Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 178 of 199
Found at i:56914693 original size:23 final size:21
Alignment explanation
Indices: 56914647--56914702 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
56914637 TTTATTTTTT
**
56914647 ATTTTTATTTTAAAATTTTTA
1 ATTTTTATTTTAAAATTTAAA
56914668 ATTTTTATATTTCAAAATTTAAA
1 ATTTTTAT-TTT-AAAATTTAAA
*
56914691 A-TTTAATTTTAA
1 ATTTTTATTTTAA
56914703 TTATTAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.07
21 11 0.37
22 8 0.27
23 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTATTTTAAAATTTAAA
Found at i:56915093 original size:6 final size:7
Alignment explanation
Indices: 56915076--56915101 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56915066 GAAATAAAGG
56915076 TTTTTTC
1 TTTTTTC
56915083 TTTTTTC
1 TTTTTTC
56915090 TTTTTTC
1 TTTTTTC
56915097 TTTTT
1 TTTTT
56915102 GAACTAAATA
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:56922479 original size:40 final size:40
Alignment explanation
Indices: 56922434--56922527 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
56922424 TTTAGCAACA
*
56922434 TTTTTGAAAAAGCGCCGCT-AATTCTCTATTTTTAGCGGCG
1 TTTTTGAAAAAGCGCCG-TGAATGCTCTATTTTTAGCGGCG
* *
56922474 TTTTTGAAGAAGCGCTGTGAATGCTCTATTTTTAGCGGCG
1 TTTTTGAAAAAGCGCCGTGAATGCTCTATTTTTAGCGGCG
*
56922514 TTTTTAAAAAAGCG
1 TTTTTGAAAAAGCG
56922528 TCGCAATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTGAAAAAGCGCCGTGAATGCTCTATTTTTAGCGGCG
Found at i:56923703 original size:19 final size:18
Alignment explanation
Indices: 56923676--56923712 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
56923666 TAATATATAT
56923676 ATTAAAATATTAAAATAA
1 ATTAAAATATTAAAATAA
*
56923694 ATTAACAATATTGAAATAA
1 ATTAA-AATATTAAAATAA
56923713 GTTGAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
ATTAAAATATTAAAATAA
Found at i:56924092 original size:9 final size:9
Alignment explanation
Indices: 56924063--56924096 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
56924053 TAATATTATC
*
56924063 AATAATAGC
1 AATAATAGT
56924072 AATAATAGT
1 AATAATAGT
*
56924081 AATAATATT
1 AATAATAGT
56924090 AATAATA
1 AATAATA
56924097 ATGAAAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (9 bp):
AATAATAGT
Found at i:56924823 original size:20 final size:18
Alignment explanation
Indices: 56924798--56924834 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
56924788 CAATAATAAT
56924798 AAAAAGAAACAGAGAAATCG
1 AAAAAGAAA-AG-GAAATCG
56924818 AAAAAGAAAAGGAAATC
1 AAAAAGAAAAGGAAATC
56924835 ACCTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.68, C:0.08, G:0.19, T:0.05
Consensus pattern (18 bp):
AAAAAGAAAAGGAAATCG
Found at i:56925427 original size:7 final size:7
Alignment explanation
Indices: 56925417--56925470 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
56925407 GAGTTATTAT
*
56925417 TTTAAGG
1 TTTATGG
56925424 TTTATGG
1 TTTATGG
*
56925431 ATTATGGG
1 TTTAT-GG
*
56925439 TTTAAGG
1 TTTATGG
*
56925446 GTTATGG
1 TTTATGG
56925453 TTTATGG
1 TTTATGG
*
56925460 TATATGG
1 TTTATGG
56925467 TTTA
1 TTTA
56925471 AAGGCTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:56925442 original size:22 final size:22
Alignment explanation
Indices: 56925417--56925459 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56925407 GAGTTATTAT
*
56925417 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTATGGG
*
56925439 TTTAAGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
56925460 TATATGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
TTTAAGGGTTATGGATTATGGG
Found at i:56925552 original size:16 final size:16
Alignment explanation
Indices: 56925531--56925563 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56925521 TAGTGTTTTC
56925531 TAATTTA-TATATTAAT
1 TAATTTATTATA-TAAT
56925547 TAATTTATTATATAAT
1 TAATTTATTATATAAT
56925563 T
1 T
56925564 GTAAAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTATTATATAAT
Found at i:56926467 original size:21 final size:23
Alignment explanation
Indices: 56926443--56926489 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
56926433 TGAAATTTAT
*
56926443 TTTTTTATTTTTAT-TTT-AAAA
1 TTTTTAATTTTTATATTTCAAAA
56926464 TTTTTAATTTTTATATTTCAAAA
1 TTTTTAATTTTTATATTTCAAAA
56926487 TTT
1 TTT
56926490 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 3 0.13
23 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTAATTTTTATATTTCAAAA
Found at i:56926495 original size:23 final size:21
Alignment explanation
Indices: 56926449--56926504 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
56926439 TTATTTTTTT
**
56926449 ATTTTTATTTTAAAATTTTTA
1 ATTTTTATTTTAAAATTTAAA
56926470 ATTTTTATATTTCAAAATTTAAA
1 ATTTTTAT-TTT-AAAATTTAAA
*
56926493 A-TTTAATTTTAA
1 ATTTTTATTTTAA
56926505 TTATTAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.07
21 11 0.37
22 8 0.27
23 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTATTTTAAAATTTAAA
Found at i:56926895 original size:6 final size:7
Alignment explanation
Indices: 56926878--56926904 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
56926868 GAAATAAAGG
56926878 TTTTTTC
1 TTTTTTC
56926885 TTTTTTC
1 TTTTTTC
56926892 TTTTTTC
1 TTTTTTC
56926899 TTTTTT
1 TTTTTT
56926905 GAACTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:56932965 original size:40 final size:40
Alignment explanation
Indices: 56932920--56933013 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
56932910 TTTAGCAACA
*
56932920 TTTTTGAAAAAGCGCCGCT-AATTCTCTATTTTTAGCGGCG
1 TTTTTGAAAAAGCGCCG-TGAATGCTCTATTTTTAGCGGCG
* *
56932960 TTTTTGAAGAAGCGCTGTGAATGCTCTATTTTTAGCGGCG
1 TTTTTGAAAAAGCGCCGTGAATGCTCTATTTTTAGCGGCG
*
56933000 TTTTTAAAAAAGCG
1 TTTTTGAAAAAGCG
56933014 TCGCAATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTGAAAAAGCGCCGTGAATGCTCTATTTTTAGCGGCG
Found at i:56934189 original size:19 final size:18
Alignment explanation
Indices: 56934162--56934198 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
56934152 TAATATATAT
56934162 ATTAAAATATTAAAATAA
1 ATTAAAATATTAAAATAA
*
56934180 ATTAACAATATTGAAATAA
1 ATTAA-AATATTAAAATAA
56934199 GTTGAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
ATTAAAATATTAAAATAA
Found at i:56934578 original size:9 final size:9
Alignment explanation
Indices: 56934549--56934582 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
56934539 TAATATTATC
*
56934549 AATAATAGC
1 AATAATAGT
56934558 AATAATAGT
1 AATAATAGT
*
56934567 AATAATATT
1 AATAATAGT
56934576 AATAATA
1 AATAATA
56934583 ATGAAAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (9 bp):
AATAATAGT
Found at i:56935303 original size:20 final size:18
Alignment explanation
Indices: 56935278--56935314 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
56935268 CAATAATAAT
56935278 AAAAAGAAACAGAGAAATCG
1 AAAAAGAAA-AG-GAAATCG
56935298 AAAAAGAAAAGGAAATC
1 AAAAAGAAAAGGAAATC
56935315 ACCTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.68, C:0.08, G:0.19, T:0.05
Consensus pattern (18 bp):
AAAAAGAAAAGGAAATCG
Found at i:56935906 original size:7 final size:7
Alignment explanation
Indices: 56935896--56935949 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
56935886 GAGTTATTAT
*
56935896 TTTAAGG
1 TTTATGG
56935903 TTTATGG
1 TTTATGG
*
56935910 ATTATGGG
1 TTTAT-GG
*
56935918 TTTAAGG
1 TTTATGG
*
56935925 GTTATGG
1 TTTATGG
56935932 TTTATGG
1 TTTATGG
*
56935939 TATATGG
1 TTTATGG
56935946 TTTA
1 TTTA
56935950 AAGGCTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:56935921 original size:22 final size:22
Alignment explanation
Indices: 56935896--56935938 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56935886 GAGTTATTAT
*
56935896 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTATGGG
*
56935918 TTTAAGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
56935939 TATATGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
TTTAAGGGTTATGGATTATGGG
Found at i:56936031 original size:16 final size:16
Alignment explanation
Indices: 56936010--56936042 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56936000 TAGTGTTTTC
56936010 TAATTTA-TATATTAAT
1 TAATTTATTATA-TAAT
56936026 TAATTTATTATATAAT
1 TAATTTATTATATAAT
56936042 T
1 T
56936043 GTAAAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTATTATATAAT
Found at i:56936947 original size:21 final size:23
Alignment explanation
Indices: 56936923--56936969 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
56936913 TGAAATTTAT
*
56936923 TTTTTTATTTTTAT-TTT-AAAA
1 TTTTTAATTTTTATATTTCAAAA
56936944 TTTTTAATTTTTATATTTCAAAA
1 TTTTTAATTTTTATATTTCAAAA
56936967 TTT
1 TTT
56936970 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 3 0.13
23 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTAATTTTTATATTTCAAAA
Found at i:56936975 original size:23 final size:21
Alignment explanation
Indices: 56936929--56936984 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
56936919 TTATTTTTTT
**
56936929 ATTTTTATTTTAAAATTTTTA
1 ATTTTTATTTTAAAATTTAAA
56936950 ATTTTTATATTTCAAAATTTAAA
1 ATTTTTAT-TTT-AAAATTTAAA
*
56936973 A-TTTAATTTTAA
1 ATTTTTATTTTAA
56936985 TTATTAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.07
21 11 0.37
22 8 0.27
23 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTATTTTAAAATTTAAA
Found at i:56945178 original size:17 final size:17
Alignment explanation
Indices: 56945156--56945204 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
56945146 GTATAAAATT
56945156 ATTTTAAAAAAATTAAA
1 ATTTTAAAAAAATTAAA
**
56945173 ATTTTAAAAAAAGAAAA
1 ATTTTAAAAAAATTAAA
*
56945190 ATGTTTATAAAAATT
1 AT-TTTAAAAAAATT
56945205 CTAGAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
ATTTTAAAAAAATTAAA
Found at i:56952209 original size:44 final size:43
Alignment explanation
Indices: 56952159--56952280 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
56952149 ACGTTGCTAA
* *
56952159 CTTTAGCGGCGTTTTTAGAAAAAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTT-GCAAAAAACGCCGCTAAAGACCACGAC
* * * * *
56952203 CTTTAGCGGTGCTTTTGCCACAAACGCCGCTAAAGATCATGAC
1 CTTTAGCGGCGCTTTTGCAAAAAACGCCGCTAAAGACCACGAC
* * *
56952246 CTTTAGCGACACTTCTCGCAAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTT-TTGCAAAAAACGCCGCTAAA
56952281 AACATAACCT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 33 0.52
44 31 0.48
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTGCAAAAAACGCCGCTAAAGACCACGAC
Found at i:56957559 original size:7 final size:7
Alignment explanation
Indices: 56957529--56957600 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
56957519 CGTATCACCC
56957529 AACCCTT
1 AACCCTT
* *
56957536 AAACCAT
1 AACCCTT
* *
56957543 AAACCAT
1 AACCCTT
56957550 AACCCTT
1 AACCCTT
*
56957557 AACTCTT
1 AACCCTT
*
56957564 AACCCTC
1 AACCCTT
56957571 AACTCC-T
1 AAC-CCTT
56957578 AACCCTT
1 AACCCTT
*
56957585 AACCCCT
1 AACCCTT
*
56957592 AAACCTT
1 AACCCTT
56957599 AA
1 AA
56957601 TCTATAAATC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
6 2 0.04
7 48 0.92
8 2 0.04
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.24
Consensus pattern (7 bp):
AACCCTT
Found at i:56957568 original size:14 final size:14
Alignment explanation
Indices: 56957549--56957600 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
56957539 CCATAAACCA
*
56957549 TAACCCTTAACTCT
1 TAACCCTTAACTCC
*
56957563 TAACCCTCAACTCC
1 TAACCCTTAACTCC
*
56957577 TAACCCTTAACCCC
1 TAACCCTTAACTCC
*
56957591 TAAACCTTAA
1 TAACCCTTAA
56957601 TCTATAAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (14 bp):
TAACCCTTAACTCC
Found at i:56957608 original size:14 final size:14
Alignment explanation
Indices: 56957581--56957664 Score: 62
Period size: 14 Copynumber: 5.9 Consensus size: 14
56957571 AACTCCTAAC
* *
56957581 CCTTAACCCCTAAA
1 CCTTAAACCATAAA
* *
56957595 CCTTAATCTATAAA
1 CCTTAAACCATAAA
*
56957609 TCTTAAACCATAAA
1 CCTTAAACCATAAA
* * * *
56957623 CCGTAACCCTTAAG
1 CCTTAAACCATAAA
56957637 CCTTAAACGCATAAA
1 CCTTAAAC-CATAAA
56957652 -CTATAAACCATAA
1 CCT-TAAACCATAA
56957665 TCTATAAACC
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
14 44 0.83
15 9 0.17
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.25
Consensus pattern (14 bp):
CCTTAAACCATAAA
Found at i:56957617 original size:21 final size:21
Alignment explanation
Indices: 56957604--56957679 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
56957594 ACCTTAATCT
*
56957604 ATAAATCTTAAACCATAAACC
1 ATAAACCTTAAACCATAAACC
* * * *
56957625 GTAACCCTTAAGCCTTAAACGC
1 ATAAACCTTAAACCATAAAC-C
* *
56957647 ATAAA-CTATAAACCATAATCT
1 ATAAACCT-TAAACCATAAACC
56957668 ATAAACCTTAAA
1 ATAAACCTTAAA
56957680 ATAGTAACTC
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
21 26 0.63
22 15 0.37
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (21 bp):
ATAAACCTTAAACCATAAACC
Found at i:56957669 original size:14 final size:14
Alignment explanation
Indices: 56957640--56957679 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
56957630 CCTTAAGCCT
56957640 TAAACGCATAAACTA
1 TAAAC-CATAAACTA
*
56957655 TAAACCATAATCTA
1 TAAACCATAAACTA
*
56957669 TAAACCTTAAA
1 TAAACCATAAA
56957680 ATAGTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.25
Consensus pattern (14 bp):
TAAACCATAAACTA
Found at i:56957717 original size:14 final size:14
Alignment explanation
Indices: 56957699--56957741 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
56957689 CCTAAACTTT
56957699 AACCCTAAACCATA
1 AACCCTAAACCATA
* * *
56957713 TACCCTTAACCCTA
1 AACCCTAAACCATA
*
56957727 AACCCTAAACAATA
1 AACCCTAAACCATA
56957741 A
1 A
56957742 TAATAATTAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:56958211 original size:113 final size:112
Alignment explanation
Indices: 56958006--56958257 Score: 380
Period size: 113 Copynumber: 2.2 Consensus size: 112
56957996 CCGAGCATTA
*
56958006 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCATACTCTAGCGACGCTTTTTAAAAAACGCCACT
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCATACTCTAGCGACGCTTTTTAAAAAACGCCACT
* *
56958071 AAAGCCCCTAAAACTAAAAAAATGACGTCGTTGGGCTTAGGTTTTTT
66 AAAGCCCCAAAAACTAAAAAAACGACGTCGTTGGGCTTAGGTTTTTT
* * *
56958118 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCCATGCAT-TAGCGACGCTTTTTATAAAACGCCA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCCATAC-TCTAGCGACGCTTTTTAAAAAACGCCA
* * *
56958182 CTAAAGCCCCAAAAACTCAGAAAACGACGTCGTTGTGCTTAGGTTTTTT
64 CTAAAGCCCCAAAAACTAAAAAAACGACGTCGTTGGGCTTAGGTTTTTT
* *
56958231 GTGGCGCTTTTTGAAAAACGCCGCTAA
1 GCGGCGCTTTTTCAAAAACGCCGCTAA
56958258 TGCTCATTTT
Statistics
Matches: 126, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
112 27 0.21
113 98 0.78
114 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (112 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCATACTCTAGCGACGCTTTTTAAAAAACGCCACT
AAAGCCCCAAAAACTAAAAAAACGACGTCGTTGGGCTTAGGTTTTTT
Found at i:56959536 original size:17 final size:17
Alignment explanation
Indices: 56959516--56959567 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
56959506 ATTTTTATTG
*
56959516 TTCATTTTTTTTTAAAT
1 TTCAGTTTTTTTTAAAT
*
56959533 TTCAGTTTTATTT-AAT
1 TTCAGTTTTTTTTAAAT
* * *
56959549 TTTAGTTTCTTTAAAAT
1 TTCAGTTTTTTTTAAAT
56959566 TT
1 TT
56959568 TCATTTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (17 bp):
TTCAGTTTTTTTTAAAT
Found at i:56959541 original size:16 final size:16
Alignment explanation
Indices: 56959522--56959563 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
56959512 ATTGTTCATT
56959522 TTTTTTTAAATTTCAG
1 TTTTTTTAAATTTCAG
*
56959538 TTTTATTT-AATTTTAG
1 TTTT-TTTAAATTTCAG
*
56959554 TTTCTTTAAA
1 TTTTTTTAAA
56959564 ATTTTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTTAAATTTCAG
Found at i:56963693 original size:30 final size:30
Alignment explanation
Indices: 56963657--56963723 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
56963647 TTCAATTTTT
56963657 TTTGTTAAATTTTTCCTATTTATTATGGTA
1 TTTGTTAAATTTTTCCTATTTATTATGGTA
*
56963687 TTTGTTAAATTTTTCCTCTTTATTATGGTA
1 TTTGTTAAATTTTTCCTATTTATTATGGTA
56963717 TTATGTT
1 TT-TGTT
56963724 CAACTTGAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.21, C:0.07, G:0.10, T:0.61
Consensus pattern (30 bp):
TTTGTTAAATTTTTCCTATTTATTATGGTA
Found at i:56965988 original size:17 final size:16
Alignment explanation
Indices: 56965966--56966008 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
56965956 AGTTTTAAAA
56965966 AAATAATAAATAATTTT
1 AAATAATAAA-AATTTT
56965983 AAATAATTTAAAAATTTT
1 AAATAA--TAAAAATTTT
56966001 AAA-AATAA
1 AAATAATAA
56966009 GTTATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.12
17 8 0.33
18 9 0.38
19 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAATAAAAATTTT
Found at i:56966006 original size:9 final size:10
Alignment explanation
Indices: 56965972--56966003 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
56965962 AAAAAAATAA
56965972 TAAATAATTT
1 TAAATAATTT
56965982 TAAATAA-TT
1 TAAATAATTT
56965991 TAAA-AATTT
1 TAAATAATTT
56966000 TAAA
1 TAAA
56966004 AATAAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.10
9 12 0.57
10 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAATAATTT
Found at i:56968069 original size:19 final size:20
Alignment explanation
Indices: 56968045--56968087 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
56968035 GTCTAAAAAG
56968045 AAGCAGAAATTTGGCCGT-C
1 AAGCAGAAATTTGGCCGTCC
56968064 AAGCAGAAATTTGGCCGTCC
1 AAGCAGAAATTTGGCCGTCC
56968084 AAGC
1 AAGC
56968088 CATCTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.19
Consensus pattern (20 bp):
AAGCAGAAATTTGGCCGTCC
Found at i:56968976 original size:11 final size:12
Alignment explanation
Indices: 56968949--56968981 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
56968939 TATTTATAAA
56968949 ATAGAAAAATGT
1 ATAGAAAAATGT
56968961 ATAGAAAAAT-T
1 ATAGAAAAATGT
*
56968972 CTAGAAAAAT
1 ATAGAAAAAT
56968982 AAAATCTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (12 bp):
ATAGAAAAATGT
Found at i:56975362 original size:15 final size:14
Alignment explanation
Indices: 56975342--56975371 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
56975332 ATAACCTTCT
56975342 AAATATTTATTATTA
1 AAATATTTA-TATTA
56975357 AAATATTTATATTA
1 AAATATTTATATTA
56975371 A
1 A
56975372 TCAAAATGAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATATTTATATTA
Found at i:56980838 original size:22 final size:22
Alignment explanation
Indices: 56980810--56980852 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
56980800 GCAACTCGAG
56980810 ATAACTTAATTTGTGGTTTAAT
1 ATAACTTAATTTGTGGTTTAAT
56980832 ATAACTTAATTTGTGGTTTAA
1 ATAACTTAATTTGTGGTTTAA
56980853 CCTCATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (22 bp):
ATAACTTAATTTGTGGTTTAAT
Found at i:56990732 original size:18 final size:19
Alignment explanation
Indices: 56990709--56990746 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
56990699 GGAAGCAAGC
*
56990709 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
56990727 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
56990746 A
1 A
56990747 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:56992501 original size:61 final size:60
Alignment explanation
Indices: 56992401--56992516 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 60
56992391 ATCAGCTTTG
*
56992401 TTTGTTTATTCAAGCTGATTAGCACAAGTTACTATGTGTATTAGCGGTAGTAGGTTTAGT
1 TTTGTTTATTCAAGCTAATTAGCACAAGTTACTATGTGTATTAGCGGTAGTAGGTTTAGT
*
56992461 TTTGTGTTATTCAAGCTAATTAGCACAAGTTACTATGTGTATTAGTGGTAGTAGGT
1 TTTGT-TTATTCAAGCTAATTAGCACAAGTTACTATGTGTATTAGCGGTAGTAGGT
56992517 GAAGTTTAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
60 5 0.09
61 48 0.91
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.41
Consensus pattern (60 bp):
TTTGTTTATTCAAGCTAATTAGCACAAGTTACTATGTGTATTAGCGGTAGTAGGTTTAGT
Found at i:56997686 original size:3 final size:3
Alignment explanation
Indices: 56997678--56997712 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
56997668 TTTAATTGAT
* *
56997678 ATA ATA ATA ATA ATT ATA ATA ATA ATA ATG ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
56997713 TTTAGTTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:56997695 original size:15 final size:15
Alignment explanation
Indices: 56997677--56997712 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
56997667 TTTTAATTGA
56997677 TATAATAATAATAAT
1 TATAATAATAATAAT
56997692 TATAATAATAATAAT
1 TATAATAATAATAAT
*
56997707 GATAAT
1 TATAAT
56997713 TTTAGTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
TATAATAATAATAAT
Found at i:57002714 original size:15 final size:14
Alignment explanation
Indices: 57002694--57002723 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
57002684 ATTCTTCTCT
57002694 AAATATTTATTATTA
1 AAATATTTA-TATTA
57002709 AAATATTTATATTA
1 AAATATTTATATTA
57002723 A
1 A
57002724 TCAAAATGAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATATTTATATTA
Found at i:57005025 original size:38 final size:38
Alignment explanation
Indices: 57004944--57005026 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
57004934 AATAAACCAT
* * *
57004944 AGTTATAAGGTAAATTTGCTATAATGCTTTCTGCTGCA
1 AGTTTTAAGGTAAATTTGCTATAATGCTGTCCGCTGCA
* * *
57004982 TGTTTTAAGGTCAATTTGCTATAATGCTGTCCGTTGCA
1 AGTTTTAAGGTAAATTTGCTATAATGCTGTCCGCTGCA
57005020 AGTTTTA
1 AGTTTTA
57005027 TTGAAATTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (38 bp):
AGTTTTAAGGTAAATTTGCTATAATGCTGTCCGCTGCA
Found at i:57005590 original size:38 final size:39
Alignment explanation
Indices: 57005529--57005608 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
57005519 AAGCATTTAA
*
57005529 TTAATATTTTAAAGTTTTCAAAAATAA-TAAATATATTT
1 TTAATATTTTAAAGTTTTAAAAAATAAGTAAATATATTT
* *
57005567 TTAATAATTTT-AATTTTTAAAAAATAAGTTATATATATTT
1 TTAAT-ATTTTAAAGTTTTAAAAAATAAG-TAAATATATTT
57005607 TT
1 TT
57005609 TAAACCTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 19 0.53
39 5 0.14
40 12 0.33
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (39 bp):
TTAATATTTTAAAGTTTTAAAAAATAAGTAAATATATTT
Found at i:57010362 original size:3 final size:3
Alignment explanation
Indices: 57010356--57010381 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57010346 ATTATTATCG
57010356 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
57010382 TTACAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:57010581 original size:7 final size:7
Alignment explanation
Indices: 57010569--57010595 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57010559 GGCAGACACC
57010569 AAAGCTA
1 AAAGCTA
57010576 AAAGCTA
1 AAAGCTA
57010583 AAAGCTA
1 AAAGCTA
57010590 AAAGCT
1 AAAGCT
57010596 TGGAACCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAGCTA
Found at i:57015683 original size:25 final size:25
Alignment explanation
Indices: 57015655--57015710 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
57015645 TTAGGATTTG
* *
57015655 TTAAATTAGTGTCAT-TATACATCTT
1 TTAAATTAATGTCATCT-TACATCTA
*
57015680 TTAAATTAATGTTATCTTACATCTA
1 TTAAATTAATGTCATCTTACATCTA
57015705 TTAAAT
1 TTAAAT
57015711 ATTTAACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (25 bp):
TTAAATTAATGTCATCTTACATCTA
Found at i:57020452 original size:9 final size:9
Alignment explanation
Indices: 57020438--57020471 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
57020428 GGTTTCGAAT
57020438 TCGAATAAC
1 TCGAATAAC
57020447 TCGAATAAC
1 TCGAATAAC
*
57020456 TCGAATAAT
1 TCGAATAAC
57020465 TCGAATA
1 TCGAATA
57020472 TCAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:57020654 original size:30 final size:31
Alignment explanation
Indices: 57020620--57020679 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
57020610 AAACCTTTTA
*
57020620 TTTTCCCCCAAAAGTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
57020650 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
57020680 TCACACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.02, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:57023931 original size:3 final size:3
Alignment explanation
Indices: 57023923--57023952 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57023913 ATTAAATCTA
57023923 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57023953 TAATGCCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:57028742 original size:18 final size:19
Alignment explanation
Indices: 57028709--57028746 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
57028699 AGACTCCAGG
*
57028709 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
57028728 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
57028746 T
1 T
57028747 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:57033631 original size:15 final size:14
Alignment explanation
Indices: 57033611--57033640 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
57033601 ATAACCTTCT
57033611 AAATATTTATGATTA
1 AAATATTTAT-ATTA
57033626 AAATATTTATATTA
1 AAATATTTATATTA
57033640 A
1 A
57033641 TCAAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
AAATATTTATATTA
Found at i:57040934 original size:20 final size:21
Alignment explanation
Indices: 57040894--57040935 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
57040884 CAACAGTTTT
57040894 TTAAATATTATAATATACAAA
1 TTAAATATTATAATATACAAA
*
57040915 TTAAATTTTATAAT-TACAAA
1 TTAAATATTATAATATACAAA
57040935 T
1 T
57040936 GCTTTATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAATATTATAATATACAAA
Found at i:57045518 original size:15 final size:15
Alignment explanation
Indices: 57045493--57045527 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57045483 GGCTCTATTT
*
57045493 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
57045507 TAATTAATATTAAGA
1 TAATTAATATTAAGA
57045522 TAATTA
1 TAATTA
57045528 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:57046339 original size:21 final size:20
Alignment explanation
Indices: 57046292--57046339 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
57046282 CTCAACTCTA
57046292 TTTTTAATTTCTCAAATTTT
1 TTTTTAATTTCTCAAATTTT
*
57046312 TTATTTAATATTCT-TAATTTT
1 TT-TTTAAT-TTCTCAAATTTT
57046333 GTTTTTA
1 -TTTTTA
57046340 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTAATTTCTCAAATTTT
Found at i:57051486 original size:22 final size:22
Alignment explanation
Indices: 57051426--57051487 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
57051416 CAACCCAATT
*
57051426 TTTATTTT-TTTTA-TTA-TAT
1 TTTATTTTATTTTACTTATTAC
*
57051445 TTTTTCTTTATTTT-CTTTATTAC
1 TTTAT-TTTATTTTAC-TTATTAC
57051468 TTTATTTTATTTTACTTATT
1 TTTATTTTATTTTACTTATT
57051488 TGGATATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 4 0.12
22 16 0.47
23 7 0.21
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTTATTTTACTTATTAC
Found at i:57052380 original size:14 final size:13
Alignment explanation
Indices: 57052360--57052393 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
57052350 CCTAAAGCAT
57052360 AAAAAAAACAAAA
1 AAAAAAAACAAAA
57052373 ACAAAAAAACAAAA
1 A-AAAAAAACAAAA
57052387 AAAAAAA
1 AAAAAAA
57052394 GAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:57056050 original size:12 final size:12
Alignment explanation
Indices: 57056033--57056064 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
57056023 CGTCTCGCCC
57056033 TATTAATTTTTA
1 TATTAATTTTTA
57056045 TATTAA-TTTTA
1 TATTAATTTTTA
57056056 TA-TAATTTT
1 TATTAATTTT
57056065 AAAAAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 10 0.53
12 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:57056063 original size:10 final size:11
Alignment explanation
Indices: 57056033--57056065 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
57056023 CGTCTCGCCC
57056033 TATTAATTTTTA
1 TATTAA-TTTTA
57056045 TATTAATTTTA
1 TATTAATTTTA
57056056 TA-TAATTTTA
1 TATTAATTTTA
57056066 AAAAGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
11 7 0.33
12 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTAATTTTA
Found at i:57056221 original size:30 final size:30
Alignment explanation
Indices: 57056187--57056249 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
57056177 ACTTAACAAG
57056187 CAAATGT-TTCTAAAATAATAACAAAATTAA
1 CAAATGTCTT-TAAAATAATAACAAAATTAA
57056217 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
57056247 CAA
1 CAA
57056250 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:57056940 original size:19 final size:19
Alignment explanation
Indices: 57056916--57056959 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
57056906 TAAAAGCAAC
57056916 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
57056935 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
57056954 ACAACA
1 ACAACA
57056960 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:57058103 original size:31 final size:31
Alignment explanation
Indices: 57058065--57058126 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
57058055 CGTGAGATTG
57058065 AGCTATACTTGATACAGGGGAATTGTAGAGT
1 AGCTATACTTGATACAGGGGAATTGTAGAGT
57058096 AGCTATACTTGATACAGGGGAATTGTAGAGT
1 AGCTATACTTGATACAGGGGAATTGTAGAGT
57058127 CGTTGCTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (31 bp):
AGCTATACTTGATACAGGGGAATTGTAGAGT
Found at i:57067204 original size:21 final size:20
Alignment explanation
Indices: 57067160--57067209 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
57067150 GTTTAAAATT
* **
57067160 TGTTCAAAGTATTTTCTGAG
1 TGTTCAAAGTATTCTCAAAG
57067180 TGTTCAAAGTGATTCTCAAAG
1 TGTTCAAAGT-ATTCTCAAAG
57067201 TGTTTCAAA
1 TG-TTCAAA
57067210 ATTTTGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.40
21 9 0.36
22 6 0.24
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (20 bp):
TGTTCAAAGTATTCTCAAAG
Found at i:57067262 original size:18 final size:17
Alignment explanation
Indices: 57067230--57067265 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
57067220 TAAACTTCAT
57067230 TAATTTTTATTAAAAAA
1 TAATTTTTATTAAAAAA
*
57067247 TAATTTTTATTCAAAAA
1 TAATTTTTATTAAAAAA
57067264 TA
1 TA
57067266 TTATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTTTTATTAAAAAA
Found at i:57067274 original size:19 final size:17
Alignment explanation
Indices: 57067230--57067277 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
57067220 TAAACTTCAT
*
57067230 TAATTTTTATTAAAAAA
1 TAATATTTATTAAAAAA
*
57067247 TAATTTTTATTCAAAAATA
1 TAATATTTATT-AAAAA-A
*
57067266 TTATATTTATTA
1 TAATATTTATTA
57067278 TATCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 11 0.41
18 6 0.22
19 10 0.37
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATATTTATTAAAAAA
Found at i:57071276 original size:18 final size:18
Alignment explanation
Indices: 57071253--57071307 Score: 110
Period size: 18 Copynumber: 3.1 Consensus size: 18
57071243 ACTAAGAAAT
57071253 CATGAAGCACCTTGTCTA
1 CATGAAGCACCTTGTCTA
57071271 CATGAAGCACCTTGTCTA
1 CATGAAGCACCTTGTCTA
57071289 CATGAAGCACCTTGTCTA
1 CATGAAGCACCTTGTCTA
57071307 C
1 C
57071308 CTGTTCCTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (18 bp):
CATGAAGCACCTTGTCTA
Found at i:57078931 original size:22 final size:22
Alignment explanation
Indices: 57078887--57078939 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
57078877 AGAACAATAG
*
57078887 GCACCAAAGTGCAAACCACTAA
1 GCACCAAAGTGCAAAACACTAA
* *
57078909 GCACCAAAGTGCAAAATAGTAA
1 GCACCAAAGTGCAAAACACTAA
*
57078931 GCGCCAAAG
1 GCACCAAAG
57078940 CGGGAAACGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.45, C:0.26, G:0.19, T:0.09
Consensus pattern (22 bp):
GCACCAAAGTGCAAAACACTAA
Found at i:57079889 original size:32 final size:32
Alignment explanation
Indices: 57079853--57079917 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
57079843 TTACATTTTA
57079853 CTTAGTCAATTCATCATACCAATATACTCAAC
1 CTTAGTCAATTCATCATACCAATATACTCAAC
57079885 CTTAGTCAATTCATCATACCAATATACTCAAC
1 CTTAGTCAATTCATCATACCAATATACTCAAC
57079917 C
1 C
57079918 ATTATCACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.29, G:0.03, T:0.31
Consensus pattern (32 bp):
CTTAGTCAATTCATCATACCAATATACTCAAC
Found at i:57093685 original size:86 final size:86
Alignment explanation
Indices: 57093574--57093746 Score: 328
Period size: 86 Copynumber: 2.0 Consensus size: 86
57093564 ATAAATAAAT
57093574 ATAACTATTCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAATCAAGTGATATAAC
1 ATAACTATTCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAATCAAGTGATATAAC
*
57093639 TCTTCATATTTAACAAACATA
66 TATTCATATTTAACAAACATA
*
57093660 ATAACTATTCAAGTGATATTGCTTGAATAGTTATAATTCTTTGTTAAAAAATCAAGTGATATAAC
1 ATAACTATTCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAATCAAGTGATATAAC
57093725 TATTCATATTTAACAAACATA
66 TATTCATATTTAACAAACATA
57093746 A
1 A
57093747 CTCATTATTA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (86 bp):
ATAACTATTCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAATCAAGTGATATAAC
TATTCATATTTAACAAACATA
Found at i:57093715 original size:43 final size:43
Alignment explanation
Indices: 57093582--57093721 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 43
57093572 ATATAACTAT
57093582 TCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAA
1 TCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAA
* ** * ** * ** ** *
57093625 TCAAGTGATATAACTCTTCATATTTA-ACAAAC-ATAATAACTAT
1 TCAAGTGATATTACT-TGAATAGTTATA-ATTCTTTGTTAAAAAA
*
57093668 TCAAGTGATATTGCTTGAATAGTTATAATTCTTTGTTAAAAAA
1 TCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAA
57093711 TCAAGTGATAT
1 TCAAGTGATAT
57093722 AACTATTCAT
Statistics
Matches: 68, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
42 9 0.13
43 50 0.74
44 9 0.13
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (43 bp):
TCAAGTGATATTACTTGAATAGTTATAATTCTTTGTTAAAAAA
Found at i:57095177 original size:42 final size:42
Alignment explanation
Indices: 57095118--57095201 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
57095108 ATTACTGAGT
*
57095118 TGAAAACTGTAGTGTCGTTCTGCAGCCCTTTTTGTTTCAGGC
1 TGAAAACTGTAGTGTCGTTCTGCAGCCCTTTTTGTTCCAGGC
*
57095160 TGAAAACTGTAGTGTCGTTCTGCAGCCTTTTTTGTTCCAGGC
1 TGAAAACTGTAGTGTCGTTCTGCAGCCCTTTTTGTTCCAGGC
57095202 AGGGCAGGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (42 bp):
TGAAAACTGTAGTGTCGTTCTGCAGCCCTTTTTGTTCCAGGC
Found at i:57105869 original size:5 final size:5
Alignment explanation
Indices: 57105859--57105910 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
57105849 CAACTGGGGG
* * * *
57105859 TATGA TATGA TATGA TATGA TATAGGA TATGG TATAA TAAGA TAAGA TATGA
1 TATGA TATGA TATGA TATGA TAT--GA TATGA TATGA TATGA TATGA TATGA
57105911 AACATGCTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 34 0.87
7 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (5 bp):
TATGA
Found at i:57105887 original size:22 final size:20
Alignment explanation
Indices: 57105862--57105910 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
57105852 CTGGGGGTAT
* *
57105862 GATATGATATGATATGATATA
1 GATATGATATAATAAGATA-A
*
57105883 GGATATGGTATAATAAGATAA
1 -GATATGATATAATAAGATAA
57105904 GATATGA
1 GATATGA
57105911 AACATGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 1 0.04
22 16 0.70
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (20 bp):
GATATGATATAATAAGATAA
Found at i:57114206 original size:9 final size:9
Alignment explanation
Indices: 57114184--57114226 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
57114174 CATTTCATTA
*
57114184 ATCCAACTT
1 ATCCAAGTT
*
57114193 CTCCAAGTT
1 ATCCAAGTT
57114202 ATCCAAGTT
1 ATCCAAGTT
*
57114211 ATCCAACTT
1 ATCCAAGTT
57114220 ATCCAAG
1 ATCCAAG
57114227 ATGCTGGAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (9 bp):
ATCCAAGTT
Found at i:57115034 original size:14 final size:14
Alignment explanation
Indices: 57115015--57115044 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57115005 TTTATTATAT
57115015 AATTTAATCAGTTA
1 AATTTAATCAGTTA
*
57115029 AATTTAATCCGTTA
1 AATTTAATCAGTTA
57115043 AA
1 AA
57115045 ATAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (14 bp):
AATTTAATCAGTTA
Found at i:57115177 original size:7 final size:7
Alignment explanation
Indices: 57115132--57115187 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
57115122 ACGTTGTGTA
57115132 TTTAATT
1 TTTAATT
57115139 TTT-ATAT
1 TTTAAT-T
57115146 TTTAATT
1 TTTAATT
57115153 TGATT-ATT
1 T--TTAATT
57115161 TTTAATT
1 TTTAATT
57115168 TTTAATTT
1 TTTAA-TT
*
57115176 TTTAAAT
1 TTTAATT
57115183 TTTAA
1 TTTAA
57115188 AATTTCATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
6 4 0.10
7 23 0.55
8 13 0.31
9 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (7 bp):
TTTAATT
Found at i:57115177 original size:15 final size:14
Alignment explanation
Indices: 57115132--57115186 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
57115122 ACGTTGTGTA
*
57115132 TTTAATTTTTATAT
1 TTTAATTTTTATTT
57115146 TTTAATTTGATTA-TT
1 TTTAATTT--TTATTT
57115161 TTTAATTTTTAATTT
1 TTTAATTTTT-ATTT
*
57115176 TTTAAATTTTA
1 TTTAATTTTTA
57115187 AAATTTCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 20 0.57
16 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTAATTTTTATTT
Found at i:57121170 original size:21 final size:21
Alignment explanation
Indices: 57121146--57121188 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
57121136 TTCTTGAGAA
*
57121146 AACTTTGATGGCAAGGAAAGC
1 AACTTTGATGGAAAGGAAAGC
57121167 AACTTTGATGGAAAGGAAAGC
1 AACTTTGATGGAAAGGAAAGC
57121188 A
1 A
57121189 TTGTGTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.19
Consensus pattern (21 bp):
AACTTTGATGGAAAGGAAAGC
Found at i:57122333 original size:42 final size:42
Alignment explanation
Indices: 57122274--57122357 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
57122264 ACTGGAAAAA
*
57122274 ATGTTTGTCTGGCATTACAAGAATTTCTTTAAAGTTAATAGT
1 ATGTTTGTCTGCCATTACAAGAATTTCTTTAAAGTTAATAGT
57122316 ATGTTTGTCTGCCATTACAAGAATTTCTTTAAAGTTAATAGT
1 ATGTTTGTCTGCCATTACAAGAATTTCTTTAAAGTTAATAGT
57122358 TTGAGAGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (42 bp):
ATGTTTGTCTGCCATTACAAGAATTTCTTTAAAGTTAATAGT
Found at i:57123148 original size:33 final size:33
Alignment explanation
Indices: 57123081--57123148 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
57123071 TCGGTCCAAC
*
57123081 TAAAATTTAATTTAAATAATACAAAATTATTTT
1 TAAAATTTAATTTAAATAATACAAAATTACTTT
*
57123114 TAAAATTTAAATTT-AATTATA-AAAATATACTTT
1 TAAAATTT-AATTTAAATAATACAAAAT-TACTTT
57123147 TA
1 TA
57123149 TTTTTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 5 0.16
33 21 0.68
34 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (33 bp):
TAAAATTTAATTTAAATAATACAAAATTACTTT
Found at i:57126935 original size:34 final size:34
Alignment explanation
Indices: 57126892--57126969 Score: 138
Period size: 34 Copynumber: 2.2 Consensus size: 34
57126882 AACGTCTAGG
57126892 CCAGGTTTGGGGTGTTACAGAGCCTATAAGCTCA
1 CCAGGTTTGGGGTGTTACAGAGCCTATAAGCTCA
57126926 CCAGGTTTGGGGTGTTACAGAGCCTATAAGCTCA
1 CCAGGTTTGGGGTGTTACAGAGCCTATAAGCTCA
57126960 CTCAGTGTTT
1 C-CAG-GTTT
57126970 CTAACTTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 35 0.83
35 3 0.07
36 4 0.10
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (34 bp):
CCAGGTTTGGGGTGTTACAGAGCCTATAAGCTCA
Found at i:57128837 original size:16 final size:16
Alignment explanation
Indices: 57128812--57128843 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57128802 ATGTCACACC
*
57128812 CTAATTCAACTCATTG
1 CTAATACAACTCATTG
57128828 CTAATACAACTCATTG
1 CTAATACAACTCATTG
57128844 ACTTGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CTAATACAACTCATTG
Found at i:57129197 original size:16 final size:16
Alignment explanation
Indices: 57129176--57129207 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57129166 AATTTCACAC
57129176 CCTAATACAACTCATT
1 CCTAATACAACTCATT
57129192 CCTAATACAACTCATT
1 CCTAATACAACTCATT
57129208 GACTTGTATA
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:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (16 bp):
CCTAATACAACTCATT
Found at i:57132889 original size:39 final size:39
Alignment explanation
Indices: 57132835--57132913 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
57132825 TATGACCCAA
57132835 AGACTCACCTTTTTATAAGTCGTCTCCTATCATAATTGC
1 AGACTCACCTTTTTATAAGTCGTCTCCTATCATAATTGC
57132874 AGACTCACCTTTTTATAAGTCGTCTCCTATCATAATTGC
1 AGACTCACCTTTTTATAAGTCGTCTCCTATCATAATTGC
57132913 A
1 A
57132914 TAATAAATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (39 bp):
AGACTCACCTTTTTATAAGTCGTCTCCTATCATAATTGC
Found at i:57138082 original size:18 final size:18
Alignment explanation
Indices: 57138059--57138124 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
57138049 TAACAAATAT
57138059 ATATTTTTTAATTTTAAA
1 ATATTTTTTAATTTTAAA
**
57138077 ATATTTTTTACATACTTTTTTA
1 ATATTTTTT--A-A-TTTTAAA
* *
57138099 ATTTTTTTTAATTTCAAA
1 ATATTTTTTAATTTTAAA
57138117 ATATTTTT
1 ATATTTTT
57138125 AAAATACTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 20 0.54
19 1 0.03
20 2 0.05
21 1 0.03
22 13 0.35
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTTTTAATTTTAAA
Found at i:57138108 original size:40 final size:41
Alignment explanation
Indices: 57138062--57138243 Score: 269
Period size: 40 Copynumber: 4.4 Consensus size: 41
57138052 CAAATATATA
* *
57138062 TTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATT
*
57138102 TTTTTTAATTTCAAAATATTTTTAAAATACTTTTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTAATT
*
57138144 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAA-T
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATT
*
57138184 TTTTTTAATTTTAAAATATTTTAAAAATACTTTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATT
**
57138225 TTTTAAAATTATTAAAATA
1 TTTTTTAATT-TTAAAATA
57138244 AAAATGGGCC
Statistics
Matches: 129, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
40 65 0.50
41 18 0.14
42 46 0.36
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATT
Found at i:57138150 original size:82 final size:81
Alignment explanation
Indices: 57138062--57138243 Score: 267
Period size: 82 Copynumber: 2.2 Consensus size: 81
57138052 CAAATATATA
* * * *
57138062 TTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTAATTTTTTTTAATTTCAAAATATTTTTA
1 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAA-TTTTTTTAATTTCAAAATATTTTAA
57138126 AAATACTTTTTTTTAATT
65 AAATAC-TTTTTTTAATT
*
57138144 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATTTTAAA
1 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTTAATTTCAAAATATTTTAAA
57138209 AATACTTTTTTTAATT
66 AATACTTTTTTTAATT
**
57138225 TTTTAAAATTATTAAAATA
1 TTTTTTAATT-TTAAAATA
57138244 AAAATGGGCC
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
81 19 0.21
82 64 0.70
83 8 0.09
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (81 bp):
TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTTAATTTCAAAATATTTTAAA
AATACTTTTTTTAATT
Found at i:57138166 original size:11 final size:11
Alignment explanation
Indices: 57138152--57138177 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57138142 TTTTTTTTAA
57138152 TTTTAAAATAC
1 TTTTAAAATAC
57138163 TTTTAAAATAC
1 TTTTAAAATAC
57138174 TTTT
1 TTTT
57138178 TTTAATTTTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:57142855 original size:16 final size:16
Alignment explanation
Indices: 57142822--57142855 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57142812 CCAACATGTT
* *
57142822 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
57142838 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
57142854 AA
1 AA
57142856 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:57145672 original size:21 final size:21
Alignment explanation
Indices: 57145646--57145686 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57145636 AGACGAGCAA
* *
57145646 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
57145667 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
57145687 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:57147622 original size:16 final size:16
Alignment explanation
Indices: 57147589--57147622 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57147579 GGAGATTGTT
* *
57147589 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
57147605 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
57147621 AA
1 AA
57147623 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:57150674 original size:13 final size:13
Alignment explanation
Indices: 57150656--57150680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57150646 ATTATTAAAA
57150656 TTATTAGATTTAG
1 TTATTAGATTTAG
57150669 TTATTAGATTTA
1 TTATTAGATTTA
57150681 ATTTCAAGTT
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:0.12, T:0.56
Consensus pattern (13 bp):
TTATTAGATTTAG
Found at i:57156426 original size:9 final size:9
Alignment explanation
Indices: 57156404--57156445 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
57156394 CATTTCATTA
57156404 ATCCAACTT
1 ATCCAACTT
* *
57156413 CTCCAAGTT
1 ATCCAACTT
57156422 ATCCAACTT
1 ATCCAACTT
57156431 ATCCAACTT
1 ATCCAACTT
57156440 ATCCAA
1 ATCCAA
57156446 GATGCTGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (9 bp):
ATCCAACTT
Found at i:57157249 original size:59 final size:59
Alignment explanation
Indices: 57157177--57157296 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
57157167 AAATCACACC
*
57157177 GTTGGTCATTTTAAACTAACATTATTTCTATTTTGGTCACTCTATAATTGCTCGAATTA
1 GTTGGTCATTTTAAACTAACATTATTTCTATTTTGGTCACTCCATAATTGCTCGAATTA
57157236 GTTGGTCATTTTAAACTAACATTATTTCTATTTTGGTCACTCCATAATTGCTCGAATTA
1 GTTGGTCATTTTAAACTAACATTATTTCTATTTTGGTCACTCCATAATTGCTCGAATTA
57157295 GT
1 GT
57157297 CAATGACATT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (59 bp):
GTTGGTCATTTTAAACTAACATTATTTCTATTTTGGTCACTCCATAATTGCTCGAATTA
Found at i:57173952 original size:17 final size:18
Alignment explanation
Indices: 57173916--57173955 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
57173906 AATTGTAGGG
57173916 ATTAACATAGTTAATAAT
1 ATTAACATAGTTAATAAT
**
57173934 ATTAACATA-TTTCTAAT
1 ATTAACATAGTTAATAAT
57173951 ATTAA
1 ATTAA
57173956 ATAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAACATAGTTAATAAT
Found at i:57176332 original size:14 final size:14
Alignment explanation
Indices: 57176313--57176342 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
57176303 TTTATTATAT
57176313 AATTTAATCAGTTA
1 AATTTAATCAGTTA
57176327 AATTTAATCAGTTA
1 AATTTAATCAGTTA
57176341 AA
1 AA
57176343 ATAAATAAAA
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:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
AATTTAATCAGTTA
Found at i:57176473 original size:7 final size:7
Alignment explanation
Indices: 57176428--57176483 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
57176418 ACGTTGTGTA
57176428 TTTAATT
1 TTTAATT
57176435 TTT-ATAT
1 TTTAAT-T
57176442 TTTAATT
1 TTTAATT
57176449 TGATT-ATT
1 T--TTAATT
57176457 TTTAATT
1 TTTAATT
57176464 TTTAATTT
1 TTTAA-TT
*
57176472 TTTAAAT
1 TTTAATT
57176479 TTTAA
1 TTTAA
57176484 AATTTCATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
6 4 0.10
7 23 0.55
8 13 0.31
9 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (7 bp):
TTTAATT
Found at i:57176473 original size:15 final size:14
Alignment explanation
Indices: 57176428--57176482 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
57176418 ACGTTGTGTA
*
57176428 TTTAATTTTTATAT
1 TTTAATTTTTATTT
57176442 TTTAATTTGATTA-TT
1 TTTAATTT--TTATTT
57176457 TTTAATTTTTAATTT
1 TTTAATTTTT-ATTT
*
57176472 TTTAAATTTTA
1 TTTAATTTTTA
57176483 AAATTTCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 20 0.57
16 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTAATTTTTATTT
Found at i:57178381 original size:17 final size:17
Alignment explanation
Indices: 57178359--57178392 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57178349 ATCCACTAAT
*
57178359 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
57178376 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
57178393 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:57183018 original size:17 final size:17
Alignment explanation
Indices: 57182996--57183029 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57182986 ATCCACTAAT
*
57182996 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
57183013 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
57183030 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:57185661 original size:14 final size:15
Alignment explanation
Indices: 57185633--57185661 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57185623 TAACCTTCTG
57185633 AATATTTATTATTAA
1 AATATTTATTATTAA
57185648 AATATTTA-TATTAA
1 AATATTTATTATTAA
57185662 TCGAAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATATTTATTATTAA
Found at i:57191836 original size:50 final size:50
Alignment explanation
Indices: 57191782--57191919 Score: 136
Period size: 50 Copynumber: 2.8 Consensus size: 50
57191772 TCTCATAGAG
* *
57191782 GTGCCACTGCCATGTCCTAGACATGGTCTTACGGGGGACATTTCATCTCA
1 GTGCCACTGCCATGTCCTAGACATGGTCTTACAGGGGACATCTCATCTCA
* * * * * **
57191832 GTGCCAATGCCAAGT-CTCAGACATGATCTTACATGGGACCTCTCATCTTG
1 GTGCCACTGCCATGTCCT-AGACATGGTCTTACAGGGGACATCTCATCTCA
* * *
57191882 GTGCCAAC-ACCATGTCCCAGACATGGTCTTACATGGGA
1 GTGCC-ACTGCCATGTCCTAGACATGGTCTTACAGGGGA
57191920 TCTCATTCCC
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.03
50 67 0.94
51 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
GTGCCACTGCCATGTCCTAGACATGGTCTTACAGGGGACATCTCATCTCA
Found at i:57191876 original size:100 final size:100
Alignment explanation
Indices: 57191733--57191913 Score: 231
Period size: 100 Copynumber: 1.8 Consensus size: 100
57191723 TTTCTTGTAT
* * ** *
57191733 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATAGAGGTGCC-ACTGCCATGT
1 TGCCAATGCCATATCCCAGACATGATCTTACATGAGACCTCTCATAGAGGTGCCAAC-ACCATGT
*
57191797 CCTAGACATGGTCTTACGGGGGACATTTCATCTCAG
65 CCCAGACATGGTCTTACGGGGGACATTTCATCTCAG
* * ***
57191833 TGCCAATGCCA-AGTCTCAGACATGATCTTACATGGGACCTCTCATCTTGGTGCCAACACCATGT
1 TGCCAATGCCATA-TCCCAGACATGATCTTACATGAGACCTCTCATAGAGGTGCCAACACCATGT
57191897 CCCAGACATGGTCTTAC
65 CCCAGACATGGTCTTAC
57191914 ATGGGATCTC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
99 1 0.01
100 65 0.96
101 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (100 bp):
TGCCAATGCCATATCCCAGACATGATCTTACATGAGACCTCTCATAGAGGTGCCAACACCATGTC
CCAGACATGGTCTTACGGGGGACATTTCATCTCAG
Found at i:57192764 original size:12 final size:12
Alignment explanation
Indices: 57192747--57192774 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57192737 AGATGGACAA
57192747 AATTTGGCTTTT
1 AATTTGGCTTTT
57192759 AATTTGGCTTTT
1 AATTTGGCTTTT
57192771 AATT
1 AATT
57192775 CATTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (12 bp):
AATTTGGCTTTT
Found at i:57193234 original size:18 final size:18
Alignment explanation
Indices: 57193211--57193256 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
57193201 TATTTCTGTG
*
57193211 TCTGTATTTGCATCTGTAT
1 TCTGTATATGCATCTG-AT
57193230 T-TGTATATGCATCTGAT
1 TCTGTATATGCATCTGAT
57193247 TCTGTATATG
1 TCTGTATATG
57193257 AGATTGCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 21 0.84
19 1 0.04
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (18 bp):
TCTGTATATGCATCTGAT
Found at i:57197757 original size:251 final size:250
Alignment explanation
Indices: 57197315--57197804 Score: 953
Period size: 251 Copynumber: 2.0 Consensus size: 250
57197305 TTCCAAAATC
57197315 TATAAAACAAAGAGTAAACATGCACACAGTAAGCTTCCACAGCTAATAAGTCATAAACGAACATT
1 TATAAAACAAAGAGTAAACATGCACACAGTAAGCTTCCACAGCTAATAAGTCATAAACGAACATT
57197380 AATCATATGAACATTAACACTAAATCAAACAGCCAAGTCAATCCAAACCTTAGTTAAATATACAT
66 AATCATATGAACATTAACACTAAATCAAACAGCCAAGTCAATCCAAACCTTAGTTAAATATACAT
57197445 ATATCACACTCACAAGTTTATATGTTACCAAAAATAAATTAGCAGTTATCATCATATAACTAAAT
131 ATATCACACTCACAAGTTTATATGTTACCAAAAATAAATTAGCAGTTATCATCATATAACTAAAT
57197510 GCACAAATACTCATAAACATATATAATTATCACTTTTAAATATTTAACTAAGGTT
196 GCACAAATACTCATAAACATATATAATTATCACTTTTAAATATTTAACTAAGGTT
* *
57197565 TATAAAACAAAGAGTAAACATGCACATAGTAAGCTTCCACAGCTTAGTAAGTCATAAACGAACAT
1 TATAAAACAAAGAGTAAACATGCACACAGTAAGCTTCCACAGC-TAATAAGTCATAAACGAACAT
57197630 TAATCATATGAACATTAACACTAAATCAAACAGCCAAGTCAATCCAAACCTTAGTTAAATATACA
65 TAATCATATGAACATTAACACTAAATCAAACAGCCAAGTCAATCCAAACCTTAGTTAAATATACA
57197695 TATATCACACTCACAAGTTTATATGTTACCAAAAATAAATTAGCAGTTATCATCATATAACTAAA
130 TATATCACACTCACAAGTTTATATGTTACCAAAAATAAATTAGCAGTTATCATCATATAACTAAA
57197760 TGCACAAATACTCATAAACATATATAATTATCACTTTTAAATATT
195 TGCACAAATACTCATAAACATATATAATTATCACTTTTAAATATT
57197805 GCAACGATAT
Statistics
Matches: 237, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
250 42 0.18
251 195 0.82
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (250 bp):
TATAAAACAAAGAGTAAACATGCACACAGTAAGCTTCCACAGCTAATAAGTCATAAACGAACATT
AATCATATGAACATTAACACTAAATCAAACAGCCAAGTCAATCCAAACCTTAGTTAAATATACAT
ATATCACACTCACAAGTTTATATGTTACCAAAAATAAATTAGCAGTTATCATCATATAACTAAAT
GCACAAATACTCATAAACATATATAATTATCACTTTTAAATATTTAACTAAGGTT
Found at i:57198144 original size:43 final size:43
Alignment explanation
Indices: 57198075--57198198 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
57198065 GGCTCGTACA
* *
57198075 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCA-AA-TATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAGT-T-G
*
57198118 ATG-CAACTGTCCCAGACATCGTCTTACACGTAAACACAAGTTG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAACACAAGTTG
* *
57198161 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACA
57198199 TATCGAAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
42 4 0.06
43 59 0.83
44 7 0.10
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAGTTG
Found at i:57204132 original size:30 final size:31
Alignment explanation
Indices: 57204093--57204152 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
57204083 AGAGGTGGGA
*
57204093 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
57204124 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
57204153 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:57204374 original size:9 final size:9
Alignment explanation
Indices: 57204360--57204396 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
57204350 TATAGTTTGA
57204360 TATTCGAAT
1 TATTCGAAT
57204369 TATTCGAAT
1 TATTCGAAT
* *
57204378 TATTAGAGT
1 TATTCGAAT
57204387 TATTCGAAT
1 TATTCGAAT
57204396 T
1 T
57204397 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:57209427 original size:21 final size:21
Alignment explanation
Indices: 57209401--57209442 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
57209391 AGACACCAAA
57209401 ATATAAAAATAGAAAATCAAT
1 ATATAAAAATAGAAAATCAAT
57209422 ATATAAAAATAGAAAATCAAT
1 ATATAAAAATAGAAAATCAAT
57209443 GGCAAATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
ATATAAAAATAGAAAATCAAT
Found at i:57222861 original size:22 final size:22
Alignment explanation
Indices: 57222831--57222874 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57222821 AGAGAATGTG
57222831 GGTTCGAGTTCGCTGAAGAGCA
1 GGTTCGAGTTCGCTGAAGAGCA
*
57222853 GGTTTGAGTTCGCTGAAGAGCA
1 GGTTCGAGTTCGCTGAAGAGCA
57222875 TCATCTTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (22 bp):
GGTTCGAGTTCGCTGAAGAGCA
Found at i:57226078 original size:22 final size:21
Alignment explanation
Indices: 57226053--57226105 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
57226043 GAGTTATTAT
57226053 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGATTAT-GG
* *
57226075 TTTAAGGGTTATGGTTTATGG
1 TTTAAGGTTTATGGATTATGG
57226096 TTTAAAGGTT
1 TTT-AAGGTT
57226106 GGGATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGG
Found at i:57226168 original size:13 final size:13
Alignment explanation
Indices: 57226147--57226184 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
57226137 GGTCTAGGAT
*
57226147 TTTATGGTTTAGG
1 TTTAAGGTTTAGG
*
57226160 TTTAGGGTTTAGG
1 TTTAAGGTTTAGG
57226173 TTTAAGGTTTAG
1 TTTAAGGTTTAG
57226185 ATTAACTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (13 bp):
TTTAAGGTTTAGG
Found at i:57226222 original size:16 final size:16
Alignment explanation
Indices: 57226201--57226233 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57226191 TAGTGTTTTC
57226201 TAATTTA-TATATTAAT
1 TAATTTATTATA-TAAT
57226217 TAATTTATTATATAAT
1 TAATTTATTATATAAT
57226233 T
1 T
57226234 GTAAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTATTATATAAT
Found at i:57235102 original size:43 final size:43
Alignment explanation
Indices: 57235042--57235132 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
57235032 CTTTGAGTTC
* * *
57235042 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
57235084 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
57235127 ATTACC
1 ATTACC
57235133 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:57235594 original size:42 final size:43
Alignment explanation
Indices: 57235533--57235640 Score: 157
Period size: 42 Copynumber: 2.5 Consensus size: 43
57235523 ATAAAAACGT
* *
57235533 CGCTAAAGGTCATGTTCTTTAGTGGCGTTTGTGGT-AAAA-TGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTT-TGGTCAAAAGTCC
* *
57235575 CGCTAAAGGTCATGCTCTTTAGCGGCGTTTTTGTCAAAAGTCC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTTGGTCAAAAGTCC
57235618 CGCTAAAGGTCATGTTCTTTAGC
1 CGCTAAAGGTCATGTTCTTTAGC
57235641 AGCATTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
41 3 0.05
42 32 0.54
43 24 0.41
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (43 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGTTTTGGTCAAAAGTCC
Found at i:57236331 original size:18 final size:18
Alignment explanation
Indices: 57236308--57236345 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
57236298 CTCTTTACCA
57236308 CTAGGCCAATTAATCATT
1 CTAGGCCAATTAATCATT
57236326 CTAGGCCAATTAATCATT
1 CTAGGCCAATTAATCATT
57236344 CT
1 CT
57236346 TTTCATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (18 bp):
CTAGGCCAATTAATCATT
Found at i:57238099 original size:19 final size:17
Alignment explanation
Indices: 57238062--57238095 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57238052 GCCTTTGGTA
*
57238062 AAAGTAAAGAAAATTTC
1 AAAGTAAAAAAAATTTC
57238079 AAAGTAAAAAATAATTT
1 AAAGTAAAAAA-AATTT
57238096 TCAAGAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAGTAAAAAAAATTTC
Done.