Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 103 of 150
Found at i:32267330 original size:16 final size:16
Alignment explanation
Indices: 32267311--32267346 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
32267301 CTAAAGATGA
32267311 ATATTAGAAAAGTTAC
1 ATATTAGAAAAGTTAC
32267327 ATATTAGAAAAGTTAC
1 ATATTAGAAAAGTTAC
32267343 ATAT
1 ATAT
32267347 GTGTGATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (16 bp):
ATATTAGAAAAGTTAC
Found at i:32272287 original size:22 final size:24
Alignment explanation
Indices: 32272235--32272288 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
32272225 ATTCAAAAAC
32272235 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
32272260 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
32272282 TTAAATT
1 TTAAATT
32272289 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:32284657 original size:17 final size:18
Alignment explanation
Indices: 32284635--32284673 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
32284625 CGAACAATTT
32284635 TTAAATCTT-TAAAATAA
1 TTAAATCTTATAAAATAA
*
32284652 TTAAATTTTATAAAATAA
1 TTAAATCTTATAAAATAA
32284670 TTAA
1 TTAA
32284674 TAAAAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATCTTATAAAATAA
Found at i:32284717 original size:38 final size:37
Alignment explanation
Indices: 32284645--32284748 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 37
32284635 TTAAATCTTT
*** * *
32284645 AAAATAATTAAATTTTATAAAATAATTAATAAAAATTCTA
1 AAAATAATTAAAAAATATAAAATTA-TAA-AAAATTTC-A
*
32284685 AAAAT-ATTATAAAAATATACAAATTATAAAAAATTTCC
1 AAAATAATTA-AAAAATATA-AAATTATAAAAAATTTCA
32284723 AAAATAATTAAAAAATATAAAATTAT
1 AAAATAATTAAAAAATATAAAATTAT
32284749 TATTAAACGA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
37 7 0.13
38 14 0.25
39 15 0.27
40 14 0.25
41 5 0.09
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (37 bp):
AAAATAATTAAAAAATATAAAATTATAAAAAATTTCA
Found at i:32284718 original size:18 final size:18
Alignment explanation
Indices: 32284690--32284748 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
32284680 TTCTAAAAAT
32284690 ATTAT-AAAAATATACAA
1 ATTATAAAAAATATACAA
* *
32284707 ATTATAAAAAATTTCCAAA
1 ATTATAAAAAATATAC-AA
*
32284726 ATAATTAAAAAATATA-AA
1 ATTA-TAAAAAATATACAA
32284744 ATTAT
1 ATTAT
32284749 TATTAAACGA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 6 0.18
18 13 0.39
19 5 0.15
20 9 0.27
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTATAAAAAATATACAA
Found at i:32287635 original size:3 final size:3
Alignment explanation
Indices: 32287627--32287668 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
32287617 GGTATGTCTG
32287627 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32287669 AGTATTGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32288381 original size:44 final size:44
Alignment explanation
Indices: 32288331--32288416 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
32288321 TAATGCAATA
*
32288331 TTTGGTAGTACAAAATTAATTGAAACCTCTAAAAGAGCTAATTG
1 TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAATTG
* *
32288375 TTTGGTAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAAT
1 TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAAT
32288417 ATAGCAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (44 bp):
TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAATTG
Found at i:32290492 original size:57 final size:57
Alignment explanation
Indices: 32290404--32290517 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
32290394 AAGAAGATGA
32290404 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
1 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
32290461 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
1 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
32290518 ATATAAGCCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (57 bp):
TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
Found at i:32297268 original size:14 final size:15
Alignment explanation
Indices: 32297236--32297268 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
32297226 CAACTCAATT
32297236 TCATATCAATTAACA
1 TCATATCAATTAACA
32297251 -CATATCAATTAA-A
1 TCATATCAATTAACA
32297264 TCATA
1 TCATA
32297269 CTATTTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.06
14 16 0.94
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (15 bp):
TCATATCAATTAACA
Found at i:32302678 original size:9 final size:8
Alignment explanation
Indices: 32302664--32302712 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
32302654 TTAGAGTTCT
32302664 TTTATTTC
1 TTTATTTC
32302672 TTCTATTTC
1 TT-TATTTC
32302681 TTTATTTC
1 TTTATTTC
*
32302689 TTTGTTCTC
1 TTTATT-TC
*
32302698 TTTA-TTA
1 TTTATTTC
32302705 TTTATTTC
1 TTTATTTC
32302713 ATAACAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 5 0.15
8 16 0.47
9 13 0.38
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTATTTC
Found at i:32302686 original size:17 final size:17
Alignment explanation
Indices: 32302660--32302703 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
32302650 AAAGTTAGAG
32302660 TTCT-TTTATTTCTTCTA
1 TTCTCTTTATTTCTT-TA
*
32302677 TT-TCTTTATTTCTTTG
1 TTCTCTTTATTTCTTTA
32302693 TTCTCTTTATT
1 TTCTCTTTATT
32302704 ATTTATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (17 bp):
TTCTCTTTATTTCTTTA
Found at i:32302803 original size:20 final size:20
Alignment explanation
Indices: 32302778--32302815 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32302768 CATAAAATTT
32302778 ATTTTAATAATTTTTTAACA
1 ATTTTAATAATTTTTTAACA
* *
32302798 ATTTTATTTATTTTTTAA
1 ATTTTAATAATTTTTTAA
32302816 GATTTTAAAA
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:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTAATAATTTTTTAACA
Found at i:32303972 original size:27 final size:27
Alignment explanation
Indices: 32303934--32303986 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
32303924 CTAATGTTGA
32303934 ATGATTGTATGATATCTTTTAAATTGT
1 ATGATTGTATGATATCTTTTAAATTGT
32303961 ATGATTGTATGATATCTTTTAAATTG
1 ATGATTGTATGATATCTTTTAAATTG
32303987 AACTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (27 bp):
ATGATTGTATGATATCTTTTAAATTGT
Found at i:32314561 original size:10 final size:10
Alignment explanation
Indices: 32314534--32314563 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32314524 AGGGTTTAGG
*
32314534 GTAAAATCAT
1 GTAAAATTAT
32314544 GTAAAATTAT
1 GTAAAATTAT
32314554 GTAAAATTAT
1 GTAAAATTAT
32314564 TAAGTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (10 bp):
GTAAAATTAT
Found at i:32314620 original size:55 final size:55
Alignment explanation
Indices: 32314547--32314687 Score: 273
Period size: 55 Copynumber: 2.6 Consensus size: 55
32314537 AAATCATGTA
32314547 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
32314602 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
32314657 AAATTATGTAAAATTATTAAGTTCAAAAATT
1 AAATTATGTAAAATTATTAAGTCCAAAAATT
32314688 ATGTAAAATT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 85 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:32314726 original size:29 final size:29
Alignment explanation
Indices: 32314693--32315031 Score: 549
Period size: 29 Copynumber: 11.6 Consensus size: 29
32314683 AAATTATGTA
*
32314693 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
32314722 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
32314751 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
32314781 AAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
*
32314811 AAATTAGGTTAGGGTTACGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
32314840 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
32314869 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
32314899 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
32314928 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
32314957 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
32314987 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
32315016 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
32315032 TTTAATTAAA
Statistics
Matches: 291, Mismatches: 9, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
28 3 0.01
29 181 0.62
30 104 0.36
31 2 0.01
32 1 0.00
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:32314779 original size:59 final size:58
Alignment explanation
Indices: 32314693--32315031 Score: 549
Period size: 59 Copynumber: 5.8 Consensus size: 58
32314683 AAATTATGTA
*
32314693 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
32314751 AAATTAGGTTAGGG-CAGTGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATT
*
32314811 AAATTAGGTTAGGGTTACGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
32314869 AAATTAGGTTAGGG-CAGTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
32314928 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATT
32314987 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
32315032 TTTAATTAAA
Statistics
Matches: 262, Mismatches: 9, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
57 3 0.01
58 68 0.26
59 160 0.61
60 30 0.11
61 1 0.00
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (58 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:32314791 original size:88 final size:87
Alignment explanation
Indices: 32314693--32315031 Score: 549
Period size: 88 Copynumber: 3.9 Consensus size: 87
32314683 AAATTATGTA
**
32314693 AAATTAGGTTAAGGTTA-GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AAATTAGGTT-AGGGCAGGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
*
32314757 GGTTAGGG-CAGTGGGTTTTTAATT
65 GGTTAGGGTTA--GGGTTTTTAATT
* *
32314781 AAATTAGGTTAGGGTTTA-GGGTTTTTAATTAAATTAGGTTAGGGTTACGGTTTTTAATTAAATT
1 AAATTAGGTTAGGG--CAGGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
32314845 AGGTTAGGGTTAGGGTTTTTAATT
64 AGGTTAGGGTTAGGGTTTTTAATT
32314869 AAATTAGGTTAGGGCAGTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AAATTAGGTTAGGGCAG-GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
32314934 GGTTAGGGTTAGGGTTTTTAATT
65 GGTTAGGGTTAGGGTTTTTAATT
32314957 AAATTAGGTTAGGGCAGTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AAATTAGGTTAGGGCAG-GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
32315022 GGTTAGGGTT
65 GGTTAGGGTT
32315032 TTTAATTAAA
Statistics
Matches: 241, Mismatches: 5, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
86 1 0.00
87 3 0.01
88 180 0.75
89 56 0.23
90 1 0.00
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (87 bp):
AAATTAGGTTAGGGCAGGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
GTTAGGGTTAGGGTTTTTAATT
Found at i:32315038 original size:18 final size:18
Alignment explanation
Indices: 32315001--32315053 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 18
32314991 TAGGTTAGGG
32315001 TTAGGGTTTTTAATTAAATTA
1 TTAGGGTTTTTAATT-AA--A
32315022 GGTTAGGGTTTTTAATTAAA
1 --TTAGGGTTTTTAATTAAA
32315042 TTAGGGTTTTTA
1 TTAGGGTTTTTA
32315054 TTACATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.40
20 1 0.03
22 2 0.07
23 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAAA
Found at i:32315159 original size:71 final size:71
Alignment explanation
Indices: 32315055--32315236 Score: 319
Period size: 71 Copynumber: 2.5 Consensus size: 71
32315045 GGGTTTTTAT
*
32315055 TACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTTCTA
1 TACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTA
32315120 TGCCTAG
65 TGCCTAG
*
32315127 TATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTAT
1 TACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTAT
* *
32315192 GCGTAT
66 GCCTAG
32315198 TACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TACATCAAATAAACTTCTATTTTATTACATCAAATAATA
32315237 ATTTTAAATA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
71 95 0.90
72 10 0.10
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (71 bp):
TACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTAT
GCCTAG
Found at i:32316334 original size:7 final size:7
Alignment explanation
Indices: 32316324--32316348 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32316314 TTATATACAT
32316324 AATACTA
1 AATACTA
32316331 AATACTA
1 AATACTA
32316338 AATACTA
1 AATACTA
32316345 AATA
1 AATA
32316349 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:32332181 original size:9 final size:9
Alignment explanation
Indices: 32332167--32332197 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32332157 GTTAAACGAA
32332167 TCGAGTTAT
1 TCGAGTTAT
*
32332176 TCGAGTTAA
1 TCGAGTTAT
32332185 TCGAGTTAT
1 TCGAGTTAT
32332194 TCGA
1 TCGA
32332198 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:32339448 original size:24 final size:24
Alignment explanation
Indices: 32339421--32339472 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
32339411 TGAGGAGGAG
32339421 GATACATGAGAGGTGGAGATGGGT
1 GATACATGAGAGGTGGAGATGGGT
*
32339445 GATACATGAGAGGTGGAGGTGGGT
1 GATACATGAGAGGTGGAGATGGGT
32339469 GATA
1 GATA
32339473 AATTGGTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.46, T:0.21
Consensus pattern (24 bp):
GATACATGAGAGGTGGAGATGGGT
Found at i:32340438 original size:14 final size:14
Alignment explanation
Indices: 32340400--32340442 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
32340390 CAAAATGTAC
32340400 AATATAATTAAA-T
1 AATATAATTAAATT
32340413 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
32340428 AA-ATAATTTAATT
1 AATATAATTAAATT
32340441 AA
1 AA
32340443 CTATTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:32340799 original size:22 final size:19
Alignment explanation
Indices: 32340766--32340813 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
32340756 AGCATAATTT
*
32340766 ATAAGAATATCATCAAATA
1 ATAATAATATCATCAAATA
32340785 ATAATAATATCATCAAATA
1 ATAATAATATCATCAAATA
32340804 ATAATAATAT
1 ATAATAATAT
32340814 AAAGCTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAATAATATCATCAAATA
Found at i:32344271 original size:23 final size:22
Alignment explanation
Indices: 32344228--32344285 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
32344218 AAAGGGTATC
* *
32344228 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
32344249 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
32344272 TGCATATCATATCT
1 TACAAATCATATCT
32344286 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:32345197 original size:45 final size:44
Alignment explanation
Indices: 32344936--32345428 Score: 306
Period size: 45 Copynumber: 11.1 Consensus size: 44
32344926 AGATTCGCTG
* * * * * * *
32344936 TCTTCAGTTTGCTCCACTGTAAATTCTGGGAGATAAGACTTGTA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * * * * *
32344980 ACTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTAT-TG
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TCTA
* * * *
32345024 GCTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGC--
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * * * * * * *
32345067 -CAT-GATCTACTCTATTGCAACTTTAGAGAGATAAGATCTACGATTTA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T----TCTA
* * * *
32345114 TAGCTTTAATCTGTTCCACCGCAACTTCAGGGAAATAAGATTTGCTA
1 T--CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * * *
32345161 TCTTCAGTCTGCTCCACTGCAGCTTCAGGAAGATAAGA-CT-TA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * *
32345203 ACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * * * * *
32345248 TCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAGGACTTACTT
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTCTA
* *
32345293 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTC-A
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * * *
32345336 -CTTCAATCCGTTCCACTGCAACTTCAAGGAGATAGGATTAT-TGA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TCT-A
* * * *
32345380 -CTTTAATTTGCTCCACTGCAAGTTCAGGGAGATAAGATTTGCCA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
32345424 TCTTC
1 TCTTC
32345429 TTCAATCCAT
Statistics
Matches: 340, Mismatches: 84, Indels: 49
0.72 0.18 0.10
Matches are distributed among these distances:
41 26 0.08
42 71 0.21
43 4 0.01
44 101 0.30
45 103 0.30
46 4 0.01
47 3 0.01
50 3 0.01
51 25 0.07
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
Found at i:32345239 original size:87 final size:87
Alignment explanation
Indices: 32344945--32345428 Score: 369
Period size: 87 Copynumber: 5.5 Consensus size: 87
32344935 GTCTTCAGTT
* * * * * * * * * *
32344945 TGCTCCACTGTAAATTCTGGGAGATAAGACTTG-TAACTTTAATCCGCTCCACTGCAACCTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCA-G
* * *
32345009 GAGATAGGA-TTATTGGCTTTAGTC
65 GAGATAGGACTTA-T-ACTTCAATC
* * * * * *
32345033 TGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCA---TGA-TCTACTCTATTGCAACTTTAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAG-
* *
32345094 GAGATAAGATCTACGATTTATAGCTTTAATC
65 GAGAT-AG------GACTTATA-CTTCAATC
* * * * *
32345125 TGTTCCACCGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAGCTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
32345190 AAGATAAGACTTA-ACTTCAATC
66 -AGATAGGACTTATACTTCAATC
* *
32345212 CGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCA-G
* * *
32345277 GGGATAGGACTTACTTTCTTCAGTC
65 GAGATAGGACTTA--TACTTCAATC
* * * *
32345302 TGCTCCACTGCAACTTCAGGGAGATAAGACTT--CA-CTTCAATCCGTTCCACTGCAACTTCAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTC-AG
* *
32345364 GAGATAGGA-TTATTGACTTTAATT
65 GAGATAGGACTTA-T-ACTTCAATC
*
32345388 TGCTCCACTGCAAGTTCAGGGAGATAAGATTTGCCATCTTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
32345429 TTCAATCCAT
Statistics
Matches: 320, Mismatches: 51, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
84 1 0.00
85 21 0.07
86 42 0.13
87 103 0.32
88 38 0.12
89 10 0.03
90 37 0.12
92 41 0.13
93 3 0.01
95 4 0.01
96 20 0.06
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (87 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGG
AGATAGGACTTATACTTCAATC
Found at i:32345304 original size:132 final size:132
Alignment explanation
Indices: 32345129--32345374 Score: 375
Period size: 132 Copynumber: 1.9 Consensus size: 132
32345119 TTAATCTGTT
* * *
32345129 CCACCGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAGCTTCAGGAAGA
1 CCACCGCAACTTCAGGGAAATAAGACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
*
32345194 TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
66 TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTG
32345259 CC
131 CC
* ** * * *
32345261 CCACTGCAACTTCAGGGGGATAGGACTTACTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CCACCGCAACTTCAGGGAAATAAGACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
* * *
32345326 TAAGACTTCACTTCAATCCGTTCCACTGCAACTTCAAGGAGATAGGATT
66 TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATT
32345375 ATTGACTTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 101 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (132 bp):
CCACCGCAACTTCAGGGAAATAAGACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTG
CC
Found at i:32351963 original size:11 final size:11
Alignment explanation
Indices: 32351936--32351981 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
32351926 ATTTATCCTT
*
32351936 TCTCAATTATTC
1 TCTCAATT-TCC
32351948 TCTCAATTTCC
1 TCTCAATTTCC
**
32351959 TCTCAATTTGT
1 TCTCAATTTCC
32351970 TCTCAATTTCC
1 TCTCAATTTCC
32351981 T
1 T
32351982 TCCAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.20, C:0.28, G:0.02, T:0.50
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:32351995 original size:22 final size:21
Alignment explanation
Indices: 32351936--32352041 Score: 69
Period size: 22 Copynumber: 5.0 Consensus size: 21
32351926 ATTTATCCTT
32351936 TCTCAATTATTCTCTCAATTTCC
1 TCTCAA-T-TTCTCTCAATTTCC
*
32351959 TCTCAATTTGTTCTCAATTTCC
1 TCTCAATTT-CTCTCAATTTCC
*
32351981 T-TCCAAATTTCTCTCAA-ATCC
1 TCT-C-AATTTCTCTCAATTTCC
* * *
32352002 -AT--ATTTAATCTCAATTTGC
1 TCTCAATTT-CTCTCAATTTCC
32352021 TCTCAATTTCTCTCAAATTTC
1 TCTCAATTTCTCTC-AATTTC
32352042 TCTTAAATCC
Statistics
Matches: 64, Mismatches: 9, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
17 4 0.06
18 6 0.09
19 2 0.03
20 1 0.02
21 11 0.17
22 29 0.45
23 11 0.17
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.46
Consensus pattern (21 bp):
TCTCAATTTCTCTCAATTTCC
Found at i:32352015 original size:51 final size:50
Alignment explanation
Indices: 32351959--32352057 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
32351949 CTCAATTTCC
*
32351959 TCTCAATTTGTTCTCAATTTC-CTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTCTC-T-CAAATTTCTCTCAAATCCATATTTAA
* *
32352010 TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTCAAATCCATATTT
32352058 TTAATTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 22 0.50
51 21 0.48
52 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.02, T:0.46
Consensus pattern (50 bp):
TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:32352039 original size:11 final size:10
Alignment explanation
Indices: 32351945--32352044 Score: 57
Period size: 11 Copynumber: 9.6 Consensus size: 10
32351935 TTCTCAATTA
32351945 TTCTCTCAAT
1 TTCTCTCAAT
32351955 TTCCTCTCAAT
1 TT-CTCTCAAT
*
32351966 TTGTTCTCAAT
1 TT-CTCTCAAT
32351977 TTC-CTTCCAAAT
1 TTCTC-T-C-AAT
32351989 TTCTCTCAA-
1 TTCTCTCAAT
*
32351998 --ATC-CATAT
1 TTCTCTCA-AT
*
32352006 TTAATCTCAAT
1 TT-CTCTCAAT
32352017 TTGCTCTCAAT
1 TT-CTCTCAAT
32352028 TTCTCTCAAAT
1 TTCTCTC-AAT
32352039 TTCTCT
1 TTCTCT
32352045 TAAATCCCTA
Statistics
Matches: 72, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
9 1 0.01
10 10 0.14
11 46 0.64
12 9 0.12
13 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.47
Consensus pattern (10 bp):
TTCTCTCAAT
Found at i:32353896 original size:18 final size:18
Alignment explanation
Indices: 32353873--32353909 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32353863 GCCAGGTGCA
* *
32353873 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
32353891 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
32353909 T
1 T
32353910 TTCCGTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:32356409 original size:23 final size:22
Alignment explanation
Indices: 32356366--32356423 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
32356356 AAAGGGTATC
* *
32356366 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
32356387 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
32356410 TGCATATCATATCT
1 TACAAATCATATCT
32356424 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:32358230 original size:24 final size:23
Alignment explanation
Indices: 32358182--32358231 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
32358172 GAATTTCATA
*
32358182 TTTTTCTATTGTTTTTGATTGCT
1 TTTTTCTATTGTTTTGGATTGCT
*
32358205 TTTTTCTGTTGTATTTGGACTT-CT
1 TTTTTCTATTGT-TTTGGA-TTGCT
32358229 TTT
1 TTT
32358232 ACTTTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 11 0.48
24 10 0.43
25 2 0.09
ACGTcount: A:0.08, C:0.10, G:0.14, T:0.68
Consensus pattern (23 bp):
TTTTTCTATTGTTTTGGATTGCT
Found at i:32359207 original size:17 final size:18
Alignment explanation
Indices: 32359175--32359208 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32359165 TATTTAAGTT
32359175 ATTGATTATATTATTTAG
1 ATTGATTATATTATTTAG
*
32359193 ATTGA-TATTTTATTTA
1 ATTGATTATATTATTTA
32359209 TTATTGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (18 bp):
ATTGATTATATTATTTAG
Found at i:32359214 original size:18 final size:18
Alignment explanation
Indices: 32359173--32359216 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
32359163 GCTATTTAAG
32359173 TTATTGATTATATTATTTA
1 TTATTGA-TATATTATTTA
* *
32359192 -GATTGATATTTTATTTA
1 TTATTGATATATTATTTA
32359209 TTATTGAT
1 TTATTGAT
32359217 TTAGGTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (18 bp):
TTATTGATATATTATTTA
Found at i:32365933 original size:28 final size:31
Alignment explanation
Indices: 32365875--32365933 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
32365865 ATATATAGTT
32365875 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
32365906 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
32365934 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:32366875 original size:45 final size:44
Alignment explanation
Indices: 32366826--32366971 Score: 144
Period size: 41 Copynumber: 3.4 Consensus size: 44
32366816 TATGTGTTCT
32366826 CGTGTAAGACCACGTCTGGGAC-GATGGCATCGATATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATCG-TATATGTGATTA
* * * *
32366871 CGTGTAAAACCATGTCTAGGACATTGGCATCGTAT-T-TGATT-
1 CGTGTAAGACCACGTCTGGGACAGTGGCATCGTATATGTGATTA
* *
32366912 CGTGTAAGACC-CTGTTTGGGACAGTGGCATCG-ATATGAGA-TA
1 CGTGTAAGACCAC-GTCTGGGACAGTGGCATCGTATATGTGATTA
*
32366954 GCATGTAAGACCACGTCT
1 -CGTGTAAGACCACGTCT
32366972 AGGATAGCAT
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
40 2 0.02
41 28 0.34
42 7 0.09
43 14 0.17
44 4 0.05
45 27 0.33
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGTATATGTGATTA
Found at i:32366934 original size:41 final size:43
Alignment explanation
Indices: 32366815--32366947 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 43
32366805 AGGATTTTCG
*
32366815 ATATGTGTTCTCGTGTAAGACCAC-GTCTGGGACGATGGCATCGAT
1 ATATGTGAT-TCGTGTAAGACC-CTGTCTGGGAC-ATGGCATCGAT
* * *
32366860 ATATGTGATTACGTGTAAAACCATGTCTAGGACATTGGCATCG-T
1 ATATGTGATT-CGTGTAAGACCCTGTCTGGGACA-TGGCATCGAT
*
32366904 AT-T-TGATTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGAT
1 ATATGTGATTCGTGTAAGACCCTGTCTGGGACA-TGGCATCGAT
32366946 AT
1 AT
32366948 GAGATAGCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
41 27 0.36
42 8 0.11
43 1 0.01
44 5 0.07
45 34 0.45
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
ATATGTGATTCGTGTAAGACCCTGTCTGGGACATGGCATCGAT
Found at i:32366982 original size:24 final size:24
Alignment explanation
Indices: 32366950--32366995 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
32366940 ATCGATATGA
32366950 GATAGCATGTAAGACCACGTCTAG
1 GATAGCATGTAAGACCACGTCTAG
32366974 GATAGCATGTAAGACCACGTCT
1 GATAGCATGTAAGACCACGTCT
32366996 GGGACGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (24 bp):
GATAGCATGTAAGACCACGTCTAG
Found at i:32369242 original size:16 final size:17
Alignment explanation
Indices: 32369217--32369251 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32369207 ATATAACATT
*
32369217 ATATATTCAAATTATTA
1 ATATATTCAAAATATTA
32369234 ATATA-TCAAAATATTA
1 ATATATTCAAAATATTA
32369250 AT
1 AT
32369252 GATGAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATATTCAAAATATTA
Found at i:32369407 original size:21 final size:21
Alignment explanation
Indices: 32369360--32369399 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32369350 TGTGAACTCG
*
32369360 ATATTTTCTTTTCTAAAATAA
1 ATATTTTATTTTCTAAAATAA
*
32369381 ATATTTTATTTTTTAAAAT
1 ATATTTTATTTTCTAAAAT
32369400 TACTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTATTTTCTAAAATAA
Found at i:32374407 original size:40 final size:37
Alignment explanation
Indices: 32374346--32374466 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 37
32374336 CGACCCGAAT
* *
32374346 TATATATTAAATATATATTTTTATTTTTAATCAAATA
1 TATATATTAAATATTTTTTTTTATTTTTAATCAAATA
* *
32374383 TACTTTTTATTAAATATTTTTTTTTTGGACTTTTAATCCAAAT-
1 TA---TATATTAAATA-TTTTTTTTT--ATTTTTAAT-CAAATA
32374426 TATATATTAAATATATATATTTTTTATTTTTAATCAAATA
1 TATATATTAAATAT-T-T-TTTTTTATTTTTAATCAAATA
32374466 T
1 T
32374467 GGGCCAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
37 2 0.03
39 6 0.09
40 30 0.45
41 8 0.12
42 6 0.09
43 10 0.15
44 5 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (37 bp):
TATATATTAAATATTTTTTTTTATTTTTAATCAAATA
Found at i:32381004 original size:37 final size:37
Alignment explanation
Indices: 32380954--32381028 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
32380944 ATTTGTTGAG
32380954 TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
1 TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
*
32380991 TATGACTCTTATTTCAATCAAATTTGAGAAATAATCT
1 TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
32381028 T
1 T
32381029 CCAGTTAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (37 bp):
TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
Found at i:32384233 original size:128 final size:129
Alignment explanation
Indices: 32384004--32384296 Score: 543
Period size: 129 Copynumber: 2.3 Consensus size: 129
32383994 GGAAACTAGT
*
32384004 GCTTTAATCTACTCCACTGCAACTTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACT
1 GCTTTAATCTGCTCCACTGCAAC-TTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACT
32384069 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCAC-TACAACTTCAGGAAGATAGGATTATCG
65 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
* *
32384133 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTT
32384198 CAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
66 CAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
32384262 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
32384297 TGATTTGCCA
Statistics
Matches: 159, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
128 77 0.48
129 82 0.52
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (129 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTT
CAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
Found at i:32384364 original size:174 final size:172
Alignment explanation
Indices: 32384064--32384518 Score: 595
Period size: 172 Copynumber: 2.6 Consensus size: 172
32384054 CTACTCTCTG
* * * * * * * *
32384064 CAACTTCAGAGAGATAAGA-TCCAAGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGAT
1 CAACTTCAGCGAGATAGGATTAC-AGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* *
32384128 TATCGGC-T-TT-AATCTG-CTCCACTACAACTTCAGG-GAGATAAGACTAAATACGATCTGCTC
65 T-T-GCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAAGACTAAATACGATCTGCTC
32384188 TCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTA
126 TCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACT-CAC-TA
* *
32384237 CAACTTCAG-GAAGATAGGATTATC-GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATATGA
1 CAACTTCAGCG-AGATAGGATTA-CAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA
* * *
32384300 TTTGCCATCTTCAG-CTTGCCTCACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTC
64 TTTGCCATCTTCAGTC-TGCCTCACTACAACTTCAGGAGGATAAGACTAAATACGATCTGCTCTC
* * *
32384364 TGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCTCTCACTG
128 TGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCACTA
32384409 CAACTTCAGCGAGATAGGATTACAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGCGAGATAGGATTACAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
32384474 TGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACT
66 TGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACT
32384519 TGCCTACTTA
Statistics
Matches: 251, Mismatches: 19, Indels: 25
0.85 0.06 0.08
Matches are distributed among these distances:
171 3 0.01
172 105 0.42
173 59 0.24
174 80 0.32
175 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (172 bp):
CAACTTCAGCGAGATAGGATTACAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
TGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTAAATACGATCTGCTCTCTGC
AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCACTA
Found at i:32384460 original size:44 final size:44
Alignment explanation
Indices: 32384004--32384473 Score: 248
Period size: 44 Copynumber: 10.9 Consensus size: 44
32383994 GGAAACTAGT
*
32384004 GCTTTAATCTACTCCACTGCAACTTTCAGGGAGATAAGACTA-A-
1 GCTTTAATCTACTCCACTGCAAC-TTCAGGGAGATAAGATTACAG
* *** * * *
32384047 -ATACGATCTACT-CTCTGCAACTTCAGAGAGATAAGA-TCCAAG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAC-AG
* * * * *
32384089 GTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTATC-G
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTA-CAG
* * *
32384133 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTA-A-
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTACAG
* *** * * * *
32384175 -ATACGATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCCAAG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAC-AG
* * * * *
32384217 GTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATC-G
1 GCTTTAATCTACTCCAC-TGCAACTTCAGGGAGATAAGATTA-CAG
* * *
32384262 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATATGATT--TG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTACAG
* * * * * * *
32384304 CCATCTTCAGCTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTAGAT
1 GC-T-TTAATC-TACTC-CACTGCAACTTCAGGGA-GATAAGATTACAG
* * * *
32384351 GC---GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTA-AG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TACAG
* * *
32384391 GTTTTAATC--CTCTCACTGCAACTTCAGCGAGATAGGATTACAG
1 GCTTTAATCTACTC-CACTGCAACTTCAGGGAGATAAGATTACAG
32384434 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
32384474 TGCCATCTTC
Statistics
Matches: 320, Mismatches: 72, Indels: 69
0.69 0.16 0.15
Matches are distributed among these distances:
39 2 0.01
40 56 0.17
41 27 0.08
42 14 0.04
43 49 0.15
44 109 0.34
45 59 0.18
46 2 0.01
47 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTACAG
Found at i:32384505 original size:45 final size:44
Alignment explanation
Indices: 32384445--32384562 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 44
32384435 CTTTAATCTA
*
32384445 CTCCACTGCAACTTCAGGGAGATAAGATTTGCC-ATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTA-CTT-AGTCTG
*
32384490 C-CTCACTACAACTTCA-GGAGGATAAGACTTGCCTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCTACTTAGTCTG
32384534 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
32384563 CGATCTGTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
44 32 0.49
45 32 0.49
46 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTACTTAGTCTG
Found at i:32384540 original size:89 final size:88
Alignment explanation
Indices: 32384268--32384560 Score: 298
Period size: 89 Copynumber: 3.4 Consensus size: 88
32384258 ATCGGCTTTA
*
32384268 ATCTGCTCCACTGCAACTTCAGGGAGATATGATTTGCCATCTTCAG-CTTGCCTCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC-TGCCTCACTGCAACTT
* *
32384332 CAGGAGGATAAGACTAG-ATGC-G
65 CAGGAGGATAAGACTTGCATGCTT
* * * **** * *
32384354 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATC--CTCTCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTT
* * *
32384415 CAGCGA-GATAGGA-TTACAGGCTTT
65 CAG-GAGGATAAGACTTGCATGC-TT
* *
32384439 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTT
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
* *
32384504 CAGGAGGATAAGACTTGCCTACTT
65 CAGGAGGATAAGACTTGCATGCTT
32384528 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA
32384561 CTCGATCTGT
Statistics
Matches: 161, Mismatches: 32, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
82 2 0.01
83 25 0.16
84 5 0.03
85 25 0.16
86 13 0.08
87 25 0.16
88 8 0.05
89 53 0.33
90 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (88 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
AGGAGGATAAGACTTGCATGCTT
Found at i:32384547 original size:44 final size:45
Alignment explanation
Indices: 32384269--32384562 Score: 178
Period size: 45 Copynumber: 6.7 Consensus size: 45
32384259 TCGGCTTTAA
* *
32384269 TCTGCTCCACTGCAACTTCAGGGAGATATGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* *
32384314 -CTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTAG--A--TGC-G
1 TC-TGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATCTTCAG
* * * * * *
32384354 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAG--GT-TTTAA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATCTTCAG
* * * * * *
32384398 TC--CTCTCACTGCAACTTCAGCGAGATAGGA-TT-ACAGGCTTTAA
1 TCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTGCCA-TCTTCAG
* *
32384441 TCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
*
32384486 TCTGC-CTCACTACAACTTCA-GGAGGATAAGACTTGCC-TACTT-AG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
32384530 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
32384563 CGATCTGTTA
Statistics
Matches: 197, Mismatches: 26, Indels: 53
0.71 0.09 0.19
Matches are distributed among these distances:
40 20 0.10
41 12 0.06
42 3 0.02
43 32 0.16
44 60 0.30
45 68 0.35
46 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:32386591 original size:13 final size:13
Alignment explanation
Indices: 32386575--32386605 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
32386565 ACCCCACATA
32386575 GAGAAAGGCCACG
1 GAGAAAGGCCACG
*
32386588 GAGAAAGGTCACG
1 GAGAAAGGCCACG
32386601 GAGAA
1 GAGAA
32386606 GTCATCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.39, T:0.03
Consensus pattern (13 bp):
GAGAAAGGCCACG
Found at i:32398147 original size:12 final size:12
Alignment explanation
Indices: 32398130--32398154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32398120 GGTGTTCATT
32398130 CGGTTAACCGAC
1 CGGTTAACCGAC
32398142 CGGTTAACCGAC
1 CGGTTAACCGAC
32398154 C
1 C
32398155 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:32398331 original size:9 final size:9
Alignment explanation
Indices: 32398315--32398407 Score: 105
Period size: 9 Copynumber: 10.2 Consensus size: 9
32398305 TTTGGTTAAA
32398315 AATTACCCG
1 AATTACCCG
*
32398324 AGTTACCCG
1 AATTACCCG
32398333 AATTACCCG
1 AATTACCCG
*
32398342 AATTAACCG
1 AATTACCCG
*
32398351 AATTACCTG
1 AATTACCCG
*
32398360 AATTAACCG
1 AATTACCCG
*
32398369 AATTAACCG
1 AATTACCCG
**
32398378 AATTACCATA
1 AATTACC-CG
*
32398388 AAATACCCG
1 AATTACCCG
32398397 AATTACCCG
1 AATTACCCG
32398406 AA
1 AA
32398408 ATTTTTTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
9 63 0.91
10 6 0.09
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:32402399 original size:2 final size:2
Alignment explanation
Indices: 32402387--32402419 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32402377 CAACTGGAGT
*
32402387 TA TA TA AA 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 TA TA TA T
32402420 GTGAGTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32408287 original size:20 final size:20
Alignment explanation
Indices: 32408264--32408301 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32408254 AATATTATGT
*
32408264 TAATTATATATTTTAAATAA
1 TAATTATATATATTAAATAA
32408284 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
32408302 CACGAATCTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:32408444 original size:39 final size:40
Alignment explanation
Indices: 32408399--32408487 Score: 146
Period size: 39 Copynumber: 2.2 Consensus size: 40
32408389 AAAAGCTATA
*
32408399 TTTAATATAATAAAATATTTATTATATTTAT--TTGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATAGTAGTG-TT
32408438 TTTAATATAATAAAATATTTATTATATTTATAGTAGTGTT
1 TTTAATATAATAAAATATTTATTATATTTATAGTAGTGTT
32408478 TTTAATATAA
1 TTTAATATAA
32408488 ATACTTTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
39 31 0.66
40 12 0.26
41 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATTATATTTATAGTAGTGTT
Found at i:32414588 original size:26 final size:26
Alignment explanation
Indices: 32414559--32414608 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
32414549 TAAGTTTGTG
* * *
32414559 TAATTAAATTGTGTATTTATATGTTT
1 TAATTAAATTATATATATATATGTTT
*
32414585 TAATTGAATTATATATATATATGT
1 TAATTAAATTATATATATATATGT
32414609 GTTTGTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (26 bp):
TAATTAAATTATATATATATATGTTT
Found at i:32421770 original size:17 final size:17
Alignment explanation
Indices: 32421748--32421781 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32421738 CACTAACATG
32421748 AAAATGTAATGACAATA
1 AAAATGTAATGACAATA
*
32421765 AAAATGTAATGGCAATA
1 AAAATGTAATGACAATA
32421782 TATACTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (17 bp):
AAAATGTAATGACAATA
Found at i:32422231 original size:21 final size:21
Alignment explanation
Indices: 32422207--32422260 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
32422197 TTCTCATTTT
* *
32422207 CAACTACTTCTTCTTCTTCAC
1 CAACAACTTCTTCTTCTACAC
*
32422228 CAACAACTTCCTCTTCTACAC
1 CAACAACTTCTTCTTCTACAC
32422249 CAACAACTTCTT
1 CAACAACTTCTT
32422261 TCTCAACAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (21 bp):
CAACAACTTCTTCTTCTACAC
Found at i:32439915 original size:18 final size:19
Alignment explanation
Indices: 32439892--32439933 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
32439882 TGTTTTTATA
32439892 AAATTTTAATAA-TTATTG
1 AAATTTTAATAATTTATTG
*
32439910 AAATTTTAATAATTTTTTG
1 AAATTTTAATAATTTATTG
32439929 AAATT
1 AAATT
32439934 ATATATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
AAATTTTAATAATTTATTG
Found at i:32449480 original size:166 final size:165
Alignment explanation
Indices: 32449198--32449693 Score: 749
Period size: 166 Copynumber: 3.0 Consensus size: 165
32449188 CATAACTCAC
* *
32449198 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGATCACTTGTTCAGGTTGGGCAC
1 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
* * *
32449263 CTTGCTCAGCAGTTAACCACCACTGATAAGCTTCGCTCTGGAGTGGGGACACAACACCCCTCAAT
66 CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
*
32449328 TTCTTAGTAGGAATACAGTTAAGGTCTGTCATAACA
131 TT-TTAGTAGGAGTACAGTTAAGGTCTGTCATAACA
* *
32449364 CCCCGTATATTTACCCTGGAAGGCGTTTTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
1 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
* * * * *
32449429 CTTGCTCAACAGTTAACCACCACTGATAAGCTTTGTTTTAGAATAGGGACACAACAGCCCTCAAT
66 CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
* **
32449494 TTTCGAGTAGGAGTACAGTTAAGGTCTGTTGTAACA
131 TTT-TAGTAGGAGTACAGTTAAGGTCTGTCATAACA
** * * *
32449530 CCATGCATATTTACCCTAGAAGGCATTCTTGAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
1 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
* * *
32449595 CTTGCTCAACAGTTAACCACCACTGACAAGCTTCGTTCTGGAGTAGGGACAAAACACCCATCAAT
66 CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
32449660 TTTTGAGTAGGAGTACAGTTAAGGTCTGTCATAA
131 TTTT-AGTAGGAGTACAGTTAAGGTCTGTCATAA
32449694 TACGCTCGGT
Statistics
Matches: 294, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
165 1 0.00
166 293 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (165 bp):
CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
TTTTAGTAGGAGTACAGTTAAGGTCTGTCATAACA
Found at i:32468396 original size:19 final size:20
Alignment explanation
Indices: 32468355--32468399 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
32468345 AAAATAAATA
*
32468355 CCAAAATAAAAATAAAAGTT
1 CCAAAACAAAAATAAAAGTT
*
32468375 CCAAAACAAAATTAAAAG-T
1 CCAAAACAAAAATAAAAGTT
32468394 CCAAAA
1 CCAAAA
32468400 GTCCGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (20 bp):
CCAAAACAAAAATAAAAGTT
Found at i:32468623 original size:26 final size:26
Alignment explanation
Indices: 32468592--32468641 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
32468582 TCAGATCAAA
*
32468592 ATTTTCATATTTTCATAACATATATC
1 ATTTTCATATTTTCAGAACATATATC
*
32468618 ATTTTCATATTTTCAGAACGTATA
1 ATTTTCATATTTTCAGAACATATA
32468642 GCATATCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (26 bp):
ATTTTCATATTTTCAGAACATATATC
Found at i:32474372 original size:16 final size:16
Alignment explanation
Indices: 32474351--32474405 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
32474341 AATGCCATTA
32474351 TTCTAAA-TAATAGTTG
1 TTCTAAACT-ATAGTTG
*
32474367 TTCTAAACTTTAGTTG
1 TTCTAAACTATAGTTG
* *
32474383 TTCTTAAC-ATAAGTTA
1 TTCTAAACTAT-AGTTG
32474399 TTCTAAA
1 TTCTAAA
32474406 ATAACAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (16 bp):
TTCTAAACTATAGTTG
Found at i:32474502 original size:16 final size:16
Alignment explanation
Indices: 32474481--32474522 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
32474471 CATAGTTGTT
*
32474481 TTCTGAACAACAACTG
1 TTCTGAACAACAACTA
*
32474497 TTCTGAGCAACAACTA
1 TTCTGAACAACAACTA
*
32474513 TTCTAAACAA
1 TTCTGAACAA
32474523 GAGTTGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (16 bp):
TTCTGAACAACAACTA
Found at i:32474711 original size:15 final size:15
Alignment explanation
Indices: 32474686--32474728 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32474676 CCTTCTTGTT
32474686 TTTGCATTCTAAAAAA
1 TTTG-ATTCTAAAAAA
*
32474702 TTTGATTCTAAAAAT
1 TTTGATTCTAAAAAA
*
32474717 TTTAATTC-AAAA
1 TTTGATTCTAAAA
32474729 TTAAGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (15 bp):
TTTGATTCTAAAAAA
Found at i:32474718 original size:14 final size:16
Alignment explanation
Indices: 32474686--32474715 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32474676 CCTTCTTGTT
32474686 TTTGCATTCTAAAAAA
1 TTTGCATTCTAAAAAA
32474702 TTTG-ATTCTAAAAA
1 TTTGCATTCTAAAAA
32474716 TTTTAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (16 bp):
TTTGCATTCTAAAAAA
Found at i:32480269 original size:17 final size:17
Alignment explanation
Indices: 32480235--32480278 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
32480225 ATGCTAATGT
*
32480235 TGGCCCAAACGCCTGTG
1 TGGCCCACACGCCTGTG
32480252 TGGCCCACACG-CTCGTG
1 TGGCCCACACGCCT-GTG
*
32480269 TGACCCACAC
1 TGGCCCACAC
32480279 ACCCAACTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.18, C:0.41, G:0.25, T:0.16
Consensus pattern (17 bp):
TGGCCCACACGCCTGTG
Found at i:32482640 original size:39 final size:39
Alignment explanation
Indices: 32482597--32482832 Score: 256
Period size: 39 Copynumber: 6.1 Consensus size: 39
32482587 TTAAATTATG
** *
32482597 AATGTTATGTGATTATACGAGTATTGCAATATATGCTTT
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* *
32482636 AATGTTATGTGATTATACGAGTATTGTAATATATTCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* ** * *
32482675 AATATTATGTGATTATATAAGTATTGTGTTATATGCTTG
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* * * *
32482714 AATGTTATGAGATTCTACAAGTATTGCGATATATGCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
** ** *
32482753 AATGTTATGTGATTATTTGAACATTGTGATATATGCTTG
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* * * * *
32482792 TATGTTAGGTGATTATATGAGTACTATGATATATGCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
32482831 AA
1 AA
32482833 AGTGAATATG
Statistics
Matches: 162, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 162 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (39 bp):
AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
Found at i:32482804 original size:117 final size:117
Alignment explanation
Indices: 32482595--32482829 Score: 299
Period size: 117 Copynumber: 2.0 Consensus size: 117
32482585 TCTTAAATTA
* * * **
32482595 TGAATGTTATGTGATTATACGAGTATTGCAATATATGCTTTAATGTTATGTGATTATACGAGTAT
1 TGAATGTTATGAGATTATACAAGTATTGCAATATATGCTTAAATGTTATGTGATTATACGAACAT
* * * * *
32482660 TGTAATATATTCTTAAATATTATGTGATTATATAAGTATTGTGTTATATGCT
66 TGTAATATATGCTTAAATATTAGGTGATTATATAAGTACTATGATATATGCT
* * **
32482712 TGAATGTTATGAGATTCTACAAGTATTGCGATATATGCTTAAATGTTATGTGATTATTTGAACAT
1 TGAATGTTATGAGATTATACAAGTATTGCAATATATGCTTAAATGTTATGTGATTATACGAACAT
* ** * *
32482777 TGTGATATATGCTTGTATGTTAGGTGATTATATGAGTACTATGATATATGCT
66 TGTAATATATGCTTAAATATTAGGTGATTATATAAGTACTATGATATATGCT
32482829 T
1 T
32482830 AAAAGTGAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 99 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.45
Consensus pattern (117 bp):
TGAATGTTATGAGATTATACAAGTATTGCAATATATGCTTAAATGTTATGTGATTATACGAACAT
TGTAATATATGCTTAAATATTAGGTGATTATATAAGTACTATGATATATGCT
Found at i:32487087 original size:27 final size:21
Alignment explanation
Indices: 32487032--32487076 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
32487022 TGAGTCAAAA
32487032 GTATGAATTTAAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
32487053 GTATGAATTTAAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
32487074 GTA
1 GTA
32487077 GTTATAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (21 bp):
GTATGAATTTAAAATGTTCAT
Found at i:32487326 original size:28 final size:29
Alignment explanation
Indices: 32487294--32487363 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
32487284 GTGTTATATG
* *
32487294 TATAATATATATGTGT-GGTTTTGCTATA
1 TATAATATATATATGTGGGTTTTACTATA
*
32487322 TATAATATATATATGTGGGTTTTATTATA
1 TATAATATATATATGTGGGTTTTACTATA
32487351 TATAATATATATA
1 TATAATATATATA
32487364 CGTTTATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (29 bp):
TATAATATATATATGTGGGTTTTACTATA
Found at i:32488267 original size:21 final size:21
Alignment explanation
Indices: 32488243--32488284 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32488233 TGAGTCAAAA
*
32488243 GTATGAATTTGAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
32488264 GTATGAATTTAAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
32488285 ATAAGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (21 bp):
GTATGAATTTAAAATGTTCAT
Found at i:32488292 original size:21 final size:21
Alignment explanation
Indices: 32488247--32488292 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
32488237 TCAAAAGTAT
* * *
32488247 GAATTTGAAATGTTCATGTAT
1 GAATTTAAAATGTTCATATAA
32488268 GAATTTAAAATGTTCATATAA
1 GAATTTAAAATGTTCATATAA
32488289 GAAT
1 GAAT
32488293 AAAATAGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.39
Consensus pattern (21 bp):
GAATTTAAAATGTTCATATAA
Found at i:32488297 original size:19 final size:20
Alignment explanation
Indices: 32488254--32488297 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
32488244 TATGAATTTG
* *
32488254 AAATGTTCATGTATGAATTTA
1 AAATGTTCATATAAGAA-TTA
32488275 AAATGTTCATATAAGAA-TA
1 AAATGTTCATATAAGAATTA
32488294 AAAT
1 AAAT
32488298 AGGTAGGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (20 bp):
AAATGTTCATATAAGAATTA
Found at i:32488818 original size:29 final size:29
Alignment explanation
Indices: 32488763--32488838 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
32488753 GCATAGGTGT
* *
32488763 TATATGTATATTATATATGTGTGGTTTTGC
1 TATATATATA-TATATATGTGTGGTTTTAC
*
32488793 TATATAATATATATATATGTG-GGTTTTAT
1 TATAT-ATATATATATATGTGTGGTTTTAC
32488822 TATATATAATATATATA
1 TATATAT-ATATATATA
32488839 GGTTTATAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 2 0.05
29 20 0.49
30 15 0.37
31 4 0.10
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (29 bp):
TATATATATATATATATGTGTGGTTTTAC
Found at i:32489873 original size:21 final size:21
Alignment explanation
Indices: 32489848--32489892 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
32489838 TGAGTCAAAA
32489848 GTATGAATTTAAAATGA-TCAT
1 GTATGAATTTAAAAT-ATTCAT
32489869 GTATGAATTTAAAATATTCAT
1 GTATGAATTTAAAATATTCAT
32489890 GTA
1 GTA
32489893 GTTATAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (21 bp):
GTATGAATTTAAAATATTCAT
Found at i:32492856 original size:25 final size:25
Alignment explanation
Indices: 32492828--32492898 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
32492818 AAGCTCTTTT
* *
32492828 GAGCTAAATAATGATAAGCTCCTCC
1 GAGCTGAATAACGATAAGCTCCTCC
*
32492853 GAGCTGAATAACGGTAAGCTCCTCC
1 GAGCTGAATAACGATAAGCTCCTCC
* * *
32492878 AAGCTGAATAGCGGTAAGCTC
1 GAGCTGAATAACGATAAGCTC
32492899 ATATGAGCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (25 bp):
GAGCTGAATAACGATAAGCTCCTCC
Found at i:32492907 original size:25 final size:25
Alignment explanation
Indices: 32492828--32492909 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
32492818 AAGCTCTTTT
* * * * *
32492828 GAGCTAAATAATGATAAGCTCCTCC
1 GAGCTGAATAACGGTAAGCTCATAC
* *
32492853 GAGCTGAATAACGGTAAGCTCCTCC
1 GAGCTGAATAACGGTAAGCTCATAC
* * *
32492878 AAGCTGAATAGCGGTAAGCTCATAT
1 GAGCTGAATAACGGTAAGCTCATAC
32492903 GAGCTGA
1 GAGCTGA
32492910 GTATTGGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCATAC
Found at i:32494575 original size:17 final size:17
Alignment explanation
Indices: 32494468--32494575 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 17
32494458 ATGATAGAGC
*
32494468 ATGAACTGTTATTTTGC
1 ATGAACTGTTATTTTGT
* *
32494485 ATGAATTGTTATTTGGT
1 ATGAACTGTTATTTTGT
* *
32494502 ATGAACTGATATTTTAT
1 ATGAACTGTTATTTTGT
* * * *
32494519 ATGAATTATTTTTTTGC
1 ATGAACTGTTATTTTGT
* * *
32494536 ATGAGCTGTCATTTGGT
1 ATGAACTGTTATTTTGT
* *
32494553 AAGAACTGTTATTTTAT
1 ATGAACTGTTATTTTGT
32494570 ATGAAC
1 ATGAAC
32494576 AAATGTTTTA
Statistics
Matches: 65, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 65 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (17 bp):
ATGAACTGTTATTTTGT
Found at i:32500517 original size:6 final size:6
Alignment explanation
Indices: 32500506--32500540 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
32500496 TTGAATGGTT
32500506 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTC
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTC
32500541 TTGTATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:32501241 original size:29 final size:29
Alignment explanation
Indices: 32501186--32501241 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
32501176 AAAAAAGCCC
*
32501186 TTTTTTAAAAATTTTCCGAAATAGGCCGG
1 TTTTTTAAAAATTTACCGAAATAGGCCGG
** * *
32501215 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAAAAATTTACCGAAATAGGCC
32501242 ATTTTCGCTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (29 bp):
TTTTTTAAAAATTTACCGAAATAGGCCGG
Found at i:32501395 original size:22 final size:22
Alignment explanation
Indices: 32501370--32501438 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
32501360 ACAAATCCCA
*
32501370 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
*
32501392 TCTCAAATTCCTTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
* *
32501414 TCTTAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
32501436 TCT
1 TCT
32501439 TAAACTCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:32501473 original size:21 final size:20
Alignment explanation
Indices: 32501445--32501483 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
32501435 CTCTTAAACT
32501445 CTCAAA-TTCCTTTCAAAATC
1 CTCAAATTTCC-TTCAAAATC
32501465 CTCACAATTTCCTTCAAAA
1 CTCA-AATTTCCTTCAAAA
32501484 AATCTCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (20 bp):
CTCAAATTTCCTTCAAAATC
Found at i:32501474 original size:52 final size:52
Alignment explanation
Indices: 32501391--32501490 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
32501381 TTCAAAAATT
* ** * *
32501391 CTCTCAAATTCCTTCAAAAATTCTCTTAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
32501443 CTCTCAAATTCCTTTC-AAAATCCTCACAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCC-TTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCT
32501491 CAACTCCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 39 0.93
53 3 0.07
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (52 bp):
CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
Found at i:32501565 original size:29 final size:29
Alignment explanation
Indices: 32501527--32501591 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
32501517 ATTCAATTTC
32501527 ATTTTTTTAAGAA-AATTTTAAATATTTTT
1 ATTTTTTTAA-AATAATTTTAAATATTTTT
*
32501556 ATTTTTTTAAAATAATTTTAAATTTTTTT
1 ATTTTTTTAAAATAATTTTAAATATTTTT
*
32501585 ATATTTT
1 ATTTTTT
32501592 CAACAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (29 bp):
ATTTTTTTAAAATAATTTTAAATATTTTT
Found at i:32501574 original size:19 final size:20
Alignment explanation
Indices: 32501542--32501585 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
32501532 TTTAAGAAAA
*
32501542 TTTT-AAAT-ATTTTTATTT
1 TTTTAAAATAATTTTAATTT
32501560 TTTTAAAATAATTTTAAATTT
1 TTTTAAAATAATTTT-AATTT
32501581 TTTTA
1 TTTTA
32501586 TATTTTCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 5 0.23
21 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAAAATAATTTTAATTT
Found at i:32501711 original size:14 final size:15
Alignment explanation
Indices: 32501682--32501715 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32501672 AAATTTTAAA
32501682 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
32501697 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
32501711 TTTTA
1 TTTTA
32501716 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:32505232 original size:126 final size:125
Alignment explanation
Indices: 32505008--32505289 Score: 392
Period size: 126 Copynumber: 2.2 Consensus size: 125
32504998 CATGAGGGCA
* * * *
32505008 CGATTTGACACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCG
1 CGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
** **
32505073 AAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTATCAT-ATAGCATCCTGGTATCAG
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTATC-TGATAGCATCCTGGTAGAAG
32505133 CGATTTTATACTATTTGCTCATAAAACGTCAAAAAAAAATTATTT-CTGACATGACCAACTGT-G
1 CGATTTTATACTATTTGCTCA-AAAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTAG
* *
32505196 CCGAAATGGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAAG
64 -CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTATCTGATAGCATCCTGGTAGAAG
*
32505259 CGATTTTATACTATTTGAC-CAGAAACGTCAA
1 CGATTTTATACTATTTG-CTCAAAAACGTCAA
32505290 CTCGAAATAA
Statistics
Matches: 141, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
125 32 0.23
126 108 0.77
127 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTATCTGATAGCATCCTGGTAGAAG
Found at i:32510929 original size:32 final size:32
Alignment explanation
Indices: 32510893--32510956 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
32510883 ACTTTTTATC
32510893 TTCAAGTCTCTTCACATTACTAACTCTTCATA
1 TTCAAGTCTCTTCACATTACTAACTCTTCATA
* *
32510925 TTCAAGTCTCTTCACATTTCTAACTTTTCATA
1 TTCAAGTCTCTTCACATTACTAACTCTTCATA
32510957 ATTTATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.44
Consensus pattern (32 bp):
TTCAAGTCTCTTCACATTACTAACTCTTCATA
Found at i:32515326 original size:42 final size:41
Alignment explanation
Indices: 32515280--32515382 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 41
32515270 TAACTCTTTA
*
32515280 TATAGGAGTTGTAAGTGACTATTCATCTACATCAC-TAAATGC
1 TATAGGAGTTGT--GTGACTATTCATCTACATAACTTAAATGC
*
32515322 TATAGGAG-T-TGTGACTATTCATTTACATAACTTAAATGC
1 TATAGGAGTTGTGTGACTATTCATCTACATAACTTAAATGC
32515361 TATAGGAG-T-TGTGACTATTCAT
1 TATAGGAGTTGTGTGACTATTCAT
32515383 GCATGAGTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
38 19 0.33
39 29 0.50
40 1 0.02
41 1 0.02
42 8 0.14
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (41 bp):
TATAGGAGTTGTGTGACTATTCATCTACATAACTTAAATGC
Found at i:32515349 original size:38 final size:39
Alignment explanation
Indices: 32515294--32515382 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 39
32515284 GGAGTTGTAA
*
32515294 GTGACTATTCATCTACATCAC-TAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATGCTATAGGAGTT
*
32515332 GTGACTATTCATTTACATAACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATGCTATAGGAGTT
32515371 GTGACTATTCAT
1 GTGACTATTCAT
32515383 GCATGAGTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 19 0.40
39 29 0.60
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (39 bp):
GTGACTATTCATCTACATAACTTAAATGCTATAGGAGTT
Found at i:32515440 original size:32 final size:32
Alignment explanation
Indices: 32515404--32515467 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
32515394 ACTTTTTATC
32515404 TTCAAGTCTCTTCACATTACTAACTCTTCATA
1 TTCAAGTCTCTTCACATTACTAACTCTTCATA
* *
32515436 TTCAAGTCTCTTCACATTTCTAACTTTTCATA
1 TTCAAGTCTCTTCACATTACTAACTCTTCATA
32515468 ATTTATTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.44
Consensus pattern (32 bp):
TTCAAGTCTCTTCACATTACTAACTCTTCATA
Found at i:32518392 original size:28 final size:27
Alignment explanation
Indices: 32518351--32518403 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
32518341 CAATGACAGA
* *
32518351 ATAGAACAATGTGGGCTTTAGCCCACT
1 ATAGAACAAGGTGGGCCTTAGCCCACT
32518378 ATAGAAACAAGGTGGGCCTTAGCCCA
1 ATAG-AACAAGGTGGGCCTTAGCCCA
32518404 ATACAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
ATAGAACAAGGTGGGCCTTAGCCCACT
Found at i:32518413 original size:28 final size:28
Alignment explanation
Indices: 32518355--32518415 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
32518345 GACAGAATAG
* * * * *
32518355 AACAATGTGGGCTTTAGCCCACTATAGA
1 AACAAGGTGGGCCTTAGCCCAATACAAA
32518383 AACAAGGTGGGCCTTAGCCCAATACAAA
1 AACAAGGTGGGCCTTAGCCCAATACAAA
32518411 AACAA
1 AACAA
32518416 TATGCAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (28 bp):
AACAAGGTGGGCCTTAGCCCAATACAAA
Found at i:32518610 original size:27 final size:27
Alignment explanation
Indices: 32518573--32518637 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
32518563 AGCAGAGCTG
32518573 CCAGT-ACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTATATGTGGCAAAGCCA
*
32518599 CCAGTAACAGTATATGTGGCAGAGCCA
1 CCAGTAACAGTATATGTGGCAAAGCCA
*
32518626 CCTGTAACAGTA
1 CCAGTAACAGTA
32518638 CTTTCTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAAAGCCA
Found at i:32518870 original size:27 final size:27
Alignment explanation
Indices: 32518840--32518891 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
32518830 ACGGTCATTT
32518840 TACCCTATAAAGGTATTTCGGTAATCC
1 TACCCTATAAAGGTATTTCGGTAATCC
**
32518867 TACCCTATAGGGGTATTTCGGTAAT
1 TACCCTATAAAGGTATTTCGGTAAT
32518892 TTCACAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
TACCCTATAAAGGTATTTCGGTAATCC
Found at i:32522338 original size:36 final size:36
Alignment explanation
Indices: 32522293--32522372 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
32522283 GTGAACCATG
* *
32522293 TTAACTTGGTGAAT-TATATTATTATGGTGAACTGTA
1 TTAATTTGGTG-ATCTATATTAGTATGGTGAACTGTA
* *
32522329 TTTATTTGGTGATCTGTATTAGTATGGTGAACTGTA
1 TTAATTTGGTGATCTATATTAGTATGGTGAACTGTA
32522365 TTAATTTG
1 TTAATTTG
32522373 CCAAACTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 2 0.05
36 36 0.95
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (36 bp):
TTAATTTGGTGATCTATATTAGTATGGTGAACTGTA
Found at i:32522363 original size:18 final size:17
Alignment explanation
Indices: 32522299--32522367 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 17
32522289 CATGTTAACT
* *
32522299 TGGTGAATTATATTATTA
1 TGGTGAACTGTATTA-TA
*
32522317 TGGTGAACTGTATTTATT
1 TGGTGAACTGTA-TTATA
*
32522335 TGGTGATCTGTATTAGTA
1 TGGTGAACTGTATTA-TA
32522353 TGGTGAACTGTATTA
1 TGGTGAACTGTATTA
32522368 ATTTGCCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
17 3 0.07
18 37 0.86
19 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.46
Consensus pattern (17 bp):
TGGTGAACTGTATTATA
Found at i:32523734 original size:20 final size:20
Alignment explanation
Indices: 32523709--32523747 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
32523699 GCATGAGATG
32523709 TAACATAGAATTTGGTTAAT
1 TAACATAGAATTTGGTTAAT
32523729 TAACATAGAATTTGGTTAA
1 TAACATAGAATTTGGTTAA
32523748 GTCATGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
TAACATAGAATTTGGTTAAT
Found at i:32524335 original size:15 final size:15
Alignment explanation
Indices: 32524311--32524344 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
32524301 GTGAAAATTT
32524311 CATG-CTTCAATCAC
1 CATGTCTTCAATCAC
32524325 CATGTCTTCAATCAC
1 CATGTCTTCAATCAC
32524340 CATGT
1 CATGT
32524345 TATCACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.32
Consensus pattern (15 bp):
CATGTCTTCAATCAC
Found at i:32535537 original size:15 final size:15
Alignment explanation
Indices: 32535513--32535542 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32535503 AATTTCATTC
*
32535513 TTCAATCACCATGTT
1 TTCAAACACCATGTT
32535528 TTCAAACACCATGTT
1 TTCAAACACCATGTT
32535543 ATCACTTAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (15 bp):
TTCAAACACCATGTT
Found at i:32547464 original size:39 final size:39
Alignment explanation
Indices: 32547401--32547480 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
32547391 TCACATTACA
** *
32547401 CATACAATTACATAATGTTGAAGCACATATCGCAATACT
1 CATACAATTACATAACCTTCAAGCACATATCGCAATACT
* * *
32547440 CATATAATTACATAACCTTCAAGCATATATCGCAGTACT
1 CATACAATTACATAACCTTCAAGCACATATCGCAATACT
32547479 CA
1 CA
32547481 AAAACATGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (39 bp):
CATACAATTACATAACCTTCAAGCACATATCGCAATACT
Found at i:32548748 original size:21 final size:22
Alignment explanation
Indices: 32548713--32548763 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
32548703 GCTTTTATTC
* *
32548713 AAAACATGCGATTTAATGGCTA
1 AAAACATGCGATTTAAAGACTA
*
32548735 AAAACATG-GTTTTAAAGACTA
1 AAAACATGCGATTTAAAGACTA
32548756 AATAACAT
1 AA-AACAT
32548764 TTAAAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (22 bp):
AAAACATGCGATTTAAAGACTA
Found at i:32551471 original size:34 final size:34
Alignment explanation
Indices: 32551428--32551495 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
32551418 AGCAGAGATA
32551428 CTTACCTCATTCACTCGTTTAAATGTGGTGTCTT
1 CTTACCTCATTCACTCGTTTAAATGTGGTGTCTT
32551462 CTTACCTCATTCACTCGTTTAAATGTGGTGTCTT
1 CTTACCTCATTCACTCGTTTAAATGTGGTGTCTT
32551496 GTTGCAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (34 bp):
CTTACCTCATTCACTCGTTTAAATGTGGTGTCTT
Found at i:32553430 original size:24 final size:24
Alignment explanation
Indices: 32553398--32553448 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
32553388 TTTAATCCTC
32553398 CTCCTCATTGCCCTAGCCGTTCAT
1 CTCCTCATTGCCCTAGCCGTTCAT
32553422 CTCCTCATTGCCCTAGCCGTTCAT
1 CTCCTCATTGCCCTAGCCGTTCAT
32553446 CTC
1 CTC
32553449 TCTCCCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.43, G:0.12, T:0.33
Consensus pattern (24 bp):
CTCCTCATTGCCCTAGCCGTTCAT
Found at i:32560546 original size:27 final size:27
Alignment explanation
Indices: 32560481--32560551 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
32560471 TCGCTCGAGG
* *
32560481 TGACTGTTATACTCCTATGGGATAAAA
1 TGACTGTTATACCCCTAAGGGATAAAA
* **
32560508 TGACCGAAATACCCCTACAGGG-TAAAA
1 TGACTGTTATACCCCTA-AGGGATAAAA
32560535 TGACTGTTATACCCCTA
1 TGACTGTTATACCCCTA
32560552 GGAATTGAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 32 0.91
28 3 0.09
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (27 bp):
TGACTGTTATACCCCTAAGGGATAAAA
Found at i:32565828 original size:19 final size:19
Alignment explanation
Indices: 32565776--32565831 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
32565766 AAGAACCCTG
32565776 CCATATTTCGAGGTTATTC
1 CCATATTTCGAGGTTATTC
* **
32565795 CC--ACTTC--TTTTATTC
1 CCATATTTCGAGGTTATTC
32565810 CCATATTTCGAGGTTATTC
1 CCATATTTCGAGGTTATTC
32565829 CCA
1 CCA
32565832 CTTCTCTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
15 8 0.30
17 8 0.30
19 11 0.41
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.43
Consensus pattern (19 bp):
CCATATTTCGAGGTTATTC
Found at i:32565969 original size:16 final size:17
Alignment explanation
Indices: 32565928--32565970 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
32565918 TTCTTTCCAT
**
32565928 AGTTGTTCTTAATATAG
1 AGTTGTTCCGAATATAG
32565945 AGATTGTTCCGAATA-AG
1 AG-TTGTTCCGAATATAG
32565962 AGTTGTTCC
1 AGTTGTTCC
32565971 ATAGTGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (17 bp):
AGTTGTTCCGAATATAG
Found at i:32566151 original size:16 final size:16
Alignment explanation
Indices: 32566110--32566154 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
32566100 TTCTAAATAA
* *
32566110 TAGTTGTTCTGAACAT
1 TAGTTGTTCTCAACAG
* *
32566126 TAGCTATTCTCAACAG
1 TAGTTGTTCTCAACAG
32566142 TAGTTGTTCTCAA
1 TAGTTGTTCTCAA
32566155 ATAACAACAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (16 bp):
TAGTTGTTCTCAACAG
Found at i:32566260 original size:16 final size:16
Alignment explanation
Indices: 32566239--32566271 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32566229 TCTTCGATCG
*
32566239 ACAACTGTTCTGAACA
1 ACAACTATTCTGAACA
32566255 ACAACTATTCTGAACA
1 ACAACTATTCTGAACA
32566271 A
1 A
32566272 GAGTTGTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (16 bp):
ACAACTATTCTGAACA
Found at i:32568288 original size:12 final size:12
Alignment explanation
Indices: 32568271--32568296 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32568261 AGTTTGAGGA
32568271 TTGTTGTTATTG
1 TTGTTGTTATTG
32568283 TTGTTGTTATTG
1 TTGTTGTTATTG
32568295 TT
1 TT
32568297 CATCAACTCC
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:0.08, C:0.00, G:0.23, T:0.69
Consensus pattern (12 bp):
TTGTTGTTATTG
Found at i:32576812 original size:21 final size:21
Alignment explanation
Indices: 32576787--32576866 Score: 108
Period size: 21 Copynumber: 3.8 Consensus size: 21
32576777 ATGCCAACAA
32576787 AAGCTCATAAGAGCTGAAAAG
1 AAGCTCATAAGAGCTGAAAAG
* *
32576808 AAGCTCAAAAGAGCTGAACAG
1 AAGCTCATAAGAGCTGAAAAG
*
32576829 AAGCTCATAATAGCTGAACAA-
1 AAGCTCATAAGAGCTGAA-AAG
*
32576850 AAGCTCTTAAGAGCTGA
1 AAGCTCATAAGAGCTGA
32576867 TCCACCCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 50 0.98
22 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (21 bp):
AAGCTCATAAGAGCTGAAAAG
Found at i:32579240 original size:48 final size:46
Alignment explanation
Indices: 32579187--32579330 Score: 164
Period size: 46 Copynumber: 3.1 Consensus size: 46
32579177 ATTTGAGTTA
* * *
32579187 AACCTACATGAATGATGAATCATATTGTCTGGTCACCCGTTAAGGTTG
1 AACCTACATGAAT-ATG-ATAATAGTGTCTGTTCACCCGTTAAGGTTG
* * * *
32579235 AACCTACATGAATCTGATAATAGTGTCAGTTCACCCATTAAAGTTG
1 AACCTACATGAATATGATAATAGTGTCTGTTCACCCGTTAAGGTTG
* * *
32579281 AACCTACACGAATCA-GATAATAGTGCCTGTTCACCCGTTAGGGTTG
1 AACCTACATGAAT-ATGATAATAGTGTCTGTTCACCCGTTAAGGTTG
32579327 AACC
1 AACC
32579331 CAAACAACAA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 66 0.81
47 2 0.02
48 13 0.16
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (46 bp):
AACCTACATGAATATGATAATAGTGTCTGTTCACCCGTTAAGGTTG
Found at i:32583346 original size:3 final size:3
Alignment explanation
Indices: 32583338--32583368 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
32583328 ATGCTTTCTA
32583338 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
32583369 GTTAACAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32587157 original size:5 final size:5
Alignment explanation
Indices: 32587147--32587177 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
32587137 TGAGCATTCG
*
32587147 ATCGA ATCGA ATCGA ATTGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
32587178 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:32587275 original size:5 final size:5
Alignment explanation
Indices: 32587267--32587292 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32587257 GAGATAGAAT
32587267 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
32587293 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:32588097 original size:9 final size:9
Alignment explanation
Indices: 32588083--32588119 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
32588073 TATAGTTTGA
32588083 TATTCGAAT
1 TATTCGAAT
32588092 TATTCGAAT
1 TATTCGAAT
*
32588101 TATTCGAGT
1 TATTCGAAT
32588110 TATTCGAAT
1 TATTCGAAT
32588119 T
1 T
32588120 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Done.