Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 57 of 138
Found at i:11716503 original size:15 final size:17
Alignment explanation
Indices: 11716473--11716524 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 17
11716463 ATAAAATAAT
11716473 TTATTTATTATTTAAAA
1 TTATTTATTATTTAAAA
11716490 TTATTT-TT-TTTAAAA
1 TTATTTATTATTTAAAA
* *
11716505 TT-TATATAATTT-AAA
1 TTATTTATTATTTAAAA
11716520 TTATT
1 TTATT
11716525 AATATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 2 0.07
15 15 0.52
16 6 0.21
17 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTATTATTTAAAA
Found at i:11717512 original size:32 final size:32
Alignment explanation
Indices: 11717471--11717534 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
11717461 AAATACAATG
*
11717471 TGGATCTACGAGGCAACTTTATCAGAAACAAC
1 TGGATCTACGAGACAACTTTATCAGAAACAAC
*
11717503 TGGATCTACGAGATAACTTTATCAGAAACAAC
1 TGGATCTACGAGACAACTTTATCAGAAACAAC
11717535 CATAATGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.23
Consensus pattern (32 bp):
TGGATCTACGAGACAACTTTATCAGAAACAAC
Found at i:11725007 original size:28 final size:28
Alignment explanation
Indices: 11724952--11725007 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
11724942 CACTAACCGA
*
11724952 TTTGTTTATTTTTGTAGCTTATGATTTT
1 TTTGTTTATTTTTGTAGATTATGATTTT
* *
11724980 TTTGTTTA-TTTTGTATATTTTGATTTT
1 TTTGTTTATTTTTGTAGATTATGATTTT
11725007 T
1 T
11725008 CATGTGCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.71
Consensus pattern (28 bp):
TTTGTTTATTTTTGTAGATTATGATTTT
Found at i:11728573 original size:7 final size:7
Alignment explanation
Indices: 11728561--11728600 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
11728551 ATTTGAAAAA
11728561 AAAAATG
1 AAAAATG
11728568 AAAAATG
1 AAAAATG
11728575 AAAAATG
1 AAAAATG
11728582 AAAAATG
1 AAAAATG
*
11728589 AATAAAAG
1 AA-AAATG
11728597 AAAA
1 AAAA
11728601 CTTGATGGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:11728585 original size:21 final size:20
Alignment explanation
Indices: 11728554--11728600 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
11728544 GATCAAAATT
11728554 TGAAAAAAAAAATGAA-AAA
1 TGAAAAAAAAAATGAATAAA
11728573 TGAAAAATGAAAAATGAATAAA
1 TGAAAAA--AAAAATGAATAAA
*
11728595 AGAAAA
1 TGAAAA
11728601 CTTGATGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (20 bp):
TGAAAAAAAAAATGAATAAA
Found at i:11730083 original size:41 final size:43
Alignment explanation
Indices: 11729996--11730109 Score: 137
Period size: 41 Copynumber: 2.6 Consensus size: 43
11729986 TTGTGTACCT
*
11729996 TTTTACTTTTTCAAAAGTTTTAAAGCC-TCTAATGGAGGGGAGCA
1 TTTTA-TTTTTCAAAA-TTTTAAAGCCTTCTAATGGAGGGGAACA
*
11730040 TTTTATTTTTC-AAATTTTCAAAGCCTTC-GAT-GAGGGGAACA
1 TTTTATTTTTCAAAATTTT-AAAGCCTTCTAATGGAGGGGAACA
11730081 TTTTATTTTTCAAAATGTTTTAAAGCCTT
1 TTTTATTTTTCAAAA--TTTTAAAGCCTT
11730110 GGTTGGGAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
41 24 0.38
42 14 0.22
43 16 0.25
44 9 0.14
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (43 bp):
TTTTATTTTTCAAAATTTTAAAGCCTTCTAATGGAGGGGAACA
Found at i:11730356 original size:41 final size:41
Alignment explanation
Indices: 11730271--11730369 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
11730261 AGCCCTGATT
**
11730271 GGGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTTTAGTAGG
1 GGGAGCA-TTTATTTTTCAAAAGTTTCAAAGCCTCGAGTAGG
* *
11730313 GGGAGCATTTATTTTTCCAAAGTTTCAAAGCCTCCGA-TGGG
1 GGGAGCATTTATTTTTCAAAAGTTTCAAAGCCT-CGAGTAGG
* *
11730354 GGGAGCTTTTTTTTTT
1 GGGAGCATTTATTTTT
11730370 TTTTTTGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 42 0.84
42 8 0.16
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (41 bp):
GGGAGCATTTATTTTTCAAAAGTTTCAAAGCCTCGAGTAGG
Found at i:11730566 original size:43 final size:43
Alignment explanation
Indices: 11730516--11730634 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 43
11730506 GTGAATGGCT
*
11730516 CACTTTAAATTTCCTAAAATTTCAAAGCCTCTGGTAAGG-GGAG
1 CACTTTAAATTTCC-AAAATTTCAAAGCCTCTGGTAAGGTAGAG
* * * * *
11730559 CATTTTAAAATTTTCAAAGTTTCAAAGCCTCTGTTGAGGTAGAG
1 CACTTT-AAATTTCCAAAATTTCAAAGCCTCTGGTAAGGTAGAG
*
11730603 CACTTTAGATTTTCCAAAATTTCAAAGCCTCT
1 CACTTTA-AATTTCCAAAATTTCAAAGCCTCT
11730635 ACTGAGGAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 27 0.43
44 36 0.57
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (43 bp):
CACTTTAAATTTCCAAAATTTCAAAGCCTCTGGTAAGGTAGAG
Found at i:11730628 original size:44 final size:42
Alignment explanation
Indices: 11730516--11730651 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 42
11730506 GTGAATGGCT
* * * *
11730516 CACTTTAAATTTCCTAAAATTTCAAAGCCTCTGGTAAGGGGAG
1 CACTTTAATTTTCC-AAAATTTCAAAGCCTCTGCTGAGGAGAG
* * *
11730559 CATTTTAAAATTTT-CAAAGTTTCAAAGCCTCTGTTGAGGTAGAG
1 CACTTT--AATTTTCCAAAATTTCAAAGCCTCTGCTGAGG-AGAG
*
11730603 CACTTTAGATTTTCCAAAATTTCAAAGCCTCTACTGAGGAAGAG
1 CACTTTA-ATTTTCCAAAATTTCAAAGCCTCTGCTGAGG-AGAG
11730647 C-CTTT
1 CACTTT
11730652 TTTTATTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
42 1 0.01
43 35 0.45
44 36 0.47
45 5 0.06
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (42 bp):
CACTTTAATTTTCCAAAATTTCAAAGCCTCTGCTGAGGAGAG
Found at i:11730919 original size:17 final size:18
Alignment explanation
Indices: 11730887--11730920 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11730877 ACATAAATTT
*
11730887 TGATTTTTTTTAAGATTG
1 TGATTTTATTTAAGATTG
11730905 TGATTTTATTT-AGATT
1 TGATTTTATTTAAGATT
11730921 TGAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
TGATTTTATTTAAGATTG
Found at i:11731446 original size:11 final size:11
Alignment explanation
Indices: 11731417--11731458 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
11731407 TACTTATTTG
*
11731417 TTTATTTCTATA
1 TTTATTTAT-TA
11731429 TTTATTTATTCA
1 TTTATTTATT-A
11731441 -TTATTTATTA
1 TTTATTTATTA
11731451 TTTATTTA
1 TTTATTTA
11731459 GGTTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 17 0.63
12 9 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:11731527 original size:23 final size:23
Alignment explanation
Indices: 11731493--11731538 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11731483 TTATGTAAAT
*
11731493 AAAAATAGAAATATATTTTTTTA
1 AAAAATAGAAATATATTATTTTA
11731516 AAAAAT-GTAAATATATTATTTTA
1 AAAAATAG-AAATATATTATTTTA
11731539 TAATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAAATAGAAATATATTATTTTA
Found at i:11733778 original size:21 final size:17
Alignment explanation
Indices: 11733745--11733787 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
11733735 ACAACAATTT
11733745 AAAATAAATGAAATGATTA
1 AAAATAAATGAAATG--TA
11733764 AAAATAAGCATGAAATGTA
1 AAAATAA--ATGAAATGTA
11733783 AAAAT
1 AAAAT
11733788 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (17 bp):
AAAATAAATGAAATGTA
Found at i:11734922 original size:38 final size:38
Alignment explanation
Indices: 11734880--11734961 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
11734870 TCTAGGATTT
* *
11734880 GGGTTTAGG-TAAAGGTTTAGGGGTTTGGGATTGGTTTA
1 GGGTTTAGGTTAAAGGTTTA-GGATTTAGGATTGGTTTA
* *
11734918 GGGTTTAGGTTTAGGGTTTAGGATTTAGGATTGGTTTA
1 GGGTTTAGGTTAAAGGTTTAGGATTTAGGATTGGTTTA
11734956 GGGTTT
1 GGGTTT
11734962 TTGATCTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 31 0.79
39 8 0.21
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (38 bp):
GGGTTTAGGTTAAAGGTTTAGGATTTAGGATTGGTTTA
Found at i:11734928 original size:6 final size:6
Alignment explanation
Indices: 11734866--11734957 Score: 53
Period size: 6 Copynumber: 14.7 Consensus size: 6
11734856 TAGTTTAATC
* * * * * *
11734866 TAGGTC TAGGATT TGGGTT TAGGTA AAGGTT TAGGGGTT TGGGAT T-GGTT
1 TAGGTT TAGG-TT TAGGTT TAGGTT TAGGTT TA--GGTT TAGGTT TAGGTT
*
11734916 TAGGGTT TAGGTT TAGGGTT TAGGATT TAGGAT T-GGTT TAGG
1 TA-GGTT TAGGTT TA-GGTT TAGG-TT TAGGTT TAGGTT TAGG
11734958 GTTTTTGATC
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
5 8 0.12
6 31 0.47
7 22 0.33
8 5 0.08
ACGTcount: A:0.18, C:0.01, G:0.39, T:0.41
Consensus pattern (6 bp):
TAGGTT
Found at i:11734930 original size:13 final size:13
Alignment explanation
Indices: 11734912--11734961 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
11734902 GTTTGGGATT
11734912 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
11734925 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
*
11734938 GGATTTA-GGATT-
1 GG-TTTAGGGTTTA
11734950 GGTTTAGGGTTT
1 GGTTTAGGGTTT
11734962 TTGATCTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 4 0.12
12 6 0.18
13 19 0.58
14 4 0.12
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:11734961 original size:7 final size:7
Alignment explanation
Indices: 11734912--11734946 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
11734902 GTTTGGGATT
11734912 GGTTTAG
1 GGTTTAG
11734919 GGTTTA-
1 GGTTTAG
11734925 GGTTTAG
1 GGTTTAG
11734932 GGTTTAG
1 GGTTTAG
*
11734939 GATTTAG
1 GGTTTAG
11734946 G
1 G
11734947 ATTGGTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:11735098 original size:10 final size:10
Alignment explanation
Indices: 11735083--11735125 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
11735073 GTTTAGGGAA
*
11735083 TTGGTTTGGT
1 TTGGTTTGGG
11735093 TTGGTTTGGGG
1 TTGGTTT-GGG
11735104 TTGGTTTGGG
1 TTGGTTTGGG
*
11735114 TTAGTTTGGG
1 TTGGTTTGGG
11735124 TT
1 TT
11735126 TTTGAAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.02, C:0.00, G:0.44, T:0.53
Consensus pattern (10 bp):
TTGGTTTGGG
Found at i:11735108 original size:21 final size:21
Alignment explanation
Indices: 11735083--11735123 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11735073 GTTTAGGGAA
* *
11735083 TTGGTTTGGTTTGGTTTGGGG
1 TTGGTTTGGGTTAGTTTGGGG
11735104 TTGGTTTGGGTTAGTTTGGG
1 TTGGTTTGGGTTAGTTTGGG
11735124 TTTTTGAAGG
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:0.02, C:0.00, G:0.46, T:0.51
Consensus pattern (21 bp):
TTGGTTTGGGTTAGTTTGGGG
Found at i:11735317 original size:21 final size:22
Alignment explanation
Indices: 11735288--11735333 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
11735278 ACTATTTTGA
*
11735288 AGGGATTGGTTCAATTTGGGTT
1 AGGGATTGGTTCAATTTGGGAT
11735310 AGGG-TTGGTTCAATTTGGGAT
1 AGGGATTGGTTCAATTTGGGAT
11735331 AGG
1 AGG
11735334 TTTAGGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.20, C:0.04, G:0.39, T:0.37
Consensus pattern (22 bp):
AGGGATTGGTTCAATTTGGGAT
Found at i:11735482 original size:7 final size:6
Alignment explanation
Indices: 11735443--11735587 Score: 55
Period size: 7 Copynumber: 24.2 Consensus size: 6
11735433 TGAAGGAATT
*
11735443 GGTTTA -GTTTA GG-TT- GGTTTA GGGTTT- GG-TTA GGATTTA GGGTT-
1 GGTTTA GGTTTA GGTTTA GGTTTA -GGTTTA GGTTTA GG-TTTA GGTTTA
*
11735487 GGTTTA GGATTTA GGTTCT- -GTTTA GGGTTA -GTTTA GGGTTTGA GGATTT-
1 GGTTTA GG-TTTA GGTT-TA GGTTTA GGTTTA GGTTTA -GGTTT-A GG-TTTA
*
11735536 GTTTTA GGGTTTAAA GGTTT- GGTTTA GGGTTTAA GG-TTA -GTTTA GGGTTTA
1 GGTTTA -GGTTT--A GGTTTA GGTTTA -GGTTT-A GGTTTA GGTTTA -GGTTTA
11735587 G
1 G
11735588 ATTTGGCTTG
Statistics
Matches: 107, Mismatches: 6, Indels: 52
0.65 0.04 0.32
Matches are distributed among these distances:
4 6 0.06
5 36 0.34
6 15 0.14
7 39 0.36
8 10 0.09
9 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.47
Consensus pattern (6 bp):
GGTTTA
Found at i:11735488 original size:29 final size:28
Alignment explanation
Indices: 11735441--11735528 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
11735431 TTTGAAGGAA
11735441 TTGGTTTA-GTTTA-GGTTGGTTTAGGGT
1 TTGG-TTAGGTTTAGGGTTGGTTTAGGGT
*
11735468 TTGGTTAGGATTTAGGGTTGGTTTAGGAT
1 TTGGTTAGG-TTTAGGGTTGGTTTAGGGT
** *
11735497 TTAGGTTCTGTTTAGGGTTAGTTTAGGGT
1 TT-GGTTAGGTTTAGGGTTGGTTTAGGGT
11735526 TTG
1 TTG
11735529 AGGATTTGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 3 0.06
27 5 0.10
28 5 0.10
29 34 0.65
30 5 0.10
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.49
Consensus pattern (28 bp):
TTGGTTAGGTTTAGGGTTGGTTTAGGGT
Found at i:11735512 original size:18 final size:18
Alignment explanation
Indices: 11735460--11735501 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
11735450 TTTAGGTTGG
11735460 TTTAGGGTTTGG-TTAGGA
1 TTTAGGG-TTGGTTTAGGA
11735478 TTTAGGGTTGGTTTAGGA
1 TTTAGGGTTGGTTTAGGA
11735496 TTTAGG
1 TTTAGG
11735502 TTCTGTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (18 bp):
TTTAGGGTTGGTTTAGGA
Found at i:11735543 original size:20 final size:18
Alignment explanation
Indices: 11735506--11735586 Score: 90
Period size: 20 Copynumber: 4.3 Consensus size: 18
11735496 TTTAGGTTCT
* *
11735506 GTTTAGGGTTAGTTTAGG
1 GTTTAAGGTTTGTTTAGG
*
11735524 GTTTGAGGATTTGTTTTAGG
1 GTTTAAGG-TTTG-TTTAGG
11735544 GTTTAAAGGTTTGGTTTAGG
1 GTTT-AAGGTTT-GTTTAGG
*
11735564 GTTTAAGGTTAGTTTAGG
1 GTTTAAGGTTTGTTTAGG
11735582 GTTTA
1 GTTTA
11735587 GATTTGGCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
18 18 0.33
19 9 0.17
20 23 0.43
21 4 0.07
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.47
Consensus pattern (18 bp):
GTTTAAGGTTTGTTTAGG
Found at i:11735716 original size:18 final size:17
Alignment explanation
Indices: 11735675--11735717 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
11735665 TTTGTATAAA
11735675 GGTTTGAGATTGGTTTAG
1 GGTTT-AGATTGGTTTAG
**
11735693 CATTTAGATTTGGTTTAG
1 GGTTTAGA-TTGGTTTAG
11735711 GGTTTAG
1 GGTTTAG
11735718 GGTGGGGTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (17 bp):
GGTTTAGATTGGTTTAG
Found at i:11735850 original size:20 final size:20
Alignment explanation
Indices: 11735796--11735852 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
11735786 TTTAGGGAGT
* *
11735796 TTTAAGGGTTTGTATAAGGG
1 TTTAAGGGTTTGCATGAGGG
*
11735816 CTTAA-GGTTTGCATGAGGG
1 TTTAAGGGTTTGCATGAGGG
11735835 TTTAAGGGTTTGCATGAG
1 TTTAAGGGTTTGCATGAG
11735853 CAATGCATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.23, C:0.05, G:0.35, T:0.37
Consensus pattern (20 bp):
TTTAAGGGTTTGCATGAGGG
Found at i:11737794 original size:286 final size:285
Alignment explanation
Indices: 11737241--11737918 Score: 674
Period size: 286 Copynumber: 2.4 Consensus size: 285
11737231 TCATGATGCG
*
11737241 ATCAA-GTTTTTAATGCATCAAAAATCATGAAATAATATT-AAAACATGATCTGGAGCTTTTTGT
1 ATCAAGGTTTTTAATGCATCAAAAATCATGAAATAAT-TTCAAAACATGATCTAGAGCTTTTTGT
* * * * *
11737304 GAAAAACCT-ATCTTGAAAAAATCAAATTACGAAAACATCTCTAAAAGGCATTTTGATAATTTCA
65 -AAAAA-CTGACCTT-AAGAAATCAAATTATGAAAATACCTCTAAAAGGCATTTTGATAATTTCA
* * ** * **
11737368 CACCATTTAAGGTGTAATCAAAGTTTTTAATGCATAAAAAATCATGAAATAATATCAAACATGCT
127 CACCATTTAAGGTGCAATCAAAGTCTTTAATGCATAAAAAATCATGAAATAATAAAAAAAATAAT
* ** * * * *
11737433 TTGGAGCTTTTCGTGAAAAACCTGCATAAGGAAGGTCAATTTACGAAAATAACCCCAAAAAGAAT
192 TTGAAGCTTTTCACGAAAAACCTACATAAGAAAGGTAAAATTACGAAAATAACCCCAAAAAGAAT
*
11737498 TTTAGTAATTTCACA-ACTTTTAAGG-CACA
257 TTTAGTAATTTCACACA-TTCTAAGGTCA-A
* *
11737527 ATCAAGGTTTTTAATCCATCAAAAATCATGAAATAATTTCAAAACATGATCTAGAGCTTTTTATA
1 ATCAAGGTTTTTAATGCATCAAAAATCATGAAATAATTTCAAAACATGATCTAGAGCTTTTTGTA
* * * * *
11737592 AAGAACTGACCTTAGGAAATCAAATTATGAAAATACCTTTAAAGGGCATTTTGGTAATTTCACTC
66 AA-AACTGACCTTAAGAAATCAAATTATGAAAATACCTCTAAAAGGCATTTTGATAATTTCACAC
* * * *
11737657 C-TTTCAAGGTGCAAT-TAAGTCTTTAATGTATAAAAAATCATGGAATATTAAAAAAAAATAATT
130 CATTT-AAGGTGCAATCAAAGTCTTTAATGCATAAAAAATCATGAAATAAT-AAAAAAAATAATT
* * * * * ** *
11737720 T-AATGTTTTTTACGAAAAACTTACCTCAA-AAAGGTAAAATTATGAAAAT-ACCCTTAAAGGAA
193 TGAA-GCTTTTCACGAAAAACCTACAT-AAGAAAGGTAAAATTACGAAAATAACCCCAAAAAG-A
* *
11737782 ATTTTGGTAATTTCACACATTCTAAGGTGAA
255 ATTTTAGTAATTTCACACATTCTAAGGTCAA
* * * * ** * * *
11737813 ATCAAGGTTTTTAATGTATTAAAAATGATGAAATAATATCAAAATGTGATATCGAGCTTTTCGTA
1 ATCAAGGTTTTTAATGCATCAAAAATCATGAAATAATTTCAAAACATGATCTAGAGCTTTTTGT-
* *
11737878 AAAAATTGACCTCAAGAAAGTCAAATTATGAAAATATCCTC
65 AAAAACTGACCTTAAGAAA-TCAAATTATGAAAATA-CCTC
11737919 GAAGAGTATT
Statistics
Matches: 321, Mismatches: 57, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
285 41 0.13
286 196 0.61
287 81 0.25
288 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (285 bp):
ATCAAGGTTTTTAATGCATCAAAAATCATGAAATAATTTCAAAACATGATCTAGAGCTTTTTGTA
AAAACTGACCTTAAGAAATCAAATTATGAAAATACCTCTAAAAGGCATTTTGATAATTTCACACC
ATTTAAGGTGCAATCAAAGTCTTTAATGCATAAAAAATCATGAAATAATAAAAAAAATAATTTGA
AGCTTTTCACGAAAAACCTACATAAGAAAGGTAAAATTACGAAAATAACCCCAAAAAGAATTTTA
GTAATTTCACACATTCTAAGGTCAA
Found at i:11737930 original size:144 final size:141
Alignment explanation
Indices: 11737241--11738027 Score: 557
Period size: 143 Copynumber: 5.5 Consensus size: 141
11737231 TCATGATGCG
* * * * *
11737241 ATCAA-GTTTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGGAGCTTTTTGTG
1 ATCAAGGTTTTTAATGTATAAAAAATCATGAAATAATATCAAAACATGAT-TAGAGCTTTTCGT-
* * * * * * * * *
11737305 AAAAACCT-ATCTTGAA-AAAATCAAATTACGAAAACATCTCTAAA-AGGCATTTTGATAATTTC
64 AAAAAACTGA-CCTCAAGAAAGTCAAATTATGAAAATACCTC-AAAGA-GAATTTTGGTAATTTC
*
11737367 ACACCATTTAAGGTGTA
126 ACA-CATTTAAGGTGAA
* * * *
11737384 ATCAAAGTTTTTAATGCATAAAAAATCATGAAATAATATC-AAACATGCTTTGGAGCTTTTCGTG
1 ATCAAGGTTTTTAATGTATAAAAAATCATGAAATAATATCAAAACATG-ATTAGAGCTTTTCGT-
* * * * * * * *
11737448 AAAAACCTG-CAT-AAGGAAGGTCAATTTACGAAAATAACCCCAAAAAGAATTTTAGTAATTTCA
64 AAAAAACTGACCTCAA-GAAAGTCAAATTATGAAAAT-ACCTCAAAGAGAATTTTGGTAATTTCA
* *
11737511 CAACTTTTAAGG-CACA
127 C-ACATTTAAGGTGA-A
** * * **
11737527 ATCAAGGTTTTTAATCCATCAAAAATCATGAAATAATTTCAAAACATGATCTAGAGCTTTTTATA
1 ATCAAGGTTTTTAATGTATAAAAAATCATGAAATAATATCAAAACATGAT-TAGAGCTTTTCGTA
* * * * * * *
11737592 AAGAACTGACCTTAGGAAA-TCAAATTATGAAAATACCTTTAAAGGGCATTTTGGTAATTTCACT
65 AAAAACTGACCTCAAGAAAGTCAAATTATGAAAATACC-TCAAAGAGAATTTTGGTAATTTCACA
* *
11737656 CCTTTCAAGGTGCA
129 CATTT-AAGGTGAA
* * * * ** * * *
11737670 ATTAA-GTCTTTAATGTATAAAAAATCATGGAATATTAAAAAAAAATAATTTA-ATG-TTTT-TT
1 ATCAAGGTTTTTAATGTATAAAAAATCATGAAATAATATCAAAACATGA-TTAGA-GCTTTTCGT
* * *
11737731 ACGAAAAACTTACCTCAA-AAAGGTAAAATTATGAAAATACCCTTAAAG-GAAATTTTGGTAATT
64 A--AAAAACTGACCTCAAGAAA-GTCAAATTATGAAAATA-CCTCAAAGAG-AATTTTGGTAATT
11737794 TCACACATTCTAAGGTGAA
124 TCACACATT-TAAGGTGAA
* * ** *
11737813 ATCAAGGTTTTTAATGTATTAAAAATGATGAAATAATATCAAAATGTGATATCGAGCTTTTCGTA
1 ATCAAGGTTTTTAATGTATAAAAAATCATGAAATAATATCAAAACATGAT-TAGAGCTTTTCGTA
* * * * *
11737878 AAAAATTGACCTCAAGAAAGTCAAATTATGAAAATATCCTCGAAGAGTATTTTGGTGATTTCACT
65 AAAAACTGACCTCAAGAAAGTCAAATTATGAAAATA-CCTCAAAGAGAATTTTGGTAATTTCACA
* *
11737943 C-TTACTGAGAT-ACA
129 CATT--TAAGGTGA-A
*
11737957 ATCAAGGTTTTTAATGTATCAAAAAA-CATGAAATAATATCAAAACATGATCTAGAGCATTTCGT
1 ATCAAGGTTTTTAATGTAT-AAAAAATCATGAAATAATATCAAAACATGAT-TAGAGCTTTTCGT
11738021 AAAAAAC
64 AAAAAAC
11738028 CAACCTAAAA
Statistics
Matches: 513, Mismatches: 96, Indels: 69
0.76 0.14 0.10
Matches are distributed among these distances:
140 2 0.00
141 10 0.02
142 56 0.11
143 216 0.42
144 212 0.41
145 15 0.03
146 2 0.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (141 bp):
ATCAAGGTTTTTAATGTATAAAAAATCATGAAATAATATCAAAACATGATTAGAGCTTTTCGTAA
AAAACTGACCTCAAGAAAGTCAAATTATGAAAATACCTCAAAGAGAATTTTGGTAATTTCACACA
TTTAAGGTGAA
Found at i:11738042 original size:144 final size:143
Alignment explanation
Indices: 11737105--11738049 Score: 553
Period size: 143 Copynumber: 6.6 Consensus size: 143
11737095 GTTTTTGTGA
* * * * *** * * * *
11737105 TTTTAATGCATCACAGATCATAAAATAATATTTGATCATGATCT-GAAGCTTTTTGCAAAAAATC
1 TTTTAATGCATCAAAAAACATGAAATAATATCAAAACATGATCTAG-AGCTTTTCGTAAAAAACC
* * * ** *
11737169 AACCTCAAAAAAGTCAAATTATGAAAGTAT-TTCTAAATG-GTGTTTTGGTATTTTCACATCTT-
65 AACCTAAAAAAAGTCAAATTATGAAAATATCCTC-AAA-GAGAATTTTGGTAATTTCACA-CTTC
* * * *
11737231 TCATGATGCGATCAA-GT
127 T-AAGGTACAATCAAGGT
* * * * *
11737248 TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGGAGCTTTTTGTGAAAAACCT
1 TTTTAATGCATCAAAAAACATGAAATAATATCAAAACATGATCTAGAGCTTTTCGTAAAAAACC-
* * * * * * * *
11737313 ATCTTGAAAAAA-TCAAATTACGAAAACATCTCTAAAAG-GCATTTTGATAATTTCACACCATT-
65 AACCTAAAAAAAGTCAAATTATGAAAATATC-CTCAAAGAGAATTTTGGTAATTTCACA-C-TTC
** *
11737375 TAAGGTGTAATCAAAGT
127 TAAGGTACAATCAAGGT
* * * *
11737392 TTTTAATGCAT-AAAAAATCATGAAATAATATC-AAACATGCTTTGGAGCTTTTCGTGAAAAACC
1 TTTTAATGCATCAAAAAA-CATGAAATAATATCAAAACATGATCTAGAGCTTTTCGTAAAAAACC
** * ** * * * * * * * *
11737455 TGCATAAGGAAGGTCAATTTACGAAAATAACCCCAAAAAGAATTTTAGTAATTTCACAACTTTTA
65 AACCTAAAAAAAGTCAAATTATGAAAATATCCTCAAAGAGAATTTTGGTAATTTCAC-ACTTCTA
*
11737520 AGGCACAATCAAGGT
129 AGGTACAATCAAGGT
* * * ** * **
11737535 TTTTAATCCATCAAAAATCATGAAATAATTTCAAAACATGATCTAGAGCTTTTTATAAAGAACTG
1 TTTTAATGCATCAAAAAACATGAAATAATATCAAAACATGATCTAGAGCTTTTCGTAAAAAACCA
* ** * * * *
11737600 ACCTTAGGAAA-TCAAATTATGAAAATA-CCTTTAAAGGGCATTTTGGTAATTTCACTCCTT-TC
66 ACCTAAAAAAAGTCAAATTATGAAAATATCC-TCAAAGAGAATTTTGGTAATTTCAC-ACTTCT-
* *
11737662 AAGGTGCAATTAA-GT
128 AAGGTACAATCAAGGT
* * * * ** * * * *
11737677 CTTTAATGTAT-AAAAAATCATGGAATATTAAAAAAAAATAATTTA-ATG-TTTT-TTACGAAAA
1 TTTTAATGCATCAAAAAA-CATGAAATAATATCAAAACATGATCTAGA-GCTTTTCGTA--AAAA
** * * * * *
11737738 ACTTACCTCAAAAAGGTAAAATTATGAAAATACCCTTAAAG-GAAATTTTGGTAATTTCACACAT
62 ACCAACCTAAAAAAAGTCAAATTATGAAAATATCCTCAAAGAG-AATTTTGGTAATTTCACAC-T
11737802 TCTAAGGTGA-AATCAAGGT
125 TCTAAGGT-ACAATCAAGGT
* * ** ** * * ***
11737821 TTTTAATGTATTAAAAATGATGAAATAATATCAAAATGTGATATCGAGCTTTTCGTAAAAAATTG
1 TTTTAATGCATCAAAAAACATGAAATAATATCAAAACATGATCTAGAGCTTTTCGTAAAAAACCA
* * * * * * *
11737886 ACCTCAAGAAAGTCAAATTATGAAAATATCCTCGAAGAGTATTTTGGTGATTTCACTCTTACTGA
66 ACCTAAAAAAAGTCAAATTATGAAAATATCCTCAAAGAGAATTTTGGTAATTTCACACTT-CTAA
*
11737951 GATACAATCAAGGT
130 GGTACAATCAAGGT
* *
11737965 TTTTAATGTATCAAAAAACATGAAATAATATCAAAACATGATCTAGAGCATTTCGTAAAAAACCA
1 TTTTAATGCATCAAAAAACATGAAATAATATCAAAACATGATCTAGAGCTTTTCGTAAAAAACCA
*
11738030 ACCTAAAAAAAGTCATATTA
66 ACCTAAAAAAAGTCAAATTA
11738050 CAAAAATTTT
Statistics
Matches: 625, Mismatches: 144, Indels: 65
0.75 0.17 0.08
Matches are distributed among these distances:
140 2 0.00
141 10 0.02
142 59 0.09
143 291 0.47
144 249 0.40
145 12 0.02
146 2 0.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (143 bp):
TTTTAATGCATCAAAAAACATGAAATAATATCAAAACATGATCTAGAGCTTTTCGTAAAAAACCA
ACCTAAAAAAAGTCAAATTATGAAAATATCCTCAAAGAGAATTTTGGTAATTTCACACTTCTAAG
GTACAATCAAGGT
Found at i:11738507 original size:17 final size:18
Alignment explanation
Indices: 11738476--11738514 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
11738466 ATTATTAGTG
11738476 AAAATTTTAAATTTTATT
1 AAAATTTTAAATTTTATT
*
11738494 AAAA-TTTAATTTTTATT
1 AAAATTTTAAATTTTATT
11738511 AAAA
1 AAAA
11738515 ATAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATTTTAAATTTTATT
Found at i:11738525 original size:16 final size:17
Alignment explanation
Indices: 11738483--11738525 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
11738473 GTGAAAATTT
*
11738483 TAAATTTTATTAAAATT
1 TAAATTTTATTAAAATA
*
11738500 TAATTTTTATTAAAA-A
1 TAAATTTTATTAAAATA
*
11738516 TAAATATTAT
1 TAAATTTTAT
11738526 GACTATTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATTTTATTAAAATA
Found at i:11738788 original size:43 final size:43
Alignment explanation
Indices: 11738741--11738824 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
11738731 TGTAGTCCCT
*
11738741 TTTAAATATTCATAAATATAACTTATTAATATTATTATTATTA
1 TTTAAATATTCATAAATATAACTTATTAATACTATTATTATTA
** **
11738784 TTTAAATATTGGTATGTATAACTTATTAATACTATTATTAT
1 TTTAAATATTCATAAATATAACTTATTAATACTATTATTAT
11738825 CTATATTCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (43 bp):
TTTAAATATTCATAAATATAACTTATTAATACTATTATTATTA
Found at i:11760744 original size:112 final size:112
Alignment explanation
Indices: 11760545--11760770 Score: 416
Period size: 112 Copynumber: 2.0 Consensus size: 112
11760535 TTTTAATTAA
11760545 TGTTATATGAGTAAGAATTTTTGCATGGTTAGATAATATTTGATGTGATACTACTATCTCATCAA
1 TGTTATATGAGTAAGAATTTTTGCATGGTTAGATAATATTTGATGTGATACTACTATCTCATCAA
* *
11760610 ATGGTGAGAGAATGCATTGAGATTGTAAACAAACAAATTGTTCAATT
66 ATGGTGAGAGAATGCATCGAGATTATAAACAAACAAATTGTTCAATT
*
11760657 TGTTATATGAGTAAGAATTTTTGCATGGTTAGATAATATTTTATGTGATACTACTATCTCATCAA
1 TGTTATATGAGTAAGAATTTTTGCATGGTTAGATAATATTTGATGTGATACTACTATCTCATCAA
*
11760722 ATGGTGAGAGAATGTATCGAGATTATAAACAAACAAATTGTTCAATT
66 ATGGTGAGAGAATGCATCGAGATTATAAACAAACAAATTGTTCAATT
11760769 TG
1 TG
11760771 ATAAAAGAAT
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (112 bp):
TGTTATATGAGTAAGAATTTTTGCATGGTTAGATAATATTTGATGTGATACTACTATCTCATCAA
ATGGTGAGAGAATGCATCGAGATTATAAACAAACAAATTGTTCAATT
Found at i:11763372 original size:21 final size:21
Alignment explanation
Indices: 11763348--11763393 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
11763338 TGAAAAATTT
*
11763348 AAGATTTAAGATCAATGAATG
1 AAGAGTTAAGATCAATGAATG
* *
11763369 AAGAGTTAAGGTCACTGAATG
1 AAGAGTTAAGATCAATGAATG
11763390 AAGA
1 AAGA
11763394 ATATGTCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.24
Consensus pattern (21 bp):
AAGAGTTAAGATCAATGAATG
Found at i:11768093 original size:20 final size:20
Alignment explanation
Indices: 11768070--11768110 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11768060 ATCCTAAAAT
*
11768070 AATTTGTCAAATTTTTTAAA
1 AATTTGTCAAAATTTTTAAA
11768090 AATTTGTCAAAATTTTTAAA
1 AATTTGTCAAAATTTTTAAA
11768110 A
1 A
11768111 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
AATTTGTCAAAATTTTTAAA
Found at i:11768115 original size:10 final size:10
Alignment explanation
Indices: 11768078--11768120 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
11768068 ATAATTTGTC
11768078 AAATTTTTTAA
1 AAATTTTTT-A
* *
11768089 AAATTTGTCA
1 AAATTTTTTA
11768099 AAA-TTTTTA
1 AAATTTTTTA
11768108 AAATTTTTTA
1 AAATTTTTTA
11768118 AAA
1 AAA
11768121 AACTAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.26
10 13 0.48
11 7 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (10 bp):
AAATTTTTTA
Found at i:11768121 original size:20 final size:20
Alignment explanation
Indices: 11768070--11768121 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
11768060 ATCCTAAAAT
* *
11768070 AATTTGTCAAATTTTTTAAA
1 AATTTGTAAAAATTTTTAAA
*
11768090 AATTTGTCAAAATTTTTAAA
1 AATTTGTAAAAATTTTTAAA
* *
11768110 ATTTTTTAAAAA
1 AATTTGTAAAAA
11768122 ACTAGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
AATTTGTAAAAATTTTTAAA
Found at i:11768222 original size:19 final size:17
Alignment explanation
Indices: 11768218--11768308 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 17
11768208 AAAATTTCTA
11768218 AAAAAATTTAAAAATTC
1 AAAAAATTTAAAAATTC
11768235 AAAAAAGCTTTAAAAACTTC
1 AAAAAA--TTTAAAAA-TTC
* *
11768255 AAAAACTTCAAAACAGTTC
1 AAAAAATTTAAAA-A-TTC
*
11768274 TAAAAAATTTTAAAAACTTT
1 -AAAAAA-TTTAAAAA-TTC
*
11768294 AACAAAATTCAAAAA
1 AA-AAAATTTAAAAA
11768309 AATTTCTCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
17 6 0.10
18 6 0.10
19 21 0.36
20 20 0.34
21 6 0.10
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAAAATTTAAAAATTC
Found at i:11768230 original size:9 final size:9
Alignment explanation
Indices: 11768218--11768309 Score: 51
Period size: 9 Copynumber: 9.7 Consensus size: 9
11768208 AAAATTTCTA
11768218 AAAAAATTT
1 AAAAAATTT
*
11768227 -AAAAATTC
1 AAAAAATTT
11768235 AAAAAAGCTTT
1 AAAAAA--TTT
* *
11768246 AAAAACTTC
1 AAAAAATTT
* *
11768255 AAAAACTTC
1 AAAAAATTT
*
11768264 AAAACAGTTCT
1 AAAA-AATT-T
11768275 AAAAAATTTT
1 AAAAAA-TTT
*
11768285 AAAAACTTT
1 AAAAAATTT
*
11768294 AACAAAATTC
1 AA-AAAATTT
11768304 AAAAAA
1 AAAAAA
11768310 ATTTCTCAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.11
9 29 0.44
10 17 0.26
11 13 0.20
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAAATTT
Found at i:11768248 original size:29 final size:30
Alignment explanation
Indices: 11768208--11768313 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 30
11768198 TTAAAATTCT
*
11768208 AAAATTTCTAAAAAAATTTAAAAA-TTCAA
1 AAAAGTTCTAAAAAAATTTAAAAACTTCAA
* *
11768237 AAAAGCTT-T-AAAAACTTCAAAAACTTCAA
1 AAAAG-TTCTAAAAAAATTTAAAAACTTCAA
* * *
11768266 AACAGTTCTAAAAAATTTTAAAAACTTTAA
1 AAAAGTTCTAAAAAAATTTAAAAACTTCAA
11768296 CAAAA-TTC-AAAAAAATTT
1 -AAAAGTTCTAAAAAAATTT
11768314 CTCAAAGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
28 14 0.22
29 24 0.38
30 22 0.35
31 3 0.05
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (30 bp):
AAAAGTTCTAAAAAAATTTAAAAACTTCAA
Found at i:11771421 original size:43 final size:46
Alignment explanation
Indices: 11771343--11771430 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 46
11771333 TTTGAGATAA
* *
11771343 AAATAATTTAATATTTTTAATTATTTATTAATTTT-ATA-AATATT
1 AAATAATTTAAAATTTTTAATTATATATTAATTTTAATAGAATATT
*
11771387 AAATAA-TTAAAATTTTTTATTATATA-TAATTTTTAATAGAATAT
1 AAATAATTTAAAATTTTTAATTATATATTAA-TTTTAATAGAATAT
11771431 CTTTAATGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 3 0.08
43 21 0.55
44 9 0.24
45 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (46 bp):
AAATAATTTAAAATTTTTAATTATATATTAATTTTAATAGAATATT
Found at i:11775512 original size:25 final size:24
Alignment explanation
Indices: 11775482--11775548 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
11775472 ATCAATTCAC
11775482 TTAATAAATAAATATATTTATTAAT
1 TTAATAAATAAATATATTTATT-AT
* *
11775507 TTAATAATTTAATTATATTTATTAT
1 TTAATAA-ATAAATATATTTATTAT
**
11775532 AAAATAAATAAA-ATATT
1 TTAATAAATAAATATATT
11775549 ACTATGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 5 0.14
24 3 0.09
25 14 0.40
26 13 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATAAATAAATATATTTATTAT
Found at i:11775521 original size:17 final size:18
Alignment explanation
Indices: 11775492--11775532 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
11775482 TTAATAAATA
11775492 AATATATTTATTA-ATTT
1 AATATATTTATTATATTT
11775509 AATA-ATTTAATTATATTT
1 AATATATTT-ATTATATTT
*
11775527 ATTATA
1 AATATA
11775533 AAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 7 0.35
19 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATATTTATTATATTT
Found at i:11776036 original size:23 final size:23
Alignment explanation
Indices: 11775988--11776036 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
11775978 TTAAATTTGA
** *
11775988 AAAAAATATATAAATCGATACTT
1 AAAAAATATATAAATAAATACAT
11776011 AAAAAATATATAAATTAAAT-CAT
1 AAAAAATATATAAA-TAAATACAT
11776034 AAA
1 AAA
11776037 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAATATATAAATAAATACAT
Found at i:11779217 original size:2 final size:2
Alignment explanation
Indices: 11779210--11779236 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11779200 GGGAAAGGAT
11779210 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
11779237 GGAAAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11779278 original size:15 final size:15
Alignment explanation
Indices: 11779258--11779289 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11779248 ATCTACATAA
11779258 AGACGAACGAGAAAG
1 AGACGAACGAGAAAG
11779273 AGACGAACGAGAAAG
1 AGACGAACGAGAAAG
11779288 AG
1 AG
11779290 GCGAGCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.34, T:0.00
Consensus pattern (15 bp):
AGACGAACGAGAAAG
Found at i:11780879 original size:46 final size:46
Alignment explanation
Indices: 11780829--11780920 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
11780819 TTGAAAAAAA
11780829 ACGTTGAAAATTTTGCT-GTAAAATTT-GATGCTTGATTTATGCAATT
1 ACGTTGAAAATTTTG-TAG-AAAATTTCGATGCTTGATTTATGCAATT
* * * *
11780875 ACGTTGAAGATTTTGTAGGAAATTTCGGTGTTTGATTTATGCAATT
1 ACGTTGAAAATTTTGTAGAAAATTTCGATGCTTGATTTATGCAATT
11780921 GGTTCACGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
45 7 0.17
46 33 0.82
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (46 bp):
ACGTTGAAAATTTTGTAGAAAATTTCGATGCTTGATTTATGCAATT
Found at i:11785702 original size:9 final size:9
Alignment explanation
Indices: 11785688--11785716 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11785678 AATTTTCATG
11785688 AAAAATAAA
1 AAAAATAAA
11785697 AAAAAT-AA
1 AAAAATAAA
11785705 AAAAATAAA
1 AAAAATAAA
11785714 AAA
1 AAA
11785717 GAGAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:11787140 original size:86 final size:86
Alignment explanation
Indices: 11786982--11787261 Score: 339
Period size: 86 Copynumber: 3.3 Consensus size: 86
11786972 CAATTTTTTG
* * * * * *
11786982 ACCTTTGTGAAATTTGGAATCTTACGAATCTTTCTTTCTTGTGAATCTGAAATTCCTTGCGAACC
1 ACCTTTGCGAAACTTGGAATCTTGCGAATTTTTCTTTCTTGTGAATCTAAAAATCCTTGCGAACC
11787047 TTGCATCTTTGCGAATCTAGA
66 TTGCATCTTTGCGAATCTAGA
* * * **
11787068 ACTTTTGCGAAACTTGGAATTTTGTGAATTTTTCTTTCTTGCCAATCTAAAAATCCTTGCGAA-C
1 ACCTTTGCGAAACTTGGAATCTTGCGAATTTTTCTTTCTTGTGAATCTAAAAATCCTTGCGAACC
**
11787132 TGTGCATCTTTATGAATCTAGA
66 T-TGCATCTTTGCGAATCTAGA
* * * * *
11787154 ACCTTTGTGAAACTTGGAATCTTGCAAATCTTTCCTTT-TTGTGAATCTAAAAATTCTTGTGAAC
1 ACCTTTGCGAAACTTGGAATCTTGCGAAT-TTTTCTTTCTTGTGAATCTAAAAATCCTTGCGAAC
11787218 CTTGCATCTTTGCGAATCTAGA
65 CTTGCATCTTTGCGAATCTAGA
* * *
11787240 ACCTCTACGAAACTTGAAATCT
1 ACCTTTGCGAAACTTGGAATCT
11787262 AAAAACCTTT
Statistics
Matches: 162, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
85 2 0.01
86 151 0.93
87 9 0.06
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (86 bp):
ACCTTTGCGAAACTTGGAATCTTGCGAATTTTTCTTTCTTGTGAATCTAAAAATCCTTGCGAACC
TTGCATCTTTGCGAATCTAGA
Found at i:11787956 original size:114 final size:114
Alignment explanation
Indices: 11787832--11788151 Score: 329
Period size: 114 Copynumber: 2.8 Consensus size: 114
11787822 GTATCATTCC
* ** *
11787832 AATCAATTATCTATGACCTTGACTCGATCTTGGTTGCTTTCAGACTCGTGACATCATCCCAGTCA
1 AATCAATTATCTATGACCTTGACTCAATCTTGGTCACTTTCAGACTCGTGACATCATCCCAGTAA
* * *
11787897 TTCGATCTCAGCTCAAGCCATATCATTCTCAGACTCACGGTATCGTCTT
66 TCCAATCTCAGCTCAAGCCAGATCATTCTCAGACTCACGGTATCGTCTT
* * * *
11787946 AATCATTTATCTATGACCTTGACTCAATCTTGGTCACTTTCAGACTTGTGGCATCATCTCAGTAA
1 AATCAATTATCTATGACCTTGACTCAATCTTGGTCACTTTCAGACTCGTGACATCATCCCAGTAA
* * * *** ** * *
11788011 TCCAATCTTAGCTCGAGCCAGATCATTCTCTGACTTGTGACATTGT-TCC
66 TCCAATCTCAGCTCAAGCCAGATCATTCTCAGACTCACGGTATCGTCT-T
* * * * * * * *
11788060 AATCATTTATCTATAACCTTGACT-AAGTCTTAGTCACTTTCAAACTCGTGGCATCATCTCAATC
1 AATCAATTATCTATGACCTTGACTCAA-TCTTGGTCACTTTCAGACTCGTGACATCATCCCAGTA
* *
11788124 ACCCAATCTCAGCTCAAGCTAGATCATT
65 ATCCAATCTCAGCTCAAGCCAGATCATT
11788152 TTTAGACTTA
Statistics
Matches: 173, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
113 3 0.02
114 170 0.98
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (114 bp):
AATCAATTATCTATGACCTTGACTCAATCTTGGTCACTTTCAGACTCGTGACATCATCCCAGTAA
TCCAATCTCAGCTCAAGCCAGATCATTCTCAGACTCACGGTATCGTCTT
Found at i:11788795 original size:15 final size:14
Alignment explanation
Indices: 11788773--11788806 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
11788763 TTTTAATTTG
*
11788773 ATTTTTTTTGTTTT
1 ATTTTTTTTGTTTA
11788787 ATTTATTTTTGTTTA
1 ATTT-TTTTTGTTTA
11788802 ATTTT
1 ATTTT
11788807 ACTTGTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (14 bp):
ATTTTTTTTGTTTA
Found at i:11808745 original size:21 final size:21
Alignment explanation
Indices: 11808721--11808764 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11808711 AGGTTTTAAA
*
11808721 TTTTTGT-TTCTCTACATTTTC
1 TTTTTGTATTCT-TAAATTTTC
*
11808742 TTTTTTTATTCTTAAATTTTC
1 TTTTTGTATTCTTAAATTTTC
11808763 TT
1 TT
11808765 AGTTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTGTATTCTTAAATTTTC
Found at i:11810191 original size:25 final size:25
Alignment explanation
Indices: 11810150--11810197 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11810140 TATGTTTAGG
*
11810150 TTAGCTTTGGTTCCATTAAAAATTT
1 TTAGCTTTAGTTCCATTAAAAATTT
*
11810175 TTAGCTTTAAGTT-CATTATAAAT
1 TTAGCTTT-AGTTCCATTAAAAAT
11810198 GTCATTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (25 bp):
TTAGCTTTAGTTCCATTAAAAATTT
Found at i:11816807 original size:52 final size:51
Alignment explanation
Indices: 11816721--11816867 Score: 179
Period size: 52 Copynumber: 2.8 Consensus size: 51
11816711 TATAACCATA
* * * *
11816721 CAAACTTGCCCATTAAAAATCAATCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATC-CTTTCCTCTTAGAATTCTTCTCCTGTAAGT
* *
11816773 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATC-CTTTCCTCTTAGAATTCTTCTCCTGTAAGT
* *
11816825 CAAACTTACCTATTAAGAATCCTTTTTCTCTT-GAAATTCTTCT
1 CAAACTTGCCTATTAAGAATCC-TTTCCTCTTAG-AATTCTTCT
11816868 TTTGCAAGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCTTTCCTCTTAGAATTCTTCTCCTGTAAGT
Found at i:11816918 original size:11 final size:11
Alignment explanation
Indices: 11816902--11816965 Score: 110
Period size: 11 Copynumber: 5.8 Consensus size: 11
11816892 GCAATATCTG
11816902 ACAAATCTCAA
1 ACAAATCTCAA
*
11816913 ACAAATCTCTA
1 ACAAATCTCAA
11816924 ACAAATCTCAA
1 ACAAATCTCAA
*
11816935 ACAAATCTCTA
1 ACAAATCTCAA
11816946 ACAAATCTCAA
1 ACAAATCTCAA
11816957 ACAAATCTC
1 ACAAATCTC
11816966 TTATGGGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 49 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:11816927 original size:22 final size:22
Alignment explanation
Indices: 11816902--11816966 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
11816892 GCAATATCTG
11816902 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
11816924 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
11816946 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
11816967 TATGGGATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:11817237 original size:25 final size:25
Alignment explanation
Indices: 11817208--11817285 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
11817198 AACCAAGCTT
* *
11817208 TTCCCACATCTCGAACCTTCAACTC
1 TTCCCACATCTTGAACCTTTAACTC
* *
11817233 TTCCCACGTCTTGAACCTTTGACTC
1 TTCCCACATCTTGAACCTTTAACTC
** *
11817258 TTTTCACATCTTGAATCTTTAACTC
1 TTCCCACATCTTGAACCTTTAACTC
11817283 TTC
1 TTC
11817286 TCATATTTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.21, C:0.35, G:0.06, T:0.38
Consensus pattern (25 bp):
TTCCCACATCTTGAACCTTTAACTC
Found at i:11817982 original size:52 final size:52
Alignment explanation
Indices: 11817840--11817996 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
11817830 TATAACCATA
* * * * *
11817840 CAAACTTGCCCATTAAGAATCCATTTCTTTTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCTCTTTAGAATTCTTCTCTTGCAAGT
*
11817892 CAAACTTGTCTATTAAGAATCCCTTTC-CTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCTC-TTTAGAATTCTTCTCTTGCAAGT
* * * *
11817944 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGA-AATTCTTTTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTCTTTAGAATTCTTCTCTTGCAAGT
11817996 C
1 C
11817997 TTTTTGTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
52 82 0.90
53 8 0.09
54 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTTAGAATTCTTCTCTTGCAAGT
Found at i:11823783 original size:29 final size:29
Alignment explanation
Indices: 11823750--11823839 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
11823740 ATCAAACATG
11823750 TAAAATTCATGGAAATTCGGTCAATATTT
1 TAAAATTCATGGAAATTCGGTCAATATTT
* * * *
11823779 TAAAATT--T---ATTTTGGATCAA-ACATG
1 TAAAATTCATGGAAATTCGG-TCAATA-TTT
*
11823804 TAAAATTCATGGAAATTCGATCAATATTT
1 TAAAATTCATGGAAATTCGGTCAATATTT
11823833 TAAAATT
1 TAAAATT
11823840 TAAAATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 16
0.64 0.13 0.23
Matches are distributed among these distances:
24 6 0.14
25 12 0.27
27 2 0.05
29 19 0.43
30 5 0.11
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (29 bp):
TAAAATTCATGGAAATTCGGTCAATATTT
Found at i:11823794 original size:54 final size:54
Alignment explanation
Indices: 11823731--11823841 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
11823721 TAAGGTTTTC
*
11823731 TTATTTTGGATCAAACATGTAAAATTCATGGAAATTCGGTCAATATTTTAAAAT
1 TTATTTTGGATCAAACATGTAAAATTCATGGAAATTCGATCAATATTTTAAAAT
11823785 TTATTTTGGATCAAACATGTAAAATTCATGGAAATTCGATCAATATTTTAAAAT
1 TTATTTTGGATCAAACATGTAAAATTCATGGAAATTCGATCAATATTTTAAAAT
11823839 TTA
1 TTA
11823842 AAATTTTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (54 bp):
TTATTTTGGATCAAACATGTAAAATTCATGGAAATTCGATCAATATTTTAAAAT
Found at i:11823944 original size:18 final size:18
Alignment explanation
Indices: 11823899--11823944 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
11823889 GAAAGTTACT
* * *
11823899 ATTTTAGAAATCATTTTC
1 ATTTTAAAAACCATTTGC
*
11823917 ATTTTGAAAACCATTTGC
1 ATTTTAAAAACCATTTGC
11823935 ATTTTAAAAA
1 ATTTTAAAAA
11823945 TACAACTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (18 bp):
ATTTTAAAAACCATTTGC
Found at i:11826560 original size:2 final size:2
Alignment explanation
Indices: 11826553--11826577 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11826543 TTTAGATCTC
11826553 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11826578 CATTCCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11828969 original size:63 final size:62
Alignment explanation
Indices: 11828896--11829019 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 62
11828886 TTGGATTCTT
* *
11828896 AGCTTTTGTTTAAAGGTTTTTTCAA-AGGCATTCTGACT-CCATGTCTTAGGCATTCTGATGCTC
1 AGCTTATGTTTAAAAGTTTTTTCAAGAGG-ATT-TGA-TGCCATGTCTTAGGCATTCTGATGCTC
* * * *
11828959 AGCTTATGTTTAAAATTTTTTTTAAGAGGATTTGATGCCCTGTCTTGGGCATTCTGATGCT
1 AGCTTATGTTTAAAAGTTTTTTCAAGAGGATTTGATGCCATGTCTTAGGCATTCTGATGCT
11829020 TAACTTCTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
61 1 0.02
62 25 0.47
63 24 0.45
64 3 0.06
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (62 bp):
AGCTTATGTTTAAAAGTTTTTTCAAGAGGATTTGATGCCATGTCTTAGGCATTCTGATGCTC
Found at i:11829012 original size:62 final size:63
Alignment explanation
Indices: 11828867--11829019 Score: 161
Period size: 63 Copynumber: 2.4 Consensus size: 63
11828857 AGGGTATTGG
* * * * * *
11828867 GATGCCTTATCTTGGGCATT-TGGATTCTTAGCTTTTGTTTAAAGGTTTTTTCAAAGGCATTCT
1 GATGCCATGTCTTGGGCATTCT-GATGCTCAGCTTATGTTTAAAAGTTTTTTCAAAGGCATTCT
* * *
11828930 GACT-CCATGTCTTAGGCATTCTGATGCTCAGCTTATGTTTAAAATTTTTTTTAAGAGG-ATT-T
1 GA-TGCCATGTCTTGGGCATTCTGATGCTCAGCTTATGTTTAAAAGTTTTTTCAA-AGGCATTCT
*
11828992 GATGCCCTGTCTTGGGCATTCTGATGCT
1 GATGCCATGTCTTGGGCATTCTGATGCT
11829020 TAACTTCTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
61 1 0.01
62 25 0.33
63 44 0.59
64 5 0.07
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (63 bp):
GATGCCATGTCTTGGGCATTCTGATGCTCAGCTTATGTTTAAAAGTTTTTTCAAAGGCATTCT
Found at i:11831768 original size:14 final size:14
Alignment explanation
Indices: 11831739--11831777 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11831729 AAAAATTTTA
*
11831739 AAATAATCAAAAAAT
1 AAATAA-CATAAAAT
11831754 AAATAACATAAAAT
1 AAATAACATAAAAT
11831768 AAATAA-ATAA
1 AAATAACATAA
11831778 CTGAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 13 0.57
15 6 0.26
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAACATAAAAT
Found at i:11833694 original size:81 final size:80
Alignment explanation
Indices: 11833443--11833704 Score: 321
Period size: 81 Copynumber: 3.2 Consensus size: 80
11833433 CAACTTAATC
* * * *
11833443 AAGTTAATGATGCTAATAAAGTTACTGTTGAGGGTTT-AGAGTTTGTTGAGGGATTTAATGAAGG
1 AAGTTAAT-ATGCTAATGAAGTTACTGTTGAGGTTTTAAG-GTTTATTGATGGATTTAATGAAGG
* *
11833507 GGAAGTGAA-AGTGAATA
64 TGAAGTGAATA-TGGATA
* * *
11833524 AAGTTAATGTGCTTAATGAAGTTATTGTTGAGGTTTTAAGGTCTATTGATGGATTTAATGAAGGT
1 AAGTTAATATGC-TAATGAAGTTACTGTTGAGGTTTTAAGGTTTATTGATGGATTTAATGAAGGT
*
11833589 GAAGTGAATGTGGATA
65 GAAGTGAATATGGATA
* * * *
11833605 AAGTTAATATGCTTAATGAAGTTACTATTAAGGTTTTAAGGTTTATTGATGGCTTTAATAAAGGT
1 AAGTTAATATGC-TAATGAAGTTACTGTTGAGGTTTTAAGGTTTATTGATGGATTTAATGAAGGT
*
11833670 AAAGTGAATATGGATA
65 GAAGTGAATATGGATA
11833686 AAGTTAATATGACTAATGA
1 AAGTTAATATG-CTAATGA
11833705 TGGTTTAAGG
Statistics
Matches: 158, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
80 3 0.02
81 152 0.96
82 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (80 bp):
AAGTTAATATGCTAATGAAGTTACTGTTGAGGTTTTAAGGTTTATTGATGGATTTAATGAAGGTG
AAGTGAATATGGATA
Found at i:11841899 original size:18 final size:17
Alignment explanation
Indices: 11841871--11841915 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
11841861 GACCCAAGAA
11841871 AAATAAAAATAAAAGAAAG
1 AAAT-AAAATAAAA-AAAG
*
11841890 AAATAAAATAAAAAAGG
1 AAATAAAATAAAAAAAG
11841907 AAAGTAAAA
1 AAA-TAAAA
11841916 CTTTTAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 14 0.58
19 4 0.17
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAAATAAAAAAAG
Found at i:11842468 original size:18 final size:18
Alignment explanation
Indices: 11842447--11842488 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11842437 TTTGTAATAG
11842447 TTTAAAAGTTCATAAAAA
1 TTTAAAAGTTCATAAAAA
* *
11842465 TTTAAATGTTCATAAGAA
1 TTTAAAAGTTCATAAAAA
11842483 TTTAAA
1 TTTAAA
11842489 GATTTGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (18 bp):
TTTAAAAGTTCATAAAAA
Found at i:11842544 original size:21 final size:20
Alignment explanation
Indices: 11842483--11842545 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
11842473 TTCATAAGAA
*
11842483 TTTAAAGATTTGTAAAT-AAC
1 TTTAAA-ATTTGTAAATAAAT
**
11842503 TTTAAAATTTACAAATGAAAT
1 TTTAAAATTTGTAAAT-AAAT
11842524 TTTAAAATTATGTAAATAAAT
1 TTTAAAATT-TGTAAATAAAT
11842545 T
1 T
11842546 CTAAGGTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.23
20 6 0.17
21 16 0.46
22 5 0.14
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (20 bp):
TTTAAAATTTGTAAATAAAT
Found at i:11842716 original size:44 final size:45
Alignment explanation
Indices: 11842653--11842901 Score: 174
Period size: 45 Copynumber: 5.6 Consensus size: 45
11842643 TATATTCGAG
* * *
11842653 AAATTTTATAGATTCACAT-AAAAAATCA-AAGATTTGCATTTGAA
1 AAATTTTATAAATTCACATCAAAAATTCATAA-ATTTGCATTTAAA
* * * *
11842697 AAATTTTAGAAATTTACAT-ATAAAATTC--AAATATCCATATTAAA
1 AAATTTTATAAATTCACATCA-AAAATTCATAAATTTGCAT-TTAAA
* ** *
11842741 AAATTTTA-AAGATTTACATCCCAAATTCATAAATTTGCATTCAAA
1 AAATTTTATAA-ATTCACATCAAAAATTCATAAATTTGCATTTAAA
* * *** *
11842786 AAATTTTAAAAATTCACATCTAAAATTCATAAATTCATATTTGAA
1 AAATTTTATAAATTCACATCAAAAATTCATAAATTTGCATTTAAA
* * **
11842831 AAATTTTATAAATTCACATCTAAAGTTCA-AAAGTTAACA-TTAAA
1 AAATTTTATAAATTCACATCAAAAATTCATAAA-TTTGCATTTAAA
* *
11842875 AAATTTTA-AAGATTCATATCCAAAATT
1 AAATTTTATAA-ATTCACATCAAAAATT
11842902 TTTAAAAAAA
Statistics
Matches: 168, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
43 10 0.06
44 73 0.43
45 75 0.45
46 10 0.06
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (45 bp):
AAATTTTATAAATTCACATCAAAAATTCATAAATTTGCATTTAAA
Found at i:11842721 original size:89 final size:89
Alignment explanation
Indices: 11842628--11842890 Score: 239
Period size: 89 Copynumber: 3.0 Consensus size: 89
11842618 AATCCATATT
* *
11842628 TAAAATT-AAAGAATTTATATTCGAGAAATTTTATAGATTCACAT-AAAAAATCA-AAGATTTGC
1 TAAAATTCAAA-AATTCATATT-GAAAAATTTTATAGATTCACATCAAAAAATCATAA-ATTTGC
** * *
11842690 ATTTGAAAAATTTTAGAAATTTACATA
63 ATTCAAAAAATTTTAAAAATTCACATA
* * * * * ** *
11842717 TAAAATTCAAATATCCATATTAAAAAATTTTAAAGATTTACATCCCAAATTCATAAATTTGCATT
1 TAAAATTCAAAAATTCATATTGAAAAATTTTATAGATTCACATCAAAAAATCATAAATTTGCATT
*
11842782 CAAAAAATTTTAAAAATTCACATC
66 CAAAAAATTTTAAAAATTCACATA
* * * ** **
11842806 TAAAATTCATAAATTCATATTTGAAAAATTTTATAAATTCACATCTAAAGTTCA-AAAGTTAACA
1 TAAAATTCAAAAATTCATA-TTGAAAAATTTTATAGATTCACATCAAAAAATCATAAA-TTTGCA
*
11842870 TT-AAAAAATTTTAAAGATTCA
64 TTCAAAAAATTTTAAAAATTCA
11842891 TATCCAAAAT
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
88 18 0.13
89 85 0.60
90 38 0.27
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (89 bp):
TAAAATTCAAAAATTCATATTGAAAAATTTTATAGATTCACATCAAAAAATCATAAATTTGCATT
CAAAAAATTTTAAAAATTCACATA
Found at i:11842805 original size:45 final size:44
Alignment explanation
Indices: 11842695--11842901 Score: 175
Period size: 45 Copynumber: 4.7 Consensus size: 44
11842685 TTTGCATTTG
* * ** ** *
11842695 AAAAATTTTAGAAATTTACATATAAAATTCA-AATATCCATATTA
1 AAAAATTTTAAAAATTCACATCCAAAATTCATAA-ATTAACATTA
* * * **
11842739 AAAAATTTTAAAGATTTACATCCCAAATTCATAAATTTGCATTCA
1 AAAAATTTTAAAAATTCACATCCAAAATTCATAAATTAACATT-A
* * * *
11842784 AAAAATTTTAAAAATTCACATCTAAAATTCATAAATTCATATTTG
1 AAAAATTTTAAAAATTCACATCCAAAATTCATAAATTAACA-TTA
* * *
11842829 AAAAATTTTATAAATTCACATCTAAAGTTCA-AAAGTTAACATTA
1 AAAAATTTTAAAAATTCACATCCAAAATTCATAAA-TTAACATTA
* *
11842873 AAAAATTTTAAAGATTCATATCCAAAATT
1 AAAAATTTTAAAAATTCACATCCAAAATT
11842902 TTTAAAAAAA
Statistics
Matches: 132, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
44 60 0.45
45 70 0.53
46 2 0.02
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (44 bp):
AAAAATTTTAAAAATTCACATCCAAAATTCATAAATTAACATTA
Found at i:11842821 original size:21 final size:21
Alignment explanation
Indices: 11842795--11842875 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
11842785 AAAATTTTAA
11842795 AAATTCACATCTAAAATTCAT
1 AAATTCACATCTAAAATTCAT
* * *
11842816 AAATTCATATTTGAAAAATTTTAT
1 AAATTCACATCT--AAAA-TTCAT
*
11842840 AAATTCACATCTAAAGTTCA-
1 AAATTCACATCTAAAATTCAT
*
11842860 AAAGTTAACAT-TAAAA
1 AAA-TTCACATCTAAAA
11842876 AATTTTAAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
20 7 0.15
21 19 0.40
22 3 0.06
23 4 0.09
24 14 0.30
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATTCACATCTAAAATTCAT
Found at i:11842923 original size:24 final size:23
Alignment explanation
Indices: 11842869--11842929 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
11842859 AAAAGTTAAC
* *
11842869 ATTAAAAAATTTTAAAGATTCAT
1 ATTAAAAAATTTTAAAAAATCAT
** *
11842892 ATCCAAAATTTTTAAAAAAATCAT
1 ATTAAAAAATTTT-AAAAAATCAT
*
11842916 ATTAAAAAAATTTA
1 ATTAAAAAATTTTA
11842930 GAGATTCTTA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
ATTAAAAAATTTTAAAAAATCAT
Found at i:11843117 original size:38 final size:36
Alignment explanation
Indices: 11843074--11843146 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 36
11843064 CTATATTTCT
11843074 TTTTCAATCAAGAATCAAAATCTAACCTTAACAAAAAA
1 TTTTCAATCAAGAATCAAAATCTAACC-TAA-AAAAAA
* * *
11843112 TTTTCAATCTAGGATCAAAATCTTACCTAAAAAAA
1 TTTTCAATCAAGAATCAAAATCTAACCTAAAAAAA
11843147 CTTTCCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 5 0.16
37 3 0.09
38 24 0.75
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (36 bp):
TTTTCAATCAAGAATCAAAATCTAACCTAAAAAAAA
Found at i:11847400 original size:16 final size:17
Alignment explanation
Indices: 11847371--11847410 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
11847361 AATTAAAATT
11847371 AAGAAAGAACATAATTAA
1 AAGAAA-AACATAATTAA
11847389 AAGAAAAA-ATAATTAA
1 AAGAAAAACATAATTAA
11847405 AA-AAAA
1 AAGAAAA
11847411 TAAAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 2 0.09
18 6 0.27
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (17 bp):
AAGAAAAACATAATTAA
Found at i:11849033 original size:23 final size:23
Alignment explanation
Indices: 11849007--11849062 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
11848997 TGGCTTGGTT
11849007 CTAACATGGTCAGTTGGCATGTG
1 CTAACATGGTCAGTTGGCATGTG
11849030 CTAACATGGTCAGTTGGCATGTG
1 CTAACATGGTCAGTTGGCATGTG
11849053 CTAACATGGT
1 CTAACATGGT
11849063 GTCATGAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (23 bp):
CTAACATGGTCAGTTGGCATGTG
Found at i:11865591 original size:34 final size:34
Alignment explanation
Indices: 11865553--11865621 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
11865543 CAAGTCACTT
* *
11865553 AATTCTTTTATGAGGGCAATGATCTGTTCTGCCA
1 AATTCTTTTATGAGGGCAATGATCCGCTCTGCCA
11865587 AATTCTTTTATGAGGGCAATGATCCGCTCTGCCA
1 AATTCTTTTATGAGGGCAATGATCCGCTCTGCCA
11865621 A
1 A
11865622 TTTTTGGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (34 bp):
AATTCTTTTATGAGGGCAATGATCCGCTCTGCCA
Found at i:11869034 original size:16 final size:17
Alignment explanation
Indices: 11869003--11869035 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11868993 ATATTTTATT
11869003 AATTAAAATAATAAAAA
1 AATTAAAATAATAAAAA
*
11869020 AATTTAAAT-ATAAAAA
1 AATTAAAATAATAAAAA
11869036 TTCGATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATTAAAATAATAAAAA
Found at i:11879529 original size:150 final size:148
Alignment explanation
Indices: 11879218--11879538 Score: 322
Period size: 150 Copynumber: 2.1 Consensus size: 148
11879208 GAATTTACAA
* * * * *
11879218 AGCCACAAAAATGGCATTGACATGGTAAAAATATGAAGATGTGCCTAAACCCACCTACCATCTGA
1 AGCCACAAAAATGGTATTGGCACGGTAAAAATATGAAGATGTGCCTAAACCCACCTACCACCCGA
* *** *
11879283 TCGTGGCACGCATGATGCTCGACCCAAGCTCAGGACACCCGCGTGTAGTGTTTGGGCACTGTGGA
66 TCGTGGCACGCATGATGCTCGACCCAAGCTCAGGACACCCGCCTGTAGTGCGCGGGCACTGGGGA
* *
11879348 GTGCTCATGTGAATTCAC
131 GGGCTCATATGAATTCAC
* * * **
11879366 AGGCCATAAAAATGGTATTGGCACGGTATAAATATGAAGATGTGCTTAAACCCACCTTTCACCCG
1 A-GCCACAAAAATGGTATTGGCACGGTAAAAATATGAAGATGTGCCTAAACCCACCTACCACCCG
* ** * * ** * * **
11879431 ATTGTGGTGCGCATTGGTGCTCGGCCCGGGTTCAGGACACCCGCACT-TGGTGCGCGGGCGTTGG
65 ATCGTGGCACGCA-TGATGCTCGACCCAAGCTCAGGACACCCGC-CTGTAGTGCGCGGGCACTGG
*
11879495 GGAGGGCTCATATGAATTCATG
128 GGAGGGCTCATATGAATTCA-C
11879517 AGCCACAAAAATGGCT-TTGGCA
1 AGCCACAAAAATGG-TATTGGCA
11879539 TATGGAGTTC
Statistics
Matches: 138, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
148 1 0.01
149 63 0.46
150 71 0.51
151 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (148 bp):
AGCCACAAAAATGGTATTGGCACGGTAAAAATATGAAGATGTGCCTAAACCCACCTACCACCCGA
TCGTGGCACGCATGATGCTCGACCCAAGCTCAGGACACCCGCCTGTAGTGCGCGGGCACTGGGGA
GGGCTCATATGAATTCAC
Found at i:11879779 original size:12 final size:12
Alignment explanation
Indices: 11879759--11879789 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11879749 GGGTTGTGGT
11879759 AGCAGGACCCGC
1 AGCAGGACCCGC
*
11879771 AGTAGGACCCGC
1 AGCAGGACCCGC
11879783 AGCAGGA
1 AGCAGGA
11879790 TCAACAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.35, T:0.03
Consensus pattern (12 bp):
AGCAGGACCCGC
Found at i:11879909 original size:183 final size:183
Alignment explanation
Indices: 11879586--11879915 Score: 430
Period size: 183 Copynumber: 1.8 Consensus size: 183
11879576 GAGGATTGTG
* * * * * *
11879586 GCAGTAAGACCCGTAGCAGGATCGACAGCACGCAAGGGTAACCCGACTGATCCTCAGCTTGCGCA
1 GCAGTAAGACCCGCAGCAGGATCAACAACACGCAAGGGGAACCCGACCGATCCTCAGCTTGCACA
* * * * *
11879651 TCCTACCTCTCTGGCTGGCGTAGTGCCTGTCCACTTTGTTTCATAGGTTGACTTAGGCATACAGA
66 TCCTACCTCTCTGGCTAGCGTAGTACCCGTACACTTCGTTTCATAGGTTGACTTAGGCATACAGA
*
11879716 GTTTATTCTCAATCTAAGCTCCGATCGGATCGAGGGTTGTGGTAGCAGGACCC
131 GTTCATTCTCAATCTAAGCTCCGATCGGATCGAGGGTTGTGGTAGCAGGACCC
* * * *
11879769 GCAGTAGGACCCGCAGCAGGATCAACAACACGCAGAGGGGGACCGGGCCGATCCTCAGCTTGCAC
1 GCAGTAAGACCCGCAGCAGGATCAACAACACGCA-AGGGGAACCCGACCGATCCTCAGCTTGCAC
* * * * *
11879834 ATCCTGCCTCTCTGG-TCAGCTTAGTACCCGTACAC-TCGTTTCGTGGGTTGACTTAGGCATACG
65 ATCCTACCTCTCTGGCT-AGCGTAGTACCCGTACACTTCGTTTCATAGGTTGACTTAGGCATACA
*
11879897 GAGTTCATTCTCAGTCTAA
129 GAGTTCATTCTCAATCTAA
11879916 CCATACGGAG
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
183 72 0.59
184 51 0.41
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (183 bp):
GCAGTAAGACCCGCAGCAGGATCAACAACACGCAAGGGGAACCCGACCGATCCTCAGCTTGCACA
TCCTACCTCTCTGGCTAGCGTAGTACCCGTACACTTCGTTTCATAGGTTGACTTAGGCATACAGA
GTTCATTCTCAATCTAAGCTCCGATCGGATCGAGGGTTGTGGTAGCAGGACCC
Found at i:11884819 original size:150 final size:149
Alignment explanation
Indices: 11884507--11884820 Score: 378
Period size: 149 Copynumber: 2.1 Consensus size: 149
11884497 TATGAAATTT
* ** * * * *
11884507 CAAGCCATAAAAATGGCATTGGCAGGGCAAAAATATGAGGATGTGCCTAAACCCACCTACCACTC
1 CAAGCCACAAAAATGATATTGGAATGGCAAAAATATGAAGATGTGCCTAAACCCACCTACCACCC
* * * * * * ** *
11884572 GATCGTGGCGTGCATGGTGCTCGGCCTGGGCTCAGGACACTCGCGTGTGGTGTATGGGCACTGGG
66 GATCGTGGCGTGCATGGTGCTCGACCCGAGCTCAGGACACCCCCGCGTGGTACACGGGCACTGGG
* *
11884637 GAGTGCTCATGTGAATTCA
131 GAGGGCTCATATGAATTCA
* *
11884656 CAAGCCATAAAAATGATATTGGAATGGCACAAATATGAAGATGTGCCTAAACCCACCTACCACCC
1 CAAGCCACAAAAATGATATTGGAATGGCAAAAATATGAAGATGTGCCTAAACCCACCTACCACCC
* * * *
11884721 GATCGTGGCTTGTATTGGTGCTCGACCCGAGCTCAGGACACCCCCGCGTGGTACCCGGGCATTGG
66 GATCGTGGCGTGCA-TGGTGCTCGACCCGAGCTCAGGACACCCCCGCGTGGTACACGGGCACTGG
11884786 GGAGGGCTCATATGAATTCA
130 GGAGGGCTCATATGAATTCA
*
11884806 TC-GGCCACAAAAATG
1 -CAAGCCACAAAAATG
11884821 GCTTTGGCAT
Statistics
Matches: 139, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
149 70 0.50
150 68 0.49
151 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (149 bp):
CAAGCCACAAAAATGATATTGGAATGGCAAAAATATGAAGATGTGCCTAAACCCACCTACCACCC
GATCGTGGCGTGCATGGTGCTCGACCCGAGCTCAGGACACCCCCGCGTGGTACACGGGCACTGGG
GAGGGCTCATATGAATTCA
Found at i:11885189 original size:25 final size:26
Alignment explanation
Indices: 11885155--11885207 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
11885145 GTTGACTTAG
11885155 GCATACGGAGTTCATT-CCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
* *
11885180 GCATATGGAGTTTATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
11885206 GC
1 GC
11885208 TTAGACCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:11885622 original size:158 final size:158
Alignment explanation
Indices: 11885333--11885637 Score: 346
Period size: 158 Copynumber: 1.9 Consensus size: 158
11885323 CGCACGTTCA
* *
11885333 TTTCGTGGGTTGACTTATGCATACGGAGTTCATTCCCAGTCCAAGCCCCAGCTGGATCGAGGGAC
1 TTTCGTGGGTTGACTTAAGCATACGGAGTTCATTCCCAGTCCAAGCCCCAGCTGGATCAAGGGAC
* * * ***
11885398 CCGTAGTAGGATCTGCAACACATAGAGGGGGACCAGGTCGATCCTCGGGTTGCACATTCTACCTC
66 CCGCAGTAGGATCCGCAACACACAGAGGGGGACCAGGTCGATCCTCACCTTGCACATTCTACCTC
*
11885463 TCTGGCCGACTTAGTGCACACACACTCG
131 TCTAGCCGACTTAGTGCACACACACTCG
* * * *
11885491 TTTCGTGGGTTGACTTAAGCATACGGAGTTTATTCCTAGTCTAAGCCCCAGTTGGA-CTAAGGGA
1 TTTCGTGGGTTGACTTAAGCATACGGAGTTCATTCCCAGTCCAAGCCCCAGCTGGATC-AAGGGA
* * * * * * * **
11885555 CCTGCAGTAGGATCCGCAGCACACCG-GGAGGGATC-GAGTCGATCCTTACCTTGTATATTCTGG
65 CCCGCAGTAGGATCCGCAACACACAGAGG-GGGACCAG-GTCGATCCTCACCTTGCACATTCTAC
* *
11885618 CTCTCTAGTCGGCTTAGTGC
128 CTCTCTAGCCGACTTAGTGC
11885638 CTGCATGCTT
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
157 4 0.03
158 116 0.97
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.26
Consensus pattern (158 bp):
TTTCGTGGGTTGACTTAAGCATACGGAGTTCATTCCCAGTCCAAGCCCCAGCTGGATCAAGGGAC
CCGCAGTAGGATCCGCAACACACAGAGGGGGACCAGGTCGATCCTCACCTTGCACATTCTACCTC
TCTAGCCGACTTAGTGCACACACACTCG
Found at i:11899930 original size:68 final size:68
Alignment explanation
Indices: 11899825--11899955 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 68
11899815 ATGGTGGTCG
* * * * *
11899825 AGGCATGTGCCTGCTCCAAGGCCCAGCACGTGTTGATGGTGGTCGAGGCAACCGCCTGCACCAGC
1 AGGCATGTGCCTACACCAAGGCCCAACACATGCTGATGGTGGTCGAGGCAACCGCCTGCACCAGC
11899890 TCA
66 TCA
* * * *
11899893 AGGCATGTGCC-ACACCAAGGCCCAACAACATGCTGATGGTGTTCGAGGTAACCGTCTGTACCA
1 AGGCATGTGCCTACACCAAGGCCCAAC-ACATGCTGATGGTGGTCGAGGCAACCGCCTGCACCA
11899956 AGGCCCAGCA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
67 12 0.23
68 41 0.77
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (68 bp):
AGGCATGTGCCTACACCAAGGCCCAACACATGCTGATGGTGGTCGAGGCAACCGCCTGCACCAGC
TCA
Found at i:11899989 original size:293 final size:293
Alignment explanation
Indices: 11899401--11900090 Score: 744
Period size: 293 Copynumber: 2.4 Consensus size: 293
11899391 TGATTGAAGT
*** *
11899401 AACCGCCCACACCAAGGCCCAGCATGTGTCGATGGTGTTCGATGCAA-CTGTTCGCATCAAGGGC
1 AACCGCCCACACCAAGGCCCAGCATGTGTCGATGGTGTTCGATGCAACCACAT-GCACCAAGGGC
* * * * * *
11899465 CATCTTTTACCTATGGTGGTCGAGGCAAGTGCCTGCACCAAAGGTCGGCTTGTGTCGATGGTGGT
65 CATCTTCTACCGATGGTGGTTGAAGCAAGTGCCCGCACCAAAGGTCGGCTTGTGCCGATGGTGGT
* * * *
11899530 CGAGGCATGTGCTCATACCAAGGCCTAGCACATGCCGATGGTGGTCGAGGTAGCCGCCCGTACCA
130 CGAGGCATGTGCTCATACCAAGGCCCAGCACATGCCGATGGTGGTCGAGGCAACCGCCCGCACCA
* * * * ** **
11899595 ACTCGAGGCATGTGCCCTCATCAAGGCCCAGCATGTGCCGATGGTGTTCGAGGTAATTACCCGCA
195 ACTCAAGGCATGTGCCCACACCAAGGCCCAACACATGCCGATGGTGTTCGAGGTAACCACCCGCA
* * * * * *
11899660 CTAGAGGCCATCTTCTACTGATGGTGATCAAGGC
260 CCAGAGGCCAGCATATACCGATGATGATCAAGGC
* * * * * **
11899694 AACTGCCCAAACCAAGGCCCAGAATGTGTCGATCGTGTTCGATGCAACCACATACACCGGGGGCC
1 AACCGCCCACACCAAGGCCCAGCATGTGTCGATGGTGTTCGATGCAACCACATGCACCAAGGGCC
*
11899759 ATCTTCTACCGATGGTGGTTGAAGTAAGTGCCCGCACCAAAGGTCGGCTTGTGCCGATGGTGGTC
66 ATCTTCTACCGATGGTGGTTGAAGCAAGTGCCCGCACCAAAGGTCGGCTTGTGCCGATGGTGGTC
* ** *
11899824 GAGGCATGTGCCTGC-T-CCAAGGCCCAGCACGTGTTGATGGTGGTCGAGGCAACCGCCTGCACC
131 GAGGCATGTG-CT-CATACCAAGGCCCAGCACATGCCGATGGTGGTCGAGGCAACCGCCCGCACC
* * ** *
11899887 AGCTCAAGGCATGTG-CCACACCAAGGCCCAACAACATGCTGATGGTGTTCGAGGTAACCGTCTG
194 AACTCAAGGCATGTGCCCACACCAAGGCCCAAC-ACATGCCGATGGTGTTCGAGGTAACCACCCG
* * * **
11899951 TACCA-AGGCCCAGCATATGCCGATGATGTTTGAGGC
258 CACCAGAGG-CCAGCATATACCGATGATGATCAAGGC
* * * * * ** *
11899987 AACCACCCTCACCAAGGCCCAGCTTGTGCCGATGGTGTTCGAGGCAACCACGCGCACCATGGGCC
1 AACCGCCCACACCAAGGCCCAGCATGTGTCGATGGTGTTCGATGCAACCACATGCACCAAGGGCC
** *
11900052 ATCTTCTACCGATGGTGGTTGGGGCAAGTG-TCGCACCAA
66 ATCTTCTACCGATGGTGGTTGAAGCAAGTGCCCGCACCAA
11900091 GGCCCAAGAT
Statistics
Matches: 324, Mismatches: 68, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
292 25 0.08
293 293 0.90
294 5 0.02
295 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.21
Consensus pattern (293 bp):
AACCGCCCACACCAAGGCCCAGCATGTGTCGATGGTGTTCGATGCAACCACATGCACCAAGGGCC
ATCTTCTACCGATGGTGGTTGAAGCAAGTGCCCGCACCAAAGGTCGGCTTGTGCCGATGGTGGTC
GAGGCATGTGCTCATACCAAGGCCCAGCACATGCCGATGGTGGTCGAGGCAACCGCCCGCACCAA
CTCAAGGCATGTGCCCACACCAAGGCCCAACACATGCCGATGGTGTTCGAGGTAACCACCCGCAC
CAGAGGCCAGCATATACCGATGATGATCAAGGC
Found at i:11900045 original size:45 final size:46
Alignment explanation
Indices: 11899927--11900124 Score: 142
Period size: 45 Copynumber: 4.4 Consensus size: 46
11899917 ACAACATGCT
* * *
11899927 GATGGTGTTCGAGGTAA-C-CGTCTGTACCAAGGCCCAGCATATGCC
1 GATGGTGTTCGAGGCAACCACGTC-GCACCAAGGCCCAGCATGTGCC
* * * * *
11899972 GATGATGTTTGAGGCAACCAC-CCTCACCAAGGCCCAGCTTGTGCC
1 GATGGTGTTCGAGGCAACCACGTCGCACCAAGGCCCAGCATGTGCC
* * * * * *
11900017 GATGGTGTTCGAGGCAACCACG-CGCACCATGGGCCATCTTCTACC
1 GATGGTGTTCGAGGCAACCACGTCGCACCAAGGCCCAGCATGTGCC
* **
11900062 GATGGTGGTT-GGGGCAA--GTGTCGCACCAAGGCCCAAG-ATGTGCC
1 GATGGT-GTTCGAGGCAACCACGTCGCACCAAGGCCC-AGCATGTGCC
* *
11900106 AATGGTGTTTGAGGCAACC
1 GATGGTGTTCGAGGCAACC
11900125 GTACGCACCA
Statistics
Matches: 117, Mismatches: 27, Indels: 17
0.73 0.17 0.11
Matches are distributed among these distances:
43 4 0.03
44 26 0.22
45 81 0.69
46 5 0.04
47 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.21
Consensus pattern (46 bp):
GATGGTGTTCGAGGCAACCACGTCGCACCAAGGCCCAGCATGTGCC
Found at i:11900380 original size:161 final size:162
Alignment explanation
Indices: 11900042--11900404 Score: 392
Period size: 161 Copynumber: 2.3 Consensus size: 162
11900032 AACCACGCGC
* * * * * * * * * * *
11900042 ACCATGGGCCATCTTCTACCGATGGTGGTTGGGGCAAGTG-TCGCACCAAGGCCCAAGATGTGCC
1 ACCAAGGGCCAGCTTGTACCAATGGTGGTCGAGGCAAGTGCCCGTACCGAGGCCCAACACGTGCC
* * * * **
11900106 AATGGTGTTTGAGGCAACCGTACGCACCATGGACCATCTTCTGTCGATGCTGATTGAGGCATGGC
66 AATGGTGCTTGAGGCAACCGTACACACCAAGGACCATCTTCTGTCGATGCTCATCAAGGCATGGC
*
11900171 ACATGCCAATGGTGGTCTAGGCAAGTGCCCAT
131 ACATGCCAATGGTGGTCAAGGCAAGTGCCCAT
* * ** *
11900203 ACCAATGGCTAGCTTGTGA-CGGTGGTGGTCGAGGCATGTGCCCGTACCGAGGCCCAACACGTGC
1 ACCAAGGGCCAGCTTGT-ACCAATGGTGGTCGAGGCAAGTGCCCGTACCGAGGCCCAACACGTGC
* * *
11900267 CGATGGTGCTTGAGGTAACCGTCCACACCAAAGG-CCATCTTCTGTCGATGCTCATCAAGGCAT-
65 CAATGGTGCTTGAGGCAACCGTACACACC-AAGGACCATCTTCTGTCGATGCTCATCAAGGCATG
** * * **
11900330 GCATGTGTCGATGGTGGTCAAGGCAAGTGCCTGT
129 GCACATGCCAATGGTGGTCAAGGCAAGTGCCCAT
11900364 ACCAAGGGCCAGCTTGTACCAATGGTGGTCGAGGCAAGTGC
1 ACCAAGGGCCAGCTTGTACCAATGGTGGTCGAGGCAAGTGC
11900405 TCGCACCAAA
Statistics
Matches: 163, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
160 1 0.01
161 90 0.55
162 69 0.42
163 3 0.02
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (162 bp):
ACCAAGGGCCAGCTTGTACCAATGGTGGTCGAGGCAAGTGCCCGTACCGAGGCCCAACACGTGCC
AATGGTGCTTGAGGCAACCGTACACACCAAGGACCATCTTCTGTCGATGCTCATCAAGGCATGGC
ACATGCCAATGGTGGTCAAGGCAAGTGCCCAT
Found at i:11900461 original size:13 final size:13
Alignment explanation
Indices: 11900443--11900467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11900433 ATGGTCGATG
11900443 CATGTGCCATCAC
1 CATGTGCCATCAC
11900456 CATGTGCCATCA
1 CATGTGCCATCA
11900468 TATGCCGTTG
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:11901328 original size:150 final size:148
Alignment explanation
Indices: 11901032--11901345 Score: 378
Period size: 150 Copynumber: 2.1 Consensus size: 148
11901022 GAATTTTCAA
*
11901032 GCCATAAAAAATGGCATTGGCATGGCAAAAATATGAAGATATGCCTAAACCCACCTATCACCCGA
1 GCCAT-AAAAATGGCATTGGCATGGCAAAAATATGAAGATATGCCTAAACCCACCTACCACCCGA
* * ** * *
11901097 TCGTGACGCGCATGGTGCTCGACCAGGGCTCAGGACACCCGTGCGTGGTGTGCAAGTGCTGGGGA
65 TCGTGACGCACATGGTGCTCGACCAGGGCTCAAGACACCCGCACGTGGTGTGC-AGGGCTAGGGA
* * * *
11901162 GTGCTTATGTGTATTCACAG
129 GGGCTCATATGAATTCACAG
* * * * *
11901182 GCCATAAAAATGGTATTGGCATGGCAAAAATATGAAGATGTGCGTAAAGCCACCTACCACCCGGT
1 GCCATAAAAATGGCATTGGCATGGCAAAAATATGAAGATATGCCTAAACCCACCTACCACCCGAT
* * * *
11901247 CGTGGCGCACATTGGTGCTCGGCCCGGGCTCAAGACACCCGCATGTGGTGTGC-GGGCATTAGGG
66 CGTGACGCACA-TGGTGCTCGACCAGGGCTCAAGACACCCGCACGTGGTGTGCAGGGC--TAGGG
**
11901311 AGGGCTCATATGAATTCATGG
128 AGGGCTCATATGAATTCACAG
11901332 GCCATAAAAATGGC
1 GCCATAAAAATGGC
11901346 TTTCGCATAC
Statistics
Matches: 138, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
148 3 0.02
149 63 0.46
150 72 0.52
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (148 bp):
GCCATAAAAATGGCATTGGCATGGCAAAAATATGAAGATATGCCTAAACCCACCTACCACCCGAT
CGTGACGCACATGGTGCTCGACCAGGGCTCAAGACACCCGCACGTGGTGTGCAGGGCTAGGGAGG
GCTCATATGAATTCACAG
Found at i:11901957 original size:157 final size:157
Alignment explanation
Indices: 11901675--11901973 Score: 350
Period size: 157 Copynumber: 1.9 Consensus size: 157
11901665 GCTTATTTCG
* * * * * *
11901675 TGGGTTGACATATGCATACGGAGTTCATTCCCAGTCCAAGCCCCAACAGATCGGGGGACCTGCAG
1 TGGGTTGACATAGGCATACAGAGTTCATTCCCAATCCAAGCCCCAACAAATCGAGGGACCTACAG
* ** * * **
11901740 TAGGATCCGTAGCACACAGAGGGGGATTGGGTCGATCCTCGGGTTGTGCAATCTACCTCTCTGGT
66 TAGGATCCGCAGCACACAGAGGGGGACCGAGTCGATCCTCAGGTTGCACAATCTACCTCTCTGGT
* *
11901805 CGATTTAGTGCCCGTACGCTCGTTATA
131 CGACTTAATGCCCGTACGCTCGTTATA
* * * *
11901832 TGGGTTGACATAGGCATACAGAGTTCATTCCCAATCTAAGTCCTAGTCAAAT-GAGGGACCTACA
1 TGGGTTGACATAGGCATACAGAGTTCATTCCCAATCCAAGCCCCA-ACAAATCGAGGGACCTACA
* * * **
11901896 GTAGGATTCGCAGCACACCGAGGGGGACCGAGTCGATCC-CTAGGTTGCACATTCTGGCTCTCTG
65 GTAGGATCCGCAGCACACAGAGGGGGACCGAGTCGATCCTC-AGGTTGCACAATCTACCTCTCTG
11901960 GTCGACTTAATGCC
129 GTCGACTTAATGCC
11901974 TGCACACTTG
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
156 1 0.01
157 111 0.96
158 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.24
Consensus pattern (157 bp):
TGGGTTGACATAGGCATACAGAGTTCATTCCCAATCCAAGCCCCAACAAATCGAGGGACCTACAG
TAGGATCCGCAGCACACAGAGGGGGACCGAGTCGATCCTCAGGTTGCACAATCTACCTCTCTGGT
CGACTTAATGCCCGTACGCTCGTTATA
Found at i:11901995 original size:157 final size:156
Alignment explanation
Indices: 11901670--11902021 Score: 341
Period size: 157 Copynumber: 2.2 Consensus size: 156
11901660 CATACGCTTA
* * * *
11901670 TTTCGTGGGTTGACATATGCATACGGAGTTCATTCCCAGTCCAAGCCCCAACAGATCGGGGGACC
1 TTTCGTGGGTTGACATAGGCATAC-GAGTTCATTCCCAATCCAAGCCCCAACAAATCGAGGGACC
* * ** * * **
11901735 TGCAGTAGGATCCGTAGCACACAGAGGGGGATTGGGTCGATCCTCGGGTTGTGCAATCTACCTCT
65 TACAGTAGGATCCGCAGCACACAGAGGGGGACCGAGTCGATCCTCAGGTTGCACAATCTACCTCT
* * * *
11901800 CTGGTCGATTTAGTGCCCGTACGCTCG
130 CTGGTCGACTTAATGCCCGCACACTCG
* * * * *
11901827 TTAT-ATGGGTTGACATAGGCATACAGAGTTCATTCCCAATCTAAGTCCTAGTCAAAT-GAGGGA
1 TT-TCGTGGGTTGACATAGGCATAC-GAGTTCATTCCCAATCCAAGCCCCA-ACAAATCGAGGGA
* * * **
11901890 CCTACAGTAGGATTCGCAGCACACCGAGGGGGACCGAGTCGATCC-CTAGGTTGCACATTCTGGC
63 CCTACAGTAGGATCCGCAGCACACAGAGGGGGACCGAGTCGATCCTC-AGGTTGCACAATCTACC
* *
11901954 TCTCTGGTCGACTTAATGCCTGCACACTTG
127 TCTCTGGTCGACTTAATGCCCGCACACTCG
* * * *
11901984 TTTCGTAGGTTGACTTAGGCTTACGTAGTGCATTCCCA
1 TTTCGTGGGTTGACATAGGCATACG-AGTTCATTCCCA
11902022 GTCTTGACCA
Statistics
Matches: 156, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
156 3 0.02
157 148 0.95
158 5 0.03
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (156 bp):
TTTCGTGGGTTGACATAGGCATACGAGTTCATTCCCAATCCAAGCCCCAACAAATCGAGGGACCT
ACAGTAGGATCCGCAGCACACAGAGGGGGACCGAGTCGATCCTCAGGTTGCACAATCTACCTCTC
TGGTCGACTTAATGCCCGCACACTCG
Found at i:11909746 original size:90 final size:90
Alignment explanation
Indices: 11909575--11909749 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
11909565 CAGCACATGC
* * * *
11909575 CGATGGTGTTCGAGGTAACCACCCGCACCAAGGCCCAGTATGTGCCGATGGTGTTCGATGCAACC
1 CGATGGTGATCGAAGCAACCACCCGCACCAAGGCCCAGCATGTGCCGATGGTGTTCGATGCAACC
**
11909640 GCCCGTACCGAGGGCCATCTCCTAT
66 GCCCACACCGAGGGCCATCTCCTAT
* * * * *
11909665 CGATGGTGATCGAAGCAACCTCTCGCACCAAGGCCTAGCATGTGCC-AGTGGTGTTGGATGTAAC
1 CGATGGTGATCGAAGCAACCACCCGCACCAAGGCCCAGCATGTGCCGA-TGGTGTTCGATGCAAC
*
11909729 TGCCCACACC-AGAGGCCATCT
65 CGCCCACACCGAG-GGCCATCT
11909750 TTCTACCACT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
89 3 0.04
90 68 0.96
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (90 bp):
CGATGGTGATCGAAGCAACCACCCGCACCAAGGCCCAGCATGTGCCGATGGTGTTCGATGCAACC
GCCCACACCGAGGGCCATCTCCTAT
Found at i:11909849 original size:45 final size:45
Alignment explanation
Indices: 11909759--11909863 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
11909749 TTTCTACCAC
* * ** **
11909759 TGGTGGTCGAGGCAAGTGCCCGCACCAAGGGTTGGCTTGTACCGA
1 TGGTGGTCGAGGCAAGTACCCGCACCAAGGGCTAACACGTACCGA
* *
11909804 TGGTGGTCGAGGCATGTACCCGCACCAAGGGCTAACACGTGCCGA
1 TGGTGGTCGAGGCAAGTACCCGCACCAAGGGCTAACACGTACCGA
* *
11909849 TGGTGTTTGAGGCAA
1 TGGTGGTCGAGGCAA
11909864 TCGCTCGTAC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.20, C:0.24, G:0.36, T:0.20
Consensus pattern (45 bp):
TGGTGGTCGAGGCAAGTACCCGCACCAAGGGCTAACACGTACCGA
Found at i:11910891 original size:27 final size:27
Alignment explanation
Indices: 11910833--11910891 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
11910823 AAAACTCCTA
***
11910833 AAAAAATTTTAAAAAATTATGAACTGT
1 AAAAAATTTTAAAAAATTATGAAAAAT
*
11910860 AAAAAATTTT-AAAATTTATGAAAAAT
1 AAAAAATTTTAAAAAATTATGAAAAAT
*
11910886 AGAAAA
1 AAAAAA
11910892 CAAGTCATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAAAATTTTAAAAAATTATGAAAAAT
Found at i:11911817 original size:158 final size:157
Alignment explanation
Indices: 11911524--11911951 Score: 409
Period size: 158 Copynumber: 2.7 Consensus size: 157
11911514 GGTAGCATGT
* * * * ** * * *
11911524 AGAAGGGGACTGGGTCGAT-CCTCAGCTTATGCATCCTGTCTCTCTGGCTGGCTCAGTGCCCGCA
1 AGAAGGGGACCGGGTCGATCCCT-AACTTACGCATTCTACCTCTCTGGCTGACTTAGTACCCGCA
* * * *
11911588 CGCTCGTTTCGTGGGTTGACTTAGGCATATGGAGTTCATTCTCAGTCTAAGCCTCAACCAGACCG
65 CGCTTGTTTCGTGGGTTGACTTAGGCATA-CGAGTTCATTCCCAGTCTAAGCCCCAACCAGACCG
* * *
11911653 AGGGACCCATATA-AGGATCTACAACACAC
129 AAGGACCCATA-ACAAGATCCACAACACAC
* * *
11911682 AG-AGAGGGATCGGGTCGAT-TCTCAACTTGCGCATTCTACCTCTCTGG-TCGACTTAGTACCCG
1 AGAAG-GGGACCGGGTCGATCCCT-AACTTACGCATTCTACCTCTCTGGCT-GACTTAGTACCCG
*
11911744 CACGCTTGTTTCGTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGCCCCAA-TAGGA
63 CACGCTTGTTTCGTGGGTTGACTTAGGCATAC-GAGTTCATTCCCAGTCTAAGCCCCAACCA-GA
* ** * *
11911808 CTGAAGGACCCATAACAAGATCCGTAGCATAC
126 CCGAAGGACCCATAACAAGATCCACAACACAC
* * * * * * *
11911840 CGAAGGGGACCGGGTCGATCCCTAGCTTATGCATTCTAGCTCTCTGGCTGGCTTAGTTCCTGCAC
1 AGAAGGGGACCGGGTCGATCCCTAACTTACGCATTCTACCTCTCTGGCTGACTTAGTACCCGCAC
* * * *
11911905 GTTTGTTTCATGTGTTGACTTAGGCATACGTAGTGCATTCCCAGTCT
66 GCTTGTTTCGTGGGTTGACTTAGGCATACG-AGTTCATTCCCAGTCT
11911952 TGACGAACCA
Statistics
Matches: 222, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
157 6 0.03
158 211 0.95
159 5 0.02
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (157 bp):
AGAAGGGGACCGGGTCGATCCCTAACTTACGCATTCTACCTCTCTGGCTGACTTAGTACCCGCAC
GCTTGTTTCGTGGGTTGACTTAGGCATACGAGTTCATTCCCAGTCTAAGCCCCAACCAGACCGAA
GGACCCATAACAAGATCCACAACACAC
Found at i:11913532 original size:45 final size:45
Alignment explanation
Indices: 11913480--11913590 Score: 116
Period size: 45 Copynumber: 2.5 Consensus size: 45
11913470 CCATCTTCTA
* * ** * **
11913480 CCGATGGTGGTCGAGGCCAGTGCCCGCACCAAGGGTCAGCATGTG
1 CCGATGGTGCTCGAGGCAACCGCCCACACCAAGGCCCAGCATGTG
* *
11913525 -CGAATGGTGCTAGAGGCAACCGCCCATACCAAGGCCCAGCATGTG
1 CCG-ATGGTGCTCGAGGCAACCGCCCACACCAAGGCCCAGCATGTG
*
11913570 CCGATGGTGTTCGAGGCAACC
1 CCGATGGTGCTCGAGGCAACC
11913591 ACACGCACTA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
44 2 0.04
45 49 0.92
46 2 0.04
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (45 bp):
CCGATGGTGCTCGAGGCAACCGCCCACACCAAGGCCCAGCATGTG
Found at i:11914399 original size:26 final size:26
Alignment explanation
Indices: 11914345--11914401 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
11914335 CTCCTTCTAA
***
11914345 AAAAATTTTAGAAAATCTCGAACCGT
1 AAAAATTTTAGAAAATCTCGAAAAAT
11914371 AAAAATTTTAGAAAATCGT-GAAAAAT
1 AAAAATTTTAGAAAATC-TCGAAAAAT
11914397 AAAAA
1 AAAAA
11914402 ACGAGTCATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.25
Consensus pattern (26 bp):
AAAAATTTTAGAAAATCTCGAAAAAT
Found at i:11921603 original size:45 final size:45
Alignment explanation
Indices: 11921457--11921581 Score: 225
Period size: 45 Copynumber: 2.8 Consensus size: 45
11921447 GAGGCAATTG
11921457 CCCGTACCAAGGCCCAGCATATGCCGATGGTGTTCAAAGAAACCA
1 CCCGTACCAAGGCCCAGCATATGCCGATGGTGTTCAAAGAAACCA
11921502 CCCGTACCAAGGCCCAGCATATGCCGATGGTGTTCAAAGAAACCA
1 CCCGTACCAAGGCCCAGCATATGCCGATGGTGTTCAAAGAAACCA
*
11921547 CCCGTACCAAGGCCCAGCATGTGCC-AGTGGTGTTC
1 CCCGTACCAAGGCCCAGCATATGCCGA-TGGTGTTC
11921582 GAGGTGACCG
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
44 1 0.01
45 77 0.99
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.17
Consensus pattern (45 bp):
CCCGTACCAAGGCCCAGCATATGCCGATGGTGTTCAAAGAAACCA
Found at i:11921682 original size:90 final size:90
Alignment explanation
Indices: 11921552--11921718 Score: 219
Period size: 90 Copynumber: 1.9 Consensus size: 90
11921542 AACCACCCGT
* * **
11921552 ACCAAGGCCCAGCATGTGCCAGTGGTGTTCGAGGTGACCGC-CTGCACCAAGGGCCATATTCTAC
1 ACCAAGGCCCAGCATGTGCCAATGGTGTTCGACGCAACCGCTC-GCACCAAGGGCCATATTCTAC
**
11921616 TGATGGTGATCGAGGCAACTGTCCGC
65 CAATGGTGATCGAGGCAACTGTCCGC
* * * * *
11921642 ACCAAGGCCCAGCATGTGTCAATGGTGTTCGACGCAACCGCTCGCACTAGGGGCCATCTTCTGCC
1 ACCAAGGCCCAGCATGTGCCAATGGTGTTCGACGCAACCGCTCGCACCAAGGGCCATATTCTACC
11921707 AATGGTGATCGA
66 AATGGTGATCGA
11921719 CACATGGCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 64 0.98
91 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (90 bp):
ACCAAGGCCCAGCATGTGCCAATGGTGTTCGACGCAACCGCTCGCACCAAGGGCCATATTCTACC
AATGGTGATCGAGGCAACTGTCCGC
Found at i:11921688 original size:45 final size:45
Alignment explanation
Indices: 11921433--11921688 Score: 183
Period size: 45 Copynumber: 5.7 Consensus size: 45
11921423 GGCTGACTTG
* * * ** *
11921433 TGCCGATGGTGCTCGAGGCAATTGCCCGTACCAAGGCCCAGCATA
1 TGCCGATGGTGTTCGAAGAAACCGCCCGCACCAAGGCCCAGCATA
* * *
11921478 TGCCGATGGTGTTCAAAGAAACCACCCGTACCAAGGCCCAGCATA
1 TGCCGATGGTGTTCGAAGAAACCGCCCGCACCAAGGCCCAGCATA
* * * *
11921523 TGCCGATGGTGTTCAAAGAAACCACCCGTACCAAGGCCCAGCATG
1 TGCCGATGGTGTTCGAAGAAACCGCCCGCACCAAGGCCCAGCATA
* ** * * * *
11921568 TGCC-AGTGGTGTTCGAGGTGACCGCCTGCACCAAGGGCCA-TATTC
1 TGCCGA-TGGTGTTCGAAGAAACCGCCCGCACCAAGGCCCAGCA-TA
* * * * * * * *
11921613 TACTGATGGTGATCGAGGCAACTGTCCGCACCAAGGCCCAGCATG
1 TGCCGATGGTGTTCGAAGAAACCGCCCGCACCAAGGCCCAGCATA
* * * * *
11921658 TGTCAATGGTGTTCGACGCAACCGCTCGCAC
1 TGCCGATGGTGTTCGAAGAAACCGCCCGCAC
11921689 TAGGGGCCAT
Statistics
Matches: 169, Mismatches: 38, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
44 2 0.01
45 165 0.98
46 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.18
Consensus pattern (45 bp):
TGCCGATGGTGTTCGAAGAAACCGCCCGCACCAAGGCCCAGCATA
Found at i:11921898 original size:162 final size:160
Alignment explanation
Indices: 11921640--11922105 Score: 479
Period size: 162 Copynumber: 2.9 Consensus size: 160
11921630 GCAACTGTCC
* * *
11921640 GCACCAAGGCCCAGCATGTG-TCAATGGTGTTCGACGCAACCGCTCGCACTAGGGGCCATCTTCT
1 GCACCAAGGCCCAGCATGTGCT-GATGGTGTTCGAGGCAACCGCT-GCACCAGGGGCCATCTTCT
* ** ** *
11921704 GCCAATGGTGATCGACACATGGCACGTGCCGATGGTGGTCGAGGCAAGTGCCCACACC-ATGGGC
64 ACCAATGCCGATCGAGGCAT-GCACGTGCCGATGGTGGTCGAGGCAAGTGCCCACACCAATGGCC
* *
11921768 TGGCTTGTGCCGATGGCGCTCGAGGCAACCACCA
128 AGG-TTGTGACGATGGCGCTCGAGGCAACCACCA
*
11921802 GCACCAAGGCCCAGCATGTGCTGATGGTGTTTGAGGCAACCGCGTGCACCAGGGGCCATCTTCTA
1 GCACCAAGGCCCAGCATGTGCTGATGGTGTTCGAGGCAACCGC-TGCACCAGGGGCCATCTTCTA
* * ***
11921867 CCAATGCCGATCGAGGCATAGCACATGCCGATGGTGGTCCAGGCAAGTGCCTGTACCAATGGCCA
65 CCAATGCCGATCGAGGCAT-GCACGTGCCGATGGTGGTCGAGGCAAGTGCCCACACCAATGGCCA
* * **** *
11921932 GGTTGTGACGATGGTGGTCGAGGCATGTGCCC
129 GGTTGTGACGATGGCGCTCGAGGCAACCACCA
* * ** *
11921964 GCACCAAGGCCCAGCACGTGCCGATGGTGTTCGAGGCAACCGCCCACACCAAGGGCCATCTTCTA
1 GCACCAAGGCCCAGCATGTGCTGATGGTGTTCGAGGCAACCG-CTGCACCAGGGGCCATCTTCTA
* * * * * * ** *
11922029 TCGATGCTC-ATCAAGGCATGCATGTGTCGATGGTGGTCGAGGCAAGTGCTCGTACCAAGGGCCA
65 CCAATGC-CGATCGAGGCATGCACGTGCCGATGGTGGTCGAGGCAAGTGCCCACACCAATGGCCA
* *
11922093 GCTTGTGTCGATG
129 GGTTGTGACGATG
11922106 ACAGTCAAGG
Statistics
Matches: 256, Mismatches: 43, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
161 49 0.19
162 196 0.77
163 11 0.04
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (160 bp):
GCACCAAGGCCCAGCATGTGCTGATGGTGTTCGAGGCAACCGCTGCACCAGGGGCCATCTTCTAC
CAATGCCGATCGAGGCATGCACGTGCCGATGGTGGTCGAGGCAAGTGCCCACACCAATGGCCAGG
TTGTGACGATGGCGCTCGAGGCAACCACCA
Found at i:11921970 original size:45 final size:45
Alignment explanation
Indices: 11921886--11922017 Score: 122
Period size: 45 Copynumber: 2.9 Consensus size: 45
11921876 ATCGAGGCAT
* * * * *
11921886 AGCACATGCCGATGGTGGTCCAGGCAAGTGCCTGTACCAATGG-CC
1 AGCACGTGACGATGGTGGTCGAGGCAAGTGCCCGCACCAA-GGCCC
*** *
11921931 AGGTTGTGACGATGGTGGTCGAGGCATGTGCCCGCACCAAGGCCC
1 AGCACGTGACGATGGTGGTCGAGGCAAGTGCCCGCACCAAGGCCC
* * ** *
11921976 AGCACGTGCCGATGGTGTTCGAGGCAACCGCCCACACCAAGG
1 AGCACGTGACGATGGTGGTCGAGGCAAGTGCCCGCACCAAGG
11922018 GCCATCTTCT
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
44 2 0.03
45 66 0.97
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (45 bp):
AGCACGTGACGATGGTGGTCGAGGCAAGTGCCCGCACCAAGGCCC
Found at i:11923917 original size:22 final size:22
Alignment explanation
Indices: 11923887--11923933 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
11923877 CCGAGGGTGA
*
11923887 GCAGGTGCCGATGGTGGTCGAG
1 GCAGATGCCGATGGTGGTCGAG
11923909 GCAGATGCCGATGGTGGTCGAG
1 GCAGATGCCGATGGTGGTCGAG
11923931 GCA
1 GCA
11923934 TGTGCCCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.47, T:0.17
Consensus pattern (22 bp):
GCAGATGCCGATGGTGGTCGAG
Found at i:11923939 original size:22 final size:21
Alignment explanation
Indices: 11923891--11923939 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 21
11923881 GGGTGAGCAG
11923891 GTGCCGATGGTGGTCGAGGCA
1 GTGCCGATGGTGGTCGAGGCA
11923912 GATGCCGATGGTGGTCGAGGCA
1 G-TGCCGATGGTGGTCGAGGCA
11923934 TGTGCC
1 -GTGCC
11923940 CATGTCATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.20
Consensus pattern (21 bp):
GTGCCGATGGTGGTCGAGGCA
Found at i:11925173 original size:45 final size:45
Alignment explanation
Indices: 11925124--11925236 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 45
11925114 AGGGTCAGTT
* * *
11925124 TGTACCGATGGTGTTTGAGGCAATCGCTCTCACCAAGGCCCAACA
1 TGTACCGATGGTGTTCGAGGCAATCGCCCACACCAAGGCCCAACA
*** * * *
11925169 TGTACCGATGGTGTTCGAAAAAATTGCCCACACCAAGGCCTAGCA
1 TGTACCGATGGTGTTCGAGGCAATCGCCCACACCAAGGCCCAACA
*
11925214 TGTGCCGATGGTGTTCGAGGCAA
1 TGTACCGATGGTGTTCGAGGCAA
11925237 CCATCCGCAC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.22
Consensus pattern (45 bp):
TGTACCGATGGTGTTCGAGGCAATCGCCCACACCAAGGCCCAACA
Found at i:11925248 original size:45 final size:44
Alignment explanation
Indices: 11925128--11925364 Score: 125
Period size: 45 Copynumber: 5.3 Consensus size: 44
11925118 TCAGTTTGTA
* * * * * * *
11925128 CCGATGGTGTTTGAGGCAATCGCTCTCACCAAGGCCCAACATGTA
1 CCGATGGTGTTCGAGGCAACCACCCGCACCAAGG-CCAGCATGTG
*** *** *
11925173 CCGATGGTGTTCGAAAAAATTGCCCACACCAAGGCCTAGCATGTG
1 CCGATGGTGTTCGAGGCAACCACCCGCACCAAGGCC-AGCATGTG
* * * * *
11925218 CCGATGGTGTTCGAGGCAACCATCCGCACCAAAGGCCATCTTCTA
1 CCGATGGTGTTCGAGGCAACCACCCGCACC-AAGGCCAGCATGTG
* * * * * *
11925263 CCGATGGTGATT-AAGGTAACTACCCGTACCAACGACCAGTATGTG
1 CCGATGGTG-TTCGAGGCAACCACCCGCACCAA-GGCCAGCATGTG
* * * * * * *
11925308 TCGATCGTGTTCGACGCAATCGCCCGTACCATGGCCCAGCATGTG
1 CCGATGGTGTTCGAGGCAACCACCCGCACCAAGG-CCAGCATGTG
11925353 CCGATGGTGTTC
1 CCGATGGTGTTC
11925365 AACACAACTG
Statistics
Matches: 141, Mismatches: 45, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
44 7 0.05
45 126 0.89
46 8 0.06
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (44 bp):
CCGATGGTGTTCGAGGCAACCACCCGCACCAAGGCCAGCATGTG
Found at i:11925383 original size:45 final size:45
Alignment explanation
Indices: 11925298--11925383 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
11925288 GTACCAACGA
* * * * *
11925298 CCAGTATGTGTCGATCGTGTTCGACGCAATCGCCCGTACCATGGC
1 CCAGCATGTGCCGATCGTGTTCAACACAATCGCCCATACCATGGC
*
11925343 CCAGCATGTGCCGATGGTGTTCAACACAA-CTGCCCATACCA
1 CCAGCATGTGCCGATCGTGTTCAACACAATC-GCCCATACCA
11925384 GGGGCCATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.03
45 33 0.97
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (45 bp):
CCAGCATGTGCCGATCGTGTTCAACACAATCGCCCATACCATGGC
Found at i:11925525 original size:45 final size:45
Alignment explanation
Indices: 11925425--11925528 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
11925415 ATGGCACGTA
* * * ** * *
11925425 CCGATGGTGGTCGAGGTAAGTGCCCACACCAAGGGTCGGCTTGTG
1 CCGATGGTGTTCGAGGTAACTACCCACACCAAGGCCCAGCATGTG
* *
11925470 CCGATAGTGTTCGAGGTAACTACCCGCACCAAGGCCCAGCATGTG
1 CCGATGGTGTTCGAGGTAACTACCCACACCAAGGCCCAGCATGTG
*
11925515 TCGATGGTGTTCGA
1 CCGATGGTGTTCGA
11925529 AAAAATCGCC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.21
Consensus pattern (45 bp):
CCGATGGTGTTCGAGGTAACTACCCACACCAAGGCCCAGCATGTG
Found at i:11933387 original size:45 final size:45
Alignment explanation
Indices: 11933331--11933434 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
11933321 ACGTGTCGAC
* ** *
11933331 GGTGATCGAGGTAAATGCCTGCACCAAGG-CCAGGCTTGTGCTGAT
1 GGTGGTCGAGGTAAATGCCTGCACCAAGGCCCA-GCCCGTACTGAT
** *
11933376 GGTGGTCGAGGTATGTGCCTTCACCAAGGCCCAGCCCGTACTGAT
1 GGTGGTCGAGGTAAATGCCTGCACCAAGGCCCAGCCCGTACTGAT
11933421 GGTGGTCGAGGTAA
1 GGTGGTCGAGGTAA
11933435 CCGCCTACAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
45 47 0.94
46 3 0.06
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.22
Consensus pattern (45 bp):
GGTGGTCGAGGTAAATGCCTGCACCAAGGCCCAGCCCGTACTGAT
Found at i:11933446 original size:45 final size:45
Alignment explanation
Indices: 11933331--11933447 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
11933321 ACGTGTCGAC
* * ** *
11933331 GGTGATCGAGGTAAATGCCTGCACCAAGGCCAGGCTTGTGCTGAT
1 GGTGGTCGAGGTAAATGCCTACACCAAGGCCAGGCCCGTACTGAT
** *
11933376 GGTGGTCGAGGTATGTGCCTTCACCAAGGCCCA-GCCCGTACTGAT
1 GGTGGTCGAGGTAAATGCCTACACCAAGG-CCAGGCCCGTACTGAT
**
11933421 GGTGGTCGAGGTAACCGCCTACACCAA
1 GGTGGTCGAGGTAAATGCCTACACCAA
11933448 CTCGTGAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 57 0.95
46 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (45 bp):
GGTGGTCGAGGTAAATGCCTACACCAAGGCCAGGCCCGTACTGAT
Found at i:11933762 original size:68 final size:68
Alignment explanation
Indices: 11933632--11933762 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 68
11933622 ATGATGGTCA
* * * * ** *
11933632 AGGCATGTGTCCGTACCAAGGCCCAACCCGTGCTGATGGTGGTCGAGGCAACTGCCCGTACCAGC
1 AGGCATGTGTCCGCACCAAGGCCCAACACATGCCGATGGTGGTCGAGGCAACCACCCATACCAGC
11933697 TCG
66 TCG
*
11933700 AGGCATGTG-CCTGCACCAAGGCCCAACACATGCCGATGGTGTTCGAGGCAACCACCCATACCA
1 AGGCATGTGTCC-GCACCAAGGCCCAACACATGCCGATGGTGGTCGAGGCAACCACCCATACCA
11933763 AGGCCCATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
67 2 0.04
68 52 0.96
ACGTcount: A:0.23, C:0.34, G:0.27, T:0.16
Consensus pattern (68 bp):
AGGCATGTGTCCGCACCAAGGCCCAACACATGCCGATGGTGGTCGAGGCAACCACCCATACCAGC
TCG
Found at i:11939586 original size:45 final size:45
Alignment explanation
Indices: 11939490--11939586 Score: 104
Period size: 45 Copynumber: 2.2 Consensus size: 45
11939480 GGCAACCGCT
* * * *
11939490 CGCACCAGAGGCCATCTTCTATCAATGGTGATCGAGGTAATTGCC
1 CGCACCAGAGGCCATCATCTATCAATGGTGATCAAGGCAAGTGCC
* * * * *
11939535 CACACCAGGGGCCATCATCTGTCGATGGTGGTCAAGGCAAGTGCC
1 CGCACCAGAGGCCATCATCTATCAATGGTGATCAAGGCAAGTGCC
*
11939580 GGCACCA
1 CGCACCA
11939587 AGGACTGACT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.20
Consensus pattern (45 bp):
CGCACCAGAGGCCATCATCTATCAATGGTGATCAAGGCAAGTGCC
Found at i:11940847 original size:149 final size:149
Alignment explanation
Indices: 11940597--11940865 Score: 389
Period size: 149 Copynumber: 1.8 Consensus size: 149
11940587 GGCATGGTAG
* * *
11940597 AAATATGAAGATGTGCCTAAACGAACCTATCACCCGATCGTGGCACGCATGGTGCTTGGCCCGGG
1 AAATATGAAGATGTGCCTAAACCAACCTACCACCCGATCGTGGCACGCATGGTGCTCGGCCCGGG
* * * * *
11940662 CTCAAAACACCAGCGCGTGGTGTGCGGGGCGCTGGGGAGTGCTCATGTGAATTCACATACCATAA
66 CTCAAAACACCAGCGCCTGGTGCGCGGGGCACTGGGGAGGGCTCATATGAATTCACATACCATAA
11940727 AAATGGTATTTGCACAACA
131 AAATGGTATTTGCACAACA
* *
11940746 AAATATGAAGATGTGCCTAAACCCACCTACCACCCGGTCGTGGTC-CGCATTGGTGCTCGGCCCG
1 AAATATGAAGATGTGCCTAAACCAACCTACCACCCGATCGTGG-CACGCA-TGGTGCTCGGCCCG
* * *
11940810 GGCTCAAGACACCTGCGCCTGGTGCGC-GGGCATTGGGGAGGGCTCATATGAATTCA
64 GGCTCAAAACACCAGCGCCTGGTGCGCGGGGCACTGGGGAGGGCTCATATGAATTCA
11940866 TGGGCCACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
149 68 0.65
150 37 0.35
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (149 bp):
AAATATGAAGATGTGCCTAAACCAACCTACCACCCGATCGTGGCACGCATGGTGCTCGGCCCGGG
CTCAAAACACCAGCGCCTGGTGCGCGGGGCACTGGGGAGGGCTCATATGAATTCACATACCATAA
AAATGGTATTTGCACAACA
Found at i:11951992 original size:71 final size:71
Alignment explanation
Indices: 11951805--11951992 Score: 166
Period size: 72 Copynumber: 2.6 Consensus size: 71
11951795 CAAAGGCCCA
* * * * * *
11951805 GCATGTGCCAATGGT-GTTCGAGGCAACTGCGCATACCAGGGACCATCTTCTACAGATGCTGATC
1 GCATGTGTCGATGGTGGTT-GAGGCAAGTGC-CATACCAGGGGCCATCTTCTACAGATACTCATC
11951869 GAGGCATG
64 GAGGCATG
* * ** * ** ** *
11951877 GTACGTGTCGATGGTGGTCAAGGCATGTGCCCGCACCAAAGGCCATCTTCTATC-GATATTCATC
1 GCATGTGTCGATGGTGGTTGAGGCAAGTG-CCATACCAGGGGCCATCTTCTA-CAGATACTCATC
11951941 GAGGCAT-
64 GAGGCATG
11951948 GCATGTGTCGATGGTGGTTGAGGCAAGTGCCAATACCAGGGGCCA
1 GCATGTGTCGATGGTGGTTGAGGCAAGTGCC-ATACCAGGGGCCA
11951993 GCTTGTGTCG
Statistics
Matches: 87, Mismatches: 25, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
70 2 0.02
71 33 0.38
72 48 0.55
73 4 0.05
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (71 bp):
GCATGTGTCGATGGTGGTTGAGGCAAGTGCCATACCAGGGGCCATCTTCTACAGATACTCATCGA
GGCATG
Found at i:11959633 original size:7 final size:7
Alignment explanation
Indices: 11959621--11959657 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
11959611 GGTATCAGAG
11959621 CGAGGTT
1 CGAGGTT
11959628 CGAGGTT
1 CGAGGTT
11959635 CGAGGTT
1 CGAGGTT
11959642 CGAGGTT
1 CGAGGTT
*
11959649 CAAGGTT
1 CGAGGTT
11959656 CG
1 CG
11959658 TGGGCCCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.16, C:0.16, G:0.41, T:0.27
Consensus pattern (7 bp):
CGAGGTT
Found at i:11992194 original size:16 final size:16
Alignment explanation
Indices: 11992173--11992204 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11992163 AACGATTTGA
11992173 ATGATAATGATGATTT
1 ATGATAATGATGATTT
11992189 ATGATAATGATGATTT
1 ATGATAATGATGATTT
11992205 TTAATGATTG
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:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:11992209 original size:13 final size:15
Alignment explanation
Indices: 11992176--11992212 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11992166 GATTTGAATG
11992176 ATAATGATGATTTAT
1 ATAATGATGATTTAT
11992191 GATAATGATGATTT-T
1 -ATAATGATGATTTAT
11992206 -TAATGAT
1 ATAATGAT
11992213 TGATCCATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
15 1 0.05
16 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (15 bp):
ATAATGATGATTTAT
Found at i:12003410 original size:16 final size:17
Alignment explanation
Indices: 12003389--12003421 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12003379 AACCAAGGCC
*
12003389 CTATTATCTATA-TTAT
1 CTATTATATATAGTTAT
12003405 CTATTATATATAGTTAT
1 CTATTATATATAGTTAT
12003422 AGTAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (17 bp):
CTATTATATATAGTTAT
Done.