Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 99 of 147
Found at i:18177742 original size:20 final size:20
Alignment explanation
Indices: 18177717--18177758 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18177707 AAATCCTAAA
*
18177717 TTGAACCTTAAGCCTT-AACC
1 TTGAACCCTAA-CCTTAAACC
18177737 TTGAACCCTAACCTTAAACC
1 TTGAACCCTAACCTTAAACC
18177757 TT
1 TT
18177759 AAATCTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (20 bp):
TTGAACCCTAACCTTAAACC
Found at i:18177761 original size:7 final size:7
Alignment explanation
Indices: 18177720--18177770 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
18177710 TCCTAAATTG
18177720 AACCTTA
1 AACCTTA
*
18177727 AGCCTT-
1 AACCTTA
*
18177733 AACCTTG
1 AACCTTA
*
18177740 AACCCT-
1 AACCTTA
18177746 AACCTTA
1 AACCTTA
18177753 AACCTTA
1 AACCTTA
*
18177760 AATCTTA
1 AACCTTA
18177767 AACC
1 AACC
18177771 AAACCCTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 10 0.28
7 26 0.72
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.27
Consensus pattern (7 bp):
AACCTTA
Found at i:18177775 original size:26 final size:26
Alignment explanation
Indices: 18177720--18177781 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
18177710 TCCTAAATTG
* * *
18177720 AACCTTAAGCCTTAACCTTGAACCCT
1 AACCTTAAACCTTAACCTTGAAACCA
*
18177746 AACCTTAAACCTTAAATCTT-AAACCA
1 AACCTTAAACCTT-AACCTTGAAACCA
*
18177772 AACCCTAAAC
1 AACCTTAAAC
18177782 TAACATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.40, C:0.32, G:0.03, T:0.24
Consensus pattern (26 bp):
AACCTTAAACCTTAACCTTGAAACCA
Found at i:18181833 original size:20 final size:21
Alignment explanation
Indices: 18181784--18181833 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
18181774 GTTCTGCTCT
*
18181784 AGTT-TGATTTATGTTCCTCA
1 AGTTATGATTTATGTTCCACA
* *
18181804 AGTTA-AATTTA-GTTGCACA
1 AGTTATGATTTATGTTCCACA
18181823 AGTTATGATTT
1 AGTTATGATTT
18181834 GAAGTTGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (21 bp):
AGTTATGATTTATGTTCCACA
Found at i:18183011 original size:19 final size:19
Alignment explanation
Indices: 18182987--18183025 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18182977 ATGTTATACT
18182987 TTAATTTCAATTAAAACAA
1 TTAATTTCAATTAAAACAA
18183006 TTAATTTCAATTAAAACAA
1 TTAATTTCAATTAAAACAA
18183025 T
1 T
18183026 CCTATTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAATTTCAATTAAAACAA
Found at i:18183466 original size:18 final size:18
Alignment explanation
Indices: 18183443--18183481 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18183433 TATGACATGA
* *
18183443 ATGACAATGTATAAATGC
1 ATGACAATATAAAAATGC
18183461 ATGACAATATAAAAATGC
1 ATGACAATATAAAAATGC
18183479 ATG
1 ATG
18183482 TGATGACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (18 bp):
ATGACAATATAAAAATGC
Found at i:18183561 original size:7 final size:7
Alignment explanation
Indices: 18183549--18183760 Score: 106
Period size: 7 Copynumber: 31.7 Consensus size: 7
18183539 TTTAGGTCTA
18183549 GGTTTAG
1 GGTTTAG
18183556 GGTTTAG
1 GGTTTAG
* *
18183563 AGTTTAA
1 GGTTTAG
* * *
18183570 GATATAA
1 GGTTTAG
18183577 GGTTTAG
1 GGTTTAG
* *
18183584 GGGTTAA
1 GGTTTAG
*
18183591 GGTCTA-
1 GGTTTAG
*
18183597 GCTTTAG
1 GGTTTAG
*
18183604 GGTTTTG
1 GGTTTAG
*
18183611 TGTTTAG
1 GGTTTAG
*
18183618 AGTTT--
1 GGTTTAG
*
18183623 GGTTTAA
1 GGTTTAG
18183630 GGTTT--
1 GGTTTAG
18183635 GGTTTAG
1 GGTTTAG
* *
18183642 GGCTTAA
1 GGTTTAG
18183649 GGTTTA-
1 GGTTTAG
18183655 GGTTTAG
1 GGTTTAG
18183662 GGTTTAG
1 GGTTTAG
18183669 GGTTTCA-
1 GGTTT-AG
*
18183676 -ATTTAG
1 GGTTTAG
*
18183682 GATTTAG
1 GGTTTAG
*
18183689 AGTTTAG
1 GGTTTAG
18183696 GGTTTA-
1 GGTTTAG
* *
18183702 AGTTTTG
1 GGTTTAG
* *
18183709 ACGTTTAA
1 -GGTTTAG
18183717 GGTTTAG
1 GGTTTAG
*
18183724 GTTTTAG
1 GGTTTAG
18183731 GGTTT--
1 GGTTTAG
18183736 GGTTTAG
1 GGTTTAG
*
18183743 GATTT-G
1 GGTTTAG
18183749 GGTTTAG
1 GGTTTAG
18183756 GGTTT
1 GGTTT
18183761 CATGGAATTT
Statistics
Matches: 153, Mismatches: 38, Indels: 28
0.70 0.17 0.13
Matches are distributed among these distances:
5 15 0.10
6 22 0.14
7 111 0.73
8 5 0.03
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:18183634 original size:19 final size:19
Alignment explanation
Indices: 18183539--18183756 Score: 92
Period size: 20 Copynumber: 11.0 Consensus size: 19
18183529 TTAGGTTGGT
*
18183539 TTTAGGTCT-AGGTTTAGGG
1 TTTAGGTTTAAGGTTTA-GG
* *
18183558 TTTAGAGTTTAAGATATAAGG
1 TTTAG-GTTTAAGGT-TTAGG
* * *
18183579 TTTAGGGGTTAAGGTCTAGC
1 TTTA-GGTTTAAGGTTTAGG
*
18183599 TTTAGGGTTT-TGTGTTTAGAG
1 TTTA-GGTTTAAG-GTTTAG-G
18183620 TTT-GGTTTAAGGTTT-GG
1 TTTAGGTTTAAGGTTTAGG
*
18183637 TTTAGGGCTTAAGGTTTAGG
1 TTTA-GGTTTAAGGTTTAGG
* *
18183657 TTTAGGGTTTAGGGTTTCA-A
1 TTTA-GGTTTAAGGTTT-AGG
18183677 TTTAGGATTT-AGAGTTTAGGG
1 TTTAGG-TTTAAG-GTTTA-GG
* * *
18183698 TTTAAGTTTTGACGTTTAAGG
1 TTT-AGGTTTAAGGTTT-AGG
*
18183719 TTTAGGTTTTAGGGTTT-GG
1 TTTAGG-TTTAAGGTTTAGG
*
18183738 TTTAGGATTT-GGGTTTAGG
1 TTTAGG-TTTAAGGTTTAGG
18183757 GTTTCATGGA
Statistics
Matches: 153, Mismatches: 26, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
17 4 0.03
18 7 0.05
19 43 0.28
20 50 0.33
21 42 0.27
22 7 0.05
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.45
Consensus pattern (19 bp):
TTTAGGTTTAAGGTTTAGG
Found at i:18186931 original size:55 final size:55
Alignment explanation
Indices: 18186825--18186982 Score: 147
Period size: 55 Copynumber: 2.8 Consensus size: 55
18186815 GATTTTAAAA
* * **
18186825 ATCACCACTCAGTGAAACAAAAGACTTCAAATATCATCACCAAAGTGGACTC-GAAT
1 ATCACCACTGAGTGAAA-AAAAGACTTCAAATATCACCACCAAAGAAGACTCAG-AT
* ** *
18186881 ATGACCACTGAGTGAAAAAAAGACTTTGAATATCACCACCTAAGAAGACTCAGAT
1 ATCACCACTGAGTGAAAAAAAGACTTCAAATATCACCACCAAAGAAGACTCAGAT
* * ** * *
18186936 ATCACCACCGAATGAAAACTAGCTACTTCGAATATTACCACCAAAGA
1 ATCACCACTGAGTGAAAAAAAG--ACTTCAAATATCACCACCAAAGA
18186983 GAAATCAAGC
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
55 47 0.57
56 16 0.19
57 20 0.24
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (55 bp):
ATCACCACTGAGTGAAAAAAAGACTTCAAATATCACCACCAAAGAAGACTCAGAT
Found at i:18187110 original size:33 final size:33
Alignment explanation
Indices: 18187020--18187118 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 33
18187010 TCAAATATAA
* *
18187020 CTTGGATATCACCATTAAGTAAATTTTGAGAAAAG
1 CTTGGATATCACCATCAAG-AAATTTTG-TAAAAG
* * * *
18187055 C-TAGATATCATCACCAAAAAATTTTGTAAAAG
1 CTTGGATATCACCATCAAGAAATTTTGTAAAAG
*
18187087 CTTGGATATCACCATCGAGAAATTTTGTAAAA
1 CTTGGATATCACCATCAAGAAATTTTGTAAAA
18187119 ACCCAGATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
32 6 0.12
33 33 0.63
34 12 0.23
35 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
CTTGGATATCACCATCAAGAAATTTTGTAAAAG
Found at i:18187128 original size:33 final size:33
Alignment explanation
Indices: 18187024--18187133 Score: 96
Period size: 33 Copynumber: 3.3 Consensus size: 33
18187014 ATATAACTTG
* *
18187024 GATATCACCATTAAGTAAATTTTG-AGAAAAGCTA
1 GATATCACCATCAAG-AAATTTTGTA-AAAACCTA
* * * * * *
18187058 GATATCATCACCAAAAAATTTTGTAAAAGCTTG
1 GATATCACCATCAAGAAATTTTGTAAAAACCTA
* *
18187091 GATATCACCATCGAGAAATTTTGTAAAAACCCA
1 GATATCACCATCAAGAAATTTTGTAAAAACCTA
*
18187124 GATATTACCA
1 GATATCACCA
18187134 CCTAAAAGGT
Statistics
Matches: 58, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
33 46 0.79
34 12 0.21
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (33 bp):
GATATCACCATCAAGAAATTTTGTAAAAACCTA
Found at i:18188066 original size:86 final size:87
Alignment explanation
Indices: 18187965--18188146 Score: 339
Period size: 87 Copynumber: 2.1 Consensus size: 87
18187955 TCAAATTGAT
18187965 AATGCAAATGTAAATACAA-TGTAAAAATTCCTATTAACCATACAAATGTCCTTTCTATGTTGCA
1 AATGCAAATGTAAATACAAGTGTAAAAATTCCTATTAACCATACAAATGTCCTTTCTATGTTGCA
*
18188029 AATGTTCCATGTGATTATGCAA
66 AATATTCCATGTGATTATGCAA
*
18188051 AATGCAAATGTAAATACAAGTGTAAAAATTCCTATTAACCATGCAAATGTCCTTTCTATGTTGCA
1 AATGCAAATGTAAATACAAGTGTAAAAATTCCTATTAACCATACAAATGTCCTTTCTATGTTGCA
18188116 AATATTCCATGTGATTATGCAA
66 AATATTCCATGTGATTATGCAA
18188138 AATGCAAAT
1 AATGCAAAT
18188147 TTCTAATCCC
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
86 19 0.20
87 74 0.80
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (87 bp):
AATGCAAATGTAAATACAAGTGTAAAAATTCCTATTAACCATACAAATGTCCTTTCTATGTTGCA
AATATTCCATGTGATTATGCAA
Found at i:18189796 original size:10 final size:10
Alignment explanation
Indices: 18189783--18189821 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
18189773 TTTTTTATAG
*
18189783 TTTTTTCTTC
1 TTTTTTCCTC
18189793 TTTTTTCCTC
1 TTTTTTCCTC
*
18189803 TTTTTTTCTC
1 TTTTTTCCTC
*
18189813 TTCTTTCCT
1 TTTTTTCCT
18189822 TCATTTCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTCCTC
Found at i:18189806 original size:20 final size:20
Alignment explanation
Indices: 18189783--18189821 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18189773 TTTTTTATAG
*
18189783 TTTTTTCTTCTTTTTTCCTCT
1 TTTTTTC-TCTTCTTTCCTCT
18189804 TTTTTTCTCTTCTTTCCT
1 TTTTTTCTCTTCTTTCCT
18189822 TCATTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTTCTCTTCTTTCCTCT
Found at i:18190971 original size:15 final size:15
Alignment explanation
Indices: 18190951--18190980 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18190941 AAAGGAAAAC
18190951 TTTTTTCCTTCTTTT
1 TTTTTTCCTTCTTTT
*
18190966 TTTTTTCTTTCTTTT
1 TTTTTTCCTTCTTTT
18190981 ACTTCATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCCTTCTTTT
Found at i:18193951 original size:37 final size:37
Alignment explanation
Indices: 18193910--18194012 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
18193900 CGTATTAGCA
*
18193910 ATTAAAATGTGCATGAAATAGAATGCATGTACCACCT
1 ATTAAAATGTGCATGAAATGGAATGCATGTACCACCT
* * *
18193947 ATTAACATGTGCATGAAATGGAATGCATGTACTATCT
1 ATTAAAATGTGCATGAAATGGAATGCATGTACCACCT
*
18193984 ATT--AATGTGAAT-AAGATGGAATGCATGTA
1 ATTAAAATGTGCATGAA-ATGGAATGCATGTA
18194013 TTATCCTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
34 2 0.03
35 21 0.36
37 36 0.61
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (37 bp):
ATTAAAATGTGCATGAAATGGAATGCATGTACCACCT
Found at i:18194003 original size:35 final size:36
Alignment explanation
Indices: 18193916--18194040 Score: 130
Period size: 37 Copynumber: 3.4 Consensus size: 36
18193906 AGCAATTAAA
* * *
18193916 ATGTGCATGAA-ATAGAATGCATGTACCACCTATTAAC
1 ATGTGCAT-AAGATGGAATGCATGTACTATCTATT-AC
18193953 ATGTGCATGAA-ATGGAATGCATGTACTATCTATTA-
1 ATGTGCAT-AAGATGGAATGCATGTACTATCTATTAC
* * *
18193988 ATGTGAATAAGATGGAATGCATGTATTATCCTATTATG
1 ATGTGCATAAGATGGAATGCATGTACTAT-CTATTA-C
18194026 ATGTGCATAAGATGG
1 ATGTGCATAAGATGG
18194041 GGTACATGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
34 2 0.03
35 24 0.31
36 7 0.09
37 31 0.40
38 14 0.18
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (36 bp):
ATGTGCATAAGATGGAATGCATGTACTATCTATTAC
Found at i:18194049 original size:38 final size:37
Alignment explanation
Indices: 18193972--18194081 Score: 98
Period size: 39 Copynumber: 2.9 Consensus size: 37
18193962 AAATGGAATG
* ** *
18193972 CATGTACTAT-CTATTA-ATGTGAATAAGATGGAATG
1 CATGTATTATCCTATTAGATGTGAATAAGATGGGGTA
*
18194007 CATGTATTATCCTATTATGATGTGCATAAGATGGGGTA
1 CATGTATTATCCTATTA-GATGTGAATAAGATGGGGTA
* * * *
18194045 CATGTACTTATCTTATTAAGAGGTGTATGAGATGGGG
1 CATGTA-TTATCCTATT-AGATGTGAATAAGATGGGG
18194082 GTGTATGTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
35 9 0.15
36 6 0.10
38 21 0.34
39 24 0.39
40 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (37 bp):
CATGTATTATCCTATTAGATGTGAATAAGATGGGGTA
Found at i:18195108 original size:25 final size:25
Alignment explanation
Indices: 18195080--18195134 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
18195070 AATATATAAT
*
18195080 AAATGACATAATTAAAATACGTATG
1 AAATGACATAATTAAAATACGCATG
*
18195105 AAATGACATAATTAAAATATGCATG
1 AAATGACATAATTAAAATACGCATG
18195130 AAATG
1 AAATG
18195135 CGAAACAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (25 bp):
AAATGACATAATTAAAATACGCATG
Found at i:18195844 original size:15 final size:14
Alignment explanation
Indices: 18195822--18195875 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
18195812 TTAAAATTAA
*
18195822 TTTCTTTTCTTCTT
1 TTTCTTTTTTTCTT
18195836 TTCTCTTTTTTTCTT
1 TT-TCTTTTTTTCTT
*
18195851 TTTTTTTTTTTCTT
1 TTTCTTTTTTTCTT
18195865 TTTCTTTTTTT
1 TTTCTTTTTTT
18195876 TAAAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTCTTTTTTTCTT
Found at i:18195867 original size:8 final size:8
Alignment explanation
Indices: 18195822--18195875 Score: 55
Period size: 7 Copynumber: 7.4 Consensus size: 8
18195812 TTAAAATTAA
18195822 TTTCTTTT
1 TTTCTTTT
*
18195830 CTTC-TTT
1 TTTCTTTT
*
18195837 TCTCTTTT
1 TTTCTTTT
18195845 TTTC-TTT
1 TTTCTTTT
18195852 TTT-TTTT
1 TTTCTTTT
18195859 TTTC--TT
1 TTTCTTTT
18195865 TTTCTTTT
1 TTTCTTTT
18195873 TTT
1 TTT
18195876 TAAAAACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
6 6 0.16
7 17 0.46
8 14 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTCTTTT
Found at i:18195876 original size:15 final size:15
Alignment explanation
Indices: 18195822--18195876 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
18195812 TTAAAATTAA
*
18195822 TTTC-TTTTCTTC-T
1 TTTCTTTTTTTTCTT
18195835 TTTCTCTTTTTTTCTT
1 TTTCT-TTTTTTTCTT
18195851 TTT-TTTTTTTTCTT
1 TTTCTTTTTTTTCTT
18195865 TTTCTTTTTTTT
1 TTTCTTTTTTTT
18195877 AAAAACAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
13 4 0.11
14 13 0.35
15 16 0.43
16 4 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTCTTTTTTTTCTT
Found at i:18196262 original size:18 final size:18
Alignment explanation
Indices: 18196239--18196273 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18196229 ATGACATGAA
* *
18196239 TGACAATTTATAAATGCG
1 TGACAATATAAAAATGCG
18196257 TGACAATATAAAAATGC
1 TGACAATATAAAAATGC
18196274 ATGTGATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
TGACAATATAAAAATGCG
Found at i:18196356 original size:7 final size:7
Alignment explanation
Indices: 18196344--18196444 Score: 93
Period size: 7 Copynumber: 14.9 Consensus size: 7
18196334 TTGGGGTCTA
18196344 GGTTTAG
1 GGTTTAG
18196351 GGTTTAG
1 GGTTTAG
18196358 GGTTTAG
1 GGTTTAG
18196365 GGTTT--
1 GGTTTAG
18196370 GGTTTAG
1 GGTTTAG
*
18196377 AGTTTAG
1 GGTTTAG
*
18196384 GGTTTAA
1 GGTTTAG
18196391 GGTTTA-
1 GGTTTAG
*
18196397 GCTTTAG
1 GGTTTAG
*
18196404 AGTTTAG
1 GGTTTAG
* *
18196411 AGTTTAA
1 GGTTTAG
*
18196418 GGTTTGG
1 GGTTTAG
18196425 GGTATT-G
1 GGT-TTAG
*
18196432 GGTTTAA
1 GGTTTAG
18196439 GGTTTA
1 GGTTTA
18196445 ATCTAGGGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
5 5 0.06
6 7 0.09
7 64 0.82
8 2 0.03
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:18196410 original size:27 final size:26
Alignment explanation
Indices: 18196346--18196423 Score: 111
Period size: 27 Copynumber: 3.0 Consensus size: 26
18196336 GGGGTCTAGG
* * *
18196346 TTTAGGGTTTAGGGTTTAGGGTTTGG
1 TTTAGAGTTTAGGGTTTAAGGTTTGC
18196372 TTTAGAGTTTAGGGTTTAAGGTTTAGC
1 TTTAGAGTTTAGGGTTTAAGGTTT-GC
*
18196399 TTTAGAGTTTAGAGTTTAAGGTTTG
1 TTTAGAGTTTAGGGTTTAAGGTTTG
18196424 GGGTATTGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 23 0.49
27 24 0.51
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.46
Consensus pattern (26 bp):
TTTAGAGTTTAGGGTTTAAGGTTTGC
Found at i:18196473 original size:13 final size:13
Alignment explanation
Indices: 18196434--18196481 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
18196424 GGGTATTGGG
*
18196434 TTTAAGGTTT-AA
1 TTTAGGGTTTCAA
*
18196446 TCTAGGGTTTCAA
1 TTTAGGGTTTCAA
* *
18196459 TTTATGGTTTGAA
1 TTTAGGGTTTCAA
18196472 TTTAGGGTTT
1 TTTAGGGTTT
18196482 AGGGTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTTCAA
Found at i:18197074 original size:26 final size:26
Alignment explanation
Indices: 18197045--18197107 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
18197035 AAAACACATA
* *
18197045 ATGAACCAACGTAGCTAGAAAATCTC
1 ATGAACAAAAGTAGCTAGAAAATCTC
18197071 ATGAACAAAAGTAGCTAGAAAATCTC
1 ATGAACAAAAGTAGCTAGAAAATCTC
*
18197097 ATAAACAAAAG
1 ATGAACAAAAG
18197108 CACCAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (26 bp):
ATGAACAAAAGTAGCTAGAAAATCTC
Found at i:18198839 original size:20 final size:20
Alignment explanation
Indices: 18198796--18198844 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
18198786 TTTGATCAAG
* * *
18198796 TTTGACTAATTTTGACTTTA
1 TTTGACCAAGTTTGACTATA
* *
18198816 TTTGGCCAAGTTTGACTATG
1 TTTGACCAAGTTTGACTATA
18198836 TTTGACCAA
1 TTTGACCAA
18198845 AATTGACTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.45
Consensus pattern (20 bp):
TTTGACCAAGTTTGACTATA
Found at i:18201444 original size:14 final size:13
Alignment explanation
Indices: 18201419--18201443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18201409 AAAAAATTCA
18201419 AAAACTTTAAAAT
1 AAAACTTTAAAAT
18201432 AAAACTTTAAAA
1 AAAACTTTAAAA
18201444 AACTTATTTT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAACTTTAAAAT
Found at i:18202793 original size:15 final size:17
Alignment explanation
Indices: 18202765--18202809 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
18202755 AATTTTTTTA
18202765 ATATAATA-TT-TTAAT
1 ATATAATATTTATTAAT
18202780 -TATAA-ATTTATTAAT
1 ATATAATATTTATTAAT
18202795 AATATAATATTTATT
1 -ATATAATATTTATT
18202810 TTCAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.04
14 7 0.28
15 5 0.20
17 5 0.20
18 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATAATATTTATTAAT
Found at i:18202999 original size:13 final size:13
Alignment explanation
Indices: 18202981--18203006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18202971 TATCCTTTCT
18202981 AAATATTTGATCA
1 AAATATTTGATCA
18202994 AAATATTTGATCA
1 AAATATTTGATCA
18203007 CATGGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATATTTGATCA
Found at i:18204196 original size:97 final size:97
Alignment explanation
Indices: 18204027--18204209 Score: 260
Period size: 97 Copynumber: 1.9 Consensus size: 97
18204017 ATAATTTAAG
* * *
18204027 CTTTGCGTAGGTTAAAGTTTGTTTAGGCAAAATAAATGCATTTTTCTATCAATGTATTTAGGTTT
1 CTTTGCATAGGTCAAAGTTTGTTTAGGCAAAATAAATGCATTTTTCCATCAATGTATTTAGGTTT
* *
18204092 GATGGTCAGGTCAACCTACTCGATGATCTAAA
66 GACGGTCAGGTCAACCAACTCGATGATCTAAA
* * **
18204124 CTTTGCATAGGTCCAAGTTTGTTTGGGCAAAATAAATGCATTTTTCCATTGATG-ATTTTAGGTT
1 CTTTGCATAGGTCAAAGTTTGTTTAGGCAAAATAAATGCATTTTTCCATCAATGTA-TTTAGGTT
*
18204188 TGACGGTCAGGTTAACCAACTC
65 TGACGGTCAGGTCAACCAACTC
18204210 AATCAACTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
96 1 0.01
97 74 0.99
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (97 bp):
CTTTGCATAGGTCAAAGTTTGTTTAGGCAAAATAAATGCATTTTTCCATCAATGTATTTAGGTTT
GACGGTCAGGTCAACCAACTCGATGATCTAAA
Found at i:18204551 original size:19 final size:19
Alignment explanation
Indices: 18204538--18204596 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
18204528 AGTATTCTTG
*
18204538 AGAGTTTTAGGTATCCATAA
1 AGAGTTTTAGGTATTC-TAA
*
18204558 AGGGTTTTAGGTATTCTAA
1 AGAGTTTTAGGTATTCTAA
*
18204577 AGGTGATTTTAGGTATTCTA
1 A-GAG-TTTTAGGTATTCTA
18204597 TTGGAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.12
20 16 0.47
21 14 0.41
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.41
Consensus pattern (19 bp):
AGAGTTTTAGGTATTCTAA
Found at i:18204566 original size:20 final size:20
Alignment explanation
Indices: 18204541--18204592 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
18204531 ATTCTTGAGA
18204541 GTTTTAGGTATCCATAAAGG-
1 GTTTTAGGTATCC-TAAAGGT
*
18204561 GTTTTAGGTATTCTAAAGGT
1 GTTTTAGGTATCCTAAAGGT
18204581 GATTTTAGGTAT
1 G-TTTTAGGTAT
18204593 TCTATTGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 13 0.45
21 10 0.34
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (20 bp):
GTTTTAGGTATCCTAAAGGT
Found at i:18204588 original size:21 final size:19
Alignment explanation
Indices: 18204541--18204596 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
18204531 ATTCTTGAGA
*
18204541 GTTTTAGGTATCCATAAAGG
1 GTTTTAGGTATTC-TAAAGG
18204561 GTTTTAGGTATTCTAAAGG
1 GTTTTAGGTATTCTAAAGG
18204580 TGATTTTAGGTATTCTA
1 -G-TTTTAGGTATTCTA
18204597 TTGGAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 6 0.18
20 13 0.39
21 14 0.42
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (19 bp):
GTTTTAGGTATTCTAAAGG
Found at i:18208321 original size:54 final size:54
Alignment explanation
Indices: 18208247--18208404 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 54
18208237 ATTCTCTTTT
* * **
18208247 GAATTTCTAAATTTTCCACTATTTGGCCCTATTTAAAAATTCTTTTTATTTTTT
1 GAATTTCTAAATTTTTCACTATTTGGACCTATTTAAAAATTCTTTTTATTTTCA
** * * ** *
18208301 TTATTTCTAAATTTTTCACTATTTGGATCAATCCAAAAATAT-TTTCT-TTTTCA
1 GAATTTCTAAATTTTTCACTATTTGGACCTATTTAAAAAT-TCTTTTTATTTTCA
* * * *
18208354 GAATTTCTAAAATTTTCACAATTTGGGCCTATTTAGAAATTCTTTTTATTT
1 GAATTTCTAAATTTTTCACTATTTGGACCTATTTAAAAATTCTTTTTATTT
18208405 ACCTTTTTTT
Statistics
Matches: 79, Mismatches: 22, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
52 1 0.01
53 38 0.48
54 39 0.49
55 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.51
Consensus pattern (54 bp):
GAATTTCTAAATTTTTCACTATTTGGACCTATTTAAAAATTCTTTTTATTTTCA
Found at i:18209653 original size:41 final size:42
Alignment explanation
Indices: 18209568--18209868 Score: 340
Period size: 41 Copynumber: 7.2 Consensus size: 42
18209558 CGACTTTGAA
* * *
18209568 AAAAATAAAT-GCTCCTCTAAACAGAGGCACCATG-ACTTTAG
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACA-GAACTTTGG
* *
18209609 AAAAATAAATGGCTCATCTAAATAGAGGCAACAGGAC-TTGG
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGG
* * * * *
18209650 AAAAATAAATAGCTCCTTTAAATAGAGGTAATAGAACTTTGAA
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTG-G
* *
18209693 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGGACTTT-A
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGG
* * *
18209734 AAAAATAAATGGTTCCTCTGAATAGAGGCAACAGAACTTTGAA
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTG-G
* * * * *
18209777 AAAAATAAATGGCTCTTCTGAATAGAAGTAACAGAATTTTGG
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGG
* * *
18209819 AAAAATAAATGGCTCCTCTGAATAAAGGCAACAGAACTTTTG
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGG
18209861 AAAAATAA
1 AAAAATAA
18209869 TTGAAAAAAA
Statistics
Matches: 223, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
41 83 0.37
42 68 0.30
43 72 0.32
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (42 bp):
AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGG
Found at i:18209653 original size:84 final size:84
Alignment explanation
Indices: 18209568--18209865 Score: 368
Period size: 84 Copynumber: 3.5 Consensus size: 84
18209558 CGACTTTGAA
* * *
18209568 AAAAATAAAT-GCTCCTCTAAACAGAGGCACCATG-ACTTT-AGAAAAATAAATGGCTCATCTAA
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACA-GAACTTTGAAAAAAATAAATGGCTCATCTAA
18209630 ATAGAGGCAACAGGACTTGG
65 ATAGAGGCAACAGGACTTGG
* * * * *
18209650 AAAAATAAATAGCTCCTTTAAATAGAGGTAATAGAACTTTGAAAAAAATAAATGGCTCCTCTAAA
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGAAAAAAATAAATGGCTCATCTAAA
**
18209715 TAGAGGCAACAGGACTTTA
66 TAGAGGCAACAGGACTTGG
* * * *
18209734 AAAAATAAATGGTTCCTCTGAATAGAGGCAACAGAACTTTGAAAAAAATAAATGGCTCTTCTGAA
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGAAAAAAATAAATGGCTCATCTAAA
* * * *
18209799 TAGAAGTAACAGAATTTTGG
66 TAGAGGCAACAGGA-CTTGG
* *
18209819 AAAAATAAATGGCTCCTCTGAATAAAGGCAACAGAACTTTTGAAAAA
1 AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAAC-TTTGAAAAA
18209866 TAATTGAAAA
Statistics
Matches: 186, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
82 11 0.06
83 22 0.12
84 107 0.58
85 37 0.20
86 9 0.05
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.23
Consensus pattern (84 bp):
AAAAATAAATGGCTCCTCTAAATAGAGGCAACAGAACTTTGAAAAAAATAAATGGCTCATCTAAA
TAGAGGCAACAGGACTTGG
Found at i:18209880 original size:56 final size:56
Alignment explanation
Indices: 18209819--18209924 Score: 185
Period size: 56 Copynumber: 1.9 Consensus size: 56
18209809 AGAATTTTGG
*
18209819 AAAAATAAATGGCTCCTCTGAATAAAGGCAACAGAACTTTTGAAAAATAATTGAAA
1 AAAAATAAATGGCTCCTCTGAATAAAGGCAACAGAACTTTGGAAAAATAATTGAAA
* *
18209875 AAAAATAAATGGCTCCTCTGAATAGAGGCAATAGAACTTTGGAAAAATAA
1 AAAAATAAATGGCTCCTCTGAATAAAGGCAACAGAACTTTGGAAAAATAA
18209925 ATGGCTCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (56 bp):
AAAAATAAATGGCTCCTCTGAATAAAGGCAACAGAACTTTGGAAAAATAATTGAAA
Found at i:18209954 original size:41 final size:42
Alignment explanation
Indices: 18209875--18209970 Score: 133
Period size: 41 Copynumber: 2.3 Consensus size: 42
18209865 ATAATTGAAA
* * **
18209875 AAAAATAAATGGCTCCTCTGAATAGAGGCAATAGAACTTTGG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAAAACTTCAG
*
18209917 AAAAATAAATGGCT-CTTTGAATAGAGGCAACAAAACTTCAG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAAAACTTCAG
18209958 AAAAATAAA-GGCT
1 AAAAATAAATGGCT
18209971 TATTGGCAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 4 0.08
41 31 0.63
42 14 0.29
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.22
Consensus pattern (42 bp):
AAAAATAAATGGCTCCTCTGAATAGAGGCAACAAAACTTCAG
Found at i:18210485 original size:21 final size:21
Alignment explanation
Indices: 18210444--18210517 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
18210434 GGTTTCACAT
18210444 CTCAAAGATTCTCAGTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
* *
18210466 CTCAAAGATTTTCCTTTGAAA
1 CTCAAAGATTCTCATTTGAAA
* * * *
18210487 TTTAAAGACTCTCATTCGAAA
1 CTCAAAGATTCTCATTTGAAA
*
18210508 TTCAAAGATT
1 CTCAAAGATT
18210518 TTCTTTAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 30 0.71
22 12 0.29
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:18211674 original size:15 final size:15
Alignment explanation
Indices: 18211642--18211682 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
18211632 CAATTTGAGT
*
18211642 TTTCC-TTTTCTCTTA
1 TTTCCATTTT-TCTCA
18211657 TTTCCATTTTTCTCA
1 TTTCCATTTTTCTCA
18211672 TTTCCATTTTT
1 TTTCCATTTTT
18211683 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCCATTTTTCTCA
Found at i:18211699 original size:14 final size:14
Alignment explanation
Indices: 18211682--18211722 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
18211672 TTTCCATTTT
*
18211682 TTTATTTTTTATTC
1 TTTATTTTTCATTC
18211696 TTTATTTTTCATTC
1 TTTATTTTTCATTC
18211710 TTTCATTCTTTCA
1 TTT-ATT-TTTCA
18211723 CCCATTATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTTCATTC
Found at i:18215798 original size:52 final size:50
Alignment explanation
Indices: 18215741--18215930 Score: 148
Period size: 55 Copynumber: 3.6 Consensus size: 50
18215731 CTAATGATTT
18215741 CACCATTTGAGCTAAATTAGAAATATTTTCTCTTTTGAATTTCTAAATTTTC
1 CACCATTTGAGCT-AATTAGAAATATTTTCT-TTTTGAATTTCTAAATTTTC
* * * **
18215793 CACCATTTGAGCCTATTTAGAAATTCTTTTTATTTTTTTTTATTTCTAAATTTTC
1 CACCATTTGAG-CTAATTAGAAA---TATTT-TCTTTTTGAATTTCTAAATTTTC
* * * *
18215848 CACTATTTG-GATCAATCTAAAAATATTTTCTTTTTCAGAATTTCTAAAATTTC
1 CACCATTTGAGCT-AAT-TAGAAATATTTTCTTTTT--GAATTTCTAAATTTTC
* * *
18215901 CACAATTTGGGCCTATTTAGAAATTATTTT
1 CACCATTTGAG-CTAATTAGAAA-TATTTT
18215931 TATTTATTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
51 6 0.06
52 23 0.21
53 29 0.27
54 12 0.11
55 36 0.33
56 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.48
Consensus pattern (50 bp):
CACCATTTGAGCTAATTAGAAATATTTTCTTTTTGAATTTCTAAATTTTC
Found at i:18215856 original size:55 final size:53
Alignment explanation
Indices: 18215779--18215942 Score: 150
Period size: 53 Copynumber: 3.0 Consensus size: 53
18215769 TCTCTTTTGA
*
18215779 ATTTCTAAATTTTCCACCATTTGAGCCTATTTAGAAATTCTTTTTATTTTTTTTT
1 ATTTCTAAATTTTCCACAATTTG-GCCTATTTAGAAATT-TTTTTATTTTTTTTT
* * * * * * * ****
18215834 ATTTCTAAATTTTCCACTATTTGGATCAATCTA-AAAATATTTTCTTTTTCAGA
1 ATTTCTAAATTTTCCACAATTTGG-CCTATTTAGAAATTTTTTTATTTTTTTTT
*
18215887 ATTTCTAAAATTTCCACAATTTGGGCCTATTTAGAAATTATTTTTATTTATTTTTT
1 ATTTCTAAATTTTCCACAATTT-GGCCTATTTAGAAATT-TTTTTATTT-TTTTTT
18215943 TCAAAAGAAA
Statistics
Matches: 81, Mismatches: 23, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
53 34 0.42
54 11 0.14
55 34 0.42
56 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.06, T:0.52
Consensus pattern (53 bp):
ATTTCTAAATTTTCCACAATTTGGCCTATTTAGAAATTTTTTTATTTTTTTTT
Found at i:18218129 original size:15 final size:15
Alignment explanation
Indices: 18218109--18218138 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18218099 CACTTGAGCC
18218109 AAGGTGATTTTCACA
1 AAGGTGATTTTCACA
18218124 AAGGTGATTTTCACA
1 AAGGTGATTTTCACA
18218139 TATTCTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
AAGGTGATTTTCACA
Found at i:18231213 original size:2 final size:2
Alignment explanation
Indices: 18231206--18231243 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18231196 GCTTATTACC
18231206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18231244 GTACCAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18231636 original size:15 final size:14
Alignment explanation
Indices: 18231618--18231651 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
18231608 AAATAAAATA
18231618 AAAAAAAAAGAAAAG
1 AAAAAAAAAG-AAAG
*
18231633 AAAAGAAAAGAAAG
1 AAAAAAAAAGAAAG
18231647 AAAAA
1 AAAAA
18231652 GTATCTACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:18231652 original size:15 final size:14
Alignment explanation
Indices: 18231619--18231651 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18231609 AATAAAATAA
18231619 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
18231633 AAAAGAAAAG-AAAG
1 AAAA-AAAAGAAAAG
18231647 AAAAA
1 AAAAA
18231652 GTATCTACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:18236762 original size:9 final size:9
Alignment explanation
Indices: 18236748--18236792 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
18236738 ATCATTTCTG
18236748 TTATATTTA
1 TTATATTTA
18236757 TTATATTTA
1 TTATATTTA
*
18236766 -T-T-TTTG
1 TTATATTTA
18236772 TTATATTTA
1 TTATATTTA
*
18236781 TTATTTTTA
1 TTATATTTA
18236790 TTA
1 TTA
18236793 AATTAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
6 3 0.10
7 2 0.07
8 2 0.07
9 23 0.77
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTATATTTA
Found at i:18236773 original size:24 final size:24
Alignment explanation
Indices: 18236741--18236791 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
18236731 ATAAGTTATC
18236741 ATTTCTGTTATATTTATTATATTT
1 ATTTCTGTTATATTTATTATATTT
* *
18236765 ATTTTTGTTATATTTATTATTTTT
1 ATTTCTGTTATATTTATTATATTT
18236789 ATT
1 ATT
18236792 AAATTAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (24 bp):
ATTTCTGTTATATTTATTATATTT
Found at i:18236790 original size:15 final size:16
Alignment explanation
Indices: 18236751--18236790 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
18236741 ATTTCTGTTA
18236751 TATTTATTATATTTAT
1 TATTTATTATATTTAT
*
18236767 T-TTTGTTATATTTAT
1 TATTTATTATATTTAT
18236782 TATTT-TTAT
1 TATTTATTAT
18236791 TAAATTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTTATTATATTTAT
Found at i:18237102 original size:28 final size:28
Alignment explanation
Indices: 18237061--18237115 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
18237051 GAAAGAAAAC
* * *
18237061 AATATATTTAAAAATATAAAAATAATAA
1 AATACATTTAAAAATAGAAAAAAAATAA
*
18237089 AATACATTTTAAAATAGAAAAAAAATA
1 AATACATTTAAAAATAGAAAAAAAATA
18237116 GATGTAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AATACATTTAAAAATAGAAAAAAAATAA
Found at i:18239706 original size:13 final size:13
Alignment explanation
Indices: 18239680--18239729 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
18239670 CACAAACCCC
18239680 AAACCCTAAACCA
1 AAACCCTAAACCA
* *
18239693 AAA-CCAAAACCC
1 AAACCCTAAACCA
*
18239705 AAACCTTAAACCA
1 AAACCCTAAACCA
*
18239718 AAACCCCAAACC
1 AAACCCTAAACC
18239730 CCAAACCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.54, C:0.40, G:0.00, T:0.06
Consensus pattern (13 bp):
AAACCCTAAACCA
Found at i:18239706 original size:25 final size:26
Alignment explanation
Indices: 18239672--18239736 Score: 96
Period size: 25 Copynumber: 2.5 Consensus size: 26
18239662 ATTATTCACA
18239672 CAAACCCCAAACCCTAAACCAAAA-C
1 CAAACCCCAAACCCTAAACCAAAACC
* *
18239697 CAAAACCCAAACCTTAAACCAAAACCC
1 CAAACCCCAAACCCTAAACCAAAA-CC
18239724 CAAACCCCAAACC
1 CAAACCCCAAACC
18239737 AAAATCCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 22 0.63
27 13 0.37
ACGTcount: A:0.51, C:0.45, G:0.00, T:0.05
Consensus pattern (26 bp):
CAAACCCCAAACCCTAAACCAAAACC
Found at i:18245051 original size:27 final size:25
Alignment explanation
Indices: 18245013--18245083 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
18245003 AGGTGTAGAC
*
18245013 GCCCATTCGTGTCTAGACCCCAATTAG
1 GCCCATTTGTGTCTAG-CCCC-ATTAG
* *
18245040 GCCCATTTGTGTCCAGGCCCATTAG
1 GCCCATTTGTGTCTAGCCCCATTAG
*
18245065 GCCCATCTGTGTCTTAGCC
1 GCCCATTTGTGTC-TAGCC
18245084 TAGTTAGACT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 17 0.46
26 6 0.16
27 14 0.38
ACGTcount: A:0.17, C:0.34, G:0.21, T:0.28
Consensus pattern (25 bp):
GCCCATTTGTGTCTAGCCCCATTAG
Found at i:18245121 original size:3 final size:3
Alignment explanation
Indices: 18245113--18245173 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
18245103 TGTATTTTTG
* * *
18245113 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA ATA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18245161 TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TT
18245174 TTCCTTTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18245272 original size:10 final size:10
Alignment explanation
Indices: 18245259--18245301 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
18245249 ATTATTTATA
18245259 TTTTCTTTTC
1 TTTTCTTTTC
18245269 TTTTTCTTTTC
1 -TTTTCTTTTC
18245280 -TTTCTTTTTC
1 TTTTC-TTTTC
*
18245290 TTTCCTTTTC
1 TTTTCTTTTC
18245300 TT
1 TT
18245302 CTTTCCTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 4 0.14
10 12 0.41
11 13 0.45
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:18245273 original size:6 final size:5
Alignment explanation
Indices: 18245259--18245301 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
18245249 ATTATTTATA
*
18245259 TTTTC TTTTC TTTTTC TTTTC -TTTC TTTTTC TTTCC TTTTC TT
1 TTTTC TTTTC -TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TT
18245302 CTTTCCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 4 0.12
5 20 0.61
6 9 0.27
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:18245285 original size:15 final size:16
Alignment explanation
Indices: 18245259--18245313 Score: 76
Period size: 15 Copynumber: 3.4 Consensus size: 16
18245249 ATTATTTATA
18245259 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTTTTTC
18245275 TTTTC-TTTCTTTTTC
1 TTTTCTTTTCTTTTTC
*
18245290 TTTCCTTTTCTTCTTTC
1 TTTTCTTTTCTT-TTTC
*
18245307 CTTTCTT
1 TTTTCTT
18245314 GTTTTAATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.41
16 11 0.32
17 9 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTC
Found at i:18245285 original size:20 final size:20
Alignment explanation
Indices: 18245260--18245310 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
18245250 TTATTTATAT
*
18245260 TTTCTTTTCTTTTTCTTTTC
1 TTTCTTTTCTTTTCCTTTTC
18245280 TTTCTTTT-TCTTTCCTTTTC
1 TTTCTTTTCT-TTTCCTTTTC
*
18245300 -TTCTTTCCTTT
1 TTTCTTTTCTTT
18245311 CTTGTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTTTCTTTTCCTTTTC
Found at i:18246186 original size:13 final size:13
Alignment explanation
Indices: 18246164--18246208 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
18246154 CCTTTTCTCT
18246164 TTTTTATTTTTTGA
1 TTTTT-TTTTTTGA
18246178 TTTTTTTTTTTGA
1 TTTTTTTTTTTGA
*
18246191 TTTTGCTTTTTT-A
1 TTTT-TTTTTTTGA
18246204 TTTTT
1 TTTTT
18246209 GATTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTTGA
Found at i:18246209 original size:14 final size:14
Alignment explanation
Indices: 18246164--18246209 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
18246154 CCTTTTCTCT
*
18246164 TTTTTATTTTTTGA
1 TTTTTGTTTTTTGA
18246178 TTTTT-TTTTTTGA
1 TTTTTGTTTTTTGA
18246191 -TTTTGCTTTTTT-A
1 TTTTTG-TTTTTTGA
18246204 TTTTTG
1 TTTTTG
18246210 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.14
13 9 0.31
14 16 0.55
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (14 bp):
TTTTTGTTTTTTGA
Found at i:18252597 original size:19 final size:19
Alignment explanation
Indices: 18252573--18252610 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18252563 TTGGGTTATG
*
18252573 CAATAG-AGCAAATGCAAAA
1 CAATAGTAG-AAAGGCAAAA
18252592 CAATAGTAGAAAGGCAAAA
1 CAATAGTAGAAAGGCAAAA
18252611 AAAGAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (19 bp):
CAATAGTAGAAAGGCAAAA
Found at i:18257552 original size:114 final size:114
Alignment explanation
Indices: 18257350--18257667 Score: 287
Period size: 114 Copynumber: 2.8 Consensus size: 114
18257340 TATTATTCAG
* ** * * * ***
18257350 TCATCCGATCTTGACTTAGGTCAGATCATCTTCTGACTCATAACACTAGTCTGGTCATTTATTTA
1 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAAACTCACAACACCAATCCAATCATTTATTTA
* *
18257415 TGACTTCGACTCGATCTTAGTCACCTTTAAACTCGTAGCATCATCCCAA
66 TGACCTCGACTCAATCTTAGTCACCTTTAAACTCGTAGCATCATCCCAA
* *
18257464 TCATCCGATCTCGACTTAGGTCAGGTCATCTTCAAACTCACGACACCAATCCAATCATTTATTTA
1 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAAACTCACAACACCAATCCAATCATTTATTTA
* * * *** * * *
18257529 TGACCTCGACTCAATCTTGGTCACTTTTAGACTCACGGTATCATCCTAG
66 TGACCTCGACTCAATCTTAGTCACCTTTAAACTCGTAGCATCATCCCAA
* * * * * **** * *
18257578 TCATCCGATC-CTAACTTAGATCAGATCATTTTTATACTTGTGACACCAATCCAGTTATTTATTT
1 TCATCCGATCTC-GACTTAGGTCAGATCATCTTCAAACTCACAACACCAATCCAATCATTTATTT
* ** *
18257642 ACGACCTTAACTCGATCTTAGTCACC
65 ATGACCTCGACTCAATCTTAGTCACC
18257668 CTCAGACTCG
Statistics
Matches: 164, Mismatches: 39, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
113 1 0.01
114 163 0.99
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.34
Consensus pattern (114 bp):
TCATCCGATCTCGACTTAGGTCAGATCATCTTCAAACTCACAACACCAATCCAATCATTTATTTA
TGACCTCGACTCAATCTTAGTCACCTTTAAACTCGTAGCATCATCCCAA
Found at i:18257905 original size:114 final size:114
Alignment explanation
Indices: 18257735--18258002 Score: 356
Period size: 114 Copynumber: 2.4 Consensus size: 114
18257725 AGACTTATGA
* * * * * * *
18257735 CATCGTCCTAGTCATCTAATCTTGACTTAGGTTAGGTCATCTTCAGATTCATGACACCAGTTTGG
1 CATCGTCCCAGTCATCTGATCTCGACTTAGGTTAGATCATCATCAGACTCATGACACCAGTTTGA
* *
18257800 TCATTCATTTACGACCTTAACTCAATTTTGGTCACCTTCAAACTTGCAG
66 TCATTCATTTACAACCTTAACTCAATCTTGGTCACCTTCAAACTTGCAG
*
18257849 CATCGTCCCAGTCATCTGATCTCAACTTAGGTTAGATCATCATCAGACTCATGACACCAGTTTGA
1 CATCGTCCCAGTCATCTGATCTCGACTTAGGTTAGATCATCATCAGACTCATGACACCAGTTTGA
* * * * *
18257914 TCATTTATTTATAACCTTGACTCGATCTTGGTCACCTTCAGACTTGCAG
66 TCATTCATTTACAACCTTAACTCAATCTTGGTCACCTTCAAACTTGCAG
* * * * *
18257963 CATCATCCCAATCATTTGATCTCGACTCAGGTCAGATCAT
1 CATCGTCCCAGTCATCTGATCTCGACTTAGGTTAGATCAT
18258003 TTTTTGACTC
Statistics
Matches: 133, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 133 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (114 bp):
CATCGTCCCAGTCATCTGATCTCGACTTAGGTTAGATCATCATCAGACTCATGACACCAGTTTGA
TCATTCATTTACAACCTTAACTCAATCTTGGTCACCTTCAAACTTGCAG
Found at i:18258347 original size:3 final size:3
Alignment explanation
Indices: 18258339--18258449 Score: 70
Period size: 3 Copynumber: 38.0 Consensus size: 3
18258329 ATATTTTGTA
* * *
18258339 ATT ATT ATT ATT ATT ATT ATT ATT ACT AAT ATT ATA ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * ** *
18258386 -TT TTT CCTT GGT ATT -TT CTT ATAT ACC ATT GTT A-T ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
18258430 ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT
18258450 TTTTTATTTT
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
2 10 0.12
3 71 0.84
4 4 0.05
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:18258463 original size:12 final size:13
Alignment explanation
Indices: 18258425--18258471 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 13
18258415 TGTTATATTA
*
18258425 TTATTATTATTATTA
1 TTATT-TTATT-TTT
18258440 TTATTTTATTTTT
1 TTATTTTATTTTT
18258453 TTATTTT-TTTTT
1 TTATTTTATTTTT
18258465 TTATTTT
1 TTATTTT
18258472 CTTTCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 12 0.39
13 9 0.29
14 5 0.16
15 5 0.16
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:18258470 original size:20 final size:21
Alignment explanation
Indices: 18258443--18258483 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18258433 ATTATTATTA
18258443 TTTTATTTT-TTTATTTTTTT
1 TTTTATTTTCTTTATTTTTTT
*
18258463 TTTTATTTTCTTTCTTTTTTT
1 TTTTATTTTCTTTATTTTTTT
18258484 CTTTCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTATTTTCTTTATTTTTTT
Found at i:18258480 original size:17 final size:16
Alignment explanation
Indices: 18258457--18258501 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
18258447 ATTTTTTTAT
*
18258457 TTTTTTTTTTATTTTC
1 TTTTTTTTTTATTTCC
*
18258473 TTTCTTTTTTTCTTTCC
1 TTT-TTTTTTTATTTCC
18258490 TTTTTTGTTTTA
1 TTTTTT-TTTTA
18258502 ATTCACACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTTATTTCC
Found at i:18258896 original size:21 final size:21
Alignment explanation
Indices: 18258872--18258920 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
18258862 TTTTGGGAAT
* *
18258872 AATCTGGGCAAATTT-TAGAGA
1 AATCTAGGAAAATTTCTA-AGA
18258893 AATCTAGGAAAATTTCTAAGA
1 AATCTAGGAAAATTTCTAAGA
18258914 AATCTAG
1 AATCTAG
18258921 ATTTTTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (21 bp):
AATCTAGGAAAATTTCTAAGA
Found at i:18259347 original size:6 final size:6
Alignment explanation
Indices: 18259336--18259386 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
18259326 CCCTTTTCCC
*
18259336 TTTTAT TTTTAT TTTTAT TTCTA- TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
18259383 TTTT
1 TTTT
18259387 TGATTTGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:18259356 original size:23 final size:23
Alignment explanation
Indices: 18259330--18259378 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
18259320 AGTTTTCCCT
*
18259330 TTTCCCTTTTATTTTTATTTTTA
1 TTTCCATTTTATTTTTATTTTTA
*
18259353 TTTCTATTTTATTTTTATTTTTA
1 TTTCCATTTTATTTTTATTTTTA
18259376 TTT
1 TTT
18259379 TTATTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCCATTTTATTTTTATTTTTA
Found at i:18259364 original size:17 final size:18
Alignment explanation
Indices: 18259339--18259386 Score: 80
Period size: 17 Copynumber: 2.7 Consensus size: 18
18259329 TTTTCCCTTT
18259339 TATTTTTATTTTTATTTC
1 TATTTTTATTTTTATTTC
*
18259357 TA-TTTTATTTTTATTTT
1 TATTTTTATTTTTATTTC
18259374 TATTTTTATTTTT
1 TATTTTTATTTTT
18259387 TGATTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (18 bp):
TATTTTTATTTTTATTTC
Found at i:18259383 original size:23 final size:23
Alignment explanation
Indices: 18259336--18259385 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
18259326 CCCTTTTCCC
18259336 TTTTATTTTTATTTTTATTTCTA
1 TTTTATTTTTATTTTTATTTCTA
*
18259359 TTTTATTTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTATTTCTA
18259382 TTTT
1 TTTT
18259386 TTGATTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTATTTTTATTTTTATTTCTA
Found at i:18261421 original size:16 final size:18
Alignment explanation
Indices: 18261392--18261424 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
18261382 ATATGTACTA
18261392 AAAATAAAAGAAAATTCC
1 AAAATAAAAGAAAATTCC
18261410 AAAA-AAAA-AAAATTC
1 AAAATAAAAGAAAATTC
18261425 AACAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.73, C:0.09, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAGAAAATTCC
Found at i:18263271 original size:19 final size:20
Alignment explanation
Indices: 18263238--18263291 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
18263228 CCTAAATCGT
**
18263238 AACCAAACCCAAAACC-GAA
1 AACCAAACCTTAAACCTGAA
18263257 AACCAAACCTTAAACCTGAA
1 AACCAAACCTTAAACCTGAA
18263277 AAGCC-AACCTTAAAC
1 AA-CCAAACCTTAAAC
18263292 TCACTTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 14 0.45
20 15 0.48
21 2 0.06
ACGTcount: A:0.52, C:0.33, G:0.06, T:0.09
Consensus pattern (20 bp):
AACCAAACCTTAAACCTGAA
Found at i:18264306 original size:8 final size:9
Alignment explanation
Indices: 18264285--18264309 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18264275 TGTTCTCCTA
18264285 AAAAAATTG
1 AAAAAATTG
18264294 AAAAAATTG
1 AAAAAATTG
18264303 AAAAAAT
1 AAAAAAT
18264310 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (9 bp):
AAAAAATTG
Found at i:18264922 original size:13 final size:12
Alignment explanation
Indices: 18264892--18264963 Score: 58
Period size: 13 Copynumber: 5.7 Consensus size: 12
18264882 TACATGTTTT
18264892 AAAAAAAA-AA-
1 AAAAAAAAGAAG
18264902 AAACAAAAAGAAGG
1 AAA-AAAAAGAA-G
*
18264916 AAAAAAAAGTAAT
1 AAAAAAAAG-AAG
18264929 AAAAAAAAGAAAAG
1 AAAAAAAAG--AAG
*
18264943 AAAAAAAATAAG
1 AAAAAAAAGAAG
18264955 AAAAGAAAA
1 AAAA-AAAA
18264964 AGGAAAGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
10 3 0.06
11 5 0.10
12 9 0.18
13 19 0.37
14 15 0.29
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.04
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:18264946 original size:12 final size:13
Alignment explanation
Indices: 18264918--18264958 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
18264908 AAAGAAGGAA
18264918 AAAAAAGTAATAA-
1 AAAAAAG-AATAAG
18264931 AAAAAAGAA-AAG
1 AAAAAAGAATAAG
18264943 AAAAAA-AATAAG
1 AAAAAAGAATAAG
18264955 AAAA
1 AAAA
18264959 GAAAAAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.15
12 15 0.58
13 7 0.27
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAAAGAATAAG
Found at i:18264952 original size:23 final size:22
Alignment explanation
Indices: 18264893--18264964 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
18264883 ACATGTTTTA
* *
18264893 AAAAAAAAAAAACAAAAAGAAGG
1 AAAAAAAAAAAATAAAAA-AAAG
**
18264916 AAAAAAAAGTAATAAAAAAAAG
1 AAAAAAAAAAAATAAAAAAAAG
*
18264938 AAAAGAAAAAAAAT-AAGAAAAG
1 AAAA-AAAAAAAATAAAAAAAAG
18264960 AAAAA
1 AAAAA
18264965 GGAAAGTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.02
22 18 0.44
23 22 0.54
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAATAAAAAAAAG
Found at i:18264955 original size:17 final size:16
Alignment explanation
Indices: 18264892--18264964 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 16
18264882 TACATGTTTT
*
18264892 AAAAAAAAA-AAAACA
1 AAAAAAAAAGAAAAGA
*
18264907 AAAAGAAGGAAAAAAAAGTA
1 AAAA-AA--AAAGAAAAG-A
18264927 ATAAAAAAAAGAAAAGA
1 A-AAAAAAAAGAAAAGA
18264944 AAAAAAATAAGAAAAGA
1 AAAAAAA-AAGAAAAGA
18264961 AAAA
1 AAAA
18264965 GGAAAGTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 4 0.08
16 8 0.16
17 15 0.31
18 11 0.22
19 4 0.08
20 4 0.08
21 3 0.06
ACGTcount: A:0.84, C:0.01, G:0.11, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGA
Found at i:18273799 original size:19 final size:19
Alignment explanation
Indices: 18273775--18273820 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
18273765 TTTTGATAGG
18273775 GGATCGATTGGCAAGGAGA
1 GGATCGATTGGCAAGGAGA
*
18273794 GGATCGATTGGTAAGGAGA
1 GGATCGATTGGCAAGGAGA
*
18273813 GGGTCGAT
1 GGATCGAT
18273821 CTTTTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.43, T:0.20
Consensus pattern (19 bp):
GGATCGATTGGCAAGGAGA
Found at i:18278267 original size:30 final size:30
Alignment explanation
Indices: 18278231--18278291 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
18278221 TCTTAGAAGT
18278231 GGGTTAGACTTATAAAAAATAACATGTATA
1 GGGTTAGACTTATAAAAAATAACATGTATA
*
18278261 GGGTTAGACTTATCAAAAATAACATGTATA
1 GGGTTAGACTTATAAAAAATAACATGTATA
18278291 G
1 G
18278292 ATTCTTCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (30 bp):
GGGTTAGACTTATAAAAAATAACATGTATA
Found at i:18283656 original size:7 final size:7
Alignment explanation
Indices: 18283644--18283702 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
18283634 AATCTAATCA
18283644 AAACCCT
1 AAACCCT
18283651 AAACCCT
1 AAACCCT
18283658 AAA-CC-
1 AAACCCT
*
18283663 AAATCCT
1 AAACCCT
18283670 AAAACCCT
1 -AAACCCT
18283678 AAA-CC-
1 AAACCCT
*
18283683 AAATCCT
1 AAACCCT
18283690 AAAACCCT
1 -AAACCCT
18283698 AAACC
1 AAACC
18283703 AAACCCCAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
5 6 0.14
6 8 0.18
7 18 0.41
8 12 0.27
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:18283674 original size:20 final size:20
Alignment explanation
Indices: 18283651--18283705 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
18283641 TCAAAACCCT
18283651 AAACCCTAAACCAAATCCTA
1 AAACCCTAAACCAAATCCTA
18283671 AAACCCTAAACCAAATCCTA
1 AAACCCTAAACCAAATCCTA
18283691 AAACCCTAAACCAAA
1 AAACCCTAAACCAAA
18283706 CCCCAGACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.13
Consensus pattern (20 bp):
AAACCCTAAACCAAATCCTA
Found at i:18284048 original size:19 final size:20
Alignment explanation
Indices: 18284015--18284068 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
18284005 CCTAAACTGT
**
18284015 AACCAAACCCAAAACC-GAA
1 AACCAAACCTTAAACCTGAA
18284034 AACCAAACCTTAAACCTGAA
1 AACCAAACCTTAAACCTGAA
18284054 AAGCC-AACCTTAAAC
1 AA-CCAAACCTTAAAC
18284069 TCACTTTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 14 0.45
20 15 0.48
21 2 0.06
ACGTcount: A:0.52, C:0.33, G:0.06, T:0.09
Consensus pattern (20 bp):
AACCAAACCTTAAACCTGAA
Found at i:18285696 original size:20 final size:18
Alignment explanation
Indices: 18285671--18285719 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
18285661 TGTTTTGTTA
18285671 AAAAAAAAACAAAAATAAGG
1 AAAAAAAAACAAAAA-AA-G
*
18285691 AAAAAAAGTAATAAAAAAAG
1 AAAAAAA--AACAAAAAAAG
18285711 AAAAAAAAA
1 AAAAAAAAA
18285720 GAATAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.08
20 15 0.58
21 2 0.08
22 7 0.27
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAG
Found at i:18285724 original size:21 final size:21
Alignment explanation
Indices: 18285670--18285736 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
18285660 ATGTTTTGTT
*
18285670 AAAAAAAA-AACAAAAATAAG-
1 AAAAAAAAGAATAAAAA-AAGA
*
18285690 GAAAAAAAGTAATAAAAAAAGA
1 AAAAAAAAG-AATAAAAAAAGA
*
18285712 AAAAAAAAGAATAAGAAAAGA
1 AAAAAAAAGAATAAAAAAAGA
18285733 AAAA
1 AAAA
18285737 GGAAAGTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 7 0.17
21 18 0.45
22 15 0.38
ACGTcount: A:0.82, C:0.01, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAAAAGAATAAAAAAAGA
Found at i:18285731 original size:33 final size:33
Alignment explanation
Indices: 18285669--18285731 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
18285659 CATGTTTTGT
*
18285669 TAAAAAAAAAACAAAAATAAGGAAAAAAAGTAA
1 TAAAAAAAAAACAAAAATAAGAAAAAAAAGTAA
*
18285702 TAAAAAAAGAA-AAAAA-AAGAATAAGAAAAG
1 TAAAAAAAAAACAAAAATAAGAA-AA-AAAAG
18285732 AAAAAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 4 0.15
32 7 0.27
33 15 0.58
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.08
Consensus pattern (33 bp):
TAAAAAAAAAACAAAAATAAGAAAAAAAAGTAA
Found at i:18293194 original size:16 final size:16
Alignment explanation
Indices: 18293173--18293205 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18293163 AAGTATTTAA
18293173 TGAATGCATCGATGCG
1 TGAATGCATCGATGCG
18293189 TGAATGCATCGATGCG
1 TGAATGCATCGATGCG
18293205 T
1 T
18293206 ACCACCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (16 bp):
TGAATGCATCGATGCG
Found at i:18299020 original size:30 final size:30
Alignment explanation
Indices: 18298984--18299044 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
18298974 TCTTAGAAGT
18298984 GGGTTAGACTTATAAAAAATAACATGTATA
1 GGGTTAGACTTATAAAAAATAACATGTATA
*
18299014 GGGTTAGACTTATCAAAAATAACATGTATA
1 GGGTTAGACTTATAAAAAATAACATGTATA
18299044 G
1 G
18299045 ATTCTTCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (30 bp):
GGGTTAGACTTATAAAAAATAACATGTATA
Found at i:18303027 original size:20 final size:21
Alignment explanation
Indices: 18303002--18303041 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18302992 AAACTTTCTG
*
18303002 TTTGAA-AAAATGATCGATCC
1 TTTGAATAAAAGGATCGATCC
*
18303022 TTTGAATGAAAGGATCGATC
1 TTTGAATAAAAGGATCGATC
18303042 TGGTCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (21 bp):
TTTGAATAAAAGGATCGATCC
Found at i:18306016 original size:21 final size:22
Alignment explanation
Indices: 18305992--18306032 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18305982 AAATGAGGCG
18305992 AAGAAGAAAAA-CAAAATGAAA
1 AAGAAGAAAAATCAAAATGAAA
*
18306013 AAGAAGAAAAATGAAAATGA
1 AAGAAGAAAAATCAAAATGA
18306033 TGAATGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.07
Consensus pattern (22 bp):
AAGAAGAAAAATCAAAATGAAA
Found at i:18307197 original size:144 final size:144
Alignment explanation
Indices: 18306978--18307347 Score: 328
Period size: 144 Copynumber: 2.6 Consensus size: 144
18306968 GAGAAACTTC
* * * * *
18306978 AGATCATGTTTTGATATTATTTCATGATTTTTTATGCATTAAAAACCCTAATCGCACTTTGAAAA
1 AGATCATGTTTTGATATTATTTCATAACTTTTAATGAATTAAAAACCCTAATCGCACTTCGAAAA
* * * *
18307043 TGTTGTAATTA-TGAAAATGCCCCTTACA-AATATTTTTGTTATTTGACCTTCTTAAGGTCTATT
66 TGTTGAAATTACT-AAAATGCCCCTTA-AGAATATTTTAGTAATTTGACCTTCCTAAGGTCTATT
18307106 TTCTTTAAAAAGTTTT
129 TTCTTTAAAAAGTTTT
* * *
18307122 AGATCATGTTTTGATATTATTTTATAACTTTTAATGAATTAAAAAACCCTGATTGCAAC-TCGAA
1 AGATCATGTTTTGATATTATTTCATAACTTTTAATGAATT-AAAAACCCTAATCGC-ACTTCGAA
* **
18307186 AGA-GTT-AAATTACTAAAATGCCCTTTAAGGGTATTTTAGTAATTTGACCTTCCTAAGGTC-AG
64 A-ATGTTGAAATTACTAAAATGCCCCTTAAGAATATTTTAGTAATTTGACCTTCCTAAGGTCTA-
* **
18307248 TTTT-TTGTGAAAAGCTCGT
127 TTTTCTT-TAAAAAG-TTTT
* * * * * * * * ** *
18307267 A-ATTATGTTTTTATATTATTT-ATAATTTTTCATGCATTGAAAACCTTGATCATACCTC-AAAA
1 AGATCATGTTTTGATATTATTTCATAACTTTTAATGAATTAAAAACCCTAATCGCACTTCGAAAA
18307329 TGATTGAAATTACTAAAAT
66 TG-TTGAAATTACTAAAAT
18307348 ACTCTTTAGG
Statistics
Matches: 186, Mismatches: 28, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
140 1 0.01
141 6 0.03
142 14 0.08
143 31 0.17
144 106 0.57
145 25 0.13
146 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (144 bp):
AGATCATGTTTTGATATTATTTCATAACTTTTAATGAATTAAAAACCCTAATCGCACTTCGAAAA
TGTTGAAATTACTAAAATGCCCCTTAAGAATATTTTAGTAATTTGACCTTCCTAAGGTCTATTTT
CTTTAAAAAGTTTT
Found at i:18308882 original size:19 final size:19
Alignment explanation
Indices: 18308855--18308914 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
18308845 CCAAAATCCT
*
18308855 AAACTCTAAACCCTAAATA
1 AAACCCTAAACCCTAAATA
* *
18308874 AAACCCTAAGCCCTAAACA
1 AAACCCTAAACCCTAAATA
18308893 AAA-CCTCAAACCCTAAATA
1 AAACCCT-AAACCCTAAATA
18308912 AAA
1 AAA
18308915 ACTCGAAACC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 3 0.09
19 32 0.91
ACGTcount: A:0.53, C:0.30, G:0.02, T:0.15
Consensus pattern (19 bp):
AAACCCTAAACCCTAAATA
Found at i:18308942 original size:27 final size:25
Alignment explanation
Indices: 18308900--18308950 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
18308890 ACAAAACCTC
*
18308900 AAACCCTAAATAAAAACTCGAAACCCG
1 AAACCCTAAACAAAAAC-C-AAACCCG
*
18308927 AAACCCTAAACCAAAACCAAACCC
1 AAACCCTAAACAAAAACCAAACCC
18308951 CAAATTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 1 0.05
27 15 0.68
ACGTcount: A:0.53, C:0.35, G:0.04, T:0.08
Consensus pattern (25 bp):
AAACCCTAAACAAAAACCAAACCCG
Found at i:18309073 original size:40 final size:39
Alignment explanation
Indices: 18309018--18309155 Score: 109
Period size: 39 Copynumber: 3.4 Consensus size: 39
18309008 CCAAACCAAA
**
18309018 CCAAAACCCCGAAACCAAATCAAACCAAAATGAACCAATC
1 CCAAAACCCTTAAACCAAATCAAACCAAAAT-AACCAATC
* * *
18309058 CCAAAACCCTTAAACCGAA-CCAACCAAAA-AATCCCAAAC
1 CCAAAACCCTTAAACCAAATCAAACCAAAATAA--CCAATC
* * *
18309097 CAAACAAAACCAACCTCAAACCAAATCGAACCAAACTAACCAATC
1 C---CAAAA-C--CCTTAAACCAAATCAAACCAAAATAACCAATC
18309142 CCAAAACCCTTAAA
1 CCAAAACCCTTAAA
18309156 TCGAACCAAC
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
37 2 0.03
39 21 0.27
40 16 0.21
41 1 0.01
42 10 0.13
43 1 0.01
45 16 0.21
46 8 0.10
47 2 0.03
ACGTcount: A:0.52, C:0.36, G:0.03, T:0.09
Consensus pattern (39 bp):
CCAAAACCCTTAAACCAAATCAAACCAAAATAACCAATC
Found at i:18309145 original size:84 final size:84
Alignment explanation
Indices: 18309008--18309201 Score: 268
Period size: 84 Copynumber: 2.3 Consensus size: 84
18308998 TCAACCAAGA
*
18309008 CCAAACCAAACCAAAACC--CCGAAACCAAATCAAACCAAAATGAACCAATCCCAAAACCCTTAA
1 CCAAACCAAA-CAAAACCAACCCAAACCAAATCAAACCAAAATGAACCAATCCCAAAACCCTTAA
18309071 ACCGAACCAACCAAAAAATC
65 ACCGAACCAACCAAAAAATC
* *
18309091 CCAAACCAAACAAAACCAACCTCAAACCAAATCGAACCAAACT-AACCAATCCCAAAACCCTTAA
1 CCAAACCAAACAAAACCAACC-CAAACCAAATCAAACCAAAATGAACCAATCCCAAAACCCTTAA
* **
18309155 ATCGAACCAACCCCAAAATC
65 ACCGAACCAACCAAAAAATC
* *
18309175 CCAAACCAAACCATACCAACCCCAAAC
1 CCAAACCAAACAAAACCAA-CCCAAAC
18309202 TTAAACCAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
82 7 0.07
83 10 0.10
84 62 0.63
85 20 0.20
ACGTcount: A:0.51, C:0.39, G:0.03, T:0.08
Consensus pattern (84 bp):
CCAAACCAAACAAAACCAACCCAAACCAAATCAAACCAAAATGAACCAATCCCAAAACCCTTAAA
CCGAACCAACCAAAAAATC
Found at i:18311163 original size:23 final size:24
Alignment explanation
Indices: 18311120--18311175 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
18311110 CAAACAAAGG
*
18311120 ATAAAAAAACCAAAAATAAA-GAA
1 ATAAAAGAACCAAAAATAAAGGAA
*
18311143 ATAAAAGAAGCAATAAA-AAAGGAA
1 ATAAAAGAACCAA-AAATAAAGGAA
*
18311167 AGAAAAGAA
1 ATAAAAGAA
18311176 AAGAACAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.75, C:0.05, G:0.12, T:0.07
Consensus pattern (24 bp):
ATAAAAGAACCAAAAATAAAGGAA
Found at i:18311780 original size:24 final size:23
Alignment explanation
Indices: 18311753--18311806 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
18311743 ATATTATTTC
18311753 ATTTTTATTTATTTAAAT-TAATTA
1 ATTTTTATTTATTTAAATATAA--A
* * *
18311777 ATTTCTCTTTTTTTAAATATAAA
1 ATTTTTATTTATTTAAATATAAA
18311800 ATTTTTA
1 ATTTTTA
18311807 AAATTAAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 6 0.25
24 15 0.62
25 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTATTTATTTAAATATAAA
Found at i:18312100 original size:99 final size:100
Alignment explanation
Indices: 18311938--18312118 Score: 231
Period size: 99 Copynumber: 1.8 Consensus size: 100
18311928 TATTTCTTTT
* * * * *
18311938 TTTTTTAAATCAATCTTGCCAAACTATTAGAGGATTTAAATCTCAAAATTAAATCTTACCAAACT
1 TTTTTGAAATCAATCCTACCAAACTATTAGAGGA-TTAAATCTCAAAATAAAATCATACCAAACT
*
18312003 ATTAAAAGGTTTAATTATCTTTCTTAAGAAAATGAA
65 ATCAAAAGGTTTAATTATCTTTCTTAAGAAAATGAA
* **
18312039 TTTTTGAAATCAATCCTACCAAACTATT-GTAGG-TTATATCTCGCAATAAAATCATACCAAACT
1 TTTTTGAAATCAATCCTACCAAACTATTAG-AGGATTAAATCTCAAAATAAAATCATACCAAACT
* *
18312102 ATCGAAAGGTTTTATTA
65 ATCAAAAGGTTTAATTA
18312119 ATTTTAAAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
99 39 0.57
100 1 0.01
101 28 0.41
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (100 bp):
TTTTTGAAATCAATCCTACCAAACTATTAGAGGATTAAATCTCAAAATAAAATCATACCAAACTA
TCAAAAGGTTTAATTATCTTTCTTAAGAAAATGAA
Found at i:18313124 original size:4 final size:4
Alignment explanation
Indices: 18313115--18313154 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
18313105 AAGATATCAA
* *
18313115 ATTT ATTT ATTT ATTT ATTC ATTT ATCT ATTT -TTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
18313155 ATTCATGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:18322012 original size:14 final size:14
Alignment explanation
Indices: 18321993--18322020 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18321983 GAATTCCGAA
18321993 AATCTTATCCTCTG
1 AATCTTATCCTCTG
18322007 AATCTTATCCTCTG
1 AATCTTATCCTCTG
18322021 TGGTTCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
AATCTTATCCTCTG
Found at i:18324423 original size:208 final size:208
Alignment explanation
Indices: 18324045--18324493 Score: 453
Period size: 208 Copynumber: 2.2 Consensus size: 208
18324035 AAGCAAAAAA
* * ** * *
18324045 AACAAACATCAAACATAAAGCACATAAAGAATTTATGATGGAAGAGCAAAAACCTTAAAGCAAAG
1 AACAAACACCAAACACAAAGCACATAAAGAATGCATGATGGAAGAGCAAAAACATGAAAGCAAAG
** * *
18324110 GAACCAAAATAGGATTTTTATAGGGGGCTGAATAGCTATTGCCATGGGAGGAAACAAGTATTGTT
66 GAACCAAAATAGGAACTTTATAGGGGGCTGAATAGCTACTACCATGGGAGGAAACAAGTATTGTT
* * * * * * * * *
18324175 TGGTAGCCTATGAAAATGCTAAAAGTGCAGCCAAAAAATGATAA-TAGAAACGAAGTAAGTAAAG
131 TGGCAGCCTAAGAAAATGATAAAAGTGCAACCAAAAAATGA-AAGCAAAAACAAAGCAAATAAAG
18324239 C-TTGAAACTTTATT
195 CTTTG-AACTTTATT
* * * *
18324253 AACAAACACCAAACACAAAGCACCTAAGGAATGCATGATGGGAGAGCAAGAATCATGAAA-CAAA
1 AACAAACACCAAACACAAAGCACATAAAGAATGCATGATGGAAGAGCAA-AAACATGAAAGCAAA
* * * * *
18324317 GGAACCAAAATGGGAACTTTAT-GGAGGGCTGAATAGCTGCTATCATGGGTGGAAACAAAG-GTT
65 GGAACCAAAATAGGAACTTTATAGG-GGGCTGAATAGCTACTACCATGGGAGGAAAC-AAGTATT
* * * *
18324380 GTTTGGCAGTCTAAGAAAATGAT-GAAGTTTCAACCACAAAATGAAAGCAAAAACAAAGCAAATA
128 GTTTGGCAGCCTAAGAAAATGATAAAAG-TGCAACCAAAAAATGAAAGCAAAAACAAAGCAAATA
*
18324444 GAGCTTTGAACTTTATT
192 AAGCTTTGAACTTTATT
** * *
18324461 AACATGCACCAAACATCAAA-CATACAAAGAATG
1 AACAAACACCAAACA-CAAAGCACATAAAGAATG
18324494 AACAAGAAAG
Statistics
Matches: 195, Mismatches: 39, Indels: 14
0.79 0.16 0.06
Matches are distributed among these distances:
207 7 0.04
208 171 0.88
209 17 0.09
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (208 bp):
AACAAACACCAAACACAAAGCACATAAAGAATGCATGATGGAAGAGCAAAAACATGAAAGCAAAG
GAACCAAAATAGGAACTTTATAGGGGGCTGAATAGCTACTACCATGGGAGGAAACAAGTATTGTT
TGGCAGCCTAAGAAAATGATAAAAGTGCAACCAAAAAATGAAAGCAAAAACAAAGCAAATAAAGC
TTTGAACTTTATT
Found at i:18325907 original size:88 final size:88
Alignment explanation
Indices: 18325780--18326076 Score: 393
Period size: 88 Copynumber: 3.4 Consensus size: 88
18325770 AAAACTTTTG
** * * * *
18325780 AATGCTCCCCCAATAAGAGGCCATGAAACTTTGAATTTAAAATGATTGGAAATTATGCTTGACGG
1 AATGCTCCTTCAATTAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCTTGAAGG
*
18325845 TTTTACAAATCTTAAAATCTTTA
66 TCTTACAAATCTTAAAATCTTTA
** * * * *
18325868 AATGCTCCTTCAATTAGAAACCATGAAACTTTGAGTTTAAAATGTTTAGAGATTACGCTCGAAGG
1 AATGCTCCTTCAATTAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCTTGAAGG
*
18325933 TCTTACAAATCTCAAAATCTTTA
66 TCTTACAAATCTTAAAATCTTTA
*
18325956 AATGCT-CTTCCAATTAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCCCT-AA
1 AATGCTCCTT-CAATTAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATG-CTTGAA
* *
18326019 GGTCTTACAAATC-TCAATTCTTTA
64 GGTCTTACAAATCTTAAAATCTTTA
*
18326043 AATGCTCCTCCAATTAGAGGCCATGAAACTTTGA
1 AATGCTCCTTCAATTAGAGGCCATGAAACTTTGA
18326077 GTGCTCTTCC
Statistics
Matches: 181, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
87 41 0.23
88 139 0.77
89 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (88 bp):
AATGCTCCTTCAATTAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCTTGAAGG
TCTTACAAATCTTAAAATCTTTA
Found at i:18326088 original size:33 final size:33
Alignment explanation
Indices: 18326038--18326119 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
18326028 AATCTCAATT
* * *
18326038 CTTTAAATGCTCCTCCAATTAGAGGCCATGAAA
1 CTTTGAATGCTCCTCCAATCAAAGGCCATGAAA
* *
18326071 CTTTGAGTGCTCTTCCAATCAAAGGCCATGAAA
1 CTTTGAATGCTCCTCCAATCAAAGGCCATGAAA
18326104 CTTTGAATGCTCCTCC
1 CTTTGAATGCTCCTCC
18326120 CTAAATAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (33 bp):
CTTTGAATGCTCCTCCAATCAAAGGCCATGAAA
Found at i:18326899 original size:26 final size:25
Alignment explanation
Indices: 18326853--18326915 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
18326843 CAAATGCAGG
*
18326853 TGATGCAAATGCAAATATCTTTCTTA
1 TGATGCAAATGCAAATATCTTT-TCA
* * *
18326879 TTATGCAAATGCGAATGTCTTTTCA
1 TGATGCAAATGCAAATATCTTTTCA
18326904 TGATGCAAATGC
1 TGATGCAAATGC
18326916 CAGTGATGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (25 bp):
TGATGCAAATGCAAATATCTTTTCA
Found at i:18326955 original size:41 final size:41
Alignment explanation
Indices: 18326881--18327197 Score: 282
Period size: 41 Copynumber: 8.2 Consensus size: 41
18326871 CTTTCTTATT
* *
18326881 ATGCAAATGCGAATGTC-TTTTCATGATGCAAATGCCAGTG
1 ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
* * *
18326921 ATGCAAATGCATATGTCTTTTTCATGATGTAAATGCAAGCG
1 ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
* *
18326962 ACGCAAATGCAAATGTCTTTTCTTATGATGCAAATGCAAGTG
1 ATGCAAATGCAAATGTCTTTT-TCATGATGCAAATGCAAGTG
** * *
18327004 ATGCAAATATAAATGTCTTTTT--T--T---TATGC-AGAG
1 ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
*
18327037 CTG--AATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
1 ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
* ** *
18327076 ATACAAATATAAATGTCTTTTT-ATG--G---ATG-TA--G
1 ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
* * *
18327108 A-GCTTAATGCAAATGT-TTTTTCATAATGCAAATGTAAGTG
1 ATGC-AAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
*
18327148 ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAATG
1 ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
18327189 ATGCAAATG
1 ATGCAAATG
18327198 TCCTTTTTTT
Statistics
Matches: 218, Mismatches: 35, Indels: 47
0.73 0.12 0.16
Matches are distributed among these distances:
31 21 0.10
32 13 0.06
33 6 0.03
34 6 0.03
35 4 0.02
37 4 0.02
38 6 0.03
39 5 0.02
40 31 0.14
41 87 0.40
42 35 0.16
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (41 bp):
ATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTG
Found at i:18327073 original size:72 final size:73
Alignment explanation
Indices: 18326967--18327178 Score: 295
Period size: 72 Copynumber: 2.9 Consensus size: 73
18326957 AAGCGACGCA
* **
18326967 AATGCAAATGTCTTTTCTTATGATGCAAATGCAAGTGATGCAAATATAAATGTCTTTTT-TTTAT
1 AATGCAAATGTCTTTT-TCATGATGCAAATGCAAGTGATGCAAATATAAATGTCTTTTTATGGAT
18327031 GCAGAGCTG
65 GCAGAGCTG
*
18327040 AATGCAAATGTCTTTTTCATGATGCAAATGCAAGTGATACAAATATAAATGTCTTTTTATGGATG
1 AATGCAAATGTCTTTTTCATGATGCAAATGCAAGTGATGCAAATATAAATGTCTTTTTATGGATG
* *
18327105 TAGAGCTT
66 CAGAGCTG
* * **
18327113 AATGCAAATGT-TTTTTCATAATGCAAATGTAAGTGATGCAAATGCAAATGTCTTTTTCAT-GAT
1 AATGCAAATGTCTTTTTCATGATGCAAATGCAAGTGATGCAAATATAAATGTCTTTTT-ATGGAT
18327176 GCA
65 GCA
18327179 AATGCAAATG
Statistics
Matches: 125, Mismatches: 12, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
72 86 0.69
73 39 0.31
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.37
Consensus pattern (73 bp):
AATGCAAATGTCTTTTTCATGATGCAAATGCAAGTGATGCAAATATAAATGTCTTTTTATGGATG
CAGAGCTG
Found at i:18327221 original size:37 final size:37
Alignment explanation
Indices: 18327156--18327258 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 37
18327146 TGATGCAAAT
** * * *
18327156 GCAAATGT-C-TTTTTCATGATGCAAATGCAAATGAT
1 GCAAATGTCCTTTTTTTGTGATGCAGATGCAAATAAG
*
18327191 GCAAATGTCCTTTTTTTGTGATGTC-GATGCAAGTAAG
1 GCAAATGTCCTTTTTTTGTGATG-CAGATGCAAATAAG
*
18327228 GCAAATGTTCTTTTTTTGTGATGCAGATGCA
1 GCAAATGTCCTTTTTTTGTGATGCAGATGCA
18327259 TAAAGCTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 8 0.14
36 2 0.04
37 46 0.81
38 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (37 bp):
GCAAATGTCCTTTTTTTGTGATGCAGATGCAAATAAG
Found at i:18327389 original size:33 final size:33
Alignment explanation
Indices: 18327263--18327859 Score: 323
Period size: 33 Copynumber: 18.3 Consensus size: 33
18327253 GATGCATAAA
** *
18327263 GCTTAATATTTCATTGGGGTGGCTAGCTAATCTGG
1 GCTTAATATTTCATT--GAAGGCCAGCTAATCTGG
* * * * *
18327298 GCTTAAATCTTTCTTTGAAAGCTAGCTAAACTGG
1 GCTT-AATATTTCATTGAAGGCCAGCTAATCTGG
** * ** *
18327332 GCTT-CCA-TTCATTGGAGGTTAGCTAATCTAG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
* * *
18327363 GCTTAATATTTCTTTGAAGGCCAGCTAAACTAG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
* * * * *
18327396 GCTT-ACA-TTCATTTG-GGGCTAGCGAATTTGG
1 GCTTAATATTTCA-TTGAAGGCCAGCTAATCTGG
* * * *
18327427 GCTTAAAATCTTCTTTGAAGGCAAACTAAAT-TGG
1 GCTTAATAT-TTCATTGAAGGCCAGCT-AATCTGG
* * *
18327461 GCTT-ACA-TTCATT-AGAGGCTAGCTAATCTAG
1 GCTTAATATTTCATTGA-AGGCCAGCTAATCTGG
* * * * **
18327492 GCTTAAAACCTTCTTTGAA-GCAAGCTAAAATGG
1 GCTTAATA-TTTCATTGAAGGCCAGCTAATCTGG
* * *
18327525 GCTT-ACATTT-ATTGGAGGCTAGCTAATCTGG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
* * * *
18327556 GCTTTATATTTCATT-AATGGCTAGCTAAACTAG
1 GCTTAATATTTCATTGAA-GGCCAGCTAATCTGG
* * *
18327589 GCTT-ATA-TTCATTGGAGGCCAGTTAATTTGG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
* * *
18327620 GCTTAA-ATCTTTATTTGAAGGCTAGCTAAACTGG
1 GCTTAATAT-TTCA-TTGAAGGCCAGCTAATCTGG
* * * *
18327654 ACTTACTATTTCATT-ATGGAACAGCTAATCTGG
1 GCTTAATATTTCATTGAAGG-CCAGCTAATCTGG
* *
18327687 GCTTAATATTTCATTGAAGGCCAGCTAAACTAG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
* * * * * *
18327720 GCTT-ACA-TTCATTAAAGGCAAACTAATTTAG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
* * * * *
18327751 GCTTAAATCTTTCTTTGAAGGCTAGTTAAACTGG
1 GCTT-AATATTTCATTGAAGGCCAGCTAATCTGG
* *
18327785 GCTTAATATTTCATTAAAGGCCAGCTAATCTAG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
* *
18327818 GCTTAATATTTCATTGAGGGCCAGCTAAACTGG
1 GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
18327851 GCTTAATAT
1 GCTTAATAT
18327860 GTCAATGGGG
Statistics
Matches: 422, Mismatches: 110, Indels: 62
0.71 0.19 0.10
Matches are distributed among these distances:
30 8 0.02
31 118 0.28
32 28 0.07
33 165 0.39
34 84 0.20
35 10 0.02
36 9 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (33 bp):
GCTTAATATTTCATTGAAGGCCAGCTAATCTGG
Found at i:18327391 original size:64 final size:64
Alignment explanation
Indices: 18327283--18327925 Score: 549
Period size: 64 Copynumber: 9.9 Consensus size: 64
18327273 TCATTGGGGT
* * *
18327283 GGCTAGCTAATCTGGGCTTAAATCTTTCTTTGAAAGCTAGCTAAACTGGGCTTCCATTCATTGGA
1 GGCTAGCTAATCTGGGCTT-AATATTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTCATTGGA
* * * *
18327348 GGTTAGCTAATCTAGGCTTAATATTTCTTTGAAGGCCAGCTAAACTAGGCTTACATTCATTTGG-
1 GGCTAGCTAATCTGGGCTTAATATTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTCA-TTGGA
* * * * * * *
18327412 GGCTAGCGAATTTGGGCTTAAAATCTTCTTTGAAGGCAAACTAAATTGGGCTTACATTCATTAGA
1 GGCTAGCTAATCTGGGCTTAATAT-TTCTTTGAAGGCTAGCTAAACTGGGCTTACATTCATTGGA
* * * * * *
18327477 GGCTAGCTAATCTAGGCTTAAAACCTTCTTTGAA-GCAAGCTAAAATGGGCTTACATTTATTGGA
1 GGCTAGCTAATCTGGGCTTAATA-TTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTCATTGGA
* * * *
18327541 GGCTAGCTAATCTGGGCTTTATATTTCATT-AATGGCTAGCTAAACTAGGCTTATATTCATTGGA
1 GGCTAGCTAATCTGGGCTTAATATTTCTTTGAA-GGCTAGCTAAACTGGGCTTACATTCATTGGA
* * * * * *
18327605 GGCCAGTTAATTTGGGCTTAAATCTTTATTTGAAGGCTAGCTAAACTGGACTTACTATTTCATTA
1 GGCTAGCTAATCTGGGCTT-AATATTTCTTTGAAGGCTAGCTAAACTGGGCTTAC-A-TTCA-T-
18327670 TGGA
61 TGGA
* * * * **
18327674 -AC-AGCTAATCTGGGCTTAATATTTCATTGAAGGCCAGCTAAACTAGGCTTACATTCATTAAA
1 GGCTAGCTAATCTGGGCTTAATATTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTCATTGGA
* * * * * * * *
18327736 GGCAAACTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGTTAAACTGGGCTTAATATTTCATTA
1 GGCTAGCTAATCTGGGCTT-AATATTTCTTTGAAGGCTAGCTAAACTGGGCTT-ACA-TTCATTG
*
18327801 AA
63 GA
* * * * * * *
18327803 GGCCAGCTAATCTAGGCTTAATATTTCATTGAGGGCCAGCTAAACTGGGCTTAATATGTCAATGG
1 GGCTAGCTAATCTGGGCTTAATATTTCTTTGAAGGCTAGCTAAACTGGGCTT-ACAT-TCATTGG
*
18327868 G
64 A
* * * * * ** * *
18327869 GGCTAGCAAATTTGGCCTTAAATCTTTCTTTAAAGGAAAACTAAATTGGGCTTACAT
1 GGCTAGCTAATCTGGGCTT-AATATTTCTTTGAAGGCTAGCTAAACTGGGCTTACAT
18327926 GCCTGAAATT
Statistics
Matches: 467, Mismatches: 92, Indels: 37
0.78 0.15 0.06
Matches are distributed among these distances:
62 4 0.01
63 7 0.01
64 160 0.34
65 136 0.29
66 87 0.19
67 67 0.14
68 2 0.00
69 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (64 bp):
GGCTAGCTAATCTGGGCTTAATATTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTCATTGGA
Found at i:18327619 original size:193 final size:196
Alignment explanation
Indices: 18327283--18327789 Score: 537
Period size: 193 Copynumber: 2.6 Consensus size: 196
18327273 TCATTGGGGT
* * * * * *
18327283 GGCTAGCTAATCTGGGCTTAAATCTTTCTTTGAAAGCTAGCTAAACTGGGCTTCCATTCATTGGA
1 GGCTAGCTAATCTAGGCTTAAAACCTTCTTTGAAAGCAAGCTAAAATGGGCTTACATTCATTGGA
* *
18327348 GGTTAGCTAATCTAGGCTTAATATTTCTTTGAAGGCCAGCTAAACTAGGCTTACATTCATTTGGG
66 GGCTAGCTAATCTAGGCTTAATATTTCATTGAAGGCCAGCTAAACTAGGCTTACATTCATTTGGG
* * * *
18327413 GCTAGCGAATTTGGGCTTAAAATC-TTCTTTGAAGGCAAACTAAATTGGGCTTAC-A-TTCATTA
131 GCCAGCGAATTTGGGCTT-AAATCTTTATTTGAAGGCAAACTAAACTGGACTTACTATTTCATTA
18327475 GA
195 GA
*
18327477 GGCTAGCTAATCTAGGCTTAAAACCTTCTTTG-AAGCAAGCTAAAATGGGCTTACATTTATTGGA
1 GGCTAGCTAATCTAGGCTTAAAACCTTCTTTGAAAGCAAGCTAAAATGGGCTTACATTCATTGGA
* * * *
18327541 GGCTAGCTAATCTGGGCTTTATATTTCATT-AATGGCTAGCTAAACTAGGCTTATATTCA-TTGG
66 GGCTAGCTAATCTAGGCTTAATATTTCATTGAA-GGCCAGCTAAACTAGGCTTACATTCATTTGG
** * *
18327604 AGGCCAGTTAATTTGGGCTTAAATCTTTATTTGAAGGCTAGCTAAACTGGACTTACTATTTCATT
130 -GGCCAGCGAATTTGGGCTTAAATCTTTATTTGAAGGCAAACTAAACTGGACTTACTATTTCATT
18327669 ATG-
194 A-GA
* * * * * * * * * **
18327672 GAAC-AGCTAATCTGGGCTTAATA-TTTCATTGAAGGCCAGCTAAACTAGGCTTACATTCATTAA
1 G-GCTAGCTAATCTAGGCTTAAAACCTTCTTTGAAAGCAAGCTAAAATGGGCTTACATTCATTGG
* * * * * * * *
18327735 AGGCAAACTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGTTAAACTGGGCTTA
65 AGGCTAGCTAATCTAGGCTT-AATATTTCATTGAAGGCCAGCTAAACTAGGCTTA
18327790 ATATTTCATT
Statistics
Matches: 261, Mismatches: 42, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
192 11 0.04
193 119 0.46
194 36 0.14
195 65 0.25
196 28 0.11
197 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (196 bp):
GGCTAGCTAATCTAGGCTTAAAACCTTCTTTGAAAGCAAGCTAAAATGGGCTTACATTCATTGGA
GGCTAGCTAATCTAGGCTTAATATTTCATTGAAGGCCAGCTAAACTAGGCTTACATTCATTTGGG
GCCAGCGAATTTGGGCTTAAATCTTTATTTGAAGGCAAACTAAACTGGACTTACTATTTCATTAG
A
Found at i:18327680 original size:98 final size:99
Alignment explanation
Indices: 18327420--18327859 Score: 248
Period size: 98 Copynumber: 4.5 Consensus size: 99
18327410 GGGGCTAGCG
* * * * *
18327420 AATTTGGGCTTAAAATCTTCT-TTGAAGGCAAACTAAATTGGGC-TTACA-TTCATTAGA-GGCT
1 AATTTGGGCTT-AAATCTT-TATTGAAGGCTAGCTAAACTGGACTTTATATTTCATTA-ATGGCT
* * * * * *
18327481 AGCTAATCTAGGCTTAAAACCTTCTTTGAA-GCAAGCT
63 AGCTAAACTAGGCTTAATA-TTTCATTGAAGGCCAGTT
** * * * *
18327518 AAAATGGGCTTACA--TTTATTGGAGGCTAGCTAATCTGGGCTTTATATTTCATTAATGGCTAGC
1 AATTTGGGCTTAAATCTTTATTGAAGGCTAGCTAAACTGGACTTTATATTTCATTAATGGCTAGC
*
18327581 TAAACTAGGCTT-ATA-TTCATTGGAGGCCAGTT
66 TAAACTAGGCTTAATATTTCATTGAAGGCCAGTT
18327613 AATTTGGGCTTAAATCTTTATTTGAAGGCTAGCTAAACTGGAC-TTACTATTTCATT-ATGGAAC
1 AATTTGGGCTTAAATCTTTA-TTGAAGGCTAGCTAAACTGGACTTTA-TATTTCATTAATGG--C
* * *
18327676 -AGCTAATCTGGGCTTAATATTTCATTGAAGGCCAGCT
62 TAGCTAAACTAGGCTTAATATTTCATTGAAGGCCAGTT
** * * * * * * ** * * *
18327713 AAACTAGGCTTACA--TTCATTAAAGGCAAACTAATTTAGG-CTTAAATCTTTCTTTGAA-GGCT
1 AATTTGGGCTTAAATCTTTATTGAAGGCTAGCTAAACT-GGACTT-TATATTTCATT-AATGGCT
* * * *
18327774 AGTTAAACTGGGCTTAATATTTCATTAAAGGCCAGCT
63 AGCTAAACTAGGCTTAATATTTCATTGAAGGCCAGTT
* * * * * * *
18327811 AATCTAGGCTTAATAT-TTCATTGAGGGCCAGCTAAACTGGGCTTAATAT
1 AATTTGGGCTTAA-ATCTTTATTGAAGGCTAGCTAAACTGGACTTTATAT
18327860 GTCAATGGGG
Statistics
Matches: 270, Mismatches: 50, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
94 8 0.03
95 35 0.13
96 7 0.03
97 53 0.20
98 108 0.40
99 14 0.05
100 45 0.17
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (99 bp):
AATTTGGGCTTAAATCTTTATTGAAGGCTAGCTAAACTGGACTTTATATTTCATTAATGGCTAGC
TAAACTAGGCTTAATATTTCATTGAAGGCCAGTT
Found at i:18327716 original size:131 final size:130
Alignment explanation
Indices: 18327284--18327925 Score: 627
Period size: 131 Copynumber: 4.9 Consensus size: 130
18327274 CATTGGGGTG
* * * * *
18327284 GCTAGCTAATCTGGGCTTAAATCTTTCTTTGAAAGCTAGCTAAACTGGGCTTCCATTCATTGGAG
1 GCTAGCTAATCTGGGCTT-AATATTTCATTGAAGGCCAGCTAAACTGGGCTTACATTCATTGGAG
* * * * *
18327349 GTTAGCTAATCTAGGCTT-AATATTTCTTTGAAGGCCAGCTAAACTAGGCTTACA-TTCATTTGG
65 GCTAGCTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTTCATTTGG
*
18327412 G
130 A
* * * * * * * *
18327413 GCTAGCGAATTTGGGCTTAAAATCTTCTTTGAAGGCAAACTAAATTGGGCTTACATTCATTAGAG
1 GCTAGCTAATCTGGGCTTAATAT-TTCATTGAAGGCCAGCTAAACTGGGCTTACATTCATTGGAG
* * * * *
18327478 GCTAGCTAATCTAGGCTTAAAACCTTCTTTGAA-GCAAGCTAAAATGGGCTTACATTT-A-TTGG
65 GCTAGCTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTTCATTTGG
18327540 A
130 A
* * * *
18327541 GGCTAGCTAATCTGGGCTTTATATTTCATT-AATGGCTAGCTAAACTAGGCTTATATTCATTGGA
1 -GCTAGCTAATCTGGGCTTAATATTTCATTGAA-GGCCAGCTAAACTGGGCTTACATTCATTGGA
* * * * *
18327605 GGCCAGTTAATTTGGGCTTAAATCTTTATTTGAAGGCTAGCTAAACTGGACTTACTATTTCATTA
64 GGCTAGCTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGCTAAACTGGGCTTAC-ATTTCATT-
18327670 TGGA
127 TGGA
* * **
18327674 AC-AGCTAATCTGGGCTTAATATTTCATTGAAGGCCAGCTAAACTAGGCTTACATTCATTAAAGG
1 GCTAGCTAATCTGGGCTTAATATTTCATTGAAGGCCAGCTAAACTGGGCTTACATTCATTGGAGG
* * * * **
18327738 CAAACTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGTTAAACTGGGCTTAATATTTCA-TTAA
66 CTAGCTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGCTAAACTGGGCTT-ACATTTCATTTGG
18327802 A
130 A
* * * * *
18327803 GGCCAGCTAATCTAGGCTTAATATTTCATTGAGGGCCAGCTAAACTGGGCTTAATATGTCAATGG
1 -GCTAGCTAATCTGGGCTTAATATTTCATTGAAGGCCAGCTAAACTGGGCTT-ACAT-TCATTGG
* * * ** * *
18327868 GGGCTAGCAAATTT-GGCCTTAAATCTTTCTTTAAAGGAAAACTAAATTGGGCTTACAT
63 AGGCTAGCTAATTTAGG-CTTAAATCTTTCTTTGAAGGCTAGCTAAACTGGGCTTACAT
18327926 GCCTGAAATT
Statistics
Matches: 422, Mismatches: 74, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
127 2 0.00
128 64 0.15
129 125 0.30
130 19 0.05
131 150 0.36
132 13 0.03
133 49 0.12
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (130 bp):
GCTAGCTAATCTGGGCTTAATATTTCATTGAAGGCCAGCTAAACTGGGCTTACATTCATTGGAGG
CTAGCTAATTTAGGCTTAAATCTTTCTTTGAAGGCTAGCTAAACTGGGCTTACATTTCATTTGGA
Found at i:18328794 original size:20 final size:20
Alignment explanation
Indices: 18328762--18328800 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18328752 TTTCTTTATT
18328762 TTTCTTTTATTCTTCCTTTC
1 TTTCTTTTATTCTTCCTTTC
*
18328782 TTTCATTTT-TTCTTTCTTT
1 TTTC-TTTTATTCTTCCTTT
18328801 TTTTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCTTTTATTCTTCCTTTC
Found at i:18328806 original size:16 final size:16
Alignment explanation
Indices: 18328762--18328812 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
18328752 TTTCTTTATT
* *
18328762 TTTCTTTTATTCTTCC
1 TTTCTTTTATTTTTTC
*
18328778 TTTCTTTCATTTTTTC
1 TTTCTTTTATTTTTTC
*
18328794 TTTCTTTTTTTTTTTC
1 TTTCTTTTATTTTTTC
18328810 TTT
1 TTT
18328813 TTGCTTTGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTTATTTTTTC
Found at i:18328813 original size:23 final size:25
Alignment explanation
Indices: 18328782--18328832 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
18328772 TCTTCCTTTC
*
18328782 TTTCATTTTTTCTTT-CTTTTTTTT
1 TTTCATTTTTGCTTTGCTTTTTTTT
18328806 TTTC-TTTTTGCTTTGCTTTTTTTT
1 TTTCATTTTTGCTTTGCTTTTTTTT
18328830 TTT
1 TTT
18328833 TTGCTTTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (25 bp):
TTTCATTTTTGCTTTGCTTTTTTTT
Found at i:18328827 original size:20 final size:20
Alignment explanation
Indices: 18328802--18328839 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18328792 TCTTTCTTTT
18328802 TTTTTTTCTTTTTGCTTTGC
1 TTTTTTTCTTTTTGCTTTGC
*
18328822 TTTTTTTTTTTTTGCTTT
1 TTTTTTTCTTTTTGCTTT
18328840 TGGATCCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.82
Consensus pattern (20 bp):
TTTTTTTCTTTTTGCTTTGC
Done.