CACT-ATTATATAGCCAAAGCTAC
1 CACTGA-TATGTAGCCGAAGCTAC
*
63787593 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
63787616 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
63787639 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
63787662 CACTGAT
1 CACTGAT
63787669 CAATAACACT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
22 1 0.01
23 84 0.98
24 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:63787666 original size:46 final size:46
Alignment explanation
Indices: 63787547--63787666 Score: 195
Period size: 46 Copynumber: 2.6 Consensus size: 46
63787537 ATAAGTGCAA
* *
63787547 CACTGATATGTAGCCGAAGCTACCACTATTATATAGCCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCAAAGCTAC
* *
63787593 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCAAAGCTAC
*
63787639 CACTGAAACGTAGCCGAAGCTACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
63787667 ATCAATAACA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCAAAGCTAC
Found at i:63787854 original size:14 final size:14
Alignment explanation
Indices: 63787837--63787875 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
63787827 GAATTTACAC
63787837 TTAACACTTTATTT
1 TTAACACTTTATTT
63787851 TTAACACTTTATTT
1 TTAACACTTTATTT
*
63787865 TCAACACTTTA
1 TTAACACTTTA
63787876 ACACTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAACACTTTATTT
Found at i:63791494 original size:30 final size:30
Alignment explanation
Indices: 63791460--63791543 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
63791450 TTCTCTCAAC
*
63791460 AAAAATTACAAAAAAATTCTAAATATTTAT-
1 AAAAATTA-AAAAAAATTCTAAATATATATA
*
63791490 AAAAA-TAAAAAAAA-TCTAAAGAATATATA
1 AAAAATTAAAAAAAATTCTAAA-TATATATA
*
63791519 AAAAATTAAAAAAGATTCTTAAATA
1 AAAAATTAAAAAAAATTC-TAAATA
63791544 ATCATTTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
27 6 0.13
28 12 0.27
29 7 0.16
30 13 0.29
31 3 0.07
32 4 0.09
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (30 bp):
AAAAATTAAAAAAAATTCTAAATATATATA
Found at i:63791518 original size:28 final size:28
Alignment explanation
Indices: 63791469--63791531 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
63791459 CAAAAATTAC
* * *
63791469 AAAAAAATTCTAAATATTTAT-AAAAAT
1 AAAAAAAATCTAAAAATATATAAAAAAT
63791496 AAAAAAAATCTAAAGAATATATAAAAAAT
1 AAAAAAAATCTAAA-AATATATAAAAAAT
*
63791525 TAAAAAA
1 AAAAAAA
63791532 GATTCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 13 0.43
28 5 0.17
29 12 0.40
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAAAATCTAAAAATATATAAAAAAT
Found at i:63792436 original size:24 final size:24
Alignment explanation
Indices: 63792409--63792456 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
63792399 TTATAACTTT
63792409 TTTTTTTATTTACCAAAATATATA
1 TTTTTTTATTTACCAAAATATATA
*
63792433 TTTTTTTATTTACTAAAATATATA
1 TTTTTTTATTTACCAAAATATATA
63792457 AAAAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTTTTATTTACCAAAATATATA
Found at i:63792555 original size:27 final size:27
Alignment explanation
Indices: 63792525--63792599 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
63792515 CGCCAATGGG
*
63792525 ATTGGCGGCACCAAAGGTGCCAA-AGCC
1 ATTGGCGGCACCAATGGTGCCAATA-CC
63792552 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAATACC
63792579 ATTGGCGGCACCAATGGTGCC
1 ATTGGCGGCACCAATGGTGCC
63792600 GTATTGATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:63792791 original size:19 final size:21
Alignment explanation
Indices: 63792753--63792791 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
63792743 AATAATTGAT
*
63792753 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
63792774 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
63792792 TTGTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:63792853 original size:3 final size:3
Alignment explanation
Indices: 63792837--63792889 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
63792827 AAAATAATAG
*
63792837 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
63792883 TAT TAT T
1 TAT TAT T
63792890 GTTGTTGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:63792894 original size:3 final size:3
Alignment explanation
Indices: 63792888--63792934 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
63792878 ATTATTATTA
63792888 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
63792935 AGTATTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:63793746 original size:18 final size:18
Alignment explanation
Indices: 63793723--63793760 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
63793713 GGTTGGTGGT
63793723 GAAGAAGAAGGTGCTGGC
1 GAAGAAGAAGGTGCTGGC
*
63793741 GAAGAAGAAGGTGGTGGC
1 GAAGAAGAAGGTGCTGGC
63793759 GA
1 GA
63793761 TCATTGGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.47, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAGGTGCTGGC
Found at i:63799200 original size:5 final size:5
Alignment explanation
Indices: 63799190--63799370 Score: 70
Period size: 5 Copynumber: 34.8 Consensus size: 5
63799180 AAAAAAATAC
* * *
63799190 CTTTT CTTTT CTTTT CTTTT CTTTTT CCTTC CTTCCCT CTTCTT CTTCTT
1 CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT CTT--TT CTT-TT CTT-TT
* * * *
63799240 CTTTT -TTTCT CTTCT CCTTT CTTTTT CTTTA CTTCTTT CTTTCT TTTTT
1 CTTTT CTTT-T CTTTT CTTTT C-TTTT CTTTT C-T-TTT CTTT-T CTTTT
* *
63799289 CTTATC CTTTC CTTTT CTTCTT C-TTT C-TTT C-TTT CTTTT -TTTCT
1 CTT-TT CTTTT CTTTT CTT-TT CTTTT CTTTT CTTTT CTTTT CTTT-T
* * * *
63799333 CTTCTC CTTTC CTTTT CTTTC CTTCT -TTTT C-TTT CTTT
1 CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTT
63799371 CATCTCCTTT
Statistics
Matches: 137, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
4 24 0.18
5 66 0.48
6 40 0.29
7 7 0.05
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (5 bp):
CTTTT
Found at i:63799279 original size:4 final size:4
Alignment explanation
Indices: 63799238--63799409 Score: 112
Period size: 4 Copynumber: 42.8 Consensus size: 4
63799228 CTTCTTCTTC
* *
63799238 TTCT TTTT TTCT CTTC- TCCT TTC- TT-T TTCT TTAC- TTCT TTCT TTCT
1 TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TT-CT TTCT TTCT TTCT
*
63799284 TT-T TTCT TATCCT TTCCT TT-T CTTC- TTCT TTCT TTCT TTCT TTTT
1 TTCT TTCT T-T-CT TT-CT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT
* *
63799329 TTCT CTTC- TCCT TTCCTT TTCT TTCC TTC- TT-T TTCT TTCT TTCAT
1 TTCT -TTCT TTCT TT-C-T TTCT TTCT TTCT TTCT TTCT TTCT TTC-T
* *
63799374 CTCCT TTCT TTCT TTTT TTCT TTCT TTCT TTCT TTC
1 -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
63799410 CCTCTCCTTC
Statistics
Matches: 135, Mismatches: 13, Indels: 40
0.72 0.07 0.21
Matches are distributed among these distances:
3 20 0.15
4 89 0.66
5 18 0.13
6 8 0.06
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (4 bp):
TTCT
Found at i:63799283 original size:34 final size:33
Alignment explanation
Indices: 63799227--63799369 Score: 88
Period size: 33 Copynumber: 4.4 Consensus size: 33
63799217 CTTCCTTCCC
* *
63799227 TCTTCTTC-TTCTTCTTTTTTTCTCTTCTCCTT-
1 TCTTTTTCTTTCTTCTTTCTTTCT-TTCTCCTTA
* *
63799259 TCTTTTTCTTTACTTCTTTCTTTCTTTTTTCTTA
1 TCTTTTTCTTT-CTTCTTTCTTTCTTTCTCCTTA
* * *
63799293 TCCTTTCCTTTTCTTC-TTCTTTCTTTCT--TTC
1 TCTTTTTC-TTTCTTCTTTCTTTCTTTCTCCTTA
* *
63799324 TTTTTTTCTCTTCTCCTTTCCTTT-TCTT-TCC-T-
1 TCTTTTTCT-TTCTTCTTT-CTTTCT-TTCTCCTTA
63799356 TCTTTTTCTTTCTT
1 TCTTTTTCTTTCTT
63799370 TCATCTCCTT
Statistics
Matches: 87, Mismatches: 14, Indels: 21
0.71 0.11 0.17
Matches are distributed among these distances:
30 1 0.01
31 16 0.18
32 19 0.22
33 26 0.30
34 22 0.25
35 3 0.03
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (33 bp):
TCTTTTTCTTTCTTCTTTCTTTCTTTCTCCTTA
Found at i:63799325 original size:49 final size:48
Alignment explanation
Indices: 63799258--63799371 Score: 142
Period size: 49 Copynumber: 2.4 Consensus size: 48
63799248 CTCTTCTCCT
* * *
63799258 TTCTTTTTCTTTAC-TTCTTTCTTTCT-TTTTTCTTATCCTTTCCTTTTC
1 TTCTTTTTCTTT-CTTTCTTTCTTTCTCTTCTCCTT-TCCTTTCCTTTCC
* *
63799306 TTCTTCTTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTT-TTTCTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTCCTTTCC
63799355 TTCTTTTTCTTTCTTTC
1 TTCTTTTTCTTTCTTTC
63799372 ATCTCCTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
48 18 0.31
49 34 0.59
50 6 0.10
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (48 bp):
TTCTTTTTCTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTCCTTTCC
Found at i:63799342 original size:44 final size:42
Alignment explanation
Indices: 63799229--63799418 Score: 197
Period size: 39 Copynumber: 4.8 Consensus size: 42
63799219 TCCTTCCCTC
*
63799229 TTCTTC-TTC-TTCTTTTTTTCTCTTCTCCTTTCTTTTTCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
* *
63799269 TACTTCTTTCTTTC--TTTTT-TCTTATCCTTTCCTTTTCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
63799308 CTTCTTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 -TTC-TTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
* * *
63799352 TCCTTC-TT-TTTC-TTTCTT-TCATCTCCTTT-C-TTTCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
* * *
63799388 TTTTTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTT
63799419 CTGGTCCCCC
Statistics
Matches: 126, Mismatches: 13, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
36 10 0.08
37 3 0.02
38 14 0.11
39 35 0.28
40 16 0.13
41 16 0.13
42 6 0.05
43 7 0.06
44 19 0.15
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (42 bp):
TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
Found at i:63799488 original size:27 final size:27
Alignment explanation
Indices: 63799450--63799519 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
63799440 CCCCCATAAA
63799450 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCTA-TGGCAC
63799477 CATTGGTGCCGCCAATGGCTATGGCAC
1 CATTGGTGCCGCCAATGGCTATGGCAC
*
63799504 CTTTGGTGCCGCCAAT
1 CATTGGTGCCGCCAAT
63799520 CCCATTGGCG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTATGGCAC
Found at i:63799528 original size:27 final size:27
Alignment explanation
Indices: 63799450--63799528 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
63799440 CCCCCATAAA
*
63799450 CATTGGTGCCGCCAATGGTATTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
63799477 CATTGGTGCCGCCAATGGC-TATGGCAC
1 CATTGGTGCCGCCAATGGCAT-TGGCAC
* **
63799504 CTTTGGTGCCGCCAATCCCATTGGC
1 CATTGGTGCCGCCAATGGCATTGGC
63799529 GTGACCAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.25
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCATTGGCAC
Found at i:63799639 original size:24 final size:23
Alignment explanation
Indices: 63799593--63799638 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
63799583 TTTGGTTTTT
*
63799593 TATATATTTTGGTAAATAAAAAA
1 TATATAATTTGGTAAATAAAAAA
63799616 TATATAATTTGGTAAATAAAAAA
1 TATATAATTTGGTAAATAAAAAA
63799639 AAGTTATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (23 bp):
TATATAATTTGGTAAATAAAAAA
Found at i:63799652 original size:27 final size:24
Alignment explanation
Indices: 63799593--63799658 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 24
63799583 TTTGGTTTTT
*
63799593 TATATATTTTGGTAAATAAAAAATA
1 TATA-ATTTTGGTAAATAAAAAAAA
63799618 TATAA-TTTGGTAAATAAAAAAAA
1 TATAATTTTGGTAAATAAAAAAAA
63799641 GTTATAACATTTTGGTAA
1 --TAT-A-ATTTTGGTAA
63799659 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 17 0.49
24 1 0.03
25 7 0.20
26 1 0.03
27 1 0.03
28 8 0.23
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (24 bp):
TATAATTTTGGTAAATAAAAAAAA
Found at i:63800649 original size:4 final size:4
Alignment explanation
Indices: 63800640--63800674 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
63800630 ATGACGGCAT
*
63800640 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GCAG GTA
1 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTA
63800675 CAACACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.49, T:0.23
Consensus pattern (4 bp):
GTAG
Found at i:63801919 original size:13 final size:13
Alignment explanation
Indices: 63801901--63801925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63801891 TTTTACTTTG
63801901 TTTTAATTTTAAT
1 TTTTAATTTTAAT
63801914 TTTTAATTTTAA
1 TTTTAATTTTAA
63801926 AATCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:63803931 original size:21 final size:21
Alignment explanation
Indices: 63803880--63803986 Score: 96
Period size: 21 Copynumber: 5.0 Consensus size: 21
63803870 CAAATGTATA
* *
63803880 TTTTAAATGTTTTATAATATTAT
1 TTTTTAATATTTTA-AATATT-T
63803903 TTTTTAAATATTTTAAATA-TT
1 TTTTT-AATATTTTAAATATTT
*
63803924 TTTCTAA-A-TTTAAATATTAT
1 TTTTTAATATTTTAAATATT-T
63803944 TTTTTAAT-TTTTAAATATTAT
1 TTTTTAATATTTTAAATATT-T
*
63803965 TTTTTAATATTATAAAATATTT
1 TTTTTAATATT-TTAAATATTT
63803987 AAAATATATT
Statistics
Matches: 72, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
18 8 0.11
19 2 0.03
20 9 0.12
21 25 0.35
22 4 0.06
23 16 0.22
24 8 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (21 bp):
TTTTTAATATTTTAAATATTT
Found at i:63803986 original size:41 final size:40
Alignment explanation
Indices: 63803891--63803986 Score: 99
Period size: 41 Copynumber: 2.3 Consensus size: 40
63803881 TTTAAATGTT
*
63803891 TTATAATATTATTTTTTAAATATTTTAAATATTTTTCTAAA
1 TTATAA-AATATTTTTTAAATATTTTAAATATTTTTCTAAA
*
63803932 TT-TAAATATTATTTTTT-AAT-TTTTAAATATTATTTTTTAATA
1 TTATAAA-A-TATTTTTTAAATATTTTAAATA-T-TTTTCTAA-A
63803974 TTATAAAATATTT
1 TTATAAAATATTT
63803987 AAAATATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
39 10 0.21
40 7 0.15
41 22 0.47
42 4 0.09
43 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (40 bp):
TTATAAAATATTTTTTAAATATTTTAAATATTTTTCTAAA
Found at i:63804078 original size:12 final size:12
Alignment explanation
Indices: 63804043--63804102 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
63804033 TTTTATAATA
63804043 TTTTAAATATAT
1 TTTTAAATATAT
*
63804055 ATTTAAA-A-AT
1 TTTTAAATATAT
63804065 TTTTAAATATATTT
1 TTTTAAATATA--T
63804079 TTTTAAAT-TAT
1 TTTTAAATATAT
*
63804090 TTTTAAAGATAT
1 TTTTAAATATAT
63804102 T
1 T
63804103 CAAACATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 8 0.20
11 10 0.25
12 11 0.28
13 2 0.05
14 9 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTTAAATATAT
Found at i:63804086 original size:22 final size:22
Alignment explanation
Indices: 63804027--63804087 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
63804017 TCAAATTTAT
63804027 TATTTGTTTTATAATATTTTAAATA
1 TATTT-TTTTA-AAT-TTTTAAATA
* **
63804052 TATATTTAAAAATTTTTAAATA
1 TATTTTTTTAAATTTTTAAATA
63804074 TATTTTTTTAAATT
1 TATTTTTTTAAATT
63804088 ATTTTTAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 20 0.67
23 3 0.10
24 3 0.10
25 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTTTTTAAATTTTTAAATA
Found at i:63804093 original size:14 final size:14
Alignment explanation
Indices: 63804064--63804093 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63804054 TATTTAAAAA
63804064 TTTTTAAATATATT
1 TTTTTAAATATATT
63804078 TTTTTAAAT-TATT
1 TTTTTAAATATATT
63804091 TTT
1 TTT
63804094 AAAGATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTAAATATATT
Found at i:63804115 original size:35 final size:36
Alignment explanation
Indices: 63804043--63804131 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 36
63804033 TTTTATAATA
* * *
63804043 TTTTAAATATATATTTAAAAATTTTTAAATATATTT
1 TTTTAAATATATATTTAAAAATATTCAAACATATTT
* *
63804079 TTTTAAAT-TATTTTTAAAGATATTCAAACAT-TTT
1 TTTTAAATATATATTTAAAAATATTCAAACATATTT
* *
63804113 TTTTTAAT-TCTATTTAAAA
1 TTTTAAATATATATTTAAAA
63804132 TTTAAAAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 18 0.41
35 18 0.41
36 8 0.18
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (36 bp):
TTTTAAATATATATTTAAAAATATTCAAACATATTT
Found at i:63808351 original size:20 final size:20
Alignment explanation
Indices: 63808326--63808364 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
63808316 ATGTATTTAA
63808326 CATTATTTATAAATATATTT
1 CATTATTTATAAATATATTT
63808346 CATTATTTATAAATATATT
1 CATTATTTATAAATATATT
63808365 ATTTGAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
CATTATTTATAAATATATTT
Found at i:63810586 original size:17 final size:17
Alignment explanation
Indices: 63810556--63810608 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
63810546 TAAACAATGT
63810556 TAATAATAAATTTAAAA
1 TAATAATAAATTTAAAA
* *
63810573 TAATATTAATTTTAAAA
1 TAATAATAAATTTAAAA
* * *
63810590 TTA-AATACATTAAAAA
1 TAATAATAAATTTAAAA
63810606 TAA
1 TAA
63810609 GGGAATAATA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTAAAA
Found at i:63810588 original size:23 final size:23
Alignment explanation
Indices: 63810515--63810582 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
63810505 AATAATACAT
* * * *
63810515 ATAAAATTAAAATAATAATATACA
1 ATAAATTTAAAACAATATTA-ATA
*
63810539 ATAAATTT-AAACAATGTTAATA
1 ATAAATTTAAAACAATATTAATA
*
63810561 ATAAATTTAAAATAATATTAAT
1 ATAAATTTAAAACAATATTAAT
63810583 TTTAAAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 10 0.28
23 19 0.53
24 7 0.19
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (23 bp):
ATAAATTTAAAACAATATTAATA
Found at i:63816841 original size:15 final size:15
Alignment explanation
Indices: 63816821--63816928 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
63816811 TTTATGGAAA
63816821 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
63816836 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
63816850 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
63816866 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
63816880 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
63816896 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
63816910 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
63816926 ATC
1 ATC
63816929 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:63816858 original size:30 final size:30
Alignment explanation
Indices: 63816815--63816938 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
63816805 TCCATATTTA
* *
63816815 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
63816845 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
63816875 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
63816905 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
63816936 TGG
1 TGG
63816939 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:63821528 original size:15 final size:15
Alignment explanation
Indices: 63821508--63821615 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
63821498 TTTATGGAAA
63821508 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
63821523 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
63821537 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
63821553 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
63821567 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
63821583 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
63821597 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
63821613 ATC
1 ATC
63821616 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:63821545 original size:30 final size:30
Alignment explanation
Indices: 63821504--63821615 Score: 172
Period size: 30 Copynumber: 3.7 Consensus size: 30
63821494 CATATTTATG
*
63821504 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
63821534 GAAAGTCAAAGATATGGGTATCAAAT-ATT
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
63821563 GAAAAGTCAAAGATATGGGTATCAAATATTG
1 G-AAAGTCAAAGATATGGGTATCAAATAATA
63821594 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
63821616 GAGATATTGG
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
29 3 0.04
30 71 0.93
31 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:63821602 original size:60 final size:60
Alignment explanation
Indices: 63821504--63821624 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
63821494 CATATTTATG
63821504 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATC-AAATATT
1 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
* * *
63821563 GAAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAA-TCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
63821624 G
1 G
63821625 GCATAATAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 5 0.09
60 45 0.79
61 7 0.12
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (60 bp):
GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
Done.