Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 93 of 141
Found at i:30134136 original size:28 final size:28
Alignment explanation
Indices: 30134112--30134192 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
30134102 TACCACATTG
30134112 TTACTGTAAT-GGGCTAAGGCCCACACTA
1 TTACTGT-ATCGGGCTAAGGCCCACACTA
30134140 TTACTGTATCGGGCTAAGGCCCACACTA
1 TTACTGTATCGGGCTAAGGCCCACACTA
*
30134168 TTACTGTATCGGGCTAGGGCCCACA
1 TTACTGTATCGGGCTAAGGCCCACA
30134193 TTGTACTATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 2 0.04
28 49 0.96
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (28 bp):
TTACTGTATCGGGCTAAGGCCCACACTA
Found at i:30135779 original size:23 final size:24
Alignment explanation
Indices: 30135753--30135805 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
30135743 ATATACTACA
*
30135753 TTTTGAAGGCTTGATTTTA-CTTG
1 TTTTGAAGGCTTGATTATAGCTTG
* *
30135776 TTTTGGATGCTTGATTATAGCTTG
1 TTTTGAAGGCTTGATTATAGCTTG
30135800 TGTTTG
1 T-TTTG
30135806 TGTGCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.64
24 5 0.20
25 4 0.16
ACGTcount: A:0.15, C:0.08, G:0.25, T:0.53
Consensus pattern (24 bp):
TTTTGAAGGCTTGATTATAGCTTG
Found at i:30136711 original size:20 final size:21
Alignment explanation
Indices: 30136678--30136716 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30136668 TAGGATTAAT
30136678 AAAATAAAATAAATTAAAACA
1 AAAATAAAATAAATTAAAACA
*
30136699 AAAATTAAA-AAATTAAAA
1 AAAATAAAATAAATTAAAA
30136717 ATGAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAATAAAATAAATTAAAACA
Found at i:30136723 original size:21 final size:21
Alignment explanation
Indices: 30136678--30136734 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
30136668 TAGGATTAAT
*
30136678 AAAATAAAATAAATTAAAACA
1 AAAATAAAACAAATTAAAACA
*
30136699 AAAATTAAA-AAATTAAAA-A
1 AAAATAAAACAAATTAAAACA
*
30136718 TGAAAATGAAACAAATT
1 --AAAATAAAACAAATT
30136735 TTAAAATAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
21 16 0.52
22 5 0.16
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAATAAAACAAATTAAAACA
Found at i:30144770 original size:56 final size:52
Alignment explanation
Indices: 30144602--30144799 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 52
30144592 GATAATAACA
* *
30144602 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC-ATCTC-GG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCAGG
* * *
30144652 TGCTAACCCCATGTCCCAGACATGGTCTTACATGAGACCTCTCG-TCTCA-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCAGG
30144702 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--GATCTC-AGG
** * *
30144757 ATGCCAATTCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30144800 TTACCCTAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
50 83 0.65
52 1 0.01
53 4 0.03
54 1 0.01
55 1 0.01
56 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (52 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCAGG
Found at i:30159635 original size:62 final size:59
Alignment explanation
Indices: 30159566--30159682 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
30159556 ACTGGTTATC
* * *
30159566 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATATAATAAAAT
1 TTAATATTAAATTTAATCTAATATTTATC-TG--GATAAATATTATATTAATATAATAAAAT
*
30159628 TTAATATTAAATTTAATCTAATATTTATCTGGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTGGATAAATATTATATTAATATAATA
30159683 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
61 2 0.04
62 27 0.53
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTGGATAAATATTATATTAATATAATAAAAT
Found at i:30167583 original size:54 final size:55
Alignment explanation
Indices: 30167500--30167604 Score: 160
Period size: 54 Copynumber: 1.9 Consensus size: 55
30167490 TCACACGGGT
*
30167500 GTGTGTCTAGACCGTATAACTCTATGACTTGTGTCACACAGG-TGTGTGCCTGGCC
1 GTGTGTCTAGACCGTATAACTCTATGACTTGGGTCACAC-GGTTGTGTGCCTGGCC
* *
30167555 GTGTG-CTAGACCGTGTAACTCTCTGACTTGGGTCACACGGTTGTGTGCCT
1 GTGTGTCTAGACCGTATAACTCTATGACTTGGGTCACACGGTTGTGTGCCT
30167605 AACCATGTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
53 2 0.04
54 39 0.85
55 5 0.11
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (55 bp):
GTGTGTCTAGACCGTATAACTCTATGACTTGGGTCACACGGTTGTGTGCCTGGCC
Found at i:30170097 original size:5 final size:6
Alignment explanation
Indices: 30170062--30170096 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
30170052 ATTGCATATG
**
30170062 ATTTTT ATTTTT CCTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
30170097 AATCGTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:30170357 original size:19 final size:19
Alignment explanation
Indices: 30170333--30170372 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30170323 TAATTACAAC
30170333 ATAATATAATTACACTTTT
1 ATAATATAATTACACTTTT
30170352 ATAATATAATTACACTTTT
1 ATAATATAATTACACTTTT
30170371 AT
1 AT
30170373 TCAATTAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATATAATTACACTTTT
Found at i:30173496 original size:16 final size:17
Alignment explanation
Indices: 30173470--30173508 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
30173460 CTGAATATGA
* *
30173470 TGAGTATTGGAAGGCAC
1 TGAGAATTGGAAGCCAC
30173487 -GAGAATTGGAAGCCAC
1 TGAGAATTGGAAGCCAC
30173503 TGAGAA
1 TGAGAA
30173509 CCTGAACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (17 bp):
TGAGAATTGGAAGCCAC
Found at i:30175424 original size:16 final size:16
Alignment explanation
Indices: 30175403--30175433 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30175393 TAATGTGGTG
30175403 TATAAGGTGGTGTATA
1 TATAAGGTGGTGTATA
30175419 TATAAGGTGGTGTAT
1 TATAAGGTGGTGTAT
30175434 GAGTTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (16 bp):
TATAAGGTGGTGTATA
Found at i:30184659 original size:17 final size:18
Alignment explanation
Indices: 30184625--30184659 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30184615 CCATGATGTT
*
30184625 CGCCCGTGTGGGCCCACA
1 CGCCCGTGTGGACCCACA
30184643 CGCCCGTGT-GACCCACA
1 CGCCCGTGTGGACCCACA
30184660 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.14, C:0.46, G:0.29, T:0.11
Consensus pattern (18 bp):
CGCCCGTGTGGACCCACA
Found at i:30186615 original size:23 final size:24
Alignment explanation
Indices: 30186574--30186621 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
30186564 TGCCAATACT
30186574 TGGAACCAAAGTTTATTCGGTAAA
1 TGGAACCAAAGTTTATTCGGTAAA
*
30186598 TGGAATCAAA-TTTATTCGGTAAA
1 TGGAACCAAAGTTTATTCGGTAAA
30186621 T
1 T
30186622 AATAGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (24 bp):
TGGAACCAAAGTTTATTCGGTAAA
Found at i:30186632 original size:19 final size:21
Alignment explanation
Indices: 30186582--30186633 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
30186572 CTTGGAACCA
30186582 AAGTTTATTCGGTAAATGGAAT
1 AAGTTTATTCGGTAAAT-GAAT
*
30186604 CAAATTTATTCGGTAAAT-AAT
1 -AAGTTTATTCGGTAAATGAAT
30186625 -AGTTTATTC
1 AAGTTTATTC
30186634 ATAATAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.30
21 3 0.11
23 16 0.59
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (21 bp):
AAGTTTATTCGGTAAATGAAT
Found at i:30186721 original size:9 final size:9
Alignment explanation
Indices: 30186707--30186732 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30186697 TAATTAAATG
30186707 ATTAGTAAA
1 ATTAGTAAA
30186716 ATTAGTAAA
1 ATTAGTAAA
30186725 ATTAGTAA
1 ATTAGTAA
30186733 TATGAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.35
Consensus pattern (9 bp):
ATTAGTAAA
Found at i:30187497 original size:22 final size:21
Alignment explanation
Indices: 30187464--30187504 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
30187454 AACTATATTT
30187464 CATGTTTAATT-AGTTAAAAA
1 CATGTTTAATTAAGTTAAAAA
30187484 CATGTCTTAAATTAAGTTAAA
1 CATGT-TT-AATTAAGTTAAA
30187505 TGTAATGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 4 0.22
23 7 0.39
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (21 bp):
CATGTTTAATTAAGTTAAAAA
Found at i:30188227 original size:85 final size:83
Alignment explanation
Indices: 30188084--30188340 Score: 320
Period size: 85 Copynumber: 3.1 Consensus size: 83
30188074 ACCACCGCTG
* * * *
30188084 ATTTGTAGTTACTGCCACATATTGTGGGTGCACAATATATTTGAAGTTTAAACAAACTGTCACTT
1 ATTTGCAGTTACTGCCAC-T-TTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGTCACTT
*
30188149 GGCTCATGATCGAACCACAT
64 GGTTCATGATCGAACCACAT
*
30188169 ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGTCACTT
1 ATTTGCAGTTACTGCCAC-T-TTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGTCACTT
30188234 -GTTCATGATCGAACCACAT
64 GGTTCATGATCGAACCACAT
* * * * **
30188253 ATTTGCAGTTACTGCTAC-TTGTGAGTGCACATCATATTTGTAGATTAAATAAACTACCACTTGG
1 ATTTGCAGTTACTGCCACTTTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGTCACTTGG
* * *
30188317 TTCGTAATTGAACCACACT
66 TTCATGATCGAACCACA-T
30188336 ATTTG
1 ATTTG
30188341 TAGATTAAAT
Statistics
Matches: 152, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
81 39 0.26
82 15 0.10
83 6 0.04
84 34 0.22
85 58 0.38
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (83 bp):
ATTTGCAGTTACTGCCACTTTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGTCACTTGG
TTCATGATCGAACCACAT
Found at i:30188358 original size:48 final size:48
Alignment explanation
Indices: 30188287--30188397 Score: 213
Period size: 48 Copynumber: 2.3 Consensus size: 48
30188277 GTGCACATCA
30188287 TATTTGTAGATTAAATAAACTACCACTTGGTTCGTAATTGAACCACAC
1 TATTTGTAGATTAAATAAACTACCACTTGGTTCGTAATTGAACCACAC
30188335 TATTTGTAGATTAAATAAACTACCACTTGGTTCGTAATTGAACCACAC
1 TATTTGTAGATTAAATAAACTACCACTTGGTTCGTAATTGAACCACAC
*
30188383 TGTTTGTAGATTAAA
1 TATTTGTAGATTAAA
30188398 CTGTCACTCT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (48 bp):
TATTTGTAGATTAAATAAACTACCACTTGGTTCGTAATTGAACCACAC
Found at i:30188978 original size:28 final size:28
Alignment explanation
Indices: 30188947--30189055 Score: 119
Period size: 28 Copynumber: 3.9 Consensus size: 28
30188937 GTAATATTTG
* *
30188947 AAAAATAGGGGTAACATTGTGAAATCTA
1 AAAAATAGGGGTAAAATTGTAAAATCTA
* *
30188975 AAAAACTTGGGGTAAAATTGTAAAATCTT
1 AAAAA-TAGGGGTAAAATTGTAAAATCTA
* * * * *
30189004 GAAAATAAGGGAAAAACTATAAAATCTA
1 AAAAATAGGGGTAAAATTGTAAAATCTA
*
30189032 AAAAGTAGGGGTAAAATTGTAAAA
1 AAAAATAGGGGTAAAATTGTAAAA
30189056 CTTGAAAAAT
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
28 40 0.63
29 23 0.37
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.24
Consensus pattern (28 bp):
AAAAATAGGGGTAAAATTGTAAAATCTA
Found at i:30188997 original size:57 final size:56
Alignment explanation
Indices: 30188903--30189068 Score: 156
Period size: 56 Copynumber: 2.9 Consensus size: 56
30188893 ATATTGGGTT
* * * ** * * *
30188903 AAAACTATAAAACCTAAAAAAATAAGGG-AAAGCTGTAATATTTGAAAAATAGGGGT
1 AAAACTATAAAATCT-AAAAACTAGGGGTAAAATTGTAAAATTTGAAAAATAAGGGA
* * * * *
30188959 AACATTGTGAAATCTAAAAAACTTGGGGTAAAATTGTAAAATCTTG-AAAATAAGGGA
1 AAAACTATAAAATCT-AAAAACTAGGGGTAAAATTGTAAAAT-TTGAAAAATAAGGGA
* *
30189016 AAAACTATAAAATCTAAAAAGTAGGGGTAAAATTGTAAAACTTGAAAAATAAG
1 AAAACTATAAAATCTAAAAACTAGGGGTAAAATTGTAAAATTTGAAAAATAAG
30189069 AGACACACAA
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
55 3 0.03
56 51 0.59
57 30 0.34
58 3 0.03
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.23
Consensus pattern (56 bp):
AAAACTATAAAATCTAAAAACTAGGGGTAAAATTGTAAAATTTGAAAAATAAGGGA
Found at i:30189064 original size:29 final size:27
Alignment explanation
Indices: 30188944--30189066 Score: 97
Period size: 28 Copynumber: 4.4 Consensus size: 27
30188934 GCTGTAATAT
* *
30188944 TTGAAAAATAGGGGTAACATTGTGAAA
1 TTGAAAAATAGGGGTAAAATTGTAAAA
* *
30188971 TCTAAAAAACTTGGGGTAAAATTGTAAAA
1 T-TGAAAAA-TAGGGGTAAAATTGTAAAA
* * * *
30189000 TCTTG-AAAATAAGGGAAAAACTATAAAA
1 --TTGAAAAATAGGGGTAAAATTGTAAAA
30189028 TCT-AAAAAGTAGGGGTAAAATTGTAAAA
1 T-TGAAAAA-TAGGGGTAAAATTGTAAAA
30189056 CTTGAAAAATA
1 -TTGAAAAATA
30189067 AGAGACACAC
Statistics
Matches: 73, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
26 1 0.01
27 6 0.08
28 38 0.52
29 26 0.36
30 1 0.01
31 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (27 bp):
TTGAAAAATAGGGGTAAAATTGTAAAA
Found at i:30193368 original size:38 final size:38
Alignment explanation
Indices: 30193324--30193397 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
30193314 TACCTACTAT
30193324 TACTGTTAAACCAAACACATGTTAAGCATGTCTACTGC
1 TACTGTTAAACCAAACACATGTTAAGCATGTCTACTGC
* ** *
30193362 TACTGTTGAACTGAATACATGTTAAGCATGTCTACT
1 TACTGTTAAACCAAACACATGTTAAGCATGTCTACT
30193398 ATTTTACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (38 bp):
TACTGTTAAACCAAACACATGTTAAGCATGTCTACTGC
Found at i:30194460 original size:14 final size:14
Alignment explanation
Indices: 30194441--30194480 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30194431 TTGATTACCA
30194441 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
30194455 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
30194469 GGAAAATGTTTT
1 GTAAAATGTTTT
30194481 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:30194489 original size:20 final size:20
Alignment explanation
Indices: 30194464--30194503 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30194454 CGTAAAATGA
*
30194464 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
30194484 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
30194504 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:30194493 original size:34 final size:35
Alignment explanation
Indices: 30194449--30194515 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
30194439 CAGTAAAATG
*
30194449 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
30194483 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
30194516 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:30194519 original size:14 final size:15
Alignment explanation
Indices: 30194443--30194519 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
30194433 GATTACCAGT
* *
30194443 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
30194457 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
30194471 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
30194491 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
30194506 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
30194520 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:30197334 original size:18 final size:18
Alignment explanation
Indices: 30197313--30197361 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
30197303 AGGAATGAAG
*
30197313 GAAGGGAGAAGAATGGGT
1 GAAGGGAGAAGAATGGAT
*** *
30197331 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
30197349 GAAGGGAGAAGAA
1 GAAGGGAGAAGAA
30197362 ATGCCTGAGG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.45, T:0.12
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:30200777 original size:59 final size:59
Alignment explanation
Indices: 30200682--30200799 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
30200672 GGTTGAATGC
* *
30200682 ATACCTTCTGAAGCTAAAGAATGGCAAATAACGTTGTTGGTTGGATTCCTTTGGACGAT
1 ATACCTTCTGAAACTAAAGAATGGCAAATAACGTTGTTGGTTAGATTCCTTTGGACGAT
* *
30200741 ATACCTTCTGAAACTGAAGAATGGCAAATAATGTTGTTGGTTAGATTCCTTTGGACGAT
1 ATACCTTCTGAAACTAAAGAATGGCAAATAACGTTGTTGGTTAGATTCCTTTGGACGAT
30200800 GTTAATCCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (59 bp):
ATACCTTCTGAAACTAAAGAATGGCAAATAACGTTGTTGGTTAGATTCCTTTGGACGAT
Found at i:30201143 original size:17 final size:17
Alignment explanation
Indices: 30201121--30201160 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
30201111 TCCACCAAGA
*
30201121 AATACTATTCGCCAGGC
1 AATACTATTAGCCAGGC
*
30201138 AATACTGTTAGCCAGGC
1 AATACTATTAGCCAGGC
*
30201155 TATACT
1 AATACT
30201161 TATACGCCAA
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:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (17 bp):
AATACTATTAGCCAGGC
Found at i:30203512 original size:14 final size:14
Alignment explanation
Indices: 30203493--30203520 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30203483 GTTTAAAGAT
30203493 GATTAAAAACTAAG
1 GATTAAAAACTAAG
30203507 GATTAAAAACTAAG
1 GATTAAAAACTAAG
30203521 TAAAAAAAAT
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:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
GATTAAAAACTAAG
Found at i:30212900 original size:12 final size:12
Alignment explanation
Indices: 30212862--30212900 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30212852 ACTTTCTTCT
*
30212862 TTACTTGCTCAC
1 TTACTTGCTTAC
*
30212874 TTACTTGTTTAC
1 TTACTTGCTTAC
*
30212886 TTACTTGCTTGC
1 TTACTTGCTTAC
30212898 TTA
1 TTA
30212901 AATAACTCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.10, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:30213245 original size:50 final size:50
Alignment explanation
Indices: 30213159--30213297 Score: 136
Period size: 50 Copynumber: 2.8 Consensus size: 50
30213149 TACTGCTAAT
* * ** * * *
30213159 GCCATATCCCA-AATATGGTCTTATATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCACAA-ATGGTCTTATATGGGACCTCTCATATCGGTACCAAC
* * * *
30213209 GCCATGTCCTACACATGGTCTTATAGGGGACCTCTCATCTCGGTACCAAC
1 GCCATGTCCCACAAATGGTCTTATATGGGACCTCTCATATCGGTACCAAC
* * *
30213259 GCCATGTCCCAGAAATGGTCTTACATGGGACCTCCCATA
1 GCCATGTCCCACAAATGGTCTTATATGGGACCTCTCATA
30213298 GTCTTAGTGA
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
50 69 0.99
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCACAAATGGTCTTATATGGGACCTCTCATATCGGTACCAAC
Found at i:30217182 original size:13 final size:13
Alignment explanation
Indices: 30217147--30217183 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30217137 GATATATTTG
30217147 TAATTTGAAAACT
1 TAATTTGAAAACT
*
30217160 TAGTTTGAAAACT
1 TAATTTGAAAACT
*
30217173 TAATTGGAAAA
1 TAATTTGAAAA
30217184 TTTGGAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:30219067 original size:21 final size:22
Alignment explanation
Indices: 30219037--30219081 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
30219027 GAACAAATTG
*
30219037 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTA-TTATTTTTTGTAT
30219059 TTGA-TCTATTATTTTTTGTAT
1 TTGATTCTATTATTTTTTGTAT
30219080 TT
1 TT
30219082 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.16, C:0.07, G:0.09, T:0.69
Consensus pattern (22 bp):
TTGATTCTATTATTTTTTGTAT
Found at i:30223052 original size:21 final size:22
Alignment explanation
Indices: 30223015--30223059 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
30223005 AGAAAAAGAG
*
30223015 AAATACAAAAAAGAATAG-ATC
1 AAATACAAAAAAAAATAGAATC
30223036 AAAT-CAAAAAATAAATAGAATC
1 AAATACAAAAAA-AAATAGAATC
30223058 AA
1 AA
30223060 CAATTTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (22 bp):
AAATACAAAAAAAAATAGAATC
Found at i:30229215 original size:27 final size:27
Alignment explanation
Indices: 30229170--30229224 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
30229160 TGTTTTTCTA
*
30229170 CTATTGAAGATACAGATTCGTCGTATC
1 CTATTGAAGATACAAATTCGTCGTATC
* * *
30229197 CTATTGAAGATTCAAATTCTTTGTATC
1 CTATTGAAGATACAAATTCGTCGTATC
30229224 C
1 C
30229225 CATGTATGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (27 bp):
CTATTGAAGATACAAATTCGTCGTATC
Found at i:30231944 original size:21 final size:21
Alignment explanation
Indices: 30231909--30231954 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30231899 CCTTGAATTC
*
30231909 CTCTATCAATTCAATT-TTTT
1 CTCTATCAATTCAATTCTTCT
*
30231929 CTCTATCCACTTCAATTCTTCT
1 CTCTAT-CAATTCAATTCTTCT
30231951 CTCT
1 CTCT
30231955 GATATCCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (21 bp):
CTCTATCAATTCAATTCTTCT
Found at i:30231950 original size:20 final size:20
Alignment explanation
Indices: 30231909--30231952 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30231899 CCTTGAATTC
*
30231909 CTCTATCAATTCAATTTTTT
1 CTCTATCAATTCAATTTCTT
*
30231929 CTCTATCCACTTCAA-TTCTT
1 CTCTAT-CAATTCAATTTCTT
30231949 CTCT
1 CTCT
30231953 CTGATATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (20 bp):
CTCTATCAATTCAATTTCTT
Found at i:30246297 original size:17 final size:17
Alignment explanation
Indices: 30246275--30246309 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
30246265 TTGGCATCCA
30246275 TATGTTAATGAAAACCC
1 TATGTTAATGAAAACCC
*
30246292 TATGTTAATGACAACCC
1 TATGTTAATGAAAACCC
30246309 T
1 T
30246310 TTGTCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (17 bp):
TATGTTAATGAAAACCC
Found at i:30249256 original size:49 final size:51
Alignment explanation
Indices: 30249034--30249367 Score: 280
Period size: 51 Copynumber: 6.7 Consensus size: 51
30249024 AAATAATGGC
* ** *
30249034 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAA--A-GGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAATGG-AT-AATTATGAT
* * * * * ** *
30249084 CGCATGTGTAG---TATGTGTAGGCTACTATGCGTACCGGATAGTT-TCGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATAATTAT-GAT
* * * *
30249132 CACGCGTGTAGTACTATGTGCAGGCTACTATGTGTAATGGATATTTATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATAATTATGAT
* * * *
30249183 CACGTGAGTAGTAGTATGTACAGGCTACTACGTG-AATCGGA-AAGT-TGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAAT-GGATAATTATGAT
* * *
30249232 CATGTGTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATATTTATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATAATTATGAT
* * *
30249283 CACGTGAGTAGTACTATGTGCAGGCTACTACGTG-AATTAGA-AAAT-TGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAA-TGGATAATTATGAT
* *
30249332 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
30249368 TTGAATGATA
Statistics
Matches: 231, Mismatches: 39, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 24 0.10
48 10 0.04
49 70 0.30
50 24 0.10
51 99 0.43
52 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATAATTATGAT
Found at i:30249382 original size:100 final size:100
Alignment explanation
Indices: 30249137--30249404 Score: 403
Period size: 100 Copynumber: 2.7 Consensus size: 100
30249127 TCGATCACGC
* *
30249137 GTGTAGTACTATGTGCAGGCTACTATGTGTAATGGATATTTATGGTCACGTGAGTAGTAGTATGT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATATTTATGGTCACGTGAGTAGTACTATGT
* * *
30249202 ACAGGCTACTACGTGAATCGGAAAGTTGATCATGT
66 GCAGGCTACTACGTGAATCAGAAAATTGATCATGT
30249237 GTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATATTTATGGTCACGTGAGTAGTACTATGT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATATTTATGGTCACGTGAGTAGTACTATGT
*
30249302 GCAGGCTACTACGTGAATTAGAAAATTGATCATGT
66 GCAGGCTACTACGTGAATCAGAAAATTGATCATGT
* * * * * * *
30249337 GTGTAGTACTATGTGAAGGCTACTACGTGTATTGAATGA-TAATGGTTACTTGAGTGGTACTATG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTAATGGAT-ATTTATGGTCACGTGAGTAGTACTATG
30249401 TGCA
65 TGCA
30249405 AACCACCGAA
Statistics
Matches: 154, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 153 0.99
101 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (100 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTAATGGATATTTATGGTCACGTGAGTAGTACTATGT
GCAGGCTACTACGTGAATCAGAAAATTGATCATGT
Found at i:30256439 original size:15 final size:16
Alignment explanation
Indices: 30256419--30256448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30256409 TGGTGCCTTG
30256419 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
30256434 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
30256449 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:30258365 original size:86 final size:86
Alignment explanation
Indices: 30258219--30258382 Score: 229
Period size: 86 Copynumber: 1.9 Consensus size: 86
30258209 TCTGGAACAT
* * * **
30258219 TGGTGGTTCATCCACAAATTACTGACAAATATTATCAACAAATGTGTTTTGCATTTACAACAAGT
1 TGGTGGTTCATCCACAAATTACTGACAAATATTACCAACAAATATGTTGTGCATCCACAACAAGT
*
30258284 GGCAATTTATTTGCATATTAC
66 AGCAATTTATTTGCATATTAC
* * * *
30258305 TGGTGGTTCATCCACAAATTACTGACAACTTTTACCTACAGATATGTTGTGCATCCACAACAAGT
1 TGGTGGTTCATCCACAAATTACTGACAAATATTACCAACAAATATGTTGTGCATCCACAACAAGT
*
30258370 AGCATTTTATTTG
66 AGCAATTTATTTG
30258383 TCAATGTTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 67 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (86 bp):
TGGTGGTTCATCCACAAATTACTGACAAATATTACCAACAAATATGTTGTGCATCCACAACAAGT
AGCAATTTATTTGCATATTAC
Found at i:30269042 original size:138 final size:138
Alignment explanation
Indices: 30268881--30269230 Score: 601
Period size: 138 Copynumber: 2.5 Consensus size: 138
30268871 ATGTAGTATT
* *
30268881 AATTAATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATACGAAAATTAA
1 AATTTATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATGAAAATTAA
30268946 TATTCTTTTGGAAATAATATAATTAATATATGAATTTTATTCATACAAAATGTTAATTTTATATA
66 TATTCTTTTGGAAATAATATAATTAATATATGAATTTTATTCATACAAAATGTTAATTTTATATA
30269011 TTTTACCG
131 TTTTACCG
* * * *
30269019 AATTTATTAATATAAACAATTATATTAATTAATTTTGATCAAAATATAAAAGACATGGAAATTAA
1 AATTTATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATGAAAATTAA
30269084 TATTCTTTTGGAAATAATATAATTAATATATGAATTTTATTCATACAAAATGTTAATTTTATATA
66 TATTCTTTTGGAAATAATATAATTAATATATGAATTTTATTCATACAAAATGTTAATTTTATATA
30269149 TTTTACCG
131 TTTTACCG
* ** * *
30269157 AATTTATTAATATAAACAGTTATATTAATTTATTTCAGTCAAAGTATAAAATATATGAAAATTAA
1 AATTTATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATGAAAATTAA
30269222 TATTCTTTT
66 TATTCTTTT
30269231 CTAAAGAATT
Statistics
Matches: 197, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 197 1.00
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.43
Consensus pattern (138 bp):
AATTTATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATGAAAATTAA
TATTCTTTTGGAAATAATATAATTAATATATGAATTTTATTCATACAAAATGTTAATTTTATATA
TTTTACCG
Found at i:30270641 original size:17 final size:15
Alignment explanation
Indices: 30270619--30270653 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
30270609 AATAAAAACT
30270619 AAAAATTAACTAAGTAA
1 AAAAATTAA--AAGTAA
30270636 AAAAATTAAAAGTAA
1 AAAAATTAAAAGTAA
30270651 AAA
1 AAA
30270654 TTCTAATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
17 9 0.50
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (15 bp):
AAAAATTAAAAGTAA
Found at i:30277542 original size:206 final size:207
Alignment explanation
Indices: 30277179--30277591 Score: 810
Period size: 206 Copynumber: 2.0 Consensus size: 207
30277169 AGATCTAATT
*
30277179 AGTACTTGAAATAAATTATAGTAAAAAATTTAAATAAAAAGAATTTTTAATATTTTTATAATAAT
1 AGTACTTGAAATAAATTATAGTAAAAAATATAAATAAAAAGAATTTTTAATATTTTTATAATAAT
30277244 AAGATATAATAAATAAATAAATATCAAGAGATTGACAAGTAGAATTGATCAAATTTGGTTATGGG
66 AAGATATAATAAATAAATAAATATCAAGAGATTGACAAGTAGAATTGATCAAATTTGGTTATGGG
30277309 TGATTAGCTCGCTTCGATAATCTTTATTAACTATCGCTTCGGGTTCCTTATCAATCAACTAGTCT
131 TGATTAGCTCGCTTCGATAATCTTTATTAACTATCGCTTCGGGTTCCTTATCAATCAACTAGTCT
30277374 ATATCCTAATAG
196 ATATCCTAATAG
30277386 AGTACTTG-AATAAATTATAGTAAAAAATATAAATAAAAAGAATTTTTAATATTTTTATAATAAT
1 AGTACTTGAAATAAATTATAGTAAAAAATATAAATAAAAAGAATTTTTAATATTTTTATAATAAT
30277450 AAGATATAATAAATAAATAAATATCAAGAGATTGACAAGTAGAATTGATCAAATTTGGTTATGGG
66 AAGATATAATAAATAAATAAATATCAAGAGATTGACAAGTAGAATTGATCAAATTTGGTTATGGG
30277515 TGATTAGCTCGCTTCGATAATCTTTATTAACTATCGCTTCGGGTTCCTTATCAATCAACTAGTCT
131 TGATTAGCTCGCTTCGATAATCTTTATTAACTATCGCTTCGGGTTCCTTATCAATCAACTAGTCT
30277580 ATATCCTAATAG
196 ATATCCTAATAG
30277592 GATCTTCCGG
Statistics
Matches: 205, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
206 197 0.96
207 8 0.04
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (207 bp):
AGTACTTGAAATAAATTATAGTAAAAAATATAAATAAAAAGAATTTTTAATATTTTTATAATAAT
AAGATATAATAAATAAATAAATATCAAGAGATTGACAAGTAGAATTGATCAAATTTGGTTATGGG
TGATTAGCTCGCTTCGATAATCTTTATTAACTATCGCTTCGGGTTCCTTATCAATCAACTAGTCT
ATATCCTAATAG
Found at i:30291571 original size:41 final size:41
Alignment explanation
Indices: 30291514--30291604 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
30291504 TCGACGAAGG
*
30291514 AGAAGAAAATTTACAACAAAAATCTATTCTAA-AGAAAATAAA
1 AGAA-AAAATCTACAACAAAAATCTATTCTAACA-AAAATAAA
*
30291556 AGAAAAAATCTACAACAAAACTCTATTCTAACAAAAATAAA
1 AGAAAAAATCTACAACAAAAATCTATTCTAACAAAAATAAA
30291597 AGAAAAAA
1 AGAAAAAA
30291605 AAAACCTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 41 0.89
42 5 0.11
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.19
Consensus pattern (41 bp):
AGAAAAAATCTACAACAAAAATCTATTCTAACAAAAATAAA
Found at i:30294438 original size:110 final size:109
Alignment explanation
Indices: 30294290--30294580 Score: 404
Period size: 109 Copynumber: 2.7 Consensus size: 109
30294280 CCGGCTTACA
* *
30294290 ATGCTGCTCACACAAGCTGTAGAGAATCCGCAACAGATGCAGGATCTCAAGCCATCGTTATGGTC
1 ATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTC-AGCCATCGTTACGGTC
30294355 TGTATCATCT-GTATATAGTACCTGCTAAATAAACATCGGGTCACG
65 TGTATCA-CTGGTATATAGTACCTGCTAAATAAACATCGGGTCACG
* * * * * *
30294400 ATGCTGCTCACACAAGCAGTAGAAAATCTACAACAGATGTAGGATCTCAGCCATTGTTACGGTTT
1 ATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATCGTTACGGTCT
*
30294465 GTATCACTGGTATATAGTACCTGCTAAATAATCATCGGGTCACG
66 GTATCACTGGTATATAGTACCTGCTAAATAAACATCGGGTCACG
* * * * * * * *
30294509 ATGTTGCTTACAAAAGTTGTACAGAATCTGCAACAGATGCAGGATCTTAGCCATCGCTACAGTCT
1 ATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATCGTTACGGTCT
30294574 GTATCAC
66 GTATCAC
30294581 CGGCTCAAGG
Statistics
Matches: 157, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
108 2 0.01
109 112 0.71
110 43 0.27
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (109 bp):
ATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATCGTTACGGTCT
GTATCACTGGTATATAGTACCTGCTAAATAAACATCGGGTCACG
Found at i:30294670 original size:40 final size:40
Alignment explanation
Indices: 30294618--30294699 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
30294608 ATACAAGGCC
* ** *
30294618 TGCTAGGCACAAAGCCTGATAAACACACTGGCACAAAGCT
1 TGCTAGGCACAAAGCCCGATAAACACACCAGCACAAAACT
* *
30294658 TGCTAGGTACAAAGCCCGATAAATACACCAGCACAAAACT
1 TGCTAGGCACAAAGCCCGATAAACACACCAGCACAAAACT
30294698 TG
1 TG
30294700 ATATTCACGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.16
Consensus pattern (40 bp):
TGCTAGGCACAAAGCCCGATAAACACACCAGCACAAAACT
Found at i:30308364 original size:19 final size:19
Alignment explanation
Indices: 30308340--30308383 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30308330 TGACGTATGT
*
30308340 TAGCTAGAGGACACTTATA
1 TAGCTAGAAGACACTTATA
*
30308359 TAGCTAGAAGACGCTTATA
1 TAGCTAGAAGACACTTATA
*
30308378 TGGCTA
1 TAGCTA
30308384 CATTACATGA
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:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (19 bp):
TAGCTAGAAGACACTTATA
Found at i:30312181 original size:35 final size:35
Alignment explanation
Indices: 30312112--30312192 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
30312102 ATTCACTTGT
*
30312112 TAAGCATGCCATTATTACTGATTCTGAATAGCATGG
1 TAAGCATGCCATTATTACTGATTCTAAATAGCAT-G
*
30312148 TAAGCATGCCATTA-TACTGATTC-AAATTCGCATG
1 TAAGCATGCCATTATTACTGATTCTAAA-TAGCATG
30312182 TAAAGCATGCC
1 T-AAGCATGCC
30312193 TACCGAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
34 4 0.10
35 23 0.56
36 14 0.34
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (35 bp):
TAAGCATGCCATTATTACTGATTCTAAATAGCATG
Found at i:30314537 original size:18 final size:18
Alignment explanation
Indices: 30314499--30314537 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30314489 CCTATAAATA
*
30314499 ATATTACTAGCAACATTT
1 ATATTACTAACAACATTT
30314517 ATATTACTAAC-ACATTCT
1 ATATTACTAACAACATT-T
30314535 ATA
1 ATA
30314538 CATGCCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATTACTAACAACATTT
Found at i:30324670 original size:10 final size:10
Alignment explanation
Indices: 30324655--30324680 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30324645 TTTCGTATAT
30324655 TGTTGAAAGG
1 TGTTGAAAGG
30324665 TGTTGAAAGG
1 TGTTGAAAGG
30324675 TGTTGA
1 TGTTGA
30324681 CCCTTCCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (10 bp):
TGTTGAAAGG
Found at i:30331168 original size:11 final size:11
Alignment explanation
Indices: 30331131--30331173 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
30331121 ATTATTAACT
30331131 TTAA-GAAAAC
1 TTAATGAAAAC
30331141 TTATATGAAAAC
1 TTA-ATGAAAAC
* *
30331153 ATAATTAAAAC
1 TTAATGAAAAC
30331164 TTAATGAAAA
1 TTAATGAAAA
30331174 TGCTTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 3 0.11
11 16 0.59
12 8 0.30
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (11 bp):
TTAATGAAAAC
Found at i:30335594 original size:42 final size:42
Alignment explanation
Indices: 30335527--30335613 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
30335517 TGAATACAAG
* * *
30335527 TCAGTGAGTTACACGACCTAGCACACGGGTGTGTGGGGCTAC
1 TCAGAGAGTTACACGACCTAGCACACGGGAGTGTGGGGCAAC
*
30335569 TCAGAGAGTTACACGGCC-AGTCACACGGGAGTGTGGGGCAAC
1 TCAGAGAGTTACACGACCTAG-CACACGGGAGTGTGGGGCAAC
30335611 TCA
1 TCA
30335614 AAGCATTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.18
Consensus pattern (42 bp):
TCAGAGAGTTACACGACCTAGCACACGGGAGTGTGGGGCAAC
Found at i:30341571 original size:13 final size:13
Alignment explanation
Indices: 30341553--30341580 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30341543 ATTTGATAAT
30341553 GGTATAAATTCTA
1 GGTATAAATTCTA
30341566 GGTATAAATTCTA
1 GGTATAAATTCTA
30341579 GG
1 GG
30341581 GTTTTATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (13 bp):
GGTATAAATTCTA
Found at i:30342712 original size:21 final size:20
Alignment explanation
Indices: 30342684--30342722 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30342674 TAGCATTTTG
* *
30342684 TTGAATGTTTAGTTTGTGAA
1 TTGAATGTATAATTTGTGAA
30342704 TTGACATGTATAATTTGTG
1 TTGA-ATGTATAATTTGTG
30342723 TAAGTTAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (20 bp):
TTGAATGTATAATTTGTGAA
Found at i:30356880 original size:34 final size:34
Alignment explanation
Indices: 30356839--30356907 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
30356829 ACACGGTTAA
*
30356839 CCATCCAGCAGACTAG-ATGCTCGTATGAGCTAAT
1 CCATCCAGCACAC-AGAATGCTCGTATGAGCTAAT
* *
30356873 CCATCCAGTACACCGAATGCTCGTATGAGCTAAT
1 CCATCCAGCACACAGAATGCTCGTATGAGCTAAT
30356907 C
1 C
30356908 AATTTAGCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (34 bp):
CCATCCAGCACACAGAATGCTCGTATGAGCTAAT
Found at i:30358873 original size:19 final size:19
Alignment explanation
Indices: 30358849--30358888 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30358839 CATTTTCTAG
30358849 ATTTATTATTGAAGAATTA
1 ATTTATTATTGAAGAATTA
30358868 ATTTATTATTGAAGAATTA
1 ATTTATTATTGAAGAATTA
30358887 AT
1 AT
30358889 CTCCTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTTATTATTGAAGAATTA
Found at i:30369834 original size:27 final size:27
Alignment explanation
Indices: 30369763--30369848 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
30369753 TACAAATGAC
30369763 CCCACACGCCCGTGTGTGCCCGTGTGG
1 CCCACACGCCCGTGTGTGCCCGTGTGG
* ** * *
30369790 CCTACACGCTTGTATGTGCCTGTGTGG
1 CCCACACGCCCGTGTGTGCCCGTGTGG
* *
30369817 CCCACACACCCGTGTGTGCCCATGTGG
1 CCCACACGCCCGTGTGTGCCCGTGTGG
*
30369844 TCCAC
1 CCCAC
30369849 TCAGCCCAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.12, C:0.37, G:0.28, T:0.23
Consensus pattern (27 bp):
CCCACACGCCCGTGTGTGCCCGTGTGG
Found at i:30387829 original size:41 final size:41
Alignment explanation
Indices: 30387792--30387899 Score: 162
Period size: 41 Copynumber: 2.6 Consensus size: 41
30387782 ACCAAAGTGT
* * *
30387792 AAACAGGGCCACGTATATGCAATTCAGGGGTATCAAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTATCAAAGTAC
** *
30387833 AAGTAGGGGCACATATGTGCAATTCAGGGGTATCGAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTATCAAAGTAC
30387874 AAACAGGGGCACATATGTGCAATTCA
1 AAACAGGGGCACATATGTGCAATTCA
30387900 TAGAATAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACATATGTGCAATTCAGGGGTATCAAAGTAC
Found at i:30396866 original size:30 final size:31
Alignment explanation
Indices: 30396811--30396878 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
30396801 ACCCTTAAAA
** * **
30396811 TATTTACACTATTGGTCCTTCAAATTTTTCG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
30396842 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
30396872 TATTTAC
1 TATTTAC
30396879 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:30406266 original size:28 final size:28
Alignment explanation
Indices: 30406234--30406291 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
30406224 CCAGACTCAT
30406234 TTACACGATGTTTATTGCCAATATAATC
1 TTACACGATGTTTATTGCCAATATAATC
*
30406262 TTACACGATGTTTATTGCCAATATTATC
1 TTACACGATGTTTATTGCCAATATAATC
30406290 TT
1 TT
30406292 TGAGATTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (28 bp):
TTACACGATGTTTATTGCCAATATAATC
Found at i:30408101 original size:2 final size:2
Alignment explanation
Indices: 30408094--30408125 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30408084 AAAATGATAT
30408094 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
30408126 TGCCGCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30408498 original size:36 final size:36
Alignment explanation
Indices: 30408402--30408487 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 36
30408392 ATTATTAAAT
*
30408402 TAATATTAGAATAATAATTTATTAATATTATTACATGATAA
1 TAATA-TA-AATAAT-ATTAATTAA-A-TATTACATGATAA
* *
30408443 TAATATAAATAATATTAATTAAATATTACATTATAG
1 TAATATAAATAATATTAATTAAATATTACATGATAA
30408479 TAATATAAA
1 TAATATAAA
30408488 ATTAGTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 20 0.48
37 1 0.02
38 8 0.19
39 6 0.14
40 2 0.05
41 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.42
Consensus pattern (36 bp):
TAATATAAATAATATTAATTAAATATTACATGATAA
Found at i:30412237 original size:26 final size:27
Alignment explanation
Indices: 30412187--30412237 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
30412177 TTAATTAGTA
* * *
30412187 AATATATTTTTTTAAAAATTATAAACG
1 AATATATTATTTAAAAAAATATAAACG
30412214 AATATATTATTTAAAAAAAT-TAAA
1 AATATATTATTTAAAAAAATATAAA
30412238 AAAATAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
AATATATTATTTAAAAAAATATAAACG
Found at i:30414969 original size:2 final size:2
Alignment explanation
Indices: 30414962--30414986 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30414952 ATATTTTCAC
30414962 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30414987 AAGTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30416977 original size:49 final size:49
Alignment explanation
Indices: 30416905--30417004 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
30416895 GCAGGAAAGA
30416905 AAGCATATATAACATGCATATACAAGATAAAAACCATCCATTCCAATTC
1 AAGCATATATAACATGCATATACAAGATAAAAACCATCCATTCCAATTC
30416954 AAGCATATATAACATGCATATACAAGATAAAAACCATCCATTCCAATTC
1 AAGCATATATAACATGCATATACAAGATAAAAACCATCCATTCCAATTC
30417003 AA
1 AA
30417005 ACCTCTTTCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.24
Consensus pattern (49 bp):
AAGCATATATAACATGCATATACAAGATAAAAACCATCCATTCCAATTC
Found at i:30426159 original size:18 final size:18
Alignment explanation
Indices: 30426136--30426171 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
30426126 CTATAGACAT
30426136 CTAGTACCTTAGGGAAGG
1 CTAGTACCTTAGGGAAGG
30426154 CTAGTACCTTAGGGAAGG
1 CTAGTACCTTAGGGAAGG
30426172 TAGCTGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (18 bp):
CTAGTACCTTAGGGAAGG
Found at i:30430067 original size:21 final size:21
Alignment explanation
Indices: 30430019--30430080 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
30430009 CAATCAGCAC
30430019 ACTCAGATGCATCCACAACAA
1 ACTCAGATGCATCCACAACAA
* *
30430040 AGC-CAGATGCATCCACACCAG
1 A-CTCAGATGCATCCACAACAA
*
30430061 ACTCAGACGC-TGCCACAACA
1 ACTCAGATGCAT-CCACAACA
30430081 CTCTTCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.37, C:0.37, G:0.15, T:0.11
Consensus pattern (21 bp):
ACTCAGATGCATCCACAACAA
Found at i:30436147 original size:17 final size:17
Alignment explanation
Indices: 30436125--30436157 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30436115 GTTAGTGCAC
*
30436125 ATTGTCTTTGCATTTTT
1 ATTGTCATTGCATTTTT
30436142 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
30436158 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:30443841 original size:11 final size:11
Alignment explanation
Indices: 30443825--30443860 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
30443815 TGTCACGCCA
30443825 AAATAAACCCC
1 AAATAAACCCC
30443836 AAATAAACCCC
1 AAATAAACCCC
30443847 AAAATAAACCCC
1 -AAATAAACCCC
30443859 AA
1 AA
30443861 GCCAGTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.08
Consensus pattern (11 bp):
AAATAAACCCC
Found at i:30443851 original size:12 final size:12
Alignment explanation
Indices: 30443822--30443860 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
30443812 AATTGTCACG
30443822 CCAAAATAAACC
1 CCAAAATAAACC
30443834 CC-AAATAAACC
1 CCAAAATAAACC
30443845 CCAAAATAAACC
1 CCAAAATAAACC
30443857 CCAA
1 CCAA
30443861 GCCAGTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (12 bp):
CCAAAATAAACC
Found at i:30448019 original size:12 final size:12
Alignment explanation
Indices: 30448004--30448048 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
30447994 TATTTATTTT
*
30448004 ATAATTTTTGTG
1 ATAATCTTTGTG
30448016 ATAATCTTTGTG
1 ATAATCTTTGTG
30448028 ATAATCTTTGTG
1 ATAATCTTTGTG
*
30448040 ATATTCTTT
1 ATAATCTTT
30448049 TGTCATCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.56
Consensus pattern (12 bp):
ATAATCTTTGTG
Found at i:30450415 original size:28 final size:27
Alignment explanation
Indices: 30450384--30450440 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
30450374 AAATTCCTAT
30450384 TTGTGTTTTTATAAAAAAAAAATCATGA
1 TTGTGTTTTTAT-AAAAAAAAATCATGA
30450412 TTGTGTTTTTATAAAAAAAAATCATGA
1 TTGTGTTTTTATAAAAAAAAATCATGA
30450439 TT
1 TT
30450441 AAAGTTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (27 bp):
TTGTGTTTTTATAAAAAAAAATCATGA
Found at i:30450447 original size:28 final size:28
Alignment explanation
Indices: 30450388--30450452 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
30450378 TCCTATTTGT
**
30450388 GTTTTTATAAAAAAAAAATCATGATTGT
1 GTTTTTATAAAAAAAAAATCATGATTAA
30450416 GTTTTTAT-AAAAAAAAATCATGATTAAA
1 GTTTTTATAAAAAAAAAATCATGATT-AA
30450444 GTTTGTTAT
1 GTTT-TTAT
30450453 GATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 17 0.52
28 12 0.36
29 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (28 bp):
GTTTTTATAAAAAAAAAATCATGATTAA
Found at i:30455064 original size:20 final size:19
Alignment explanation
Indices: 30455040--30455087 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
30455030 TTTTCAACCC
* *
30455040 AAATTAATTATTTTCATTA
1 AAATTAATTAATTACATTA
* *
30455059 ATAATTATTTAATTACTTTA
1 A-AATTAATTAATTACATTA
30455079 AAATTAATT
1 AAATTAATT
30455088 TTCCAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
AAATTAATTAATTACATTA
Found at i:30456404 original size:4 final size:4
Alignment explanation
Indices: 30456395--30456439 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
30456385 AATTTAGTTA
* *
30456395 AATT AATT AATTT AATT AATT AATTT AATT AATT GATT AAAT AAT
1 AATT AATT AA-TT AATT AATT AA-TT AATT AATT AATT AATT AAT
30456440 ATTTCTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 27 0.77
5 8 0.23
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:30456413 original size:13 final size:13
Alignment explanation
Indices: 30456395--30456428 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
30456385 AATTTAGTTA
30456395 AATTAATTAATTT
1 AATTAATTAATTT
30456408 AATTAATTAATTT
1 AATTAATTAATTT
30456421 AATTAATT
1 AATTAATT
30456429 GATTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:30462338 original size:24 final size:24
Alignment explanation
Indices: 30462313--30462357 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
30462303 ATAACCTCTC
*
30462313 CCCCATTATCTC-CTAAAACAACT
1 CCCCATTAACTCGCTAAAACAACT
*
30462336 CCCTATTAACTCGCTAAAACAA
1 CCCCATTAACTCGCTAAAACAA
30462358 ATCTACTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (24 bp):
CCCCATTAACTCGCTAAAACAACT
Found at i:30471552 original size:16 final size:16
Alignment explanation
Indices: 30471521--30471554 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30471511 ACGCATTGAA
**
30471521 ATCTTACTGTCTGTAT
1 ATCTTACTGTAAGTAT
30471537 ATCTTACTGTAAGTAT
1 ATCTTACTGTAAGTAT
30471553 AT
1 AT
30471555 TCCATAAGTC
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:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (16 bp):
ATCTTACTGTAAGTAT
Found at i:30473237 original size:21 final size:21
Alignment explanation
Indices: 30473197--30473237 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30473187 GCTTTTGAAA
**
30473197 AGGAAGTTGCTGCTGCAGAAG
1 AGGAAGTTGCTGCTAAAGAAG
*
30473218 AGGAAGTTGTTGCTAAAGAA
1 AGGAAGTTGCTGCTAAAGAA
30473238 AAAAAAGTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.10, G:0.34, T:0.22
Consensus pattern (21 bp):
AGGAAGTTGCTGCTAAAGAAG
Found at i:30477052 original size:11 final size:11
Alignment explanation
Indices: 30477036--30477060 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30477026 TTTTTGTAAA
30477036 TAAAACAAAAT
1 TAAAACAAAAT
30477047 TAAAACAAAAT
1 TAAAACAAAAT
30477058 TAA
1 TAA
30477061 GTAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (11 bp):
TAAAACAAAAT
Found at i:30478009 original size:21 final size:21
Alignment explanation
Indices: 30477983--30478025 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30477973 TTCGGGTGGA
* *
30477983 TCAGCTTTTACGAGCTTCTGT
1 TCAGCTCTTACAAGCTTCTGT
30478004 TCAGCTCTTACAAGCTTCTGT
1 TCAGCTCTTACAAGCTTCTGT
30478025 T
1 T
30478026 GGCGTACTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACAAGCTTCTGT
Found at i:30478887 original size:30 final size:31
Alignment explanation
Indices: 30478853--30478917 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
30478843 ACGGCCTGAG
* *
30478853 ACACGGA-CTTGTGTATCAGTAGTGTGTGAC
1 ACACGGAGCGTGTGTATCAGCAGTGTGTGAC
* *
30478883 ACAC-GAGCGTGTGTTTCAGCCGTGTGTGAC
1 ACACGGAGCGTGTGTATCAGCAGTGTGTGAC
30478913 ACACG
1 ACACG
30478918 ACCATACGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (31 bp):
ACACGGAGCGTGTGTATCAGCAGTGTGTGAC
Found at i:30483716 original size:22 final size:20
Alignment explanation
Indices: 30483691--30483742 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
30483681 AGTTGAAAAA
30483691 ATTCAACATTTTGTATATTATT
1 ATTCAA-ATTTTGTATA-TATT
*
30483713 ATTCTAAATTTTTTATATATT
1 ATTC-AAATTTTGTATATATT
30483734 -TTCATAATT
1 ATTCA-AATT
30483743 AACTTTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 7 0.26
21 4 0.15
22 13 0.48
23 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTCAAATTTTGTATATATT
Found at i:30483913 original size:31 final size:31
Alignment explanation
Indices: 30483875--30483933 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
30483865 TACTCTAGTC
*
30483875 AAATTAAATTTTGTAGACAATTTATATATTG
1 AAATTAAATTTTGTAAACAATTTATATATTG
30483906 AAATTAAATTTTGTAAACAATTTATATA
1 AAATTAAATTTTGTAAACAATTTATATA
30483934 AAAATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (31 bp):
AAATTAAATTTTGTAAACAATTTATATATTG
Found at i:30487211 original size:19 final size:18
Alignment explanation
Indices: 30487176--30487210 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30487166 TTATTTTTGT
30487176 TTTTGTTCTTTTCTTTTC
1 TTTTGTTCTTTTCTTTTC
30487194 TTTT-TTCTCTTTCTTTT
1 TTTTGTTCT-TTTCTTTT
30487211 TTATCTCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTGTTCTTTTCTTTTC
Found at i:30487218 original size:15 final size:13
Alignment explanation
Indices: 30487184--30487212 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30487174 GTTTTTGTTC
30487184 TTTTCT-TTTCTT
1 TTTTCTCTTTCTT
30487196 TTTTCTCTTTCTT
1 TTTTCTCTTTCTT
30487209 TTTT
1 TTTT
30487213 ATCTCTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTCTTTCTT
Found at i:30492240 original size:51 final size:50
Alignment explanation
Indices: 30492172--30492511 Score: 294
Period size: 51 Copynumber: 6.7 Consensus size: 50
30492162 TACCCGGTTG
* * *
30492172 ACATAGTAGCTTACACATAGTACTACACATGTGACCATTTTCATCCGATAC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TCTCATCCGATAC
* * * *
30492223 ACGTAGTAGCTTGCACATAGTACTACACATGTGATCGAAGCT-ATCC-AGTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGA-C-CATCTCATCCGA-TAC
* * * *
30492274 GCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATCTCA-TCCGATAC
* * * *
30492324 ACATAGTAGCCTGCACATAATACTACACACGTGACAATTTTCATCCGATAC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TCTCATCCGATAC
* * * * * * * *
30492375 ACGTAGTAGCCTCCACATAGTACTACACACGTGATCGAAGCT-ATTCGGTAT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGA-C-CATCTCATCCGATAC
* * * * *
30492426 GCATAGTAGCCTACACATAGTACTACACATGCGACC-TGTCATTCCGATAT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATCTCA-TCCGATAC
* *
30492476 ACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACC
30492512 TAGCAACTTC
Statistics
Matches: 234, Mismatches: 43, Indels: 25
0.77 0.14 0.08
Matches are distributed among these distances:
48 2 0.01
49 2 0.01
50 77 0.33
51 142 0.61
52 8 0.03
53 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGACCATCTCATCCGATAC
Found at i:30492382 original size:101 final size:100
Alignment explanation
Indices: 30492175--30492513 Score: 328
Period size: 101 Copynumber: 3.4 Consensus size: 100
30492165 CCGGTTGACA
* * * * * * *
30492175 TAGTAGCTTACACATAGTACTACACATGTGACCATTTTCA-TCCGATACACGTAGTAGCTTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC--TATCATTCCGGTACACATAGTAGCCTGCAC
* * *
30492239 ATAGTACTACACATGTGATCGAAGCT-ATCC-AGTACGCA
64 ATAGTACTACACATGTGA-C-AATCTCATCCGA-TACACG
* *
30492277 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATAGTAGCCTGCACAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCCGGTACACATAGTAGCCTGCACAT
* * *
30492342 AATACTACACACGTGACAATTTTCATCCGATACACG
66 AGTACTACACATGTGACAA-TCTCATCCGATACACG
* ** * ** *
30492378 TAGTAGCCTCCACATAGTACTACACACGTGATCGAAGCTATT-CGGTATGCATAGTAGCCTACAC
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCTATC-ATTCCGGTACACATAGTAGCCTGCAC
* * * *
30492442 ATAGTACTACACATGCGAC-CTGTCATTCCGATATACG
64 ATAGTACTACACATGTGACAATCTCA-TCCGATACACG
30492479 TAGTAGCCTGCACATAGTACTACACACGTGACCTA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCTA
30492514 GCAACTTCAC
Statistics
Matches: 199, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
99 2 0.01
100 12 0.06
101 113 0.57
102 69 0.35
103 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCCGGTACACATAGTAGCCTGCACAT
AGTACTACACATGTGACAATCTCATCCGATACACG
Found at i:30492443 original size:152 final size:152
Alignment explanation
Indices: 30492172--30492510 Score: 534
Period size: 152 Copynumber: 2.2 Consensus size: 152
30492162 TACCCGGTTG
* * * * * *
30492172 ACATAGTAGCTTACACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCTTGC
1 ACATAGTAGCCTGCACATAGTACTACACACGTGACAATTTTCATCCGATACACGTAGTAGCCTCC
* *
30492237 ACATAGTACTACACATGTGATCGAAGCTATCCAGTACGCATAGTAGCCTGCACATAGTACTACAC
66 ACATAGTACTACACACGTGATCGAAGCTATCCAGTACGCATAGTAGCCTACACATAGTACTACAC
*
30492302 ATGCGACCTATCATTCCGGTAC
131 ATGCGACCTATCATTCCGATAC
*
30492324 ACATAGTAGCCTGCACATAATACTACACACGTGACAATTTTCATCCGATACACGTAGTAGCCTCC
1 ACATAGTAGCCTGCACATAGTACTACACACGTGACAATTTTCATCCGATACACGTAGTAGCCTCC
* * *
30492389 ACATAGTACTACACACGTGATCGAAGCTATTCGGTATGCATAGTAGCCTACACATAGTACTACAC
66 ACATAGTACTACACACGTGATCGAAGCTATCCAGTACGCATAGTAGCCTACACATAGTACTACAC
* *
30492454 ATGCGACCTGTCATTCCGATAT
131 ATGCGACCTATCATTCCGATAC
*
30492476 ACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 ACATAGTAGCCTGCACATAGTACTACACACGTGAC
30492511 CTAGCAACTT
Statistics
Matches: 170, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 170 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (152 bp):
ACATAGTAGCCTGCACATAGTACTACACACGTGACAATTTTCATCCGATACACGTAGTAGCCTCC
ACATAGTACTACACACGTGATCGAAGCTATCCAGTACGCATAGTAGCCTACACATAGTACTACAC
ATGCGACCTATCATTCCGATAC
Found at i:30494525 original size:27 final size:28
Alignment explanation
Indices: 30494495--30494556 Score: 108
Period size: 27 Copynumber: 2.2 Consensus size: 28
30494485 AATCAAACAG
30494495 AAATGAATAGAAATGGG-AAAAAATGGA
1 AAATGAATAGAAATGGGAAAAAAATGGA
*
30494522 AAATGAATAGAAATGGGAAAAAAATGGG
1 AAATGAATAGAAATGGGAAAAAAATGGA
30494550 AAATGAA
1 AAATGAA
30494557 AATGAAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 17 0.52
28 16 0.48
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.15
Consensus pattern (28 bp):
AAATGAATAGAAATGGGAAAAAAATGGA
Found at i:30495728 original size:13 final size:12
Alignment explanation
Indices: 30495710--30495756 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
30495700 GTTTTAAAAC
30495710 ATGTTTTCAAGTT
1 ATGTTTT-AAGTT
30495723 ATGTTTTTAAGTT
1 ATG-TTTTAAGTT
*
30495736 ATGTTTTAAATAT
1 ATGTTTTAAGT-T
30495749 ATGTTTTA
1 ATGTTTTA
30495757 TGTGTGCTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 7 0.23
13 20 0.65
14 4 0.13
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (12 bp):
ATGTTTTAAGTT
Found at i:30499749 original size:6 final size:6
Alignment explanation
Indices: 30499738--30499788 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
30499728 GAATTAATAT
30499738 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
30499786 TGT
1 TGT
30499789 GGGTATAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (6 bp):
TGTATA
Found at i:30501133 original size:57 final size:57
Alignment explanation
Indices: 30501043--30501160 Score: 209
Period size: 57 Copynumber: 2.1 Consensus size: 57
30501033 TTTTCCATAA
* *
30501043 CATGTGTTAAATAAGCCTATTTAGTGTCGTTTTTAACCCTAGGTTAGTTGCCATCCT
1 CATGTGTTAAATAAACCTATTTAGTGTCATTTTTAACCCTAGGTTAGTTGCCATCCT
*
30501100 CATGTGTTAAATAAACCTATTTAGTGTCATTTTTAACCCTAGGTTAGTTTCCATCCT
1 CATGTGTTAAATAAACCTATTTAGTGTCATTTTTAACCCTAGGTTAGTTGCCATCCT
30501157 CATG
1 CATG
30501161 CTAAATGTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (57 bp):
CATGTGTTAAATAAACCTATTTAGTGTCATTTTTAACCCTAGGTTAGTTGCCATCCT
Found at i:30502681 original size:48 final size:48
Alignment explanation
Indices: 30502626--30502747 Score: 210
Period size: 48 Copynumber: 2.5 Consensus size: 48
30502616 AGTCACATAT
30502626 GTGGCACGGATTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGATTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
*
30502674 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGATTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
*
30502722 GTGGCACGGACTT-TGTGTAGGCCACC
1 GTGGCACGGA-TTGTGTGCAGGCCACC
30502748 GAGAGTCTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (48 bp):
GTGGCACGGATTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
Found at i:30502773 original size:48 final size:48
Alignment explanation
Indices: 30502626--30502799 Score: 186
Period size: 48 Copynumber: 3.6 Consensus size: 48
30502616 AGTCACATAT
* * * * * * *
30502626 GTGGCACGGATTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGTAGGCCACCGAGAGTCTATTAAGACACAAGG
* * * * * *
30502674 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGTAGGCCACCGAGAGTCTATTAAGACACAAGG
* ** *
30502722 GTGGCACGGACTTTGTGTAGGCCACCGAGAGTCTATTATTACACAAAG
1 GTGGCACGGACTGTGTGTAGGCCACCGAGAGTCTATTAAGACACAAGG
*
30502770 GTGGTACGGACTGTGTGTAGGCCACCGAGA
1 GTGGCACGGACTGTGTGTAGGCCACCGAGA
30502800 AATCTGTTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 113 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GTGGCACGGACTGTGTGTAGGCCACCGAGAGTCTATTAAGACACAAGG
Found at i:30504350 original size:30 final size:30
Alignment explanation
Indices: 30504314--30504377 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
30504304 TATTTATTAT
*
30504314 GAATACAATATTTCTAGGATAAGTTGTAAA
1 GAATACAATATTTCCAGGATAAGTTGTAAA
*
30504344 GAATACAATATTTCCAGGATAGGTTGTAAA
1 GAATACAATATTTCCAGGATAAGTTGTAAA
30504374 GAAT
1 GAAT
30504378 TATAAAAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (30 bp):
GAATACAATATTTCCAGGATAAGTTGTAAA
Found at i:30505330 original size:114 final size:114
Alignment explanation
Indices: 30505129--30505360 Score: 412
Period size: 114 Copynumber: 2.0 Consensus size: 114
30505119 TCTATGATAT
30505129 GTGATGAATTGACGGAAAAGGCCATGTTTTGACCATGACAATATATGGAAATGTGATTATGTGTT
1 GTGATGAATTGACGGAAAAGGCCATGTTTTGACCATGACAATATATGGAAATGTGATTATGTGTT
30505194 TCCGTGTAAGACAATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGAC
66 TCCGTGTAAGACAATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGAC
* *
30505243 GTGATGAATTGATGGAAAAGGCCATGTTTTGACCATGGCAATATATGGAAATGTGATTATGTGTT
1 GTGATGAATTGACGGAAAAGGCCATGTTTTGACCATGACAATATATGGAAATGTGATTATGTGTT
* *
30505308 TCCGTGTAAGAGC-ATAGTTGGGCTATGGCTTCGGTGTGTGATATGTGAT
66 TCCGTGTAAGA-CAATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGAC
30505357 GTGA
1 GTGA
30505361 CGATGTGTAA
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
114 112 0.99
115 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (114 bp):
GTGATGAATTGACGGAAAAGGCCATGTTTTGACCATGACAATATATGGAAATGTGATTATGTGTT
TCCGTGTAAGACAATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGAC
Found at i:30505557 original size:186 final size:186
Alignment explanation
Indices: 30505243--30505579 Score: 629
Period size: 186 Copynumber: 1.8 Consensus size: 186
30505233 GATATGTGAC
* *
30505243 GTGATGAATTGATGGAAAAGGCCATGTTTTGACCATGGCAATATATGGAAATGTGATTATGTGTT
1 GTGATGAATTGACGGAAAAGGCCATGTTTTGACCATGGCAATATACGGAAATGTGATTATGTGTT
* *
30505308 TCCGTGTAAGAGCATAGTTGGGCTATGGCTTCGGTGTGTGATATGTGATGTGACGATGTGTAAGA
66 TCCGTGTAAGACCATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGATGTGACGATGTGTAAGA
30505373 CCATAGTTATACTATGGCAATATAACGCAGGAGTGAGTACTTTTGTTCTATTATAT
131 CCATAGTTATACTATGGCAATATAACGCAGGAGTGAGTACTTTTGTTCTATTATAT
*
30505429 GTGATGAATTGACGGAAAATGCCATGTTTTGACCATGGCAATATACGGAAATGTGATTATGTGTT
1 GTGATGAATTGACGGAAAAGGCCATGTTTTGACCATGGCAATATACGGAAATGTGATTATGTGTT
30505494 TCCGTGTAAGACCATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGATGTGACGATGTGTAAGA
66 TCCGTGTAAGACCATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGATGTGACGATGTGTAAGA
30505559 CCATAGTTATACTATGGCAAT
131 CCATAGTTATACTATGGCAAT
30505580 GTGAAAACGA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
186 146 1.00
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (186 bp):
GTGATGAATTGACGGAAAAGGCCATGTTTTGACCATGGCAATATACGGAAATGTGATTATGTGTT
TCCGTGTAAGACCATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGATGTGACGATGTGTAAGA
CCATAGTTATACTATGGCAATATAACGCAGGAGTGAGTACTTTTGTTCTATTATAT
Found at i:30508727 original size:48 final size:47
Alignment explanation
Indices: 30508596--30508765 Score: 169
Period size: 48 Copynumber: 3.6 Consensus size: 47
30508586 GGTCGCATAT
* * * *
30508596 GTGGTACGAACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAAGATTCTGTT-ATATACAAGG
* * * *
30508644 ATGGCAGGGACTGTGTGCAGGCCACTAATATTCTGTTCATATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAAGATTCTGTT-ATATACAAGG
* * * * * *
30508692 GTGGCACAGACTATGTGCAGGCCACCGAGAGTCTGTTATTACACAAAG
1 GTGGCACGGACTGTGTGCAGGCCACCAAGATTCTGTTA-TATACAAGG
* *
30508740 GTGGTACGGACTGTGTGTAGGCCACC
1 GTGGCACGGACTGTGTGCAGGCCACC
30508766 GAGAAATCTG
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 99 0.99
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (47 bp):
GTGGCACGGACTGTGTGCAGGCCACCAAGATTCTGTTATATACAAGG
Found at i:30515908 original size:57 final size:57
Alignment explanation
Indices: 30515804--30515922 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
30515794 ATAGAAATGG
30515804 TGAAAATGGAGAAATGGGAAACATTTGGAAATGATCATGGTTCTCTCCAAAATGAAAA
1 TGAAAATGGAGAAAT-GGAAACATTTGGAAATGATCATGGTTCTCTCCAAAATGAAAA
*
30515862 TGAAAATGGAGAAAT-GAAATCATTTGGAAATGAAT-GTGGCTT-TCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGGAAA-CATTTGGAAATG-ATCATGG-TTCTCTCCAAAATGAAAA
30515919 TGAA
1 TGAA
30515923 TTTATGTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
56 4 0.07
57 34 0.60
58 19 0.33
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (57 bp):
TGAAAATGGAGAAATGGAAACATTTGGAAATGATCATGGTTCTCTCCAAAATGAAAA
Found at i:30517344 original size:35 final size:39
Alignment explanation
Indices: 30517306--30517400 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
30517296 CTTTATATAT
* *
30517306 TTGTCTTTTTGTCTTTTT-TT-CAT-TTAT-TTTTGTTT
1 TTGTTTTTTTGTCTTTTTCTTACATATTATGTTTTCTTT
*
30517341 TTGTTTTTATTTTCTTTTTCTTACATATTATGTTTTCTTT
1 TTGTTTTT-TTGTCTTTTTCTTACATATTATGTTTTCTTT
*
30517381 GTTGTTTTTTT-TATTTTTCT
1 -TTGTTTTTTTGTCTTTTTCT
30517401 ATATAGGTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
35 7 0.14
36 9 0.18
37 2 0.04
38 3 0.06
39 12 0.24
40 9 0.18
41 8 0.16
ACGTcount: A:0.08, C:0.08, G:0.07, T:0.76
Consensus pattern (39 bp):
TTGTTTTTTTGTCTTTTTCTTACATATTATGTTTTCTTT
Found at i:30519042 original size:65 final size:65
Alignment explanation
Indices: 30518938--30519065 Score: 202
Period size: 65 Copynumber: 2.0 Consensus size: 65
30518928 TAGCTAAACA
* * **
30518938 TTAATCCTAAGTTGTATGTTAGATATGTCTTTCCATATTCAATATGCAATTGCGGTGTATCTTCT
1 TTAATCCTAAGTTGTATGTTAGATACGTCTATCCATATTCAATATGCAATTGCCATGTATCTTCT
* *
30519003 TTAATCCTAAGTTGTATGTTAGATACGTCTATGCATATTCAATATTCAATTGCCATGTATCTT
1 TTAATCCTAAGTTGTATGTTAGATACGTCTATCCATATTCAATATGCAATTGCCATGTATCTT
30519066 GTTGCTCAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (65 bp):
TTAATCCTAAGTTGTATGTTAGATACGTCTATCCATATTCAATATGCAATTGCCATGTATCTTCT
Found at i:30519971 original size:5 final size:5
Alignment explanation
Indices: 30519961--30519991 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
30519951 TTAGGTTTTC
30519961 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
30519992 AGAATATATT
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:30521291 original size:27 final size:23
Alignment explanation
Indices: 30521237--30521281 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
30521227 TGCTAAAGCA
30521237 TGTAGGTTATGGATAAACCACCT
1 TGTAGGTTATGGATAAACCACCT
*
30521260 TGTAGGTTGTGGATAAACCACC
1 TGTAGGTTATGGATAAACCACC
30521282 AAATTTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (23 bp):
TGTAGGTTATGGATAAACCACCT
Found at i:30522124 original size:11 final size:11
Alignment explanation
Indices: 30522108--30522149 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
30522098 AAAGATGATC
30522108 AAAGAAAAGAG
1 AAAGAAAAGAG
30522119 AAAGAAAAGAG
1 AAAGAAAAGAG
30522130 -AAGAAGAAGTAG
1 AAAGAA-AAG-AG
30522142 TAAAGAAA
1 -AAAGAAA
30522150 TGTGTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.19
11 14 0.52
12 2 0.07
13 1 0.04
14 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (11 bp):
AAAGAAAAGAG
Found at i:30524346 original size:33 final size:33
Alignment explanation
Indices: 30524296--30524375 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
30524286 ACTTACCCTG
* * * *
30524296 TGTTTACTATCCTAGCAGACTGTCTCTGTTCTA
1 TGTTTACTGTCCCAGCAGACTATATCTGTTCTA
* *
30524329 TGTTTACTGTCCCAGCAGACTATATTTGTTCTG
1 TGTTTACTGTCCCAGCAGACTATATCTGTTCTA
30524362 TGTTTACTGTCCCA
1 TGTTTACTGTCCCA
30524376 ATGGATTGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTTTACTGTCCCAGCAGACTATATCTGTTCTA
Found at i:30529626 original size:26 final size:26
Alignment explanation
Indices: 30529592--30529641 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
30529582 ATCTTTAAAT
* *
30529592 TAATTTCACAAAATTTCAGAAAATCG
1 TAATATCACAAAATTCCAGAAAATCG
30529618 TAATATCACAAAATTCCAGAAAAT
1 TAATATCACAAAATTCCAGAAAAT
30529642 TGGTTCATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (26 bp):
TAATATCACAAAATTCCAGAAAATCG
Found at i:30530518 original size:170 final size:171
Alignment explanation
Indices: 30530236--30530576 Score: 675
Period size: 170 Copynumber: 2.0 Consensus size: 171
30530226 CTTTTAAAAA
30530236 CTGGGAAATTTGCCTAATAGCCATTTAATCGTTTCCATCCAAAATTCTAAATTTTAAGGTTTATT
1 CTGGGAAATTTGCCTAATAGCCATTTAATCGTTTCCATCCAAAATTCTAAATTTTAAGGTTTATT
30530301 TGTCATATAAGTACTCTAAATTTTCCATTTTTTACAATTAAATCTTATTTAATTAATATTTAAAT
66 TGTCATATAAGTACTCTAAATTTTCCATTTTTTACAATTAAATCTTATTTAATTAATATTTAAAT
30530366 TTTACTCAAATTACCCCCAATAAAAATTA-TTTAAAATTAT
131 TTTACTCAAATTACCCCCAATAAAAATTATTTTAAAATTAT
30530406 CTGGGAAATTTGCCTAATAGCCATTTAATCGTTTCCATCCAAAATTCTAAATTTTAAGGTTTATT
1 CTGGGAAATTTGCCTAATAGCCATTTAATCGTTTCCATCCAAAATTCTAAATTTTAAGGTTTATT
30530471 TGTCATATAAGTACTCTAAATTTTCCATTTTTTACAATTAAATCTTATTTAATTAATATTTAAAT
66 TGTCATATAAGTACTCTAAATTTTCCATTTTTTACAATTAAATCTTATTTAATTAATATTTAAAT
30530536 TTTACTCAAATTACCCCCAATAAAAATTATTTTAAAATTAT
131 TTTACTCAAATTACCCCCAATAAAAATTATTTTAAAATTAT
30530577 TTTTCAACCC
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
170 159 0.94
171 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (171 bp):
CTGGGAAATTTGCCTAATAGCCATTTAATCGTTTCCATCCAAAATTCTAAATTTTAAGGTTTATT
TGTCATATAAGTACTCTAAATTTTCCATTTTTTACAATTAAATCTTATTTAATTAATATTTAAAT
TTTACTCAAATTACCCCCAATAAAAATTATTTTAAAATTAT
Found at i:30531646 original size:20 final size:20
Alignment explanation
Indices: 30531621--30531669 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
30531611 TTGTATGAAA
30531621 GTTACACGGCCTGGGGTAAT
1 GTTACACGGCCTGGGGTAAT
30531641 GTTACACGGCCTGGGGTAAT
1 GTTACACGGCCTGGGGTAAT
*
30531661 GTCACACGG
1 GTTACACGG
30531670 TCGTGTGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.22
Consensus pattern (20 bp):
GTTACACGGCCTGGGGTAAT
Found at i:30535283 original size:163 final size:163
Alignment explanation
Indices: 30535004--30535326 Score: 547
Period size: 163 Copynumber: 2.0 Consensus size: 163
30534994 AAGCCTAAAG
* *
30535004 TATTTGATGTCATAGAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTATTAGAAGATTA
1 TATTTGATGTCACAGAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTATTAAAAGATTA
* *
30535069 CGATTTGATCATCGACTATCATCTAGGAAAAGCTAATATTGTTGTTGATGCTTTAAGTAGAAAAT
66 CGATTTGATCATCGACTATCATCTAGGAAAAGCTAATATCGTTGCTGATGCTTTAAGTAGAAAAT
*
30535134 CTTTGTGTACCTTGAGAGCTTTGAATACTCAGT
131 CTTTGTGTACCTTGAGAGATTTGAATACTCAGT
* * *
30535167 TATTTGATGTCACAGAAAGAACTGAATTTGAGACAACGTAGATGGTTTGAGTTGTTAAAAGATTA
1 TATTTGATGTCACAGAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTATTAAAAGATTA
*
30535232 CGATTTGATCATCGACTATCATCTAGGAAAAGCTAATGTCGTTGCTGATGCTTTAAGTAGAAAAT
66 CGATTTGATCATCGACTATCATCTAGGAAAAGCTAATATCGTTGCTGATGCTTTAAGTAGAAAAT
* *
30535297 CTTTTTTTACCTTGAGAGATTTGAATACTC
131 CTTTGTGTACCTTGAGAGATTTGAATACTC
30535327 GATTGACATT
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
163 149 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (163 bp):
TATTTGATGTCACAGAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTATTAAAAGATTA
CGATTTGATCATCGACTATCATCTAGGAAAAGCTAATATCGTTGCTGATGCTTTAAGTAGAAAAT
CTTTGTGTACCTTGAGAGATTTGAATACTCAGT
Found at i:30543506 original size:6 final size:6
Alignment explanation
Indices: 30543495--30543525 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
30543485 AAAACACAAT
30543495 TTGGCA TTGGCA TTGGCA TTGGCA TTGGCA T
1 TTGGCA TTGGCA TTGGCA TTGGCA TTGGCA T
30543526 CCCCCTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (6 bp):
TTGGCA
Found at i:30551622 original size:23 final size:21
Alignment explanation
Indices: 30551572--30551630 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
30551562 AGGCATAATA
30551572 TTAAATTTAG-C-TTTTTTTT
1 TTAAATTTAGTCATTTTTTTT
30551591 TTATCAATTTAGTCATTTTTTTT
1 TTA--AATTTAGTCATTTTTTTT
*
30551614 AGTTAAATTTGGTCATT
1 --TTAAATTTAGTCATT
30551631 AACCTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 3 0.09
21 7 0.21
22 1 0.03
23 19 0.58
25 3 0.09
ACGTcount: A:0.24, C:0.07, G:0.08, T:0.61
Consensus pattern (21 bp):
TTAAATTTAGTCATTTTTTTT
Found at i:30551812 original size:14 final size:14
Alignment explanation
Indices: 30551776--30551802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30551766 ATAATTTAAA
30551776 ATTTAAAAAAAAGC
1 ATTTAAAAAAAAGC
30551790 ATTTAAAAAAAAG
1 ATTTAAAAAAAAG
30551803 TTCTTAAAAA
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:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
ATTTAAAAAAAAGC
Found at i:30553186 original size:25 final size:25
Alignment explanation
Indices: 30553158--30553207 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30553148 GGATTATAAG
30553158 ATAGGAGTACAAAATTCCTAAAAAT
1 ATAGGAGTACAAAATTCCTAAAAAT
30553183 ATAGGAGTACAAAATTCCTAAAAAT
1 ATAGGAGTACAAAATTCCTAAAAAT
30553208 TATGGTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (25 bp):
ATAGGAGTACAAAATTCCTAAAAAT
Found at i:30553523 original size:19 final size:19
Alignment explanation
Indices: 30553501--30553538 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30553491 AAAATAAATG
*
30553501 GAAATAAAAAGAATAGAAA
1 GAAACAAAAAGAATAGAAA
*
30553520 GAAACGAAAAGAATAGAAA
1 GAAACAAAAAGAATAGAAA
30553539 TAATAGTTGG
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:0.71, C:0.03, G:0.18, T:0.08
Consensus pattern (19 bp):
GAAACAAAAAGAATAGAAA
Found at i:30562729 original size:26 final size:27
Alignment explanation
Indices: 30562700--30562750 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
30562690 GACCGTAATG
*
30562700 CCCCTAGAGGGTAAATGACT-ATTTTT
1 CCCCTAGAAGGTAAATGACTGATTTTT
* *
30562726 CCCCTCGAATGTAAATGACTGATTT
1 CCCCTAGAAGGTAAATGACTGATTT
30562751 GTGCTATAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
CCCCTAGAAGGTAAATGACTGATTTTT
Found at i:30567458 original size:30 final size:30
Alignment explanation
Indices: 30567406--30567463 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
30567396 ACCTTTTATC
*
30567406 TTTCCCCAAAATTTTTACTCCC-TCCCACT
1 TTTCCCCAAAACTTTTACTCCCTTCCCACT
*
30567435 TTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTCCCC-AAAACTTTTACTCCCTTCCCA
30567464 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTCCCCAAAACTTTTACTCCCTTCCCACT
Done.