Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 107 of 199
Found at i:32632869 original size:11 final size:9
Alignment explanation
Indices: 32632829--32632872 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
32632819 CAAATCCAAC
*
32632829 TCTCTCTAT
1 TCTCTCAAT
*
32632838 TCTCTCAAC
1 TCTCTCAAT
32632847 TCTCTCAAT
1 TCTCTCAAT
32632856 TCTCTCAAT
1 TCTCTCAAT
*
32632865 TTTCTCAA
1 TCTCTCAA
32632873 GTTTTGTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.45
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:32632872 original size:18 final size:18
Alignment explanation
Indices: 32632825--32632863 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
32632815 CACTCAAATC
*
32632825 CAACTCTCTCTATTCTCT
1 CAACTCTCTCAATTCTCT
32632843 CAACTCTCTCAATTCTCT
1 CAACTCTCTCAATTCTCT
32632861 CAA
1 CAA
32632864 TTTTCTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (18 bp):
CAACTCTCTCAATTCTCT
Found at i:32633097 original size:17 final size:18
Alignment explanation
Indices: 32633065--32633100 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
32633055 TTAAGTTAAA
*
32633065 TTTAAATTTTTTTTATTT
1 TTTAAATTTATTTTATTT
32633083 TTTAAA-TTATTTTATTT
1 TTTAAATTTATTTTATTT
32633100 T
1 T
32633101 GTCGATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTAAATTTATTTTATTT
Found at i:32637867 original size:51 final size:51
Alignment explanation
Indices: 32637808--32638041 Score: 251
Period size: 51 Copynumber: 4.6 Consensus size: 51
32637798 TATCGATGAA
* * *
32637808 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * * * *
32637859 CACATGTGTAGTACAAAGTGAAGGCTACAATGTGCACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * *
32637910 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGT
** *
32637961 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
*
32638011 CACGTGTGTAGTACTATGTGAAGGCTTCTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTAC
32638042 ATAAATTGTA
Statistics
Matches: 153, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
50 36 0.24
51 116 0.76
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
Found at i:32637984 original size:102 final size:101
Alignment explanation
Indices: 32637808--32638041 Score: 285
Period size: 102 Copynumber: 2.3 Consensus size: 101
32637798 TATCGATGAA
*
32637808 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
* * * *
32637873 AAAGTGAAGGCTACAATGTGCACCG-AGAAGCTTTGGT
66 AAAGTGAAGGCTACAACGTGAACCGTA-AAAC-TTGAT
* * * *
32637910 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGTCACGTGTGTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATG--ATGGTCACATGTGTAGT
* * *
32637973 ACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
64 ACAAAGTGAAGGCTACAACGTGAACCGTAAAACTTGAT
* *
32638011 CACGTGTGTAGTACTATGTGAAGGCTTCTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTAC
32638042 ATAAATTGTA
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
100 1 0.01
101 35 0.31
102 77 0.68
103 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
AAAGTGAAGGCTACAACGTGAACCGTAAAACTTGAT
Found at i:32638288 original size:38 final size:37
Alignment explanation
Indices: 32638242--32638314 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
32638232 ATGTGTGGAA
* *
32638242 TTGAATTGAATATTGACTTGAAAATGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TTGAAAATGAAAAAGTGAATT
*
32638280 TTGAATTGAATAGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTGAAAATGAAAAAGTGAA
32638315 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTGAAAATGAAAAAGTGAATT
Found at i:32641015 original size:26 final size:25
Alignment explanation
Indices: 32640984--32641061 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 25
32640974 ACGAATTTTC
32640984 TCAAAATTTTATCAGGGGTAAAATTG
1 TCAAAATTTTA-CAGGGGTAAAATTG
* * **
32641010 TCAAAACTTTACCGGATGGTAAAATCA
1 TCAAAATTTTACAGG--GGTAAAATTG
* *
32641037 TCAAAATTTTACTGCGGTAAAATTG
1 TCAAAATTTTACAGGGGTAAAATTG
32641062 GGATGAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 11 0.27
26 10 0.24
27 20 0.49
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACAGGGGTAAAATTG
Found at i:32643195 original size:42 final size:42
Alignment explanation
Indices: 32643149--32643311 Score: 130
Period size: 42 Copynumber: 3.9 Consensus size: 42
32643139 GAGGAGCACA
* *
32643149 ATCACTTAAACTCGCATGGGGAGCTTCACTGATACACAACTT
1 ATCACTTAAACTCACATAGGGAGCTTCACTGATACACAACTT
* * *
32643191 ATCACTTAAGCTCACATAGGGAGCTTCGCTGATACACAATTT
1 ATCACTTAAACTCACATAGGGAGCTTCACTGATACACAACTT
* * * * ** ** ** * *
32643233 AACATTTAAGCTTATGTAAAGAGCTTTGCTAATA-ACAGCTT
1 ATCACTTAAACTCACATAGGGAGCTTCACTGATACACAACTT
* ** *
32643274 ATCACTTAAGCTCATGTAGGGAGCTTCGCTGATACACA
1 ATCACTTAAACTCACATAGGGAGCTTCACTGATACACA
32643312 TCTTGTAAAA
Statistics
Matches: 97, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
41 32 0.33
42 65 0.67
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
ATCACTTAAACTCACATAGGGAGCTTCACTGATACACAACTT
Found at i:32643291 original size:41 final size:42
Alignment explanation
Indices: 32643169--32643311 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 42
32643159 CTCGCATGGG
* * ** **
32643169 GAGCTTCACTGATACACAACTTATCACTTAAGCTCACATAGG
1 GAGCTTCGCTAATACACAACTTATCACTTAAGCTCATGTAAA
* * * * *
32643211 GAGCTTCGCTGATACACAATTTAACATTTAAGCTTATGTAAA
1 GAGCTTCGCTAATACACAACTTATCACTTAAGCTCATGTAAA
* * **
32643253 GAGCTTTGCTAATA-ACAGCTTATCACTTAAGCTCATGTAGG
1 GAGCTTCGCTAATACACAACTTATCACTTAAGCTCATGTAAA
*
32643294 GAGCTTCGCTGATACACA
1 GAGCTTCGCTAATACACA
32643312 TCTTGTAAAA
Statistics
Matches: 80, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 32 0.40
42 48 0.60
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
GAGCTTCGCTAATACACAACTTATCACTTAAGCTCATGTAAA
Found at i:32659086 original size:12 final size:12
Alignment explanation
Indices: 32659069--32659121 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 12
32659059 AACTAATCCT
32659069 CTCTCAAATTTC
1 CTCTCAAATTTC
*
32659081 CTCTC-AATTTG
1 CTCTCAAATTTC
32659092 CTCTCAAA-TTC
1 CTCTCAAATTTC
32659103 CT-TCAAAATTT-
1 CTCTC-AAATTTC
32659114 CTCTCAAA
1 CTCTCAAA
32659122 GCCATATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 2 0.06
11 22 0.63
12 11 0.31
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:32659192 original size:51 final size:51
Alignment explanation
Indices: 32659084--32659181 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
32659074 AAATTTCCTC
* *
32659084 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAAGCCATATTTAATT
1 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAACCCATATTTAATA
* * *
32659135 TCAATTTGCTCTCAAGTT-CTTCTTAAATTTCTCTTAAATCCC-TATTT
1 TCAATTTGCTCTCAAATTCCTTC-AAAATTTCTCTCAAA-CCCATATTT
32659182 TTAAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 4 0.10
51 35 0.85
52 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAACCCATATTTAATA
Found at i:32660970 original size:18 final size:18
Alignment explanation
Indices: 32660943--32660982 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
32660933 CAGGTGCGTT
*
32660943 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
32660961 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
32660979 TCCT
1 TCCT
32660983 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:32661262 original size:21 final size:21
Alignment explanation
Indices: 32661238--32661286 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
32661228 AGATGCCGTA
32661238 CCGGAAGAACCAG-AATCC-CCG
1 CCGGAAGAA-CAGCAA-CCGCCG
32661259 CCGGAAGAACAGCAACCGCCG
1 CCGGAAGAACAGCAACCGCCG
32661280 CCGGAAG
1 CCGGAAG
32661287 CTAGACAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.33, C:0.37, G:0.29, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAGCAACCGCCG
Found at i:32669655 original size:14 final size:14
Alignment explanation
Indices: 32669617--32669663 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
32669607 ATGATTACTA
32669617 TTTTTTAGGGTTT-
1 TTTTTTAGGGTTTC
*
32669630 TTGTTTT--TGTTTC
1 TT-TTTTAGGGTTTC
32669643 TTTTTTAGGGTTTC
1 TTTTTTAGGGTTTC
32669657 TTTTTTA
1 TTTTTTA
32669664 ATCCACAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 16 0.57
ACGTcount: A:0.06, C:0.04, G:0.17, T:0.72
Consensus pattern (14 bp):
TTTTTTAGGGTTTC
Found at i:32673603 original size:29 final size:30
Alignment explanation
Indices: 32673557--32673622 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
32673547 GTGGCCAAGA
** * * *
32673557 GTAAATATTCAAATTTGAGGGGCTAA-AGT
1 GTAAATATAAAAACTTGAAGGGCCAATAGT
*
32673586 GTAAATATAAAAACTTGAAGTGCCAATAGT
1 GTAAATATAAAAACTTGAAGGGCCAATAGT
32673616 GTAAATA
1 GTAAATA
32673623 ATTTAAGGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.29
Consensus pattern (30 bp):
GTAAATATAAAAACTTGAAGGGCCAATAGT
Found at i:32677580 original size:12 final size:15
Alignment explanation
Indices: 32677545--32677577 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32677535 TTATTAGTTC
32677545 ATTATTATATGTTAT
1 ATTATTATATGTTAT
32677560 ATTATTATAT-TTAT
1 ATTATTATATGTTAT
32677574 -TTAT
1 ATTAT
32677578 ATAGGAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 4 0.22
15 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
ATTATTATATGTTAT
Found at i:32678897 original size:126 final size:126
Alignment explanation
Indices: 32678670--32679041 Score: 568
Period size: 126 Copynumber: 3.0 Consensus size: 126
32678660 GGTTTCGACA
* * * * * *
32678670 AGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAGGTCCTGGAAGAAATA
* * *
32678734 ATTTCGAGTTGACGTTTCTAAGAAAATAGTATAAAAAACGCTTCAAGCAGGATGCT-TTATG
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGCAGGATGCTATT-TG
*
32678795 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAGGTCCTAGAAGAAATA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAGGTCCTGGAAGAAATA
* * * *
32678860 GTTTCGAGCTGACGTTTCTGAGCAAATAGTTTTAAAAACACTTCAAGCAGGATGCTATTTG
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGCAGGATGCTATTTG
32678921 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAGGTCCTGGAAGAAATA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAGGTCCTGGAAGAAATA
* *
32678986 ATTTCGAGTTGACGTTTTTGAGCAAATAGTTAAAAAAAACGCTTCAAGCAGGATGC
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTT-TAAAAAACGCTTCAAGCAGGATGC
32679042 AAATAGTTTA
Statistics
Matches: 223, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
125 52 0.23
126 148 0.66
127 23 0.10
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (126 bp):
AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAGGTCCTGGAAGAAATA
ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGCAGGATGCTATTTG
Found at i:32679078 original size:22 final size:22
Alignment explanation
Indices: 32679047--32679600 Score: 495
Period size: 21 Copynumber: 25.5 Consensus size: 22
32679037 GATGCAAATA
*
32679047 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679069 GTTTAGGGTTTTTAAAGTTAAGA
1 GTTTAGGGTTTTT-AAGTTAAGG
32679092 G-TTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* * *
32679113 ATTTTGTGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679135 GTTTAGGATTTTTAAAGTTAAGG
1 GTTTAGGGTTTTT-AAGTTAAGG
32679158 G-TTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
32679179 G-TTAGTGTTTTT-ATTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* * *
32679199 G-TTAGGG--TTTAGGCTTTACG
1 GTTTAGGGTTTTTAAG-TTAAGG
*
32679219 G-TTAGGGTTTTTAAATTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679240 GTTTAGGGTTTTTAAGTTAAGA
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679262 G-TTAGGG-TTTTAAGTTAAGA
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679282 GTTTAGGGTTTTAAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
32679304 G-TTAGGGTTTTAAAGTTAAGT
1 GTTTAGGGTTTTTAAGTTAAGG
* * *
32679325 G-TTAGTGTTTTTTATTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679346 G-TTAGGG--TTTAGGGTTTAA-G
1 GTTTAGGGTTTTTA-AG-TTAAGG
* * *
32679366 G-TTATGGTTTTTAGGTTTAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679387 GTTAAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
32679409 GTTTAGGGTTTTAAATTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679431 G-TTAGTGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* * *
32679452 GTTAGAGTTAGGATTTTAAGTTAAGA
1 GTT-TAG---GGTTTTTAAGTTAAGG
32679478 GTTTAGGG-TTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
** *
32679499 GTTTA-GGACTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679520 GTTT-GTGGTTTTTAATTTAAGG
1 GTTTAG-GGTTTTTAAGTTAAGG
32679542 G-TTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32679563 GTTATGGTTAGGGTTATTAAGTTAAGG
1 G---T--TTAGGGTTTTTAAGTTAAGG
32679590 GTTTAGGGTTT
1 GTTTAGGGTTT
32679601 GTCAATTAAA
Statistics
Matches: 438, Mismatches: 63, Indels: 62
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.01
19 3 0.01
20 50 0.11
21 162 0.37
22 160 0.37
23 21 0.05
24 1 0.00
25 2 0.00
26 16 0.04
27 20 0.05
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (22 bp):
GTTTAGGGTTTTTAAGTTAAGG
Found at i:32679563 original size:15 final size:15
Alignment explanation
Indices: 32679545--32679593 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
32679535 TTTAAGGGTT
32679545 AGGGTTTTTAAGTTA
1 AGGGTTTTTAAGTTA
* *
32679560 AGGG-TTAT-GGTT-
1 AGGGTTTTTAAGTTA
*
32679572 AGGGTTATTAAGTTA
1 AGGGTTTTTAAGTTA
32679587 AGGGTTT
1 AGGGTTT
32679594 AGGGTTTGTC
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
12 4 0.16
13 5 0.20
14 6 0.24
15 10 0.40
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
AGGGTTTTTAAGTTA
Found at i:32679574 original size:27 final size:27
Alignment explanation
Indices: 32679541--32679592 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
32679531 TTAATTTAAG
*
32679541 GGTTAGGGTTTTTAAGTTAAGGGTTAT
1 GGTTAGGGTTATTAAGTTAAGGGTTAT
32679568 GGTTAGGGTTATTAAGTTAAGGGTT
1 GGTTAGGGTTATTAAGTTAAGGGTT
32679593 TAGGGTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (27 bp):
GGTTAGGGTTATTAAGTTAAGGGTTAT
Found at i:32679879 original size:21 final size:21
Alignment explanation
Indices: 32679837--32679882 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
32679827 CTTTGTCCAG
* *
32679837 CTTCCGGCGGAGGTTGTGGTT
1 CTTCCGGCGGAGGTTCTAGTT
32679858 CTTCCGGCGG-GGATTCTAGTT
1 CTTCCGGCGGAGG-TTCTAGTT
32679879 CTTC
1 CTTC
32679883 TGGTAGGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.07, C:0.24, G:0.35, T:0.35
Consensus pattern (21 bp):
CTTCCGGCGGAGGTTCTAGTT
Found at i:32680831 original size:7 final size:7
Alignment explanation
Indices: 32680821--32680853 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
32680811 TTATATACAT
32680821 AATACTA
1 AATACTA
32680828 AATACTA
1 AATACTA
32680835 AATACTA
1 AATACTA
32680842 AATACTA
1 AATACTA
32680849 AATAC
1 AATAC
32680854 CAATCGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:32681059 original size:20 final size:20
Alignment explanation
Indices: 32681022--32681059 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32681012 TTTATTTTTA
*
32681022 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
32681042 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
32681060 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:32682009 original size:11 final size:12
Alignment explanation
Indices: 32681995--32682070 Score: 90
Period size: 11 Copynumber: 6.8 Consensus size: 12
32681985 AAAAATAGGG
32681995 ATTTAAGA-GAA
1 ATTTAAGAGGAA
32682006 ATTTAAGAGGAA
1 ATTTAAGAGGAA
*
32682018 A-TTAAGAGCAA
1 ATTTAAGAGGAA
32682029 A-TTAAGAGGAA
1 ATTTAAGAGGAA
32682040 ATTT-AGAGGAA
1 ATTTAAGAGGAA
*
32682051 ATTGAA-AGGAA
1 ATTTAAGAGGAA
*
32682062 ATTTGAGAG
1 ATTTAAGAG
32682071 AGGATTAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
11 47 0.84
12 9 0.16
ACGTcount: A:0.50, C:0.01, G:0.25, T:0.24
Consensus pattern (12 bp):
ATTTAAGAGGAA
Found at i:32684022 original size:25 final size:26
Alignment explanation
Indices: 32683953--32684022 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
32683943 TTAAAAAATT
* *
32683953 ATAATCAAAATATTTAAAAAATCTAAA
1 ATAATCATAA-ATTTAAAAAATCAAAA
** *
32683980 AT-ATGTTATATTTGAAAAAAT-AAAA
1 ATAATCATAAATTT-AAAAAATCAAAA
32684005 ATAATCATAAATTTAAAA
1 ATAATCATAAATTTAAAA
32684023 GAAGAGAACT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
25 13 0.39
26 18 0.55
27 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (26 bp):
ATAATCATAAATTTAAAAAATCAAAA
Found at i:32686638 original size:2 final size:2
Alignment explanation
Indices: 32686631--32686658 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32686621 TACCCCCTCA
32686631 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
32686659 ATATTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:32690290 original size:46 final size:46
Alignment explanation
Indices: 32690188--32690360 Score: 258
Period size: 46 Copynumber: 3.8 Consensus size: 46
32690178 AGTGTGGAAC
*
32690188 GTAGGTATGATATTTCAGTAAAGAAAACCATACTG-GTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
32690233 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * * * *
32690279 GTAGGTATGGTATTTTAGTAACGAAAGCCATAGTGAGTTATGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
32690325 GTAGGTATGGTATTTCAATGAAGAAAACCATACTGA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGA
32690361 TTTATAGCAT
Statistics
Matches: 113, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 34 0.30
46 79 0.70
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:32699920 original size:29 final size:29
Alignment explanation
Indices: 32699699--32699919 Score: 343
Period size: 29 Copynumber: 7.6 Consensus size: 29
32699689 TGTAAGAAAT
*
32699699 AATTTGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
32699728 AGTTAGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
32699757 AATTTGGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
32699786 AATTGGGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
32699815 AATTGGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
32699844 AGTTAGGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
32699873 AATTAGGTTAGGGTTAGGATTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
32699902 AATTGGGTTAGGGTTAGG
1 AATTAGGTTAGGGTTAGG
32699920 AATAAACTTC
Statistics
Matches: 178, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 178 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.45
Consensus pattern (29 bp):
AATTAGGTTAGGGTTAGGGTTTTTAATTA
Found at i:32701075 original size:7 final size:7
Alignment explanation
Indices: 32701063--32701088 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32701053 TATACATAAT
32701063 AATACTA
1 AATACTA
32701070 AATACTA
1 AATACTA
32701077 AATACTA
1 AATACTA
32701084 AATAC
1 AATAC
32701089 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:32702242 original size:22 final size:22
Alignment explanation
Indices: 32702211--32702339 Score: 123
Period size: 22 Copynumber: 5.5 Consensus size: 22
32702201 AAATATGGAT
32702211 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
32702233 TTAAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
** * * *
32702255 TTGAGAGGAAATTGAAATTAAATATGGAT
1 TTGAGA-G-AATT----TTGGA-AGGAAA
32702284 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
32702306 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAGGAAA
32702328 TTGAGAGGAATT
1 TTGAGA-GAATT
32702340 GAGAGGAAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 15
0.75 0.11 0.13
Matches are distributed among these distances:
22 56 0.65
23 9 0.10
24 4 0.05
27 4 0.05
28 4 0.05
29 9 0.10
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:32702252 original size:73 final size:73
Alignment explanation
Indices: 32702175--32702341 Score: 300
Period size: 73 Copynumber: 2.3 Consensus size: 73
32702165 TATTTTAAAA
32702175 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
32702240 AATTTTGG
66 AATTTTGG
* *
32702248 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
32702313 AATTTTGG
66 AATTTTGG
*
32702321 AAAGAAATTGAGAGG-AATTGA
1 AAGGAAATTGAGAGGAAATTGA
32702342 GAGGAAATAT
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 6 0.07
73 85 0.93
ACGTcount: A:0.44, C:0.01, G:0.28, T:0.27
Consensus pattern (73 bp):
AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
AATTTTGG
Found at i:32702356 original size:12 final size:11
Alignment explanation
Indices: 32702324--32702356 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
32702314 ATTTTGGAAA
32702324 GAAATTGAGAG
1 GAAATTGAGAG
32702335 G-AATTGAGAG
1 GAAATTGAGAG
32702345 GAAATATGAGAG
1 GAAAT-TGAGAG
32702357 AGGATTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:32711473 original size:46 final size:48
Alignment explanation
Indices: 32711396--32711489 Score: 174
Period size: 46 Copynumber: 2.0 Consensus size: 48
32711386 TACGAGACTC
32711396 AATTTGAATCTGTGGGTCAAGGGTCTATAATTGAGCAACTCTAAACTG
1 AATTTGAATCTGTGGGTCAAGGGTCTATAATTGAGCAACTCTAAACTG
32711444 AATTTGAATCTGT-GG-CAAGGGTCTATAATTGAGCAACTCTAAACTG
1 AATTTGAATCTGTGGGTCAAGGGTCTATAATTGAGCAACTCTAAACTG
32711490 TGAGAGGAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 31 0.67
47 2 0.04
48 13 0.28
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (48 bp):
AATTTGAATCTGTGGGTCAAGGGTCTATAATTGAGCAACTCTAAACTG
Found at i:32715733 original size:20 final size:21
Alignment explanation
Indices: 32715705--32715743 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
32715695 TAAATTCCAA
32715705 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
32715725 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
32715744 AAACGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:32719003 original size:31 final size:31
Alignment explanation
Indices: 32718962--32719023 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
32718952 AGATAATTTT
*
32718962 AAAGATTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
32718993 AAAGAGTTTTATTAGGATTCAATTAGTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
32719024 TAATTTGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:32724576 original size:31 final size:31
Alignment explanation
Indices: 32724539--32724600 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
32724529 AGATAATTTT
32724539 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
32724570 AAAGAGTTTTATTAGGATTCAATTAGTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
32724601 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:32733082 original size:2 final size:2
Alignment explanation
Indices: 32733075--32733110 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32733065 TTTGCTATAA
32733075 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32733111 TTTGGTGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32750737 original size:3 final size:3
Alignment explanation
Indices: 32750729--32750763 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
32750719 AAAGATAAAT
32750729 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
32750764 TAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:32751083 original size:62 final size:61
Alignment explanation
Indices: 32750974--32751093 Score: 143
Period size: 62 Copynumber: 2.0 Consensus size: 61
32750964 ATTAATTAAT
* * *
32750974 AAGGACTAAAATGTAACACGCGAAAAAGAACAAGGGCCGAATAAGAAAATATTCCAAAATA
1 AAGGACTAAAATATAACACGCAAAAAAGAACAAGGGCCGAATAAGAAAACATTCCAAAATA
* * * * *
32751035 AAGGACTAAAATATAATGCACG-AAAAAAGAGCAGGGGGCGAATGAGAAAACATTTCAAA
1 AAGGACTAAAATATAA--CACGCAAAAAAGAACAAGGGCCGAATAAGAAAACATTCCAAA
32751094 CCCTAGGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
61 15 0.31
62 30 0.61
63 4 0.08
ACGTcount: A:0.53, C:0.13, G:0.21, T:0.13
Consensus pattern (61 bp):
AAGGACTAAAATATAACACGCAAAAAAGAACAAGGGCCGAATAAGAAAACATTCCAAAATA
Found at i:32752371 original size:41 final size:41
Alignment explanation
Indices: 32752320--32752441 Score: 109
Period size: 44 Copynumber: 2.8 Consensus size: 41
32752310 AACTTCAGGG
* * * *
32752320 GTAGTTTCAATCTTCTCCGCTGCTTTAGGGAGATGAGATTC
1 GTAGCTTCAATCTTCTCCGCTACTTCAGGGAGATAAGATTC
* * *
32752361 GTAGCTTCAATCTGTTCTACTGCTACTTCAGGGAGATAAGGTTT
1 GTAGCTTCAATC--TTCT-CCGCTACTTCAGGGAGATAAGATTC
* *
32752405 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGAT
1 GTAGCTTCAATCTTCTCCGCT---ACTTCAGGGAGAT
32752442 GAGACTCGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
41 14 0.22
42 3 0.05
43 4 0.06
44 44 0.68
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (41 bp):
GTAGCTTCAATCTTCTCCGCTACTTCAGGGAGATAAGATTC
Found at i:32752409 original size:44 final size:44
Alignment explanation
Indices: 32752346--32752673 Score: 293
Period size: 44 Copynumber: 7.3 Consensus size: 44
32752336 CCGCTGCTTT
* * * * *
32752346 AGGGAGATGAGATTCGTAGCTTCAATCTGTTCTACTGCTACTTC
1 AGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC
* * *
32752390 AGGGAGATAAGGTTTGTAGCTTCAATCTACTCCACTACAACTTC
1 AGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC
* * * * * * *
32752434 AGGGAGATGAGACTCGCTATGGTAGATTTAATCTAAC-CTACTGCATCTTT
1 AGGGAGATAAGA-T---T-T-GTAGCTTCAATCT-GCTCCACTGCAACTTC
* *
32752484 AGAGG-TATAGGATTTG-ACGCTTCAATCTGCTCCACTGCAACTTC
1 AG-GGAGATAAGATTTGTA-GCTTCAATCTGCTCCACTGCAACTTC
* *
32752528 AGGGAGATAAGATTTGTAGCTTCAATCTGTTCCACTACAACTTC
1 AGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC
* * *
32752572 AAGGAGATAAGATTTGTAGCTTCAATATGCTCCACTGCAACTTT
1 AGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC
*** * * * *
32752616 AAAAAGATAAGATTTGTAGCTTTAATCTTCTCCACTGTAACTTT
1 AGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC
32752660 AGGGAGATAAGATT
1 AGGGAGATAAGATT
32752674 CACTATGGTG
Statistics
Matches: 229, Mismatches: 43, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
43 4 0.02
44 188 0.82
45 3 0.01
46 1 0.00
48 1 0.00
49 2 0.01
50 26 0.11
51 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
AGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC
Found at i:32765032 original size:3 final size:3
Alignment explanation
Indices: 32765024--32765049 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32765014 AAAGATAAAT
32765024 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
32765050 GAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:32765323 original size:61 final size:61
Alignment explanation
Indices: 32765253--32765371 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
32765243 ATAAATTACT
* *
32765253 AATGACTAAAATGTAAC-ACGCG-AAAAAGAACAGGGGCCGAATAGGAATATATTCCCAAATA
1 AATGACTAAAATATAACGA-GCGAAAAAAGAACAGGGG-CGAATAGGAAAATATTCCCAAATA
* *
32765314 AATGACTAAAATATAACGAGCGAAAAAAGAGCAGGGGCGAATGGGAAAATATTCCCAA
1 AATGACTAAAATATAACGAGCGAAAAAAGAACAGGGGCGAATAGGAAAATATTCCCAA
32765372 CCCTAGGACA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 38 0.73
62 14 0.27
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (61 bp):
AATGACTAAAATATAACGAGCGAAAAAAGAACAGGGGCGAATAGGAAAATATTCCCAAATA
Found at i:32767395 original size:22 final size:22
Alignment explanation
Indices: 32767369--32767411 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
32767359 TCAAGAATAG
*
32767369 GAAAAA-AAGAAAATAA-CGATA
1 GAAAAAGAA-AAAAAAATCGATA
32767390 GAAAAAGAAAAAAAAATCGATA
1 GAAAAAGAAAAAAAAATCGATA
32767412 TAAACTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (22 bp):
GAAAAAGAAAAAAAAATCGATA
Found at i:32768183 original size:50 final size:50
Alignment explanation
Indices: 32768129--32768573 Score: 313
Period size: 50 Copynumber: 8.9 Consensus size: 50
32768119 GTGATGTCGG
* * * *
32768129 GGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTA
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCAACGTCTA
* * * * ** * **
32768179 GGAAGTAAGATTTGTTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCAACGTCTA
* * * * *
32768229 GGAAGCAAGATTCACCGATGTGGCTTTAATCTTTTCCACTGCACCGCCTA
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCAACGTCTA
* * * * ** * *
32768279 GGGAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTACAATGTC-A
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCAACGTCTA
* * * * *
32768328 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGC-ACCTCTTG
1 -GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTT-TTCCACTGCAACGTC-TA
* * * ** * * **
32768380 GGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCAACGTCTA
* * *
32768430 GGAAGCAAGATTCACTGATGTGGCTTTAATCTTGTTCCACTGCACCG-CTA
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTT-TTCCACTGCAACGTCTA
* * ** * * *
32768480 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTC-G
1 -GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCAACGTCTA
* *** *
32768530 GGAAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCA
1 GG-AAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCA
32768574 TCACCTGGGA
Statistics
Matches: 289, Mismatches: 97, Indels: 18
0.72 0.24 0.04
Matches are distributed among these distances:
49 3 0.01
50 212 0.73
51 74 0.26
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTCCACTGCAACGTCTA
Found at i:32768413 original size:101 final size:101
Alignment explanation
Indices: 32768122--32768573 Score: 723
Period size: 101 Copynumber: 4.5 Consensus size: 101
32768112 CTTAACTGTG
* *
32768122 ATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATC-TGTTCCACTGCACCGCCTAGGAAGTA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCGCCTAGGAAGTA
* * * *
32768186 AGATTTGTTGTTGTAGCTTTAATCTTTTGAACTGCA
66 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
*
32768222 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTT-TTCCACTGCACCGCCTAGGGAGTA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCGCCTAGGAAGTA
*
32768286 AGATTCGTTGTTGTAGCTTTAATCTTTTTAACTACA
66 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
* * * * *
32768322 ATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCTCTTGGGGAGTA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCGCCTAGGAAGTA
32768387 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
66 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
*
32768423 ATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTTGTTCCACTGCACCG-CTAGGGAAGT
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCGCCTA-GGAAGT
32768487 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
65 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
* *
32768524 ATGTCGGGAAAGCAAGATTCACCAATGTGGCTTTAATC-TGTTCCACTGCA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCA
32768574 TCACCTGGGA
Statistics
Matches: 329, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
100 144 0.44
101 185 0.56
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (101 bp):
ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCGCCTAGGAAGTA
AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
Found at i:32768737 original size:44 final size:44
Alignment explanation
Indices: 32768689--32769093 Score: 119
Period size: 44 Copynumber: 8.8 Consensus size: 44
32768679 CCTTTATTTT
* *
32768689 AATCTGCTCC-ACTGTAATCTCATGGAGATAGGACTACTAGCTTC
1 AATCTGCTCCGA-TGTAATCTCAGGGAGATAAGACTACTAGCTTC
* * * *
32768733 AATCTGCTCCGATGTAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCGATGTAATCTCAGGGAGATAAGACTACTAGCTTC
* * * * * *
32768777 AATCTGATGCGATCTACTCTACTGTAA-CTTTAGAGAGATAAGATTCT-TTA-TTTT
1 AATC---T--G--CT-C-CGA-TGTAATC-TCAGGGAGATAAGA--CTACTAGCTTC
* * * *
32768831 AATCTGCTCC-ACTATAATCTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCGA-TGTAATCTCAGGGAGATAAGACTACTAGCTTC
* * * * *
32768875 AATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCGATGTAATCTCAGGGAGATAAGACTACTAGCTTC
* * * * * *
32768919 AATCTGATGCGATCTACTCTACTGTAA-CTTTAGAGAGATAAGATCCT-TTA-TTTT
1 AATC---T--G--CT-C-CGA-TGTAATC-TCAGGGAGATAAGA--CTACTAGCTTC
* ** * * *
32768973 AATATGCTCC-ACTGTAATCTCAGTTAGATCAGATTATTAGCTTC
1 AATCTGCTCCGA-TGTAATCTCAGGGAGATAAGACTACTAGCTTC
* * * *
32769017 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCGATGTAATCTCAGGGAGATAAGACTACTAGCTTC
* *
32769061 AATCTGCTCCGCTGTAA-CATCAGGAAGATAAGA
1 AATCTGCTCCGATGTAATC-TCAGGGAGATAAGA
32769094 TTCACCATTT
Statistics
Matches: 272, Mismatches: 53, Indels: 72
0.69 0.13 0.18
Matches are distributed among these distances:
42 2 0.01
43 6 0.02
44 185 0.68
45 5 0.02
46 2 0.01
47 6 0.02
49 4 0.01
51 6 0.02
52 2 0.01
53 5 0.02
54 45 0.17
55 2 0.01
56 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCGATGTAATCTCAGGGAGATAAGACTACTAGCTTC
Found at i:32768894 original size:142 final size:142
Alignment explanation
Indices: 32768638--32769066 Score: 725
Period size: 142 Copynumber: 3.0 Consensus size: 142
32768628 GAGATAAGAC
*
32768638 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
* * * *
32768703 TAATCTCATGGAGATAGGACTACTAGCTTCAATCTGCTCCGATGTAATCTTAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
32768768 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
32768780 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATTCTTTATTTTAATCTGCTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
* *
32768845 TAATCTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
32768910 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
32768922 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATATGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
** *
32768987 TAATCTCAGTTAGATCA-GATTATTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
66 TAATCTCAGGGAGAT-AGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
32769051 TTCTGGCTTCAAT
130 TTCTGGCTTCAAT
32769064 CTG
1 CTG
32769067 CTCCGCTGTA
Statistics
Matches: 270, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
142 269 1.00
143 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:32769094 original size:44 final size:44
Alignment explanation
Indices: 32768977--32769095 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
32768967 TATTTTAATA
* ** * *
32768977 TGCTCCACTGTAATCTCAGTTAGATCAGATTAT-TAGCTTCAATC
1 TGCTCCGCTGTAATCTCAGGAAGATAAGATT-TCTGGCTTCAATC
*
32769021 TGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
1 TGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTCAATC
32769065 TGCTCCGCTGTAA-CATCAGGAAGATAAGATT
1 TGCTCCGCTGTAATC-TCAGGAAGATAAGATT
32769096 CACCATTTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 2 0.03
44 65 0.97
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTCAATC
Found at i:32782705 original size:94 final size:94
Alignment explanation
Indices: 32782477--32782706 Score: 289
Period size: 94 Copynumber: 2.4 Consensus size: 94
32782467 AGGCTTGCTG
* *
32782477 ATTTATGATCACAGCCTAAGTTCATTTATTTACGATCATAAACAATCTTCTATGAGTTAACTAAT
1 ATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACTAAT
* * ** * *
32782542 TTACTATCGCTACTTCAAACAGTTCGTTG
66 TTACTATCACTACTCCAAACAACTCGCTA
** * * * * *
32782571 ATTTACAATCACAACCTAAGTTCATTGATTTACGACCATGAACAATTTTCTATGAGTTAGCTGAT
1 ATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACTAAT
32782636 TTACTATCACTACTCCAAACAACTCGCTA
66 TTACTATCACTACTCCAAACAACTCGCTA
* * **
32782665 ATTTATGATCATAGCCTAAATTCATTGATTTGTGATCATGAA
1 ATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAA
32782707 TAGTCTTTCA
Statistics
Matches: 113, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 113 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (94 bp):
ATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACTAAT
TTACTATCACTACTCCAAACAACTCGCTA
Found at i:32787423 original size:6 final size:6
Alignment explanation
Indices: 32787409--32787440 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
32787399 ACATTTTAGC
*
32787409 TTAGTT TTAGGT TTAGGT TTAGGT TTAGGT TT
1 TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT TT
32787441 CTCTAGGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (6 bp):
TTAGGT
Found at i:32795086 original size:25 final size:26
Alignment explanation
Indices: 32795053--32795103 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
32795043 GAGAAAAAAA
32795053 AGAAGAAAAAAATTTGTTTAAAAGGT
1 AGAAGAAAAAAATTTGTTTAAAAGGT
* *
32795079 AGAA-AAAAATATTTGTTTAATAGGT
1 AGAAGAAAAAAATTTGTTTAAAAGGT
32795104 GTAATTGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (26 bp):
AGAAGAAAAAAATTTGTTTAAAAGGT
Found at i:32796957 original size:28 final size:28
Alignment explanation
Indices: 32796887--32796957 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 28
32796877 ATGTATGTTT
*
32796887 TTTTTGTAATAATAATTTCTATATTATAA
1 TTTTT-TAATAATAATTTCTAGATTATAA
*
32796916 TATTTTACAT-ATAATATT-TAGATT-TAA
1 TTTTTTA-ATAATAAT-TTCTAGATTATAA
32796943 TTTTTTAGATAATAA
1 TTTTTTA-ATAATAA
32796958 AAATAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 11 0.31
28 16 0.46
29 8 0.23
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (28 bp):
TTTTTTAATAATAATTTCTAGATTATAA
Found at i:32798083 original size:20 final size:18
Alignment explanation
Indices: 32798036--32798127 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 18
32798026 CAAGATAAAC
32798036 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
32798053 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
*
32798073 ATTAAATTAATA--AAAT
1 ATTAAATTAATATTTAAT
*
32798089 ATT--ATTAAGA--TAAGT
1 ATTAAATTAATATTTAA-T
*
32798104 ATTAAATTAA-ATTAAAT
1 ATTAAATTAATATTTAAT
32798121 ATTAAAT
1 ATTAAAT
32798128 CTATTGAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 8 0.13
15 4 0.07
16 7 0.11
17 21 0.34
18 3 0.05
19 3 0.05
20 15 0.25
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:32800564 original size:23 final size:23
Alignment explanation
Indices: 32800537--32800635 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
32800527 AGTGTTATTG
*
32800537 ATCAGTGGTAGCTTTAGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
* *
32800560 TTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
* *
32800583 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
* *
32800606 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
32800629 ATCAGTG
1 ATCAGTG
32800636 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTTGGCTACAT
Found at i:32800589 original size:46 final size:46
Alignment explanation
Indices: 32800537--32800635 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
32800527 AGTGTTATTG
32800537 ATCAGTGGTAGCTTTAG-CTACATTTCAGTGGTAGCTAT-GGCTACAT
1 ATCAGTGGTAGC-TTAGACTACATTTCAGTGGTAGCT-TCGGCTACAT
*
32800583 ATCAGTGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTAGACTACATTTCAGTGGTAGCTTCGGCTACAT
32800629 ATCAGTG
1 ATCAGTG
32800636 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
45 4 0.08
46 46 0.92
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTAGACTACATTTCAGTGGTAGCTTCGGCTACAT
Found at i:32801847 original size:46 final size:47
Alignment explanation
Indices: 32801795--32801909 Score: 126
Period size: 49 Copynumber: 2.4 Consensus size: 47
32801785 GACAGAAAAT
* *
32801795 ACCATAGATGAACTATGGCA-ATA-AGTGATATGTAATTCCGTGTAAG
1 ACCATAGATGGACTATGGCACATATA-TGATATGTAATTACGTGTAAG
* * * *
32801841 ACCATAGCTGGGCTATGGCATCGGTATATGTTATGTAATTACGTGTAAG
1 ACCATAGATGGACTATGGCA-C-ATATATGATATGTAATTACGTGTAAG
*
32801890 ACCATAGTTGGACTATGGCA
1 ACCATAGATGGACTATGGCA
32801910 TTGAGAAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
46 17 0.30
49 39 0.68
50 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (47 bp):
ACCATAGATGGACTATGGCACATATATGATATGTAATTACGTGTAAG
Found at i:32802961 original size:23 final size:23
Alignment explanation
Indices: 32802915--32802983 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
32802905 ACATTATGGG
* * *
32802915 ATGCGTCACAAAGGTTTTACAGA
1 ATGCGCCACAAAGGCTTAACAGA
*
32802938 ATGCGCCACAAAGGCTTAATAGA
1 ATGCGCCACAAAGGCTTAACAGA
* *
32802961 ATG-ACTACAAAGGCTTAACAGA
1 ATGCGCCACAAAGGCTTAACAGA
32802983 A
1 A
32802984 CATTACATGC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 17 0.44
23 22 0.56
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (23 bp):
ATGCGCCACAAAGGCTTAACAGA
Found at i:32807218 original size:14 final size:14
Alignment explanation
Indices: 32807199--32807226 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32807189 TGGATCTCTC
32807199 ACAGTTGATGAGGT
1 ACAGTTGATGAGGT
32807213 ACAGTTGATGAGGT
1 ACAGTTGATGAGGT
32807227 CTATGATTCT
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:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
ACAGTTGATGAGGT
Found at i:32813802 original size:25 final size:26
Alignment explanation
Indices: 32813750--32813802 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
32813740 TTAGATTTTC
* *
32813750 TTTTCTTTTCTTTTTTAGATTGGGTT
1 TTTTCTTTTCTTTTTTAGATTAGATT
32813776 TTTTCTTTTC-TTTTTAGATTAGATT
1 TTTTCTTTTCTTTTTTAGATTAGATT
32813801 TT
1 TT
32813803 AATTTTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTCTTTTCTTTTTTAGATTAGATT
Found at i:32819560 original size:90 final size:88
Alignment explanation
Indices: 32819452--32819616 Score: 249
Period size: 90 Copynumber: 1.9 Consensus size: 88
32819442 ATTTATTTAT
* * * **
32819452 TTGGGTATTTAAACTTTCAAAATGCATCAAAAAGGCCCTCAAATCTTTTAAAAAAAGTCAATTAA
1 TTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAA-C-TTAAAAAAAAAACAATTAA
32819517 GCCCCTACTTTTTTTTTGCACTCAC
64 GCCCCTACTTTTTTTTTGCACTCAC
*
32819542 TTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTAAAAAAAAAACAATTAAGC
1 TTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTAAAAAAAAAACAATTAAGC
*
32819607 CCCTTCTTTT
66 CCCTACTTTT
32819617 ATTAAAAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 27 0.40
89 1 0.01
90 40 0.59
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (88 bp):
TTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTAAAAAAAAAACAATTAAGC
CCCTACTTTTTTTTTGCACTCAC
Found at i:32819721 original size:18 final size:19
Alignment explanation
Indices: 32819688--32819731 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
32819678 TTAAAAAATT
*
32819688 TATAAAAATTCG-AAAAGA
1 TATAAAAATTCGAAAAAAA
32819706 TATAAAAA-TCGTAAAAAAA
1 TATAAAAATTCG-AAAAAAA
32819725 TATAAAA
1 TATAAAA
32819732 TTTTATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 8 0.35
19 12 0.52
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
TATAAAAATTCGAAAAAAA
Found at i:32820010 original size:40 final size:40
Alignment explanation
Indices: 32819937--32820012 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
32819927 GTCATTTATT
* * *
32819937 TTTTTTTATGATTTTTATAAAATTTTACAAATTTTTTTCA
1 TTTTTTAAAGATTTTTATAAAAATTTACAAATTTTTTTCA
*
32819977 TTTTTTAAAGATTTTTATAAAAAATTT-CTAATTTTT
1 TTTTTTAAAGATTTTTAT-AAAAATTTACAAATTTTT
32820013 AGTAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 24 0.77
41 7 0.23
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (40 bp):
TTTTTTAAAGATTTTTATAAAAATTTACAAATTTTTTTCA
Found at i:32820067 original size:47 final size:49
Alignment explanation
Indices: 32819976--32820088 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 49
32819966 AATTTTTTTC
* *
32819976 ATTTTTTAAAGATTTTTATAAAAAATTTCTAATTTTTAGTAAATTTTAA
1 ATTTTTTAAAGATTTTTATAAAAAATTTATAATTTTTACTAAATTTTAA
* * *
32820025 ATTTTTT-AA-ATTTTTA-ATAAAATTTAATAATTTTT-CTAAAATTTATG
1 ATTTTTTAAAGATTTTTATAAAAAATTT-ATAATTTTTACTAAATTTTA-A
* *
32820072 ATTTTTTTATGATTTTT
1 ATTTTTTAAAGATTTTT
32820089 TTCTAATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
46 16 0.30
47 22 0.41
48 3 0.06
49 13 0.24
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (49 bp):
ATTTTTTAAAGATTTTTATAAAAAATTTATAATTTTTACTAAATTTTAA
Found at i:32820089 original size:10 final size:11
Alignment explanation
Indices: 32820066--32820090 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32820056 TTTTCTAAAA
32820066 TTTATGATTTT
1 TTTATGATTTT
32820077 TTTATGATTTT
1 TTTATGATTTT
32820088 TTT
1 TTT
32820091 CTAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTATGATTTT
Found at i:32820580 original size:31 final size:31
Alignment explanation
Indices: 32820542--32820602 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
32820532 TCAAATGAAT
*
32820542 ATTATTAAAATAAGAGATTATGGCTAGATTC
1 ATTATTAAAATAAGAGATTATAGCTAGATTC
32820573 ATTATTAAAATAAGAGATTATAGCTAGATT
1 ATTATTAAAATAAGAGATTATAGCTAGATT
32820603 TATTTTGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (31 bp):
ATTATTAAAATAAGAGATTATAGCTAGATTC
Found at i:32822385 original size:19 final size:20
Alignment explanation
Indices: 32822361--32822408 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
32822351 TAATTTAGCC
32822361 ATTTTTATTTTT-ATTTAAT
1 ATTTTTATTTTTAATTTAAT
*
32822380 ATTTTTGTTTTTAATTTAAT
1 ATTTTTATTTTTAATTTAAT
*
32822400 -TTTTCATTT
1 ATTTTTATTT
32822409 GTTTGCTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
ATTTTTATTTTTAATTTAAT
Found at i:32824634 original size:9 final size:8
Alignment explanation
Indices: 32824619--32824652 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
32824609 TTTCATTTTT
32824619 TAAAAAAA
1 TAAAAAAA
32824627 TAAAAAAA
1 TAAAAAAA
32824635 TAAAAAAA
1 TAAAAAAA
32824643 TAAACAAAA
1 TAAA-AAAA
32824652 T
1 T
32824653 CTGAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 20 0.80
9 5 0.20
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:32825125 original size:15 final size:14
Alignment explanation
Indices: 32825107--32825138 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
32825097 CAAAGCTAGG
32825107 TTTTTTTCTTTTGAT
1 TTTTTTTCTTTTG-T
32825122 TTTTTTTCTTTTGT
1 TTTTTTTCTTTTGT
32825136 TTT
1 TTT
32825139 CTTCCTACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.84
Consensus pattern (14 bp):
TTTTTTTCTTTTGT
Found at i:32825206 original size:15 final size:15
Alignment explanation
Indices: 32825160--32825200 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
32825150 AACCAAAGTG
*
32825160 ATTTCATTTAATTTTAT
1 ATTTTATTT-ATTTT-T
32825177 ATTTTATTTATTTTT
1 ATTTTATTTATTTTT
32825192 ATTTTATTT
1 ATTTTATTT
32825201 TGTTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 5 0.22
17 8 0.35
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTATTTTT
Found at i:32825207 original size:11 final size:11
Alignment explanation
Indices: 32825183--32825230 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
32825173 TTATATTTTA
32825183 TTTATTTT-TAT
1 TTTATTTTGT-T
32825194 TTTATTTTGTT
1 TTTATTTTGTT
*
32825205 TTTGTTTTGTT
1 TTTATTTTGTT
*
32825216 TTTGTTTTTGTT
1 TTT-ATTTTGTT
32825228 TTT
1 TTT
32825231 GCTTTTGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 22 0.67
12 11 0.33
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.83
Consensus pattern (11 bp):
TTTATTTTGTT
Found at i:32825277 original size:6 final size:6
Alignment explanation
Indices: 32825198--32825257 Score: 68
Period size: 6 Copynumber: 9.7 Consensus size: 6
32825188 TTTTATTTTA
* *
32825198 TTTTGT TTTTG- TTTTGT TTTTGT TTTTGT TTTTGC TTTTGCT TTTACTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTG-T TTT--TGT
32825248 TTTTGT TTTT
1 TTTTGT TTTT
32825258 AATTTTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.11
6 33 0.72
7 3 0.07
8 4 0.09
9 1 0.02
ACGTcount: A:0.02, C:0.05, G:0.13, T:0.80
Consensus pattern (6 bp):
TTTTGT
Found at i:32826308 original size:7 final size:7
Alignment explanation
Indices: 32826288--32826338 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
32826278 AATATCAATC
*
32826288 AAAGGAA
1 AAAGAAA
32826295 AAA-AAA
1 AAAGAAA
32826301 AAAGAAA
1 AAAGAAA
32826308 AAAGAAA
1 AAAGAAA
32826315 AAAGAAA
1 AAAGAAA
32826322 AAAGAAA
1 AAAGAAA
32826329 AAAGAAA
1 AAAGAAA
32826336 AAA
1 AAA
32826339 TATATATCAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:32832184 original size:19 final size:18
Alignment explanation
Indices: 32832148--32832195 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
32832138 GAAATGGAAA
*
32832148 AGATGAGAAATGAATATG
1 AGATGAGAAAGGAATATG
32832166 AGATGAGAAAGGTAATATG
1 AGATGAGAAAGG-AATATG
*
32832185 AAATGATGAAA
1 AGATGA-GAAA
32832196 TGAAATGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 11 0.42
20 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (18 bp):
AGATGAGAAAGGAATATG
Found at i:32836299 original size:40 final size:40
Alignment explanation
Indices: 32836246--32836359 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
32836236 GTTTGGATAA
* * * *
32836246 AAAACACCACTAAAGATCAAGCATTAGCGGTGCTTT-TTGG
1 AAAACGCCGCTAAAGATCAAGCATTAGCGGAG-TTTCATGG
* *
32836286 AAAACGCCGCTAAAGATCGAGCATTAGTGGAGTTTCATGG
1 AAAACGCCGCTAAAGATCAAGCATTAGCGGAGTTTCATGG
* *
32836326 AAAACGCCGCTAAATAT-AAGCATTAGCGGCGTTT
1 AAAACGCCGCTAAAGATCAAGCATTAGCGGAGTTT
32836360 TTCAGAAAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 17 0.27
40 46 0.73
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCAAGCATTAGCGGAGTTTCATGG
Found at i:32836481 original size:41 final size:41
Alignment explanation
Indices: 32836419--32836617 Score: 319
Period size: 41 Copynumber: 4.9 Consensus size: 41
32836409 CTTTCGGAGA
* * *
32836419 TTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
* *
32836460 TTTAGCGGCGTTTTTGAGAAAGCGTCGCTAATTCTCGGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
32836501 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
* *
32836542 TTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTAGGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
32836583 TTTAGCGGCGTTTTTTG-GAAAGCGCCGCTAATGCT
1 TTTAGCGGCG-TTTTTGAGAAAGCGCCGCTAATGCT
32836618 TAGGGATTTA
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
41 141 0.96
42 6 0.04
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
Found at i:32836806 original size:14 final size:14
Alignment explanation
Indices: 32836787--32836898 Score: 64
Period size: 14 Copynumber: 7.4 Consensus size: 14
32836777 TATCACTATA
*
32836787 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
32836801 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
*
32836815 GTTTAGAGTTTAAT-
1 GTTTAGGGTTT-ATG
*
32836829 GTTTAGGTGTTACCATTTTAAG
1 GTTTAGG-G-------TTTATG
* *
32836851 GTTTATGGATTATG
1 GTTTAGGGTTTATG
*
32836865 AGTTTAGGGATTATG
1 -GTTTAGGGTTTATG
32836880 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
32836894 GTTTA
1 GTTTA
32836899 AAGGCTGGGG
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
14 49 0.64
15 16 0.21
21 2 0.03
22 9 0.12
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:32836875 original size:15 final size:14
Alignment explanation
Indices: 32836850--32836898 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
32836840 ACCATTTTAA
*
32836850 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
32836864 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
*
32836879 GGTTTAGGGTTTAT
1 GGTTTAGGGATTAT
32836893 GGTTTA
1 GGTTTA
32836899 AAGGCTGGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:32836917 original size:7 final size:7
Alignment explanation
Indices: 32836845--32836898 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
32836835 GTGTTACCAT
*
32836845 TTTAAGG
1 TTTATGG
32836852 TTTATGG
1 TTTATGG
*
32836859 ATTATGAG
1 TTTATG-G
*
32836867 TTTAGGG
1 TTTATGG
*
32836874 ATTATGG
1 TTTATGG
*
32836881 TTTAGGG
1 TTTATGG
32836888 TTTATGG
1 TTTATGG
32836895 TTTA
1 TTTA
32836899 AAGGCTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:32837020 original size:16 final size:16
Alignment explanation
Indices: 32836999--32837031 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32836989 TAGTGTTTTC
32836999 TAATTTA-TATATTAAT
1 TAATTTATTATA-TAAT
32837015 TAATTTATTATATAAT
1 TAATTTATTATATAAT
32837031 T
1 T
32837032 GTAAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTATTATATAAT
Found at i:32837691 original size:24 final size:25
Alignment explanation
Indices: 32837655--32837702 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
32837645 TTAAAATGAA
32837655 TTTTAAAAGATTT-TAAACTTTTAT
1 TTTTAAAAGATTTATAAACTTTTAT
* * *
32837679 TTTTATAATATTTATATACTTTTA
1 TTTTAAAAGATTTATAAACTTTTA
32837703 AAGAAAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTAAAAGATTTATAAACTTTTAT
Found at i:32841247 original size:42 final size:42
Alignment explanation
Indices: 32841194--32841475 Score: 343
Period size: 42 Copynumber: 6.7 Consensus size: 42
32841184 CGTTTTTACG
* * * * * * *
32841194 AAAGCGTCGCTAAAGGT-TTGGTTTATAGTGACGTTTGTGAAA
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTG-GA
* * *
32841236 AAAGCGCCGCTAAAGG-CCTTGACCTATAGTGGCGTTTCTGGGA
1 AAAGCGCCGCTAAAGGTCC-TGATCTATAGCGGCGTTTGT-GGA
* *
32841279 AAAGCGCCGCTAAAGGCCCTAATCTATAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGT-GGA
* * * *
32841322 AAAGCGTCGCTAAAGGTCTTGCTCTATAGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGA
* *
32841364 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGG
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGA
*
32841406 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGA
32841448 AAAGCGCCGCTAAAGGTCCTGATCTATA
1 AAAGCGCCGCTAAAGGTCCTGATCTATA
32841476 AGGACGATTA
Statistics
Matches: 213, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
42 124 0.58
43 86 0.40
44 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGA
Found at i:32861194 original size:13 final size:13
Alignment explanation
Indices: 32861176--32861200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32861166 TAAATTTTTT
32861176 TCTATCTTAATTA
1 TCTATCTTAATTA
32861189 TCTATCTTAATT
1 TCTATCTTAATT
32861201 GCTTTCTTTA
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:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTATCTTAATTA
Found at i:32861619 original size:19 final size:19
Alignment explanation
Indices: 32861580--32861620 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32861570 AAAAAAGTGC
*
32861580 AAAAACAAAAAAAAACGAA
1 AAAAACAAAAAAAAACAAA
* *
32861599 AAAAATAAAAAAAAATAAA
1 AAAAACAAAAAAAAACAAA
32861618 AAA
1 AAA
32861621 TATTTTATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (19 bp):
AAAAACAAAAAAAAACAAA
Found at i:32864284 original size:16 final size:16
Alignment explanation
Indices: 32864263--32864300 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
32864253 AATCATACTT
32864263 TTCATAATCATGAATA
1 TTCATAATCATGAATA
32864279 TTCATAATCATGAATA
1 TTCATAATCATGAATA
32864295 TTCATA
1 TTCATA
32864301 CTTTGATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (16 bp):
TTCATAATCATGAATA
Found at i:32864516 original size:20 final size:20
Alignment explanation
Indices: 32864493--32864571 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
32864483 GATGTGTGAC
32864493 TAGGGGCACCGAAGTGCAAA
1 TAGGGGCACCGAAGTGCAAA
*
32864513 TAGGGGCACCGATA-TGC-AT
1 TAGGGGCACCGA-AGTGCAAA
* * *
32864532 TCAGGGGTACGGAAGTACAAA
1 T-AGGGGCACCGAAGTGCAAA
*
32864553 CAGGGGCA-CGTAAGTGCAA
1 TAGGGGCACCG-AAGTGCAA
32864572 TCATGGTATA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
19 4 0.09
20 39 0.87
21 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.34, T:0.14
Consensus pattern (20 bp):
TAGGGGCACCGAAGTGCAAA
Found at i:32865131 original size:16 final size:17
Alignment explanation
Indices: 32865112--32865144 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32865102 TTCATCAATG
32865112 GTAACA-TTCAAAATCC
1 GTAACAGTTCAAAATCC
32865128 GTAACAGGTTCAAAATC
1 GTAACA-GTTCAAAATC
32865145 GAAGGTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.24
Consensus pattern (17 bp):
GTAACAGTTCAAAATCC
Found at i:32875665 original size:126 final size:126
Alignment explanation
Indices: 32875440--32875712 Score: 492
Period size: 126 Copynumber: 2.2 Consensus size: 126
32875430 AGATTAGGTT
*
32875440 TGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAACA
1 TGGACGCGCTTTTGCTACAGTAGCTCCCGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAACA
**
32875505 GTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTCCCACG
66 GTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTCCCACG
*
32875566 TGGACGCGCTTTTGCTACAGTAGCTCCCGAAAAAATAATTTTGAGTAGACGTTTCTGAGCAAACA
1 TGGACGCGCTTTTGCTACAGTAGCTCCCGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAACA
* *
32875631 GTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGTAGAAGTACTGAAAGAAGCTCCCACG
66 GTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTCCCACG
32875692 TGGACGCGCTTTTGCTACAGT
1 TGGACGCGCTTTTGCTACAGT
32875713 GGAGCATGGC
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 141 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (126 bp):
TGGACGCGCTTTTGCTACAGTAGCTCCCGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAACA
GTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTCCCACG
Found at i:32879346 original size:18 final size:18
Alignment explanation
Indices: 32879320--32879362 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32879310 GACTCGAAAA
* * *
32879320 AGGAGACATATAAGGGTT
1 AGGATACATAAAAGGGCT
32879338 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
32879356 AGGATAC
1 AGGATAC
32879363 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:32880027 original size:7 final size:7
Alignment explanation
Indices: 32880017--32880042 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32880007 CATAAGACAT
32880017 AATACTA
1 AATACTA
32880024 AATACTA
1 AATACTA
32880031 AATACTA
1 AATACTA
32880038 AATAC
1 AATAC
32880043 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:32881254 original size:11 final size:11
Alignment explanation
Indices: 32881219--32881258 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
32881209 AAATAGGGAT
32881219 TTGAGA-GAAA
1 TTGAGAGGAAA
*
32881229 TTTCAGAGGAAA
1 -TTGAGAGGAAA
32881241 TTGAGAGGAAA
1 TTGAGAGGAAA
32881252 TTGAGAG
1 TTGAGAG
32881259 AATATTAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:32884134 original size:67 final size:68
Alignment explanation
Indices: 32884019--32884161 Score: 191
Period size: 67 Copynumber: 2.1 Consensus size: 68
32884009 TTGGAATCAA
* * * * *
32884019 AAGTCTACCAGGACAATAAACATGGGATTATACTATGTAATACGATAGCTA-AGCTATGGCAACA
1 AAGTCCACCAAGAAAATAAACATGGGATCATACTATGTAAGACGATAGC-AGAGCTATGGCAACA
*
32884083 TATG
65 AATG
* *
32884087 AAGTCCACCAAGAAAATAAACAT-GGATCATACTATGTAAGACTATAGCAGGGCTATGGCAACAA
1 AAGTCCACCAAGAAAATAAACATGGGATCATACTATGTAAGACGATAGCAGAGCTATGGCAACAA
32884151 ATG
66 ATG
32884154 AAGTCCAC
1 AAGTCCAC
32884162 TAGGACAGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
66 1 0.02
67 45 0.68
68 20 0.30
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (68 bp):
AAGTCCACCAAGAAAATAAACATGGGATCATACTATGTAAGACGATAGCAGAGCTATGGCAACAA
ATG
Found at i:32885994 original size:27 final size:26
Alignment explanation
Indices: 32885938--32885993 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
32885928 TTTCCCGAAG
32885938 TTTTACCAGGGGAAAAATCGTCAAAA
1 TTTTACCAGGGGAAAAATCGTCAAAA
* * *
32885964 TTTTACTAGGGGTAAAATTGTCAAAA
1 TTTTACCAGGGGAAAAATCGTCAAAA
32885990 TTTT
1 TTTT
32885994 TCTACAGGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (26 bp):
TTTTACCAGGGGAAAAATCGTCAAAA
Found at i:32886006 original size:26 final size:26
Alignment explanation
Indices: 32885951--32886007 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
32885941 TACCAGGGGA
** *
32885951 AAAATCGTCAAAATTTTACTAGGGGT
1 AAAATCGTCAAAATTTTACTACAGGC
* *
32885977 AAAATTGTCAAAATTTTTCTACAGGC
1 AAAATCGTCAAAATTTTACTACAGGC
32886003 AAAAT
1 AAAAT
32886008 AGTGATGATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTACAGGC
Found at i:32887709 original size:17 final size:17
Alignment explanation
Indices: 32887683--32887716 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32887673 AGTGTGATAT
*
32887683 AACTCTAACAAGCTTCC
1 AACTCGAACAAGCTTCC
32887700 AACTCGAACAAGCTTCC
1 AACTCGAACAAGCTTCC
32887717 GATTCACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.35, G:0.09, T:0.21
Consensus pattern (17 bp):
AACTCGAACAAGCTTCC
Found at i:32887770 original size:17 final size:17
Alignment explanation
Indices: 32887748--32887790 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 17
32887738 AATAACACAG
32887748 AGTAAGCATAAATGCTT
1 AGTAAGCATAAATGCTT
32887765 AGTAAGTTGCATAAATGCTT
1 AGTAA---GCATAAATGCTT
32887785 AGTAAG
1 AGTAAG
32887791 TTCGTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.26
20 17 0.74
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (17 bp):
AGTAAGCATAAATGCTT
Found at i:32887801 original size:20 final size:20
Alignment explanation
Indices: 32887753--32887792 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32887743 CACAGAGTAA
32887753 GCATAAATGCTTAGTAAGTT
1 GCATAAATGCTTAGTAAGTT
32887773 GCATAAATGCTTAGTAAGTT
1 GCATAAATGCTTAGTAAGTT
32887793 CGTATAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
GCATAAATGCTTAGTAAGTT
Found at i:32893874 original size:22 final size:22
Alignment explanation
Indices: 32893823--32893875 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
32893813 CCAAGTGATG
* *
32893823 AAAACGTGAAACTTAAACTAAC
1 AAAACATGAAACTGAAACTAAC
* **
32893845 AAAGCATGAAACTGAAACTAGT
1 AAAACATGAAACTGAAACTAAC
32893867 AAAACATGA
1 AAAACATGA
32893876 CTCTATGACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.17
Consensus pattern (22 bp):
AAAACATGAAACTGAAACTAAC
Found at i:32894455 original size:112 final size:110
Alignment explanation
Indices: 32894237--32894438 Score: 253
Period size: 110 Copynumber: 1.8 Consensus size: 110
32894227 ATAAGTACGT
* * * * *
32894237 CTTTTTGGTTGTTTCTGTTAAAGGAATACCTTTGTGGAAAATCTCTAATAAGGAAACTTTATGGT
1 CTTTGTGGTTGTTTCTATTAAAGGAATACCTTTGTGCAAAATATCTAATAAGGAAACTTTATAGT
* * * *
32894302 AATCTGTAAGGAGACGCCTTTGTGGAAATTTTCATATAAGTGAGC
66 AATCTGTAAGGAGACACCTTTGTGGAAATTCTCAAAGAAGTGAGC
* * * *
32894347 CTTTGTGGTTGTTTGTATTAAAGGAA-AGCCTTTGTGCTAAATATCTGATAAGGATTACCTTTAT
1 CTTTGTGGTTGTTTCTATTAAAGGAATA-CCTTTGTGCAAAATATCTAATAAGGA--AACTTTAT
32894411 AGTAATCTGTAAGGAGACACCTTTGTGG
63 AGTAATCTGTAAGGAGACACCTTTGTGG
32894439 CGCAATCTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
109 1 0.01
110 45 0.57
112 33 0.42
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (110 bp):
CTTTGTGGTTGTTTCTATTAAAGGAATACCTTTGTGCAAAATATCTAATAAGGAAACTTTATAGT
AATCTGTAAGGAGACACCTTTGTGGAAATTCTCAAAGAAGTGAGC
Found at i:32894462 original size:110 final size:109
Alignment explanation
Indices: 32894237--32894474 Score: 243
Period size: 110 Copynumber: 2.2 Consensus size: 109
32894227 ATAAGTACGT
* * * *
32894237 CTTTT-TGGTTGTTTCTGTTAAAGGAATACCTTTGTGGAAAATCTCTAATAAGGAAACTTTATGG
1 CTTTTGTGGTTGTTTCTATTAAAGGAATACCTTTGTGCAAAATATCTAATAAGGAAACTTTATAG
* * * *
32894301 TAATCTGTAAGGAGACGCCTTTGTGGAAATTTTCATATAAGTGAG
66 TAATCTGTAAGGAGACACCTTTGTGGAAATTCTCAAAGAAGT-AG
* * * * *
32894346 CCTTTGTGGTTGTTTGTATTAAAGGAA-AGCCTTTGTGCTAAATATCTGATAAGGATTACCTTTA
1 CTTTTGTGGTTGTTTCTATTAAAGGAATA-CCTTTGTGCAAAATATCTAATAAGGA--AACTTTA
*
32894410 TAGTAATCTGTAAGGAGACACCTTTGTGGCGCAA-TCT-AAAGAAGT-G
63 TAGTAATCTGTAAGGAGACACCTTTGT-G-GAAATTCTCAAAGAAGTAG
**
32894456 CTTTTGTGGTAATTTCTAT
1 CTTTTGTGGTTGTTTCTAT
32894475 ACAAGTGAGT
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
109 5 0.05
110 57 0.54
112 37 0.35
113 3 0.03
114 3 0.03
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (109 bp):
CTTTTGTGGTTGTTTCTATTAAAGGAATACCTTTGTGCAAAATATCTAATAAGGAAACTTTATAG
TAATCTGTAAGGAGACACCTTTGTGGAAATTCTCAAAGAAGTAG
Found at i:32894537 original size:138 final size:139
Alignment explanation
Indices: 32894320--32894609 Score: 363
Period size: 138 Copynumber: 2.1 Consensus size: 139
32894310 AGGAGACGCC
* * *
32894320 TTTGTGGAAATTT-TCATATAAGTGAGCCTTTGTGGTTGTTTGTATTAAAGGAAAGCCTTTGTGC
1 TTTGTGGAAATTTCTCATACAAGTGAGCCGTTGTGGTTGTTTATATTAAAGGAAAGCCTTTGTGC
* * * * *
32894384 TAAATATCTGATAAGGATTACCTTTATAGTAATCTGTAAGGAGACACCTTTGTGGCGCAATCTAA
66 AAAATATCTGATAAGGAATACATTTATAGTAATCTATAAGAAGACACCTTTGTGGCGCAATCTAA
*
32894449 AGAAGTGCT
131 AGAAGTGCA
* * * * *
32894458 TTTGTGGTAATTTCT-ATACAAGTGAGTCGTTGTGGTTGTTTATGTTAAAGGAATGCCTTTGTGG
1 TTTGTGGAAATTTCTCATACAAGTGAGCCGTTGTGGTTGTTTATATTAAAGGAAAGCCTTTGTGC
* * *
32894522 AAAATTTAT-TG-TAAGGAATACATTTATGGTAATCTATAAGAAGACACTTTTTTGGCGCAATCT
66 AAAA--TATCTGATAAGGAATACATTTATAGTAATCTATAAGAAGACACCTTTGTGGCGCAATCT
32894585 AAAGAAGTGCA
129 AAAGAAGTGCA
* *
32894596 TTTATGGCAATTTC
1 TTTGTGGAAATTTC
32894610 CGTAAAAGTG
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
138 124 0.95
139 3 0.02
140 3 0.02
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (139 bp):
TTTGTGGAAATTTCTCATACAAGTGAGCCGTTGTGGTTGTTTATATTAAAGGAAAGCCTTTGTGC
AAAATATCTGATAAGGAATACATTTATAGTAATCTATAAGAAGACACCTTTGTGGCGCAATCTAA
AGAAGTGCA
Found at i:32897787 original size:12 final size:12
Alignment explanation
Indices: 32897725--32897788 Score: 69
Period size: 12 Copynumber: 5.4 Consensus size: 12
32897715 CATCTTGCAG
*
32897725 GTTTTTGGTGCT
1 GTTTTTGGTGTT
32897737 G-TTTT-GTGTT
1 GTTTTTGGTGTT
*
32897747 GTTGTTGGTGTT
1 GTTTTTGGTGTT
* *
32897759 ATTTCTTTGTGTT
1 GTTT-TTGGTGTT
32897772 GTTTTTGGTGTT
1 GTTTTTGGTGTT
32897784 GTTTT
1 GTTTT
32897789 ATTGTTGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 5 0.12
11 7 0.17
12 20 0.48
13 10 0.24
ACGTcount: A:0.02, C:0.03, G:0.30, T:0.66
Consensus pattern (12 bp):
GTTTTTGGTGTT
Found at i:32897793 original size:25 final size:24
Alignment explanation
Indices: 32897725--32897799 Score: 84
Period size: 25 Copynumber: 3.2 Consensus size: 24
32897715 CATCTTGCAG
*
32897725 GTTTTTGGTGCTG--TTTTGTGTT
1 GTTTTTGGTGTTGTTTTTTGTGTT
* *
32897747 GTTGTTGGTGTTATTTCTTTGTGTT
1 GTTTTTGGTGTTGTTT-TTTGTGTT
*
32897772 GTTTTTGGTGTTGTTTTAT-TGTT
1 GTTTTTGGTGTTGTTTTTTGTGTT
32897795 GTTTT
1 GTTTT
32897800 GCAGGTCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 10 0.23
23 9 0.20
24 3 0.07
25 22 0.50
ACGTcount: A:0.03, C:0.03, G:0.28, T:0.67
Consensus pattern (24 bp):
GTTTTTGGTGTTGTTTTTTGTGTT
Found at i:32898131 original size:22 final size:22
Alignment explanation
Indices: 32898109--32898188 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
32898099 CTTTGTTAGC
**
32898109 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAAA
* * *
32898131 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
32898153 CATGAGAGCTTAGTACGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
32898175 CATGAGAGCTTAGT
1 CATGAGAGCTTAGT
32898189 GATGATGTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAAA
Found at i:32905980 original size:6 final size:6
Alignment explanation
Indices: 32905971--32906020 Score: 91
Period size: 6 Copynumber: 8.3 Consensus size: 6
32905961 ATTTTTTAAA
*
32905971 TTTACT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
32906019 TT
1 TT
32906021 CAATCCCTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (6 bp):
TTTAGT
Found at i:32913883 original size:20 final size:20
Alignment explanation
Indices: 32913856--32913901 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
32913846 AAAAATATTA
*
32913856 AAAC-AATTCTTAAAACAAT
1 AAACAAATTCTGAAAACAAT
* *
32913875 AAACAAATTGTGAATACAAT
1 AAACAAATTCTGAAAACAAT
32913895 AAA-AAAT
1 AAACAAAT
32913902 GGTTATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.24
Consensus pattern (20 bp):
AAACAAATTCTGAAAACAAT
Found at i:32914004 original size:23 final size:23
Alignment explanation
Indices: 32913978--32914023 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
32913968 CTACAATATA
*
32913978 CAAAAAATATTAAAAATGACAAC
1 CAAAAAATATTAAAAACGACAAC
*
32914001 CAAATAATATTAAAAACGACAAC
1 CAAAAAATATTAAAAACGACAAC
32914024 GGAACAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.15, G:0.04, T:0.17
Consensus pattern (23 bp):
CAAAAAATATTAAAAACGACAAC
Found at i:32914055 original size:3 final size:3
Alignment explanation
Indices: 32914049--32914113 Score: 50
Period size: 3 Copynumber: 23.3 Consensus size: 3
32914039 ACAACTGTGA
* * * *
32914049 AAC AAC AAT AA- AAC AAC ACC AAA AAC AAC -AC AA- AA- AAC AAC ACC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
32914093 AAC AAC AAC ACC AA- AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC A
32914114 CCAAAAACCT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 10 0.20
3 39 0.80
ACGTcount: A:0.68, C:0.31, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:32914075 original size:12 final size:12
Alignment explanation
Indices: 32914058--32914121 Score: 103
Period size: 12 Copynumber: 5.4 Consensus size: 12
32914048 AAACAACAAT
32914058 AAAACAACACCA
1 AAAACAACACCA
*
32914070 AAAACAACACAA
1 AAAACAACACCA
32914082 AAAACAACACCA
1 AAAACAACACCA
*
32914094 ACAACAACACC-
1 AAAACAACACCA
32914105 AAAACAACACCA
1 AAAACAACACCA
32914117 AAAAC
1 AAAAC
32914122 CTGCAAGATG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
11 10 0.21
12 37 0.79
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAACACCA
Found at i:32918742 original size:22 final size:21
Alignment explanation
Indices: 32918693--32918744 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
32918683 AATAATTATG
*
32918693 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
32918713 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
32918736 TTAATATTA
1 TTAATATTA
32918745 AGAATATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:32918774 original size:121 final size:120
Alignment explanation
Indices: 32918585--32918818 Score: 423
Period size: 121 Copynumber: 1.9 Consensus size: 120
32918575 TTTTATAGTA
* *
32918585 TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
1 TTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTAT
*
32918650 TAAATTATATATTTTTATTAAATTATATTTCATAATAATTATGTTAAATTATATT
66 TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
*
32918705 TTATAGTATTATATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTAAGAATTTTA
1 TTATAGTATTATATATTATGATTTTAGTAAATTAATA-TAAGAATATCTAATATTAAGAATTTTA
32918770 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
65 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
32918819 ATATGATTAA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
120 35 0.32
121 74 0.68
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTAT
TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
Found at i:32919058 original size:16 final size:16
Alignment explanation
Indices: 32919033--32919086 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
32919023 TTGAATTGCT
*
32919033 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
32919049 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
32919065 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
32919081 ATTACA
1 ATTACA
32919087 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:32924570 original size:41 final size:41
Alignment explanation
Indices: 32924525--32924679 Score: 265
Period size: 41 Copynumber: 3.8 Consensus size: 41
32924515 TTATTGCTAG
32924525 TGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGA
1 TGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGA
*
32924566 TGAAACATTTCAGACTTTATGTCTAGCAGGCTTGATGCCGA
1 TGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGA
* *
32924607 TGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCTGG
1 TGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGA
* *
32924648 TGAAACATTGCAGACTTTATGTCTAGCAGGCT
1 TGAAACATTTCAGACTTTACGTCTAGCAGGCT
32924680 AAGTGCCAGT
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (41 bp):
TGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGA
Found at i:32931948 original size:74 final size:75
Alignment explanation
Indices: 32931804--32931956 Score: 175
Period size: 74 Copynumber: 2.1 Consensus size: 75
32931794 GGATCTATAA
* * ** ** *
32931804 TATGCAAATATACATGTATATGTTCTTGTATTGAATTTAGGTATGCTATTTATACAAGTTTATAT
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTACATAG
32931869 GAGGTTCAAT
66 GAGGTTCAAT
* * * *
32931879 TATGCAAATATGCATGTATATGTT-TTGTAATGAGTTTAAGTATGAAATTTATATATGTACA-AG
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTACATA-
*
32931942 GGAGGTTCGAT
65 GGAGGTTCAAT
32931953 TATG
1 TATG
32931957 TATGTATATT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
73 1 0.02
74 41 0.63
75 23 0.35
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (75 bp):
TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTACATAG
GAGGTTCAAT
Found at i:32932347 original size:41 final size:41
Alignment explanation
Indices: 32932261--32932406 Score: 231
Period size: 41 Copynumber: 3.6 Consensus size: 41
32932251 TCAGGTTTAT
*
32932261 TGCCAGTGAAACATTTCAGACTTTACGTC-AGCAGGCTTGA
1 TGCCGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
*
32932301 TGCCGGTGAAACATTTCAGACTTTATGTCTAGCAGGCTTGA
1 TGCCGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
* *
32932342 TGCCGGTGAAACATTTCAGGCTTTACGTCTAACAGGCTTGA
1 TGCCGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
* *
32932383 CGCTGGTGAAACATTTCAGACTTT
1 TGCCGGTGAAACATTTCAGACTTT
32932407 GTTTATTAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 27 0.28
41 70 0.72
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
TGCCGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
Found at i:32939065 original size:3 final size:3
Alignment explanation
Indices: 32939057--32939084 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32939047 GCTGAGCCGC
32939057 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
32939085 AATTGCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:32941524 original size:18 final size:19
Alignment explanation
Indices: 32941501--32941548 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
32941491 ATTCAAGTTT
32941501 AATATTATTATATTATT-A
1 AATATTATTATATTATTAA
* *
32941519 AATATTTTTAT-TTTTTAA
1 AATATTATTATATTATTAA
*
32941537 AATATTAATATA
1 AATATTATTATA
32941549 AAATATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTATATTATTAA
Found at i:32942525 original size:28 final size:30
Alignment explanation
Indices: 32942494--32942560 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 30
32942484 TGTAATTTAA
*
32942494 ATTAAGTTTTAAT-TA-GGTATTTATTATT
1 ATTAAGTTTTAATATATGATATTTATTATT
32942522 ATTAAG-TTT-ATATATGATATTTATTATT
1 ATTAAGTTTTAATATATGATATTTATTATT
* *
32942550 ATAAAATTTTA
1 ATTAAGTTTTA
32942561 TCTTATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 2 0.06
27 5 0.16
28 22 0.69
29 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.55
Consensus pattern (30 bp):
ATTAAGTTTTAATATATGATATTTATTATT
Found at i:32947415 original size:26 final size:26
Alignment explanation
Indices: 32947385--32947444 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
32947375 TTTATTATTA
32947385 ATTTAAAACTATTTTACATATAATTT
1 ATTTAAAACTATTTTACATATAATTT
** * * *
32947411 ATTTAAATTTCTTTTATATATTATTT
1 ATTTAAAACTATTTTACATATAATTT
32947437 ATTGTAAA
1 ATT-TAAA
32947445 CTTCTGTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (26 bp):
ATTTAAAACTATTTTACATATAATTT
Found at i:32947454 original size:26 final size:26
Alignment explanation
Indices: 32947402--32947457 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
32947392 ACTATTTTAC
* *
32947402 ATATAATTTATTTAAATTTCTTTTAT
1 ATATAATTTATTTAAACTTCTTGTAT
*
32947428 ATATTATTTATTGTAAACTTC-TGTAT
1 ATATAATTTATT-TAAACTTCTTGTAT
32947454 ATAT
1 ATAT
32947458 CTTTCAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (26 bp):
ATATAATTTATTTAAACTTCTTGTAT
Done.