Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 546 of 770
Found at i:169813572 original size:40 final size:40
Alignment explanation
Indices: 169813513--169813681 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
169813503 CGGGACTTTA
* * *
169813513 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
169813553 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
169813593 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
169813633 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
169813673 CCCGGATAT
1 CCCGGATAT
169813682 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:169817035 original size:20 final size:20
Alignment explanation
Indices: 169817007--169817044 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
169816997 ATACAAATAC
169817007 TTTTATTATATTTTAGTTAT
1 TTTTATTATATTTTAGTTAT
*
169817027 TTTTTTTATATTTTAGTT
1 TTTTATTATATTTTAGTT
169817045 TAAATCCAAT
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:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTATTATATTTTAGTTAT
Found at i:169820596 original size:25 final size:26
Alignment explanation
Indices: 169820559--169820610 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
169820549 TCAAACATGC
169820559 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
169820585 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
169820610 A
1 A
169820611 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:169822118 original size:25 final size:26
Alignment explanation
Indices: 169822089--169822168 Score: 146
Period size: 25 Copynumber: 3.2 Consensus size: 26
169822079 TGAAATGCCC
169822089 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
169822114 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
169822140 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
169822165 ATCA
1 ATCA
169822169 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
25 44 0.81
26 10 0.19
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:169827615 original size:25 final size:26
Alignment explanation
Indices: 169827578--169827626 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
169827568 TCAAACATGC
169827578 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
169827604 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
169827627 TAAAACTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:169829134 original size:26 final size:26
Alignment explanation
Indices: 169829104--169829185 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
169829094 TGAAATGCCC
169829104 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
169829130 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
169829156 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
169829182 ATCA
1 ATCA
169829186 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:169835026 original size:45 final size:45
Alignment explanation
Indices: 169834975--169835062 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
169834965 TTTGCATATT
* * *
169834975 AAAGTTGCTAATACAGTGTGGGTAAACCACTAATCGGTGCAAATA
1 AAAGTTGCTAATACAGTGTAGATAAACCACTAAACGGTGCAAATA
*
169835020 AAAGTTGCTAATACGGTGTAGATAAACCACTAAACGGTGCAAA
1 AAAGTTGCTAATACAGTGTAGATAAACCACTAAACGGTGCAAA
169835063 CAAGATGCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (45 bp):
AAAGTTGCTAATACAGTGTAGATAAACCACTAAACGGTGCAAATA
Found at i:169835563 original size:28 final size:27
Alignment explanation
Indices: 169835530--169835613 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 27
169835520 AGTATAGGAC
169835530 AAAACTGTAAAATCTAACAAAATAGGGG
1 AAAACTGTAAAATCTAA-AAAATAGGGG
*
169835558 AAAACTATAAAATCTAAAAAAATAGTGGG
1 AAAACTGTAAAATCT-AAAAAATAG-GGG
169835587 AAAA-TGTAAAATCTAAAAAATAGGGG
1 AAAACTGTAAAATCTAAAAAATAGGGG
169835613 A
1 A
169835614 CACACGATCG
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.08
27 9 0.17
28 30 0.58
29 9 0.17
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (27 bp):
AAAACTGTAAAATCTAAAAAATAGGGG
Found at i:169837339 original size:10 final size:10
Alignment explanation
Indices: 169837326--169837511 Score: 58
Period size: 10 Copynumber: 18.8 Consensus size: 10
169837316 ATTATTTTAA
169837326 ATTATATATT
1 ATTATATATT
169837336 ATTAT-TACTT
1 ATTATATA-TT
169837346 ATTATATATT
1 ATTATATATT
* *
169837356 ATT-TTTCTT
1 ATTATATATT
169837365 AAATTAT-TATT
1 --ATTATATATT
* *
169837376 -TTACATCTCT
1 ATTATATAT-T
*
169837386 TTTATATATT
1 ATTATATATT
169837396 ATT-TATATT
1 ATTATATATT
169837405 -TTCATATATT
1 ATT-ATATATT
*
169837415 A-TATTTATT
1 ATTATATATT
169837424 AATTACT-T-TT
1 -ATTA-TATATT
169837434 ATATATATATAT
1 AT-TATATAT-T
169837446 ATATATATATT
1 AT-TATATATT
* *
169837457 GTTTTATA-T
1 ATTATATATT
*
169837466 GTTACT-TCA-T
1 ATTA-TAT-ATT
*
169837476 ATTATAT-CT
1 ATTATATATT
*
169837485 ATTAT-TTTT
1 ATTATATATT
*
169837494 ATTATATTTT
1 ATTATATATT
169837504 ATTATATA
1 ATTATATA
169837512 ATCTTTATTA
Statistics
Matches: 137, Mismatches: 15, Indels: 48
0.69 0.08 0.24
Matches are distributed among these distances:
8 6 0.04
9 41 0.30
10 57 0.42
11 20 0.15
12 13 0.09
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (10 bp):
ATTATATATT
Found at i:169837340 original size:20 final size:21
Alignment explanation
Indices: 169837315--169837375 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
169837305 TTGTTATAAG
169837315 TATTATT-TTAAATTATATAT
1 TATTATTCTTAAATTATATAT
169837335 TATTATTACTT--ATTATATAT
1 TATTATT-CTTAAATTATATAT
*
169837355 TATTTTTCTTAAATTAT-TAT
1 TATTATTCTTAAATTATATAT
169837375 T
1 T
169837376 TTACATCTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 3 0.08
20 26 0.72
21 5 0.14
22 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTCTTAAATTATATAT
Found at i:169837423 original size:19 final size:18
Alignment explanation
Indices: 169837385--169837561 Score: 57
Period size: 19 Copynumber: 9.6 Consensus size: 18
169837375 TTTACATCTC
169837385 TTTTATATATTATTTATA
1 TTTTATATATTATTTATA
169837403 TTTTCATATATTATATT-TA
1 TTTT-ATATATTAT-TTATA
* *
169837422 -TTAAT-TACT-TTTATA
1 TTTTATATATTATTTATA
* * *
169837437 TATATATATATATATATATTG
1 T-TTTATATAT-TATTTA-TA
* *
169837458 TTTTATATGTTACTTCATA
1 TTTTATATATTA-TTTATA
* *
169837477 TTATATCTATTATTT-T-
1 TTTTATATATTATTTATA
* *
169837493 TATTATATTTTATTATATAA
1 TTTTATATATTATT-TAT-A
*
169837513 TCTTTAT-TATGT-TTCAT-
1 T-TTTATATAT-TATTTATA
169837530 TTTTATATTATTTATTTATTA
1 TTTTATA-TA-TTATTTA-TA
169837551 TTTATATATAT
1 TTT-TATATAT
169837562 GTTATGTATA
Statistics
Matches: 112, Mismatches: 24, Indels: 44
0.62 0.13 0.24
Matches are distributed among these distances:
14 2 0.02
15 3 0.03
16 18 0.16
17 8 0.07
18 14 0.12
19 30 0.27
20 21 0.19
21 12 0.11
22 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTATATATTATTTATA
Found at i:169840642 original size:14 final size:14
Alignment explanation
Indices: 169840623--169840649 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
169840613 AAGATATTCT
169840623 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
169840637 TTTTCTAAATAAA
1 TTTTCTAAATAAA
169840650 ATTAAGTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:169843280 original size:13 final size:13
Alignment explanation
Indices: 169843262--169843320 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 13
169843252 CTTCTATTTC
169843262 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
169843275 ---AAAAAAA-A-
1 AAAAAAAAAAGAG
*
169843283 AAAAGAAAAAGAG
1 AAAAAAAAAAGAG
169843296 AAAAAAATAAAGAG
1 AAAAAAA-AAAGAG
169843310 AAAAAATAAAA
1 AAAAAA-AAAA
169843321 AAATGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
9 1 0.03
10 7 0.19
11 6 0.16
12 1 0.03
13 6 0.16
14 15 0.41
15 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:169843315 original size:14 final size:13
Alignment explanation
Indices: 169843262--169843319 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
169843252 CTTCTATTTC
*
169843262 AAAAAAAAAAGAG
1 AAAAAATAAAGAG
169843275 -AAAAA-AAA-A-
1 AAAAAATAAAGAG
*
169843284 AAAGAA-AAAGAG
1 AAAAAATAAAGAG
169843296 AAAAAAATAAAGAG
1 -AAAAAATAAAGAG
169843310 AAAAAATAAA
1 AAAAAATAAA
169843320 AAAATGGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 8 0.21
11 4 0.11
12 5 0.13
13 15 0.39
14 6 0.16
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (13 bp):
AAAAAATAAAGAG
Found at i:169843324 original size:21 final size:22
Alignment explanation
Indices: 169843262--169843324 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 22
169843252 CTTCTATTTC
169843262 AAAAA-AAAAAGAGAAAAAAA-
1 AAAAAGAAAAAGAGAAAAAAAT
169843282 AAAAAGAAAAAGAGAAAAAAAT
1 AAAAAGAAAAAGAGAAAAAAAT
* *
169843304 AAAGAGAAAAA-ATAAAAAAAT
1 AAAAAGAAAAAGAGAAAAAAAT
169843325 GGAGAGGCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
20 5 0.13
21 24 0.62
22 10 0.26
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (22 bp):
AAAAAGAAAAAGAGAAAAAAAT
Found at i:169844480 original size:119 final size:119
Alignment explanation
Indices: 169844269--169844741 Score: 797
Period size: 119 Copynumber: 4.0 Consensus size: 119
169844259 AATTGAAGAC
** *
169844269 AGCAGATCTAGA-CTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
*
169844333 TACAAGAAACAAATCGAGGACATAGCAGATTTGACTATCAGACGTTCTCAAATGA-
65 TACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT-AT
169844388 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
169844453 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
* *
169844507 AACAGATCTAACCTTCAGATGTTTATACTGTAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
169844572 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
*
169844626 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTCT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * * *
169844691 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
169844742 CAGATCCAAG
Statistics
Matches: 336, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
118 2 0.01
119 334 0.99
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
Found at i:169844770 original size:83 final size:83
Alignment explanation
Indices: 169844659--169844846 Score: 290
Period size: 83 Copynumber: 2.3 Consensus size: 83
169844649 TATACTGAAG
* * *
169844659 CAGATCCAAGATGATTTGGTATTCTTGTGTCTACAAGGAACAAATCGAGGACATTGCAGATAT-G
1 CAGATCCAAGATGATTTGGCATTCTTGTGTCTACAAGAAACAAATCGAGGACATAGCAGAT-TGG
169844723 ACTCTCAAATGTTCTCAAA
65 ACTCTCAAATGTTCTCAAA
* *
169844742 CAGATCCAAGATGGTTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTGGA
1 CAGATCCAAGATGATTTGGCATTCTTGTGTCTACAAGAAACAAATCGAGGACATAGCAGATTGGA
169844807 CTCTCAAATGTTCTCAAA
66 CTCTCAAATGTTCTCAAA
*
169844825 CA-AACTCAAGATGATTTGGCAT
1 CAGATC-CAAGATGATTTGGCAT
169844847 CTCTACAAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
82 3 0.03
83 93 0.97
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (83 bp):
CAGATCCAAGATGATTTGGCATTCTTGTGTCTACAAGAAACAAATCGAGGACATAGCAGATTGGA
CTCTCAAATGTTCTCAAA
Found at i:169845722 original size:2 final size:2
Alignment explanation
Indices: 169845715--169845752 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
169845705 AAGCATATTT
169845715 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
169845753 CATGAAATAT
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):
TA
Found at i:169846529 original size:35 final size:33
Alignment explanation
Indices: 169846487--169846571 Score: 82
Period size: 35 Copynumber: 2.4 Consensus size: 33
169846477 TATTTTCATA
169846487 TATTATATTTATTAATTACTTATATATATATATTGT
1 TATTATATTTATTAA-TA-TTATATATAT-TATTGT
* * *
169846523 T-TTATATGTTACTTCATATTATATCTATTATTTT
1 TATTATAT-TTA-TTAATATTATATATATTATTGT
169846557 TATTATATTTTATTA
1 TATTATA-TTTATTA
169846572 TATAATCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
34 8 0.20
35 23 0.56
36 7 0.17
37 3 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (33 bp):
TATTATATTTATTAATATTATATATATTATTGT
Found at i:169846583 original size:24 final size:24
Alignment explanation
Indices: 169846555--169846636 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
169846545 ATCTATTATT
*
169846555 TTTATTATATTTTATTATATAATC
1 TTTATTATATTTTATTATATAATA
* * * *
169846579 TTTATTATGTTTCATTTTTATATTA
1 TTTATTATATTTTA-TTATATAATA
169846604 TTTATT-TATTTT-TTATAT-ATA
1 TTTATTATATTTTATTATATAATA
169846625 TGTTATGTATAT
1 T-TTAT-TATAT
169846637 CATGTATCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
21 3 0.07
22 9 0.20
23 1 0.02
24 19 0.42
25 13 0.29
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTATTATATTTTATTATATAATA
Found at i:169847198 original size:16 final size:17
Alignment explanation
Indices: 169847177--169847210 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
169847167 ATTTTTTTTG
*
169847177 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
169847193 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
169847210 C
1 C
169847211 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:169848345 original size:2 final size:2
Alignment explanation
Indices: 169848338--169848371 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
169848328 GCCCTTGCAC
169848338 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
169848372 GTTTGCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:169849143 original size:40 final size:39
Alignment explanation
Indices: 169849086--169849289 Score: 191
Period size: 40 Copynumber: 5.1 Consensus size: 39
169849076 TCGAATGATG
* * *
169849086 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
169849126 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAA
**
169849166 TCCGGACTAAGAT-CTAAAGGCATTTGTGCGAGTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTACTAAA
**
169849205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-AA
* * * ** *
169849246 -CCGGGCTATGTCCCGAAGGTATTTGAACGAGTAGCTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAA
169849285 TCCGG
1 TCCGG
169849290 TTAAACTCCG
Statistics
Matches: 141, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 36 0.26
40 93 0.66
41 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:169849270 original size:79 final size:78
Alignment explanation
Indices: 169849086--169849303 Score: 212
Period size: 79 Copynumber: 2.7 Consensus size: 78
169849076 TCGAATGATG
* * **
169849086 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTTGTGC-GAGT-ACTATATCCGGGTTAAGATCCGAAGGCATTT
*
169849151 GTGCGAGTTACTAAA
64 GTGCGAGCTACTAAA
* ** *
169849166 TCCGGACTAAGAT-CTAAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGG-ATTTGTGCGAGTACTATATCCGGGTTAAGAT-CCGAAGGCATT
169849229 TGTGCGAGCTACTATAA
63 TGTGCGAGCTACTA-AA
* **
169849246 -CCGGGCTATGTCCCGAAGGTATTTGAACGAGTAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCGAGTA-CTATATCCGGGTTAAGA-TCCGAAGG
169849304 TACGTGATTC
Statistics
Matches: 113, Mismatches: 17, Indels: 17
0.77 0.12 0.12
Matches are distributed among these distances:
78 2 0.02
79 75 0.66
80 28 0.25
81 8 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCGAGTACTATATCCGGGTTAAGATCCGAAGGCATTTGT
GCGAGCTACTAAA
Found at i:169857198 original size:40 final size:40
Alignment explanation
Indices: 169857141--169857326 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
169857131 TCGAATGATG
* * * *
169857141 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
169857181 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
169857221 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
169857261 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
169857302 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
169857327 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:169857333 original size:80 final size:79
Alignment explanation
Indices: 169857194--169857349 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
169857184 GGACTAAGAT
* **
169857194 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
169857258 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
169857274 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
169857337 TATATCCGGTTAA
64 TAAATCCGGTTAA
169857350 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:169866525 original size:11 final size:11
Alignment explanation
Indices: 169866509--169866538 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
169866499 TAACATTAAG
169866509 AATATATATAT
1 AATATATATAT
*
169866520 AATATAAATAT
1 AATATATATAT
169866531 AATATATA
1 AATATATA
169866539 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:169867381 original size:15 final size:16
Alignment explanation
Indices: 169867348--169867383 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
169867338 TTTTCTTCTT
*
169867348 TTTTTTTGGGGTTAGG
1 TTTTTTTGGGGTTAAG
169867364 TTTTTTTGGGG-TAAG
1 TTTTTTTGGGGTTAAG
169867379 TTTTT
1 TTTTT
169867384 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.61
Consensus pattern (16 bp):
TTTTTTTGGGGTTAAG
Found at i:169867398 original size:16 final size:16
Alignment explanation
Indices: 169867379--169867413 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
169867369 TTGGGGTAAG
169867379 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
169867395 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
169867411 TTT
1 TTT
169867414 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:169868166 original size:88 final size:83
Alignment explanation
Indices: 169868059--169868637 Score: 299
Period size: 88 Copynumber: 7.0 Consensus size: 83
169868049 AACAGACATT
** * *
169868059 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
169868124 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
169868147 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
169868211 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
169868230 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
169868291 ATGAGTTGAATTTTTTTGAAAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
169868314 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
169868379 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * * *
169868402 AAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
169868467 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
169868485 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
169868545 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
169868562 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
169868623 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
169868638 CAGAAATTAA
Statistics
Matches: 385, Mismatches: 70, Indels: 82
0.72 0.13 0.15
Matches are distributed among these distances:
76 9 0.02
77 47 0.12
78 2 0.01
79 58 0.15
80 9 0.02
81 2 0.01
82 14 0.04
83 42 0.11
84 44 0.11
85 12 0.03
86 2 0.01
87 24 0.06
88 114 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:169868263 original size:30 final size:30
Alignment explanation
Indices: 169868227--169868288 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
169868217 TTTTGAAAAA
169868227 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
169868257 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
169868287 CA
1 CA
169868289 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:169868527 original size:79 final size:76
Alignment explanation
Indices: 169868398--169868778 Score: 375
Period size: 79 Copynumber: 5.0 Consensus size: 76
169868388 GAAAACAGAA
* ** * * * *
169868398 TTTGAAAAATAGATTTTGAAAATACCTC-GACATGTAACCCGAGGCTCAACTCACATCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAG-CGTGT-ATCTGAGGCTCAACTCACCTCTCGCAAT
*
169868462 GTGAGTTGATTTT
64 ATGAGTTGATTTT
* * * *
169868475 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTG--AAAATACCTCAGCGTGT-ATCTGAGGCTCAACTCACCTCTCGCAA
169868540 TATGAGTTGATTTT
63 TATGAGTTGATTTT
* * * * ** *
169868554 TTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATG-AGCCAAGGGTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCG--TGTATCTGAGGCTCAACTCACCTCTCGCAAT
*
169868618 ATAAGTTGA-TTT
64 ATGAGTTGATTTT
* * * **
169868630 TTTG-AAAACAGAAATTAAAAATACCTCAACGTGTCT-TGAGGCTCAACTCATTTCTCGCAATAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTATCTGAGGCTCAACTCACCTCTCGCAATAT
*
169868693 GAGTTGA--AT
66 GAGTTGATTTT
* * *
169868702 TTTG-AAAACAGAAATTGAAATTACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTATCTGAGGCTCAACTCACCTCTCGCAATAT
169868765 GAGTTGATTTT
66 GAGTTGATTTT
169868776 TTT
1 TTT
169868779 TTTAAAGGCA
Statistics
Matches: 252, Mismatches: 43, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
72 63 0.25
73 30 0.12
74 4 0.02
75 22 0.09
76 7 0.03
77 58 0.23
79 67 0.27
80 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (76 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTATCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTT
Found at i:169868735 original size:72 final size:73
Alignment explanation
Indices: 169868437--169868964 Score: 423
Period size: 72 Copynumber: 6.8 Consensus size: 73
169868427 ACATGTAACC
* * * *
169868437 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
169868502 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
169868515 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
169868580 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * * *
169868593 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTAAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
169868658 ACGTGTCT
66 GCGTGTCT
* ** * *
169868666 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
169868730 GCGTGTCC
66 GCGTGTCT
* *
169868738 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAGGCAGAAATTGAAAAATG
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAA-ACAGAAATTG----A--
** ** *
169868803 GAAATTGAAAATACCTCGACGTGTGAT
56 -AAA-T--ACCT-CAGC---GTGT-CT
* * *
169868830 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
169868895 CAGCGTGTC-
64 CAGCGTGTCT
* *
169868904 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
169868965 ACGGAAATTG
Statistics
Matches: 364, Mismatches: 58, Indels: 59
0.76 0.12 0.12
Matches are distributed among these distances:
72 65 0.18
73 30 0.08
74 43 0.12
75 31 0.09
76 21 0.06
77 50 0.14
78 5 0.01
79 51 0.14
80 2 0.01
81 1 0.00
82 1 0.00
83 2 0.01
84 2 0.01
85 1 0.00
86 1 0.00
87 2 0.01
88 2 0.01
90 9 0.02
91 12 0.03
92 1 0.00
93 32 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:169868926 original size:74 final size:75
Alignment explanation
Indices: 169868803--169868964 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
169868793 TTGAAAAATG
*
169868803 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
169868868 TTTTGACAACA
65 TTTTGACAACA
* * *
169868879 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
169868942 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
169868954 AAAATTGAAAA
1 GAAATTGAAAA
169868965 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:169868953 original size:165 final size:165
Alignment explanation
Indices: 169868634--169869289 Score: 929
Period size: 165 Copynumber: 4.0 Consensus size: 165
169868624 TGATTTTTTG
* * * * ** *
169868634 AAAACAGAAATTAAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
169868697 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
169868761 ATATGAGTTGATTTTTTTTTTAAAGGCAGAAATTGA
131 ATATGAGTTGA-TTTTTTTTGAAAGGCAGAAATTGA
* *
169868797 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
169868862 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
169868927 AATATGAGTTGA-TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* * *
169868962 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
169869027 TGATTTTTTTGACAACAGAAATTGAAATTACC-CAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
169869091 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* *
169869127 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC-AGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *** * * *
169869191 TGAAATTAAAACATA-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGC
66 TGATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
169869254 AATATGAGTTGA-TTTTTTTGACAA--CAGAAATTGA
130 AATATGAGTTGATTTTTTTTGA-AAGGCAGAAATTGA
169869288 AA
1 AA
169869290 TTACCTCAGC
Statistics
Matches: 453, Mismatches: 32, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
161 12 0.03
162 22 0.05
163 75 0.17
164 51 0.11
165 224 0.49
167 69 0.15
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
Found at i:169869090 original size:73 final size:77
Alignment explanation
Indices: 169868958--169869129 Score: 235
Period size: 73 Copynumber: 2.3 Consensus size: 77
169868948 AAGGCAAAAA
* * * *
169868958 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
169869023 GAGTTGA-TTTTT
65 GAGTTGATTTTTT
* * * *
169869035 TTGACA-ACAGAAATTGAAATTACC-CAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
169869097 AGTTGATTTTTT
66 AGTTGATTTTTT
169869109 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
169869130 ACGGAAATTG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 33 0.39
74 10 0.12
75 20 0.24
76 16 0.19
77 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTTT
Found at i:169869128 original size:14 final size:14
Alignment explanation
Indices: 169869109--169869143 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
169869099 TTGATTTTTT
*
169869109 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
169869123 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
169869137 TTGAAAA
1 TTGAAAA
169869144 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:169869412 original size:54 final size:54
Alignment explanation
Indices: 169869312--169869417 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
169869302 GTCCTGAGGC
*
169869312 TCAACTCACCTCTCACAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCACAATATGAGTTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
169869366 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCACAATATGAGTTGATT-TTGAA-AAAGTAAAATTGAAAA
169869418 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCACAATATGAGTTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:169869542 original size:72 final size:71
Alignment explanation
Indices: 169869119--169869573 Score: 266
Period size: 72 Copynumber: 6.3 Consensus size: 71
169869109 TTGAAAGACA
** * * * * *
169869119 GAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCA
1 GAAATT-AAAAACAAAAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTAGCA
*
169869184 ATA-CAGTT
63 ATATGAGTT
*
169869192 GAAATTAAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
1 GAAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
169869257 ATGAGTT
65 ATGAGTT
** * * * * * * *
169869264 GATTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCA-C
1 GA---AATTAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT-AGC
169869328 AATATGAGTT
62 AATATGAGTT
** * * *** * *** *** * ** * * *
169869338 GATTTTGAAAAAGTAGAAATT-AAAA-GGTTCAACCCACCTCTCGCAATATGAGTTGA-TTCTTG
1 GAAATT-AAAAA-CAAAAATTGAAAATACCTCAGCGTGCC-C-CG-AGGCTCAACTCACCTCTAG
*
169869400 -AACA--ACG-T
61 CAATATGA-GTT
* * * * *
169869408 -AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 GAAATTAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
169869472 TGAGTT
66 TGAGTT
*
169869478 GAAATTAAAACACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
1 GAAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
169869543 ATGAGTT
65 ATGAGTT
**
169869550 GATTTTGAAAAACAAAAATT-AAAA
1 GAAATT-AAAAACAAAAATTGAAAA
169869574 GGCTTAACTC
Statistics
Matches: 286, Mismatches: 73, Indels: 48
0.70 0.18 0.12
Matches are distributed among these distances:
66 5 0.02
67 12 0.04
68 12 0.04
69 9 0.03
70 4 0.01
71 50 0.17
72 89 0.31
73 40 0.14
74 60 0.21
75 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (71 bp):
GAAATTAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
TGAGTT
Found at i:169869730 original size:70 final size:71
Alignment explanation
Indices: 169869573--169869835 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
169869563 AAAAATTAAA
* * * * *
169869573 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
169869636 GCCCCG
66 GCCCCG
* *
169869642 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATA-CTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
169869706 GTCTTG
66 GCCCCG
* * *
169869712 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
169869775 TGCCCCG
65 TGCCCCG
*
169869782 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
169869836 GGCTTAACTC
Statistics
Matches: 165, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
68 5 0.03
69 41 0.25
70 85 0.52
71 17 0.10
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:169869782 original size:262 final size:257
Alignment explanation
Indices: 169869411--169870002 Score: 1024
Period size: 262 Copynumber: 2.3 Consensus size: 257
169869401 ACAACGTAAA
* * * * * *
169869411 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
*
169869476 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
169869541 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
169869606 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
169869671 TGATT
253 TGATT
169869676 TTGAAAACAAAAATTAAAAATA-CTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
169869740 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
169869805 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
169869870 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
169869932 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
169869997 TTGATT
66 TTGATT
169870003 TTCCTTGAAA
Statistics
Matches: 317, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
256 81 0.26
257 49 0.15
262 126 0.40
264 41 0.13
265 20 0.06
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:169875158 original size:12 final size:12
Alignment explanation
Indices: 169875136--169875171 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
169875126 TGGGATATGC
*
169875136 AATGAATGAATG
1 AATGCATGAATG
*
169875148 GATGCATGAATG
1 AATGCATGAATG
169875160 AATGCATGAATG
1 AATGCATGAATG
169875172 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:169875158 original size:16 final size:17
Alignment explanation
Indices: 169875132--169875163 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
169875122 AGTATGGGAT
169875132 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
169875149 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
169875164 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:169877421 original size:11 final size:11
Alignment explanation
Indices: 169877405--169877434 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
169877395 TAACATTAAG
169877405 AATATATATAT
1 AATATATATAT
*
169877416 AATATAAATAT
1 AATATATATAT
169877427 AATATATA
1 AATATATA
169877435 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:169878302 original size:11 final size:11
Alignment explanation
Indices: 169878282--169878315 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
169878272 TTGGGGTAAG
169878282 TTTTTCTTTTTC
1 TTTTT-TTTTTC
169878294 TTTTTTTTTTC
1 TTTTTTTTTTC
169878305 TTTGTTTTTTT
1 TTT-TTTTTTT
169878316 TTTGGGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:169878304 original size:17 final size:17
Alignment explanation
Indices: 169878282--169878318 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
169878272 TTGGGGTAAG
169878282 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
169878299 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
169878316 TTT
1 TTT
169878319 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:169883367 original size:18 final size:19
Alignment explanation
Indices: 169883330--169883368 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
169883320 TAATTTATTT
169883330 AAAAAAAATCAGACATTGA
1 AAAAAAAATCAGACATTGA
169883349 AAAATAAAATCA-ACA-TGA
1 AAAA-AAAATCAGACATTGA
169883367 AA
1 AA
169883369 TTTTATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAAAAAATCAGACATTGA
Found at i:169884524 original size:19 final size:18
Alignment explanation
Indices: 169884460--169884535 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
169884450 TTTTAGAAAA
*
169884460 TTTTTAAAATTTTAAATT
1 TTTTTAAAAATTTAAATT
* **
169884478 TTTTTATATGTTTAGAATT
1 TTTTTAAAAATTTA-AATT
**
169884497 TTTAAAAAAATTTATAATT
1 TTTTTAAAAATTTA-AATT
*
169884516 TTTTTAAAAATATAAATT
1 TTTTTAAAAATTTAAATT
169884534 TT
1 TT
169884536 GTAATTTTTA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
18 17 0.38
19 28 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAATTTAAATT
Found at i:169884562 original size:19 final size:20
Alignment explanation
Indices: 169884531--169884584 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
169884521 AAAAATATAA
169884531 ATTTTGTAA-TTTTTATAAA-T
1 ATTTTG-AATTTTTTA-AAATT
169884551 ATTTTGAATTTTTTAAAATT
1 ATTTTGAATTTTTTAAAATT
169884571 ATTTTGAATTTTTT
1 ATTTTGAATTTTTT
169884585 TGTAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (20 bp):
ATTTTGAATTTTTTAAAATT
Found at i:169888102 original size:44 final size:44
Alignment explanation
Indices: 169888017--169888104 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
169888007 GATGTACGTC
* * *
169888017 TTGTAGCTTCAATTTGCTCCAATGTAACTTCACGGATATGAGAT
1 TTGTAGCTTCAATTTACTCCAATGTAACTTCACGAAGATGAGAT
169888061 TTGTAGCTTCAATTTACTTCC-ATGTAACTTCA-GAAAGATGAGAT
1 TTGTAGCTTCAATTTAC-TCCAATGTAACTTCACG-AAGATGAGAT
169888105 CTACATCTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 35 0.90
45 3 0.08
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (44 bp):
TTGTAGCTTCAATTTACTCCAATGTAACTTCACGAAGATGAGAT
Found at i:169888671 original size:54 final size:53
Alignment explanation
Indices: 169888491--169888692 Score: 237
Period size: 55 Copynumber: 3.7 Consensus size: 53
169888481 AAAAATACCT
* *
169888491 AAGGCTCAACTCACTTCTCGCAATATG-GATTGATTTTTTTGAAAAACAAAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAG-TTGA---TTTTGAAAAAAAAAAATTAA
* * *
169888547 AAGG-TATAACTCACCTCTCGCAATATGAGTTGTTTTTTAAAAAAACAACAATTAA
1 AAGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAA-AA-AATTAA
* *
169888602 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA-AAAAAATTAA
* *
169888656 AAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
169888693 AGATTTAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
53 10 0.08
54 43 0.34
55 46 0.36
56 28 0.22
57 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (53 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAAAATTAA
Found at i:169888837 original size:71 final size:72
Alignment explanation
Indices: 169888661--169888829 Score: 225
Period size: 71 Copynumber: 2.3 Consensus size: 72
169888651 ATTAAAAGGT
* * *
169888661 TCAACCCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TAAATA-GAATTGAAATTACCTCAACGTG
*
169888726 CCCTGAGGT
64 CCCTGAGGC
* * *
169888735 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AACATA-AATTGAAATTACCTCAACGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAA-ATAGAATTGAAATTACCTCAACGTGC
*
169888798 CTTGAGGC
65 CCTGAGGC
169888806 TCAACTCACCTCTCGCAATATGAG
1 TCAACTCACCTCTCGCAATATGAG
169888830 CTAATTTTCT
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
71 49 0.58
72 1 0.01
73 3 0.04
74 32 0.38
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAAATAGAATTGAAATTACCTCAACGTGCC
CTGAGGC
Found at i:169888981 original size:71 final size:71
Alignment explanation
Indices: 169888865--169888996 Score: 210
Period size: 71 Copynumber: 1.9 Consensus size: 71
169888855 AAAAGCAGAA
* * *
169888865 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAA
1 ATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAA
169888930 ACATAG
66 ACATAG
* * *
169888936 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 ATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
169888997 CTTGGAAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (71 bp):
ATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAA
ACATAG
Found at i:169889095 original size:319 final size:320
Alignment explanation
Indices: 169888705--169889566 Score: 1665
Period size: 319 Copynumber: 2.7 Consensus size: 320
169888695 ATTTAATAGG
* *
169888705 AATTGAAATTACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
169888770 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
169888835 TTTCTTGGAAAACATGAATT-AAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
*
169888899 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAGATTGAAATTACCTCAACGTGTCTTGAGG
196 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
169888964 CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGA
261 CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGA
169889024 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
169889089 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
169889154 TTTCTTGGAAAACATGAATTAAAAAGTAGAAATTGAAAATA-CTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
169889218 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
196 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
169889283 CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGA
261 CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGA
169889343 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
169889408 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
169889473 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
169889538 TCACTTCTCGCAATATGAGTTGATTTTTG
196 TCACTTCTCGCAATATGAGTTGATTTTTG
169889567 GAAAAAACAA
Statistics
Matches: 535, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
319 464 0.87
320 71 0.13
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (320 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:169889102 original size:160 final size:160
Alignment explanation
Indices: 169888705--169889566 Score: 1665
Period size: 160 Copynumber: 5.4 Consensus size: 160
169888695 ATTTAATAGG
* *
169888705 AATTGAAATTACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
169888770 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
169888835 TTTCTTGGAAAACATGAATT-AAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
169888864 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
169888929 AACATAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
169888994 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
169889024 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
169889089 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
169889154 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
169889184 AATTGAAAATA-CTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
169889248 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
169889313 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
169889343 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
169889408 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
169889473 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
169889503 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
169889567 GAAAAAACAA
Statistics
Matches: 694, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
159 304 0.44
160 390 0.56
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:169889139 original size:71 final size:71
Alignment explanation
Indices: 169889023--169889315 Score: 226
Period size: 71 Copynumber: 3.9 Consensus size: 71
169889013 TAAAAAGCAG
* * *
169889023 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
169889088 AAACAT
66 AAACAT
* * *
169889094 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
169889159 TGGAAAACAT
64 T-G-AAACAT
* * ** * ** * * * * * *
169889169 GAATTAAAAAGTAGAAATTGAAAATACTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATAT
1 AAATTGAAAA-T---ACCTCAACGTGCCCTGAG-G--CTCA-ACTC-A--C-C-TCTCGCAATAT
*
169889234 GAGTTGATTTTTGAAACAT
53 GAGCTGATTTTTGAAACAT
* * *
169889253 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
169889316 CTTGGAAAAC
Statistics
Matches: 165, Mismatches: 40, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
71 74 0.45
72 4 0.02
73 3 0.02
74 1 0.01
75 14 0.08
76 4 0.02
77 3 0.02
79 8 0.05
80 8 0.05
82 3 0.02
83 4 0.02
84 14 0.08
85 1 0.01
86 3 0.02
87 4 0.02
88 17 0.10
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:169889458 original size:71 final size:71
Alignment explanation
Indices: 169889342--169889475 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
169889332 TAAAAAGCAG
* * *
169889342 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
169889407 AAACAT
66 AAACAT
* * *
169889413 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
169889476 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:169906309 original size:28 final size:27
Alignment explanation
Indices: 169906246--169906315 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
169906236 ATAGTGAGTC
169906246 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
169906273 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
169906301 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
169906316 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:169914116 original size:28 final size:27
Alignment explanation
Indices: 169914053--169914122 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
169914043 ATAGTGAGTC
169914053 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
169914080 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
169914108 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
169914123 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:169931246 original size:25 final size:24
Alignment explanation
Indices: 169931206--169931252 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
169931196 TTTTTCATGA
169931206 TTTAATTCAAATTATAATTATTAT
1 TTTAATTCAAATTATAATTATTAT
*
169931230 TTTAATATCAGATTATAATTATT
1 TTTAAT-TCAAATTATAATTATT
169931253 TAAATTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAATTCAAATTATAATTATTAT
Found at i:169932088 original size:26 final size:26
Alignment explanation
Indices: 169932048--169932098 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
169932038 GGATTGGACC
* *
169932048 ATGTGAGGTTGAAACATGTTTTATTA
1 ATGTCAGGTTCAAACATGTTTTATTA
169932074 ATGTCAGGTTCAAACATGTTTTATT
1 ATGTCAGGTTCAAACATGTTTTATT
169932099 GTTGTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (26 bp):
ATGTCAGGTTCAAACATGTTTTATTA
Found at i:169933625 original size:18 final size:18
Alignment explanation
Indices: 169933589--169933626 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
169933579 CCAAAATCTT
*
169933589 ATTTTAATTCTTTTGTAC
1 ATTTTAATTCTTTTATAC
169933607 ATTTTAATT-TTATTATAC
1 ATTTTAATTCTT-TTATAC
169933625 AT
1 AT
169933627 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTAATTCTTTTATAC
Found at i:169934846 original size:30 final size:30
Alignment explanation
Indices: 169934812--169934872 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
169934802 ATCAATGATT
169934812 TCACAAAAGCCAATAAAAAACAATTTAACA
1 TCACAAAAGCCAATAAAAAACAATTTAACA
169934842 TCACAAAAGCCAATAAAAAACAATTTAACA
1 TCACAAAAGCCAATAAAAAACAATTTAACA
169934872 T
1 T
169934873 AGATTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.20, G:0.03, T:0.18
Consensus pattern (30 bp):
TCACAAAAGCCAATAAAAAACAATTTAACA
Found at i:169937019 original size:80 final size:80
Alignment explanation
Indices: 169936935--169937083 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
169936925 TATGGTAACC
* * * *
169936935 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
169936999 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
169937015 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
169937080 CCGG
66 CCGG
169937084 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:169937025 original size:40 final size:38
Alignment explanation
Indices: 169936976--169937083 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
169936966 ATCACGATTT
*
169936976 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
169937016 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
169937056 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
169937084 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:169949488 original size:39 final size:39
Alignment explanation
Indices: 169949425--169949557 Score: 194
Period size: 39 Copynumber: 3.4 Consensus size: 39
169949415 GGTCTTTAAC
* * ** *
169949425 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
*
169949464 CCGAATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
* *
169949503 CCGGATATATTTCCAGCATATAGCCTGCAGACCTCATGT
1 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
169949542 CCGGATATATTTCTAG
1 CCGGATATATTTCTAG
169949558 TCTCATACAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
Found at i:169953378 original size:21 final size:21
Alignment explanation
Indices: 169953354--169953396 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
169953344 AGTATGGCTC
*
169953354 ATTGGTATGTTAGAAAAATCT
1 ATTGGTATATTAGAAAAATCT
*
169953375 ATTGGTATATTATAAAAATCT
1 ATTGGTATATTAGAAAAATCT
169953396 A
1 A
169953397 AGTAGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (21 bp):
ATTGGTATATTAGAAAAATCT
Found at i:169967138 original size:15 final size:15
Alignment explanation
Indices: 169967118--169967188 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
169967108 CATAGTATCA
*
169967118 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
169967133 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
*
169967148 TAT-TCTAGATTTCTT
1 TATCT-TGGATTTCTT
* *
169967163 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTT
169967178 TATCTTGGATT
1 TATCTTGGATT
169967189 ACGTTATTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 1 0.02
15 44 0.96
16 1 0.02
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:169971644 original size:14 final size:15
Alignment explanation
Indices: 169971622--169971651 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
169971612 GAATATTAAA
169971622 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
169971637 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
169971651 A
1 A
169971652 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:169972977 original size:43 final size:43
Alignment explanation
Indices: 169972908--169973123 Score: 231
Period size: 43 Copynumber: 5.0 Consensus size: 43
169972898 ATCTCGTACA
* * *
169972908 ATGCC-ATGTCCAAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * * ** *
169972950 ATGCCACTGTCCCAGTCAGGGTTTTACACGTAATCGTATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
169972993 ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* * *
169973036 ATGCCAATGTCCTAGACATGATCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
*
169973079 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
169973122 AT
1 AT
169973124 AATCCTAATG
Statistics
Matches: 143, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
42 6 0.04
43 136 0.95
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:169981427 original size:100 final size:100
Alignment explanation
Indices: 169981294--169981618 Score: 614
Period size: 100 Copynumber: 3.2 Consensus size: 100
169981284 TACATAATGG
*
169981294 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
169981359 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
169981394 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
169981459 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
169981494 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
169981559 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
169981596 TATATGTGATAAGGCCGAATGGC
1 TATATGTGATAAGGCCTAATGGC
169981619 TAATGTGAAA
Statistics
Matches: 221, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
100 195 0.88
102 26 0.12
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (100 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:169981625 original size:151 final size:150
Alignment explanation
Indices: 169981294--169981626 Score: 605
Period size: 151 Copynumber: 2.2 Consensus size: 150
169981284 TACATAATGG
169981294 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG-ATATATATATGTGATAAGG
169981359 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
169981424 ATGAATGTGAAAGTGTATATA
130 ATGAATGTGAAAGTGTATATA
*
169981445 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATATGTGATAAGGC
1 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGATATATATATGTGATAAGGC
169981509 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGT
66 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGT
169981574 GATGAATGTGAAAGTGTATATA
129 GATGAATGTGAAAGTGTATATA
* *
169981596 TATATGTGATAAGGCCGAATGGCTAATGTGA
1 TATATGTGATAAGGCCTAATGGCTGATGTGA
169981627 AATATATATA
Statistics
Matches: 176, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
149 49 0.28
151 127 0.72
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (150 bp):
TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGATATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATA
Found at i:169981626 original size:51 final size:51
Alignment explanation
Indices: 169981294--169981618 Score: 604
Period size: 51 Copynumber: 6.5 Consensus size: 51
169981284 TACATAATGG
*
169981294 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
169981345 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
169981394 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
169981445 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
169981494 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
169981545 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
169981596 TATATGTGATAAGGCCGAATGGC
1 TATATGTGATAAGGCCTAATGGC
169981619 TAATGTGAAA
Statistics
Matches: 268, Mismatches: 2, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
49 98 0.37
51 170 0.63
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (51 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:169981665 original size:48 final size:48
Alignment explanation
Indices: 169981591--169981723 Score: 203
Period size: 48 Copynumber: 2.8 Consensus size: 48
169981581 GTGAAAGTGT
* * *
169981591 ATATATATATGTGATAAGGCCGAATGGCTAATGTGAAATATATATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAG
* * **
169981639 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAG
169981687 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
169981724 TGTTGTAATA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAG
Found at i:169981696 original size:151 final size:150
Alignment explanation
Indices: 169981294--169981674 Score: 491
Period size: 151 Copynumber: 2.5 Consensus size: 150
169981284 TACATAATGG
* ** * *
169981294 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
1 TATATGTGATAAGGCCGAATGGCCAATGTGA-GAATATGAAA--GTATATATATATGTGATAAAG
* *
169981359 CCTAATGGCCGATGTGATGAATGTGAAAG--TGTATATATATGTGATAAGGCCTAATGGCCGATG
63 CCAAATGGCCAATGTGATGAATGTGAAAGTATGTATATATATGTGATAAGGCCTAATGGCCGATG
169981422 TGATGAATGTGAAAGTGTATATA
128 TGATGAATGTGAAAGTGTATATA
* * * * *
169981445 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGA-GAATATGAAAGTATATATATATGTGATAAAGCC
* * * *
169981510 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTG
65 AAATGGCCAATGTGATGAATGTGAAAGTATGTATATATATGTGATAAGGCCTAATGGCCGATGTG
169981575 ATGAATGTGAAAGTGTATATA
130 ATGAATGTGAAAGTGTATATA
* * * *
169981596 TATATGTGATAAGGCCGAATGGCTAATGTGA-AATATATATAAG-ATATGTATATGTGGTAAAGC
1 TATATGTGATAAGGCCGAATGGCCAATGTGAGAATAT-GA-AAGTATATATATATGTGATAAAGC
*
169981659 CAAATGGCTAATGTGA
64 CAAATGGCCAATGTGA
169981675 AATATATGTG
Statistics
Matches: 211, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
149 53 0.25
150 30 0.14
151 128 0.61
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (150 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGAGAATATGAAAGTATATATATATGTGATAAAGCCA
AATGGCCAATGTGATGAATGTGAAAGTATGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATA
Found at i:169981818 original size:37 final size:37
Alignment explanation
Indices: 169981763--169981845 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 37
169981753 ATCTTGGAAA
169981763 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTGAGACCCGATGACTACGTGTGGAGAT
169981801 TATGTCCGGGT-ACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTGA-GACCCGATGACTACGTGTGGAGAT
169981838 TATGTCCG
1 TATGTCCG
169981846 AGTAAGACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 39 0.89
38 4 0.09
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (37 bp):
TATGTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
Found at i:169984191 original size:45 final size:45
Alignment explanation
Indices: 169984125--169984211 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
169984115 GAACTATGTG
* *
169984125 ATCTAAACTTATTGGGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
* *
169984170 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGT
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGT
169984212 ACACATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.40
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:169985402 original size:50 final size:50
Alignment explanation
Indices: 169985325--169985422 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
169985315 ACAGGAATGT
*
169985325 GTCTTGGCCGTGTGTGACATACAGTCTGCCCCATAAGG-GTGTGATCTGTC
1 GTCTTGGCCGTGTGTGACACACAGTCTGCCCCAT-AGGCGTGTGATCTGTC
* *
169985375 GTCTTGGCCGTGTGTGACACACGGTCTGCCCCATGGGCGTGTGATCTG
1 GTCTTGGCCGTGTGTGACACACAGTCTGCCCCATAGGCGTGTGATCTG
169985423 GCCGTGTGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 42 0.95
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.29
Consensus pattern (50 bp):
GTCTTGGCCGTGTGTGACACACAGTCTGCCCCATAGGCGTGTGATCTGTC
Found at i:169987070 original size:42 final size:43
Alignment explanation
Indices: 169987019--169987132 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
169987009 TGAGATTTAT
*
169987019 GTGTAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATA-CTGAATTAC
* * **
169987061 GTGTAAGACCCTGTTTGGGACAGAGGCATCGATACTGAATTAC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATACTGAATTAC
* * * *
169987104 ATGTAAGACCACGTCCGGGACATCAGCAT
1 GTGTAAGACCATGTCTGGGACATCGGCAT
169987133 TGTACCCGTT
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 30 0.53
43 27 0.47
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGATACTGAATTAC
Found at i:169991337 original size:29 final size:29
Alignment explanation
Indices: 169991304--169991463 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
169991294 GTGACGAGAT
169991304 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
169991333 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
169991362 TGGCACTAAGTGTGCATGCTGTAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
169991390 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * **
169991419 TGGCACTAAGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
169991448 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
169991464 AAATCGAGTA
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
28 25 0.22
29 91 0.78
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:169991399 original size:57 final size:57
Alignment explanation
Indices: 169991300--169991464 Score: 201
Period size: 57 Copynumber: 2.9 Consensus size: 57
169991290 TACGGTGACG
* * *
169991300 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAA
1 AGATATGGCACTAAGTGTGCGTGCTGTAAA-ATATGGCACTAAGTGTGCGAGCTCGAA
* *
169991357 ATATATGGCACTAAGTGTGCATGCTGTAAAATATGGCACTAAGTGTGCGAGCTCGAA
1 AGATATGGCACTAAGTGTGCGTGCTGTAAAATATGGCACTAAGTGTGCGAGCTCGAA
* * *
169991414 GGGTATGGCACTAAGTGTGCGGGCT-T-AAATCGCATGGCACTAAGTGTGCGA
1 AGATATGGCACTAAGTGTGCGTGCTGTAAAAT---ATGGCACTAAGTGTGCGA
169991465 AATCGAGTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
55 4 0.04
56 1 0.01
57 48 0.51
58 41 0.44
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (57 bp):
AGATATGGCACTAAGTGTGCGTGCTGTAAAATATGGCACTAAGTGTGCGAGCTCGAA
Found at i:169991430 original size:86 final size:86
Alignment explanation
Indices: 169991304--169991462 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 86
169991294 GTGACGAGAT
* * * * *
169991304 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAAT-ATATGGCAC
1 TGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACTAAGTGTGCGGGCT-GAAATCACATGGCAC
169991368 TAAGTGTGCATGCTGTAAAATA
65 TAAGTGTGCATGCTGTAAAATA
* * * *
169991390 TGGCACTAAGTGTGCGAGCTCGAAGGGTATGGCACTAAGTGTGCGGGCTTAAATCGCATGGCACT
1 TGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACTAAGTGTGCGGGCTGAAATCACATGGCACT
169991455 AAGTGTGC
66 AAGTGTGC
169991463 GAAATCGAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 4 0.06
86 59 0.94
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (86 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACTAAGTGTGCGGGCTGAAATCACATGGCACT
AAGTGTGCATGCTGTAAAATA
Found at i:169997112 original size:80 final size:80
Alignment explanation
Indices: 169997028--169997176 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
169997018 TATGGTAACC
* * * *
169997028 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
169997092 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
169997108 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
169997173 CCGG
66 CCGG
169997177 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:169997118 original size:40 final size:38
Alignment explanation
Indices: 169997069--169997176 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
169997059 ATCACGATTT
*
169997069 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
169997109 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
169997149 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
169997177 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:170002959 original size:80 final size:80
Alignment explanation
Indices: 170002875--170003023 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
170002865 TATGGTAACC
* * * *
170002875 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
170002939 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
170002955 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
170003020 CCGG
66 CCGG
170003024 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:170002965 original size:40 final size:38
Alignment explanation
Indices: 170002916--170003023 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
170002906 ATCACGATTT
*
170002916 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
170002956 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
170002996 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
170003024 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:170009294 original size:11 final size:12
Alignment explanation
Indices: 170009278--170009306 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
170009268 AAAAAGTTGT
170009278 AAAATTTGAT-G
1 AAAATTTGATGG
170009289 AAAATTTGATGG
1 AAAATTTGATGG
170009301 AAAATT
1 AAAATT
170009307 CGTAACGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (12 bp):
AAAATTTGATGG
Found at i:170010892 original size:46 final size:46
Alignment explanation
Indices: 170010837--170011012 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
170010827 TATTTGGGCA
170010837 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
170010883 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
170010930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
170010976 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
170011013 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:170010992 original size:93 final size:93
Alignment explanation
Indices: 170010833--170011004 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
170010823 GGGATATTTG
* **
170010833 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
170010898 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
170010926 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
170010991 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
170011005 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:170019329 original size:41 final size:40
Alignment explanation
Indices: 170019155--170019342 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
170019145 GCTACTCGTT
* * *
170019155 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
170019195 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
170019235 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
170019275 CAAATGCCTTCGGGACTTAACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
* *
170019316 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAACCCGGAT
170019343 ATCATTCGAA
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 102 0.77
41 31 0.23
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:170022016 original size:20 final size:20
Alignment explanation
Indices: 170021991--170022028 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
170021981 GTTTATTCGC
*
170021991 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
170022011 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
170022029 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:170023688 original size:28 final size:28
Alignment explanation
Indices: 170023656--170023724 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
170023646 GCGTAGATCA
170023656 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
170023684 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
170023712 CGATA-TACCCCTA
1 CGAAATTACCCCTA
170023725 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:170030022 original size:20 final size:20
Alignment explanation
Indices: 170029997--170030034 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
170029987 GTTTATTCGC
*
170029997 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
170030017 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
170030035 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:170031677 original size:12 final size:12
Alignment explanation
Indices: 170031660--170031685 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
170031650 GTAGATCACG
170031660 AAATTACCCCTA
1 AAATTACCCCTA
170031672 AAATTACCCCTA
1 AAATTACCCCTA
170031684 AA
1 AA
170031686 GAGCAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATTACCCCTA
Found at i:170033794 original size:40 final size:39
Alignment explanation
Indices: 170033629--170033812 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
170033619 AAATTGAATG
* * *
170033629 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
170033669 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
170033709 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
170033749 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
170033788 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
170033813 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:170033837 original size:80 final size:81
Alignment explanation
Indices: 170033669--170033857 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
170033659 GCTGGAAATT
* * * *
170033669 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
170033734 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
170033750 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
170033813 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
170033829 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
170033858 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:170041882 original size:40 final size:39
Alignment explanation
Indices: 170041717--170041900 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
170041707 AAATTGAATG
* * *
170041717 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
170041757 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
170041797 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
170041837 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
170041876 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
170041901 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:170041925 original size:80 final size:81
Alignment explanation
Indices: 170041757--170041945 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
170041747 GCTGGAAATT
* * * *
170041757 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
170041822 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
170041838 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
170041901 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
170041917 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
170041946 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:170045705 original size:39 final size:39
Alignment explanation
Indices: 170045662--170045882 Score: 279
Period size: 39 Copynumber: 5.6 Consensus size: 39
170045652 TACTCGTTCA
*
170045662 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
*
170045701 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
170045740 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
170045779 AAATGCCTTC-GGATCTTAG-TCGGATTTAGTAACTCGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCAC
* * * *
170045818 GAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
170045859 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
170045883 CATCATTCGA
Statistics
Matches: 165, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
39 113 0.68
40 44 0.27
41 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:170049836 original size:27 final size:26
Alignment explanation
Indices: 170049799--170049910 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
170049789 AGCATGGCTG
** *
170049799 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
170049825 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
170049853 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
170049880 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
170049907 CCAG
1 CCAG
170049911 TACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:170049890 original size:54 final size:54
Alignment explanation
Indices: 170049799--170049910 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
170049789 AGCATGGCTG
* * *
170049799 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
170049853 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
170049907 CCAG
1 CCAG
170049911 TACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:170050348 original size:16 final size:15
Alignment explanation
Indices: 170050327--170050356 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
170050317 AAAATACCAA
170050327 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
170050343 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
170050357 CCGATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:170056714 original size:2 final size:2
Alignment explanation
Indices: 170056707--170056733 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
170056697 TGCAAAAATG
170056707 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
170056734 TGCCTTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:170057993 original size:43 final size:42
Alignment explanation
Indices: 170057938--170058053 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
170057928 ATATCATACA
* * *
170057938 ATGCCAACGTCCCTGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGAAGTGGTCTTACATG-AATCACACATCG
* * *
170057981 ATGCC-ACTGTCCCAGATGGGGTCTTACATGAATCACACATTG
1 ATGCCAAC-GTCCCAGAAGTGGTCTTACATGAATCACACATCG
*
170058023 ATGCCAACGTCCCAGAAGTGGCCTTACATGA
1 ATGCCAACGTCCCAGAAGTGGTCTTACATGA
170058054 GAACACATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 37 0.59
43 26 0.41
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGAAGTGGTCTTACATGAATCACACATCG
Found at i:170058366 original size:28 final size:28
Alignment explanation
Indices: 170058344--170058400 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
170058334 TATAATTTTA
*
170058344 AGCTTATAGTTTCGTATATATAACATAT
1 AGCTTATAGTTTCATATATATAACATAT
170058372 AGCTTATAGTTTCATATATATAACATAT
1 AGCTTATAGTTTCATATATATAACATAT
170058400 A
1 A
170058401 CTTTCATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (28 bp):
AGCTTATAGTTTCATATATATAACATAT
Found at i:170058888 original size:42 final size:42
Alignment explanation
Indices: 170058811--170058907 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
170058801 TCCCAAACGT
* *
170058811 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAA
1 GGTCTTACACG-AATCACACATCGATGCCACTGTCCCAGACAA
* * * * **
170058854 GGTCTTACACGAATCATACATCGCTGCCAGTGTCCTAGACGT
1 GGTCTTACACGAATCACACATCGATGCCACTGTCCCAGACAA
170058896 GGTCTTACACGA
1 GGTCTTACACGA
170058908 GAACACATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 36 0.78
43 10 0.22
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAATCACACATCGATGCCACTGTCCCAGACAA
Found at i:170059150 original size:79 final size:79
Alignment explanation
Indices: 170059055--170059208 Score: 263
Period size: 79 Copynumber: 1.9 Consensus size: 79
170059045 TTACTTATAC
* * * *
170059055 AATCTCATACAATTAAATCAGCATATAAAGTTCTTATACATTCAAAATTAATAACATTTATTTGC
1 AATCTCATACAATTAAATAAGCATATAAAGTTCTTATAAATTAAAAATTAATAACATTCATTTGC
*
170059120 TTATAAACCTACCT
66 TTAGAAACCTACCT
170059134 AATCTCATACAATTAAATAAGCATATAAAGTTCTTATAAATTAAAAATTAATAACATTCATTTGC
1 AATCTCATACAATTAAATAAGCATATAAAGTTCTTATAAATTAAAAATTAATAACATTCATTTGC
170059199 TTAGAAACCT
66 TTAGAAACCT
170059209 GCCTCGGACA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (79 bp):
AATCTCATACAATTAAATAAGCATATAAAGTTCTTATAAATTAAAAATTAATAACATTCATTTGC
TTAGAAACCTACCT
Found at i:170060172 original size:13 final size:13
Alignment explanation
Indices: 170060156--170060180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
170060146 TATAAACACA
170060156 AAAAATATTTTTT
1 AAAAATATTTTTT
170060169 AAAAATATTTTT
1 AAAAATATTTTT
170060181 CTAACTCGGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATATTTTTT
Found at i:170062931 original size:43 final size:43
Alignment explanation
Indices: 170062869--170062972 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
170062859 ACTATACTAT
170062869 TCGGGCCTTCGAGCCTAGCAGCCTATAATGCCGATGAGTTAATA
1 TCGGG-CTTCGAGCCTAGCAGCCTATAATGCCGATGAGTTAATA
* *
170062913 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGCCTATAATGCCGATGAGTTAATA
* *
170062956 TTGGGCTTCAAGCCTAG
1 TCGGGCTTCGAGCCTAG
170062973 TAGGCGTAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
43 51 0.91
44 5 0.09
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGCCTATAATGCCGATGAGTTAATA
Found at i:170063584 original size:16 final size:18
Alignment explanation
Indices: 170063553--170063585 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
170063543 AACTCGTCAC
170063553 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
170063571 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
170063586 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:170066363 original size:49 final size:49
Alignment explanation
Indices: 170066260--170066447 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
170066250 TGAGGTAGCA
*** ** * *
170066260 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCCAAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
170066311 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
170066360 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
170066409 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA
170066448 GCTTTGGCTA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
49 88 0.72
50 1 0.01
51 34 0.28
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:170071061 original size:40 final size:40
Alignment explanation
Indices: 170070869--170071054 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
170070859 TCGAATGATG
* * *
170070869 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
170070909 TCCGGACTAAGAT-CCAAAGGCATTCGTCCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
170070949 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
170070989 TCC-GGCTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGC-TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
170071030 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
170071055 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.02
40 112 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:170077216 original size:68 final size:67
Alignment explanation
Indices: 170077144--170077293 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
170077134 CATCATGTGT
* * * *
170077144 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
170077206 ATGTAG
62 ATGTAG
** * *
170077212 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
170077277 AG
66 AG
170077279 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
170077294 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:170077249 original size:64 final size:64
Alignment explanation
Indices: 170077168--170077351 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
170077158 AGACATTATG
* *
170077168 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
170077232 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
170077297 AA
63 AA
* * * *
170077299 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
170077352 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:170081681 original size:68 final size:67
Alignment explanation
Indices: 170081609--170081758 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
170081599 CATCATGTGT
* * * *
170081609 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
170081671 ATGTAG
62 ATGTAG
** * *
170081677 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
170081742 AG
66 AG
170081744 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
170081759 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:170081714 original size:64 final size:64
Alignment explanation
Indices: 170081633--170081816 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
170081623 AGACATTATG
* *
170081633 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
170081697 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
170081762 AA
63 AA
* * * *
170081764 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
170081817 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:170081988 original size:30 final size:31
Alignment explanation
Indices: 170081947--170082012 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 31
170081937 GAACTTGGTT
170081947 ATGTGAATGATGTGTTCATTAAGTGACCAGG
1 ATGTGAATGATGTGTTCATTAAGTGACCAGG
170081978 ATGTG-ATGATGTGTTCATTAAGTGACCAGG
1 ATGTGAATGATGTGTTCATTAAGTGACCAGG
170082008 ATGTG
1 ATGTG
170082013 GTAAGGTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.33
Consensus pattern (31 bp):
ATGTGAATGATGTGTTCATTAAGTGACCAGG
Found at i:170086134 original size:68 final size:67
Alignment explanation
Indices: 170086062--170086211 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
170086052 CATCATGTGT
* * * *
170086062 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
170086124 ATGTAG
62 ATGTAG
** * *
170086130 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
170086195 AG
66 AG
170086197 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
170086212 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:170086167 original size:64 final size:64
Alignment explanation
Indices: 170086086--170086269 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
170086076 AGACATTATG
* *
170086086 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
170086150 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
170086215 AA
63 AA
* * * *
170086217 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
170086270 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:170086444 original size:23 final size:22
Alignment explanation
Indices: 170086408--170086458 Score: 93
Period size: 23 Copynumber: 2.3 Consensus size: 22
170086398 TTATGTGAAT
170086408 GATGTGTTCATTAAGTGACCAG
1 GATGTGTTCATTAAGTGACCAG
170086430 GATGTGTGTCATTAAGTGACCAG
1 GATGTGT-TCATTAAGTGACCAG
170086453 GATGTG
1 GATGTG
170086459 GTAAGGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.31
Consensus pattern (22 bp):
GATGTGTTCATTAAGTGACCAG
Done.