Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 83 of 93
Found at i:32008099 original size:2 final size:2
Alignment explanation
Indices: 32008076--32008118 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
32008066 CTTTTAACTT
* * *
32008076 TC TC T- TC TC TG TC TC CC TC TC TC TC TC TC TC TC TT TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
32008117 TC
1 TC
32008119 ACAATCAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.47, G:0.02, T:0.51
Consensus pattern (2 bp):
TC
Found at i:32014227 original size:107 final size:107
Alignment explanation
Indices: 32014024--32014229 Score: 245
Period size: 107 Copynumber: 1.9 Consensus size: 107
32014014 ATACAAAGTG
* * * * * * **
32014024 TAAAAGGGTTCTTTGTTATGGGGAGATGAAGCGTTGCAAACAAGTAAAAGATGTATCGGAGATGG
1 TAAAAAGGTTCTTTGTAATAGGGAGATGAAGCGTTACAAACAAGTAAAAGATGTACCAGAGACAG
* * *
32014089 TGGAGAGGAAAATCGGAGCAATTCCCAAAGTACTCCAAAATA
66 CGGAGAGGAAAATCAGAACAATTCCCAAAGTACTCCAAAATA
*
32014131 TAAAAAGGTTCTTTGTAATAGGGAGA-GAAAGTGTTACAAACAAGTAAAAGATGTACCAGAGACA
1 TAAAAAGGTTCTTTGTAATAGGGAGATG-AAGCGTTACAAACAAGTAAAAGATGTACCAGAGACA
* **
32014195 GCGGAGA-GAAAGATCAGAACAGTTCCTGAAGTACT
65 GCGGAGAGGAAA-ATCAGAACAATTCCCAAAGTACT
32014230 TAGTGTCGTG
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
106 5 0.06
107 77 0.94
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (107 bp):
TAAAAAGGTTCTTTGTAATAGGGAGATGAAGCGTTACAAACAAGTAAAAGATGTACCAGAGACAG
CGGAGAGGAAAATCAGAACAATTCCCAAAGTACTCCAAAATA
Found at i:32030960 original size:2 final size:2
Alignment explanation
Indices: 32030953--32030985 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32030943 ACAAATCTTC
32030953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32030986 GTATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32031279 original size:7 final size:7
Alignment explanation
Indices: 32031224--32031282 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
32031214 CATATTAGAT
*
32031224 TTTAAAA
1 TTTAAGA
*
32031231 TTTATGA
1 TTTAAGA
32031238 TTTAAGA
1 TTTAAGA
32031245 TTTATA-A
1 TTTA-AGA
32031252 TTT-AGA
1 TTTAAGA
*
32031258 GTTTAAAA
1 -TTTAAGA
*
32031266 TTGAAGA
1 TTTAAGA
32031273 TTTAAGA
1 TTTAAGA
32031280 TTT
1 TTT
32031283 TTAAATTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
5 1 0.02
6 1 0.02
7 36 0.88
8 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (7 bp):
TTTAAGA
Found at i:32043776 original size:20 final size:20
Alignment explanation
Indices: 32043751--32043792 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
32043741 TCAAAAACTA
32043751 TGCACAACACATTTCATGCC
1 TGCACAACACATTTCATGCC
32043771 TGCACAACACATTTCATGCC
1 TGCACAACACATTTCATGCC
32043791 TG
1 TG
32043793 TACCACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
TGCACAACACATTTCATGCC
Found at i:32065601 original size:20 final size:23
Alignment explanation
Indices: 32065573--32065617 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
32065563 ATTTCTATTT
32065573 AAACTTATAATAC-T-AAATATA
1 AAACTTATAATACATAAAATATA
*
32065594 AAAC-TATAATGCATAAAATATA
1 AAACTTATAATACATAAAATATA
32065616 AA
1 AA
32065618 TAGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (23 bp):
AAACTTATAATACATAAAATATA
Found at i:32066053 original size:12 final size:14
Alignment explanation
Indices: 32066030--32066066 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
32066020 CATATGAGCA
*
32066030 AATAGTATAAAAA-
1 AATAATATAAAAAT
32066043 AATAA-ATAAAAAT
1 AATAATATAAAAAT
32066056 AATAATATAAA
1 AATAATATAAA
32066067 TTGAAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 7 0.33
13 9 0.43
14 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
AATAATATAAAAAT
Found at i:32074262 original size:21 final size:21
Alignment explanation
Indices: 32074236--32074282 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
32074226 ATACCCACAA
*
32074236 AACCACCTCAAAAACCACCGC
1 AACCACCACAAAAACCACCGC
* *
32074257 AACCACCAGAACAACCACCGC
1 AACCACCACAAAAACCACCGC
32074278 AACCA
1 AACCA
32074283 AACTCGCCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.47, G:0.06, T:0.02
Consensus pattern (21 bp):
AACCACCACAAAAACCACCGC
Found at i:32084897 original size:51 final size:50
Alignment explanation
Indices: 32084779--32084898 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 50
32084769 CGTTGCTGGA
* * * *
32084779 GGTGGAGGTATTGGGGTTGGTGGAGGAGTGGGAGGTGGTGGTGCAAGTGTT
1 GGTGGAGGT-GTGGGGTTAGTGGAGGAATGGGAGGTGGTGGTGCAAGTGGT
* * ***
32084830 GGAGGTGGTGTCGGGGTTAGTGGAGGAATGGGAGGTGGTGGTGGTGGTGGT
1 GGTGGAGGTGT-GGGGTTAGTGGAGGAATGGGAGGTGGTGGTGCAAGTGGT
32084881 GGTGGAGGTGCTGGGGTT
1 GGTGGAGGTG-TGGGGTT
32084899 GGTGTAAGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
50 1 0.02
51 54 0.96
52 1 0.02
ACGTcount: A:0.12, C:0.03, G:0.59, T:0.27
Consensus pattern (50 bp):
GGTGGAGGTGTGGGGTTAGTGGAGGAATGGGAGGTGGTGGTGCAAGTGGT
Found at i:32087667 original size:12 final size:12
Alignment explanation
Indices: 32087650--32087674 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32087640 TAGTGGAAGA
32087650 GTAACTGGTGGT
1 GTAACTGGTGGT
32087662 GTAACTGGTGGT
1 GTAACTGGTGGT
32087674 G
1 G
32087675 GAGTGGGTGG
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:0.16, C:0.08, G:0.44, T:0.32
Consensus pattern (12 bp):
GTAACTGGTGGT
Found at i:32087928 original size:24 final size:24
Alignment explanation
Indices: 32087896--32087978 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
32087886 TGCTGGAAGT
32087896 GCTGGTGGTGGCATTAGTAGAGGC
1 GCTGGTGGTGGCATTAGTAGAGGC
* * * *
32087920 GCTGGTGGTGGTATT-GCTGGAAGT
1 GCTGGTGGTGGCATTAG-TAGAGGC
32087944 GCTGGTGGTGGCATTAGTAGAGGC
1 GCTGGTGGTGGCATTAGTAGAGGC
32087968 GCTGGTGGTGG
1 GCTGGTGGTGG
32087979 TATAGGTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.02
24 47 0.96
25 1 0.02
ACGTcount: A:0.13, C:0.11, G:0.48, T:0.28
Consensus pattern (24 bp):
GCTGGTGGTGGCATTAGTAGAGGC
Found at i:32087937 original size:48 final size:48
Alignment explanation
Indices: 32087885--32087981 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
32087875 AGTAGTGATG
32087885 TTGCTGGAAGTGCTGGTGGTGGCATTAGTAGAGGCGCTGGTGGTGGTA
1 TTGCTGGAAGTGCTGGTGGTGGCATTAGTAGAGGCGCTGGTGGTGGTA
32087933 TTGCTGGAAGTGCTGGTGGTGGCATTAGTAGAGGCGCTGGTGGTGGTA
1 TTGCTGGAAGTGCTGGTGGTGGCATTAGTAGAGGCGCTGGTGGTGGTA
32087981 T
1 T
32087982 AGGTTAAGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.14, C:0.10, G:0.45, T:0.30
Consensus pattern (48 bp):
TTGCTGGAAGTGCTGGTGGTGGCATTAGTAGAGGCGCTGGTGGTGGTA
Found at i:32088036 original size:23 final size:24
Alignment explanation
Indices: 32087992--32088037 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
32087982 AGGTTAAGGT
* **
32087992 GCTAGTGGTGGCGTAGGTGGAGGG
1 GCTAGTGGTGGCATAGACGGAGGG
32088016 GCTAGT-GTGGCATAGACGGAGG
1 GCTAGTGGTGGCATAGACGGAGG
32088038 TGTTGGTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.17, C:0.11, G:0.52, T:0.20
Consensus pattern (24 bp):
GCTAGTGGTGGCATAGACGGAGGG
Found at i:32088138 original size:48 final size:48
Alignment explanation
Indices: 32088072--32088166 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
32088062 TATTAAGGTT
* * * * *
32088072 GGTGGAAGTGCTGGTGGTGGTATAGGTGGAGGTGCTAGTGGTGGTGCA
1 GGTGGAAGAGCTAGTGGTGGTATAAGTAGAGGTGCTAGTGGTAGTGCA
* *
32088120 GGTGGAAGAGCTAGTGGTGGTGTAAGTAGAGGTGTTAGTGGTAGTGC
1 GGTGGAAGAGCTAGTGGTGGTATAAGTAGAGGTGCTAGTGGTAGTGC
32088167 TGGAAGTGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.18, C:0.05, G:0.49, T:0.27
Consensus pattern (48 bp):
GGTGGAAGAGCTAGTGGTGGTATAAGTAGAGGTGCTAGTGGTAGTGCA
Found at i:32088158 original size:24 final size:24
Alignment explanation
Indices: 32087963--32088161 Score: 108
Period size: 24 Copynumber: 8.6 Consensus size: 24
32087953 GGCATTAGTA
* * * *
32087963 GAGGCGCTGGTGGTGGTATAGGTT
1 GAGGTGCTAGTGGTGGTGTAGGTG
* *
32087987 AAGGTGCTAGTGGTGGCGTAGGTG
1 GAGGTGCTAGTGGTGGTGTAGGTG
* ** **
32088011 GAGGGGCTAGT-GTGGCATAGACG
1 GAGGTGCTAGTGGTGGTGTAGGTG
*
32088034 GAGGTG-T--TGGTGGTAGT-GTTG
1 GAGGTGCTAGTGGTGGT-GTAGGTG
* ***
32088055 GAGGTGGTA-TTAAGGT-T-GGTG
1 GAGGTGCTAGTGGTGGTGTAGGTG
* * *
32088076 GAAGTGCTGGTGGTGGTATAGGTG
1 GAGGTGCTAGTGGTGGTGTAGGTG
*
32088100 GAGGTGCTAGTGGTGGTGCAGGTG
1 GAGGTGCTAGTGGTGGTGTAGGTG
* * * *
32088124 GAAGAGCTAGTGGTGGTGTAAGTA
1 GAGGTGCTAGTGGTGGTGTAGGTG
*
32088148 GAGGTGTTAGTGGT
1 GAGGTGCTAGTGGT
32088162 AGTGCTGGAA
Statistics
Matches: 130, Mismatches: 38, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
20 1 0.01
21 22 0.17
22 7 0.05
23 19 0.15
24 81 0.62
ACGTcount: A:0.17, C:0.06, G:0.49, T:0.28
Consensus pattern (24 bp):
GAGGTGCTAGTGGTGGTGTAGGTG
Found at i:32088279 original size:57 final size:57
Alignment explanation
Indices: 32088217--32088333 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 57
32088207 ATGGGTGGTA
* ** *
32088217 GTGGTGGAAGAGGTAATAGTTGCGTAAGTAGAGGTGTTGGTGGTGGCATAGGTGGAG
1 GTGGTGGAAGAGGTAATAGTGGCACAAGTAAAGGTGTTGGTGGTGGCATAGGTGGAG
* * **
32088274 GTGGTGGAGGAGGTAGTAGTGGCACAAGTAAAGGTGTTGGTGGTGGTGTAGGTGGAG
1 GTGGTGGAAGAGGTAATAGTGGCACAAGTAAAGGTGTTGGTGGTGGCATAGGTGGAG
32088331 GTG
1 GTG
32088334 CCATTGGTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.21, C:0.03, G:0.50, T:0.26
Consensus pattern (57 bp):
GTGGTGGAAGAGGTAATAGTGGCACAAGTAAAGGTGTTGGTGGTGGCATAGGTGGAG
Found at i:32088341 original size:24 final size:24
Alignment explanation
Indices: 32088313--32088373 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
32088303 AAAGGTGTTG
32088313 GTGGTGGTGTAGGTGGAGGTGCCA
1 GTGGTGGTGTAGGTGGAGGTGCCA
* * * * *
32088337 TTGGTGGTATAGTTGGATGTGCTA
1 GTGGTGGTGTAGGTGGAGGTGCCA
*
32088361 GTGGTGGCGTAGG
1 GTGGTGGTGTAGG
32088374 CAGAGGAGCT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.07, G:0.49, T:0.31
Consensus pattern (24 bp):
GTGGTGGTGTAGGTGGAGGTGCCA
Found at i:32088446 original size:30 final size:30
Alignment explanation
Indices: 32088412--32088478 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
32088402 AGTGTTAGTA
32088412 GTAGTGGAGAAGCAGAAAGTGGAATGGGTG
1 GTAGTGGAGAAGCAGAAAGTGGAATGGGTG
* * * *
32088442 GTAGTGAAGGAGCAGGAGGTGGAATGGGTG
1 GTAGTGGAGAAGCAGAAAGTGGAATGGGTG
*
32088472 GTGGTGG
1 GTAGTGG
32088479 TGGCATGGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.52, T:0.18
Consensus pattern (30 bp):
GTAGTGGAGAAGCAGAAAGTGGAATGGGTG
Found at i:32088475 original size:33 final size:33
Alignment explanation
Indices: 32088438--32088501 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
32088428 AAGTGGAATG
32088438 GGTGGTAGT-G-AAGGAGCAGGAGGTGGAATGGGT
1 GGTGGTAGTGGCAAGG-G-AGGAGGTGGAATGGGT
* *
32088471 GGTGGTGGTGGCATGGGAGGAGGTGGAATGG
1 GGTGGTAGTGGCAAGGGAGGAGGTGGAATGG
32088502 CTGATGATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 22 0.81
34 2 0.07
35 3 0.11
ACGTcount: A:0.20, C:0.03, G:0.58, T:0.19
Consensus pattern (33 bp):
GGTGGTAGTGGCAAGGGAGGAGGTGGAATGGGT
Found at i:32088513 original size:36 final size:33
Alignment explanation
Indices: 32088455--32088531 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 33
32088445 GTGAAGGAGC
*
32088455 AGGAGGTGGAATGGGTGGTGGTGGTGGCATGGG
1 AGGAGGTGGAATGGGTGATGGTGGTGGCATGGG
*
32088488 AGGAGGTGGAATGGCTGATGATGGTGGTGGCGTGGG
1 AGGAGGTGGAATGG--G-TGATGGTGGTGGCATGGG
*
32088524 AAGAGGTG
1 AGGAGGTG
32088532 CTGGTGTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 14 0.37
35 1 0.03
36 23 0.61
ACGTcount: A:0.18, C:0.04, G:0.57, T:0.21
Consensus pattern (33 bp):
AGGAGGTGGAATGGGTGATGGTGGTGGCATGGG
Found at i:32088685 original size:24 final size:24
Alignment explanation
Indices: 32088653--32088718 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
32088643 GTGTGGTTGG
*
32088653 TGGTGGTGGCATGGGCAAAGGTGT
1 TGGTGGTGGCATAGGCAAAGGTGT
* *
32088677 TGGTGGTGGCATAGACAGAGGTGT
1 TGGTGGTGGCATAGGCAAAGGTGT
*
32088701 TAGTGGTGGCATAGGCAA
1 TGGTGGTGGCATAGGCAA
32088719 GGATGCTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.21, C:0.09, G:0.45, T:0.24
Consensus pattern (24 bp):
TGGTGGTGGCATAGGCAAAGGTGT
Found at i:32106626 original size:13 final size:13
Alignment explanation
Indices: 32106610--32106648 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
32106600 TTTTATCAAT
32106610 ATTTATAATAAAC
1 ATTTATAATAAAC
*
32106623 ATTTATAATAAAA
1 ATTTATAATAAAC
32106636 ATTT-TAA-AAAC
1 ATTTATAATAAAC
32106647 AT
1 AT
32106649 AATCAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 5 0.21
12 3 0.12
13 16 0.67
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTATAATAAAC
Found at i:32106931 original size:19 final size:21
Alignment explanation
Indices: 32106894--32106935 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
32106884 TCATAAATAT
32106894 TATAAATTATAAAATTATAGA
1 TATAAATTATAAAATTATAGA
32106915 TATAAATTA-AAAA-TATAGA
1 TATAAATTATAAAATTATAGA
32106934 TA
1 TA
32106936 ACAGATAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
TATAAATTATAAAATTATAGA
Found at i:32112868 original size:2 final size:2
Alignment explanation
Indices: 32112861--32112894 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32112851 AGATTATTTA
32112861 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
32112895 TTATGAACCT
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:32117354 original size:5 final size:5
Alignment explanation
Indices: 32117344--32117371 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32117334 AAACAGTGAG
32117344 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
32117372 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:32118559 original size:15 final size:16
Alignment explanation
Indices: 32118539--32118571 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32118529 TTGGGGTTGG
32118539 TTTTTTTCTTTC-TTT
1 TTTTTTTCTTTCATTT
*
32118554 TTTTTTTTTTTCATTT
1 TTTTTTTCTTTCATTT
32118570 TT
1 TT
32118572 GCCTCATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTCTTTCATTT
Found at i:32120360 original size:2 final size:2
Alignment explanation
Indices: 32120353--32120377 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32120343 ATTACAATTA
32120353 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
32120378 AGATGGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32177744 original size:28 final size:28
Alignment explanation
Indices: 32177713--32177772 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
32177703 AACAATAACA
*
32177713 TTTTAAATACTAAAGTGTAATAA-AATGT
1 TTTTAAATA-TAAAGTGTAATAATAATAT
* * *
32177741 TTTTGAATATGACGTGTAATAATAATAT
1 TTTTAAATATAAAGTGTAATAATAATAT
32177769 TTTT
1 TTTT
32177773 TCAACATGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (28 bp):
TTTTAAATATAAAGTGTAATAATAATAT
Found at i:32177785 original size:29 final size:28
Alignment explanation
Indices: 32177727--32177907 Score: 79
Period size: 27 Copynumber: 6.3 Consensus size: 28
32177717 AAATACTAAA
* * * *
32177727 GTGTAATAA-AATGTTTTTGAATATGAC
1 GTGTAACAATAATTTTTTTCAACATGAC
* *
32177754 GTGTAATAATAATATTTTTTCAACATGGC
1 GTGTAACAATAAT-TTTTTTCAACATGAC
32177783 GTGTAACAATAAAATATTTTTTTTTCAACATGAC
1 GTGTAACAAT---A-A--TTTTTTTCAACATGAC
** **
32177817 GTGTAACAA-CCTTTTTTT-AACGATGGG
1 GTGTAACAATAATTTTTTTCAAC-ATGAC
* **
32177844 GTGT---AAT-ATGTTTTTGTACATGAC
1 GTGTAACAATAATTTTTTTCAACATGAC
* *
32177868 GTGTAACAACAATATTTTTTTACAACATGGC
1 GTGTAACAA-TA-ATTTTTTT-CAACATGAC
32177899 GTGTAACAA
1 GTGTAACAA
32177908 CTTAACCATG
Statistics
Matches: 116, Mismatches: 20, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
24 15 0.13
25 2 0.02
26 3 0.03
27 25 0.22
28 3 0.03
29 20 0.17
30 7 0.06
31 15 0.13
32 1 0.01
33 1 0.01
34 23 0.20
35 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (28 bp):
GTGTAACAATAATTTTTTTCAACATGAC
Found at i:32177802 original size:31 final size:33
Alignment explanation
Indices: 32177758--32177825 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
32177748 TATGACGTGT
*
32177758 AATAATAATA-TTTTTTCAACATGGCGTGTAAC
1 AATAATAATATTTTTTTCAACATGACGTGTAAC
32177790 AATAA-AATATTTTTTTTTCAACATGACGTGTAAC
1 AATAATAATA--TTTTTTTCAACATGACGTGTAAC
32177824 AA
1 AA
32177826 CCTTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 4 0.12
32 5 0.16
34 23 0.72
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (33 bp):
AATAATAATATTTTTTTCAACATGACGTGTAAC
Found at i:32177946 original size:24 final size:24
Alignment explanation
Indices: 32177914--32177971 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
32177904 ACAACTTAAC
* *
32177914 CATGGCGTGTCACATGTTTTTGTT
1 CATGGCGTGTCACATGTTTCTGTA
32177938 CATGGCGTGTCACATGTTTCTGTA
1 CATGGCGTGTCACATGTTTCTGTA
*
32177962 CATGGTGTGT
1 CATGGCGTGT
32177972 AACAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.14, C:0.17, G:0.28, T:0.41
Consensus pattern (24 bp):
CATGGCGTGTCACATGTTTCTGTA
Found at i:32177987 original size:45 final size:45
Alignment explanation
Indices: 32177938--32178037 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
32177928 TGTTTTTGTT
* * * *
32177938 CATGGCGTGTCACATGTTTCTGTACATGGTGTGTAACAATATAAC
1 CATGGCGTGTCACATGTTTCTATACATAGTGTATAACAACATAAC
* * * * *
32177983 CATGGTGTGTCATATGTTTTTATACATAGTGTATAACAACCTAAT
1 CATGGCGTGTCACATGTTTCTATACATAGTGTATAACAACATAAC
32178028 CATGGCGTGT
1 CATGGCGTGT
32178038 AACAATCTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (45 bp):
CATGGCGTGTCACATGTTTCTATACATAGTGTATAACAACATAAC
Found at i:32178041 original size:21 final size:21
Alignment explanation
Indices: 32178013--32178062 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
32178003 TATACATAGT
*
32178013 GTATAACAACCTAATCATGGC
1 GTATAACAACCTAATCATGAC
* *
32178034 GTGTAACAATCTAATCATGAC
1 GTATAACAACCTAATCATGAC
32178055 GTATAACA
1 GTATAACA
32178063 TATTTTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (21 bp):
GTATAACAACCTAATCATGAC
Found at i:32178085 original size:24 final size:22
Alignment explanation
Indices: 32178023--32178087 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
32178013 GTATAACAAC
32178023 CTAATCATGGCGTGTAACA-AT
1 CTAATCATGGCGTGTAACATAT
* *
32178044 CTAATCATGACGTATAACATATT
1 CTAATCATGGCGTGTAACATA-T
* *
32178067 TTTATACATGGCGTGTAACAT
1 CTAAT-CATGGCGTGTAACAT
32178088 CATAACATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 17 0.49
22 1 0.03
23 4 0.11
24 13 0.37
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (22 bp):
CTAATCATGGCGTGTAACATAT
Found at i:32179221 original size:13 final size:13
Alignment explanation
Indices: 32179203--32179237 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
32179193 ATGATGCGTG
32179203 TTTGGTTGCAATT
1 TTTGGTTGCAATT
32179216 TTTGGTGTTGCAATT
1 TTT-G-GTTGCAATT
32179231 TTTGGTT
1 TTTGGTT
32179238 TTTATTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 2 0.10
15 12 0.60
ACGTcount: A:0.11, C:0.06, G:0.26, T:0.57
Consensus pattern (13 bp):
TTTGGTTGCAATT
Found at i:32179227 original size:15 final size:15
Alignment explanation
Indices: 32179207--32179236 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32179197 TGCGTGTTTG
32179207 GTTGCAATTTTTGGT
1 GTTGCAATTTTTGGT
32179222 GTTGCAATTTTTGGT
1 GTTGCAATTTTTGGT
32179237 TTTTATTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.27, T:0.53
Consensus pattern (15 bp):
GTTGCAATTTTTGGT
Found at i:32179470 original size:26 final size:25
Alignment explanation
Indices: 32179440--32179547 Score: 78
Period size: 31 Copynumber: 4.0 Consensus size: 25
32179430 CAATAATATT
32179440 TTTTTTCAACATGGCGTGTAACAACC
1 TTTTTT-AACATGGCGTGTAACAACC
*
32179466 TTTTTTAACTATGACGTGTAAC-A--
1 TTTTTTAAC-ATGGCGTGTAACAACC
* *
32179489 TGTTTTTATATATGGCGTGTAACAACGGTATT
1 T-TTTTTA-ACATGGCGTGTAACAAC-----C
32179521 TTTTTTCAACATGGCGTGTAACAACC
1 TTTTTT-AACATGGCGTGTAACAACC
32179547 T
1 T
32179548 AACCATAACT
Statistics
Matches: 65, Mismatches: 5, Indels: 24
0.69 0.05 0.26
Matches are distributed among these distances:
23 1 0.02
24 17 0.26
25 6 0.09
26 18 0.28
31 21 0.32
32 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (25 bp):
TTTTTTAACATGGCGTGTAACAACC
Found at i:32179502 original size:24 final size:24
Alignment explanation
Indices: 32179467--32179512 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
32179457 GTAACAACCT
32179467 TTTTTAACTATGACGTGTAACATG
1 TTTTTAACTATGACGTGTAACATG
*
32179491 TTTTTATA-TATGGCGTGTAACA
1 TTTTTA-ACTATGACGTGTAACA
32179513 ACGGTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTTTAACTATGACGTGTAACATG
Found at i:32179508 original size:81 final size:76
Alignment explanation
Indices: 32179393--32179584 Score: 217
Period size: 81 Copynumber: 2.4 Consensus size: 76
32179383 TACCTAGCAT
*
32179393 TAACGTGTAACAAAATGTTTTTGAATATAT--CGTGTAACAATAATATTTTTTTTCAACATGGCG
1 TAACGTGTAAC---ATGTTTTT--ATATATGGCGTGTAACAACAATATTTTTTTTCAACATGGCG
*
32179456 TGTAACAACCTTTTTTAACTA
61 TGTAACAACC-----TAACCA
* **
32179477 TGACGTGTAACATGTTTTTATATATGGCGTGTAACAACGGTATTTTTTTTCAACATGGCGTGTAA
1 TAACGTGTAACATGTTTTTATATATGGCGTGTAACAACAATATTTTTTTTCAACATGGCGTGTAA
32179542 CAACCTAACCA
66 CAACCTAACCA
* *
32179553 TAACTTGTCACATGTTTTTATATATGGCGTGT
1 TAACGTGTAACATGTTTTTATATATGGCGTGT
32179585 CTCATGTTTC
Statistics
Matches: 98, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
76 34 0.35
79 6 0.06
81 48 0.49
84 10 0.10
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (76 bp):
TAACGTGTAACATGTTTTTATATATGGCGTGTAACAACAATATTTTTTTTCAACATGGCGTGTAA
CAACCTAACCA
Found at i:32179590 original size:24 final size:24
Alignment explanation
Indices: 32179558--32179817 Score: 265
Period size: 24 Copynumber: 10.8 Consensus size: 24
32179548 AACCATAACT
* *
32179558 TGTCACATGTTTTTATATATGGCG
1 TGTCACATGTTTTTGTACATGGCG
* *
32179582 TGTCTCATGTTTCTT-TACATGGTG
1 TGTCACATGTTT-TTGTACATGGCG
* *
32179606 TGTCACATGTTCCTT-TACATGACG
1 TGTCACATGTT-TTTGTACATGGCG
* *
32179630 TGTCACATATTTTTGTACATGGCA
1 TGTCACATGTTTTTGTACATGGCG
* *
32179654 TGTCACATGTTTCTGTACATAGCG
1 TGTCACATGTTTTTGTACATGGCG
* *
32179678 TGTCACATGTTTATGTACATGACG
1 TGTCACATGTTTTTGTACATGGCG
* *
32179702 TGTCACATGTTTCTGTACATGACG
1 TGTCACATGTTTTTGTACATGGCG
* *
32179726 TGTCACATGTTCCTT-TACATAGCG
1 TGTCACATGTT-TTTGTACATGGCG
* * *
32179750 TGTCACATATTTTTATACATGGTG
1 TGTCACATGTTTTTGTACATGGCG
* * *
32179774 TGTCACATATTTCTGTACATGGTG
1 TGTCACATGTTTTTGTACATGGCG
*
32179798 TGTCACATGTTTCTGTACAT
1 TGTCACATGTTTTTGTACAT
32179818 AGTGAAAACA
Statistics
Matches: 201, Mismatches: 30, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.02
24 194 0.97
25 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (24 bp):
TGTCACATGTTTTTGTACATGGCG
Found at i:32179681 original size:72 final size:71
Alignment explanation
Indices: 32179558--32179819 Score: 308
Period size: 72 Copynumber: 3.6 Consensus size: 71
32179548 AACCATAACT
* * * * * * * * *
32179558 TGTCACATGTTTTTATATATGGCGTGTCTCATGTTTCTTTACATGGTGTGTCACATGTTCCTTTA
1 TGTCACATATTTCTGTACATGGCGTGTCACATGTTTCTGTACATAGCGTGTCACATGTT-ATTTA
32179623 CATGACG
65 CATGACG
* * *
32179630 TGTCACATATTTTTGTACATGGCATGTCACATGTTTCTGTACATAGCGTGTCACATGTTTATGTA
1 TGTCACATATTTCTGTACATGGCGTGTCACATGTTTCTGTACATAGCGTGTCACATG-TTATTTA
32179695 CATGACG
65 CATGACG
* * * * * *
32179702 TGTCACATGTTTCTGTACATGACGTGTCACATGTTCCTTTACATAGCGTGTCACATATTTTTATA
1 TGTCACATATTTCTGTACATGGCGTGTCACATGTTTCTGTACATAGCGTGTCACATGTTATT-TA
**
32179767 CATGGTG
65 CATGACG
*
32179774 TGTCACATATTTCTGTACATGGTGTGTCACATGTTTCTGTACATAG
1 TGTCACATATTTCTGTACATGGCGTGTCACATGTTTCTGTACATAG
32179820 TGAAAACATC
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
71 3 0.02
72 157 0.97
73 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (71 bp):
TGTCACATATTTCTGTACATGGCGTGTCACATGTTTCTGTACATAGCGTGTCACATGTTATTTAC
ATGACG
Found at i:32179817 original size:48 final size:48
Alignment explanation
Indices: 32179558--32179817 Score: 295
Period size: 48 Copynumber: 5.4 Consensus size: 48
32179548 AACCATAACT
* * * * * *
32179558 TGTCACATGTTTTTATATATGGCGTGTCTCATGTTTCTTTACATGGTG
1 TGTCACATGTTTCTGTACATGGCGTGTCACATGTTTCTGTACATGGCG
* * * * * *
32179606 TGTCACATGTTCCTTTACATGACGTGTCACATATTTTTGTACATGGCA
1 TGTCACATGTTTCTGTACATGGCGTGTCACATGTTTCTGTACATGGCG
* * *
32179654 TGTCACATGTTTCTGTACATAGCGTGTCACATGTTTATGTACATGACG
1 TGTCACATGTTTCTGTACATGGCGTGTCACATGTTTCTGTACATGGCG
* * * *
32179702 TGTCACATGTTTCTGTACATGACGTGTCACATGTTCCTTTACATAGCG
1 TGTCACATGTTTCTGTACATGGCGTGTCACATGTTTCTGTACATGGCG
* * * * * *
32179750 TGTCACATATTTTTATACATGGTGTGTCACATATTTCTGTACATGGTG
1 TGTCACATGTTTCTGTACATGGCGTGTCACATGTTTCTGTACATGGCG
32179798 TGTCACATGTTTCTGTACAT
1 TGTCACATGTTTCTGTACAT
32179818 AGTGAAAACA
Statistics
Matches: 173, Mismatches: 39, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 173 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (48 bp):
TGTCACATGTTTCTGTACATGGCGTGTCACATGTTTCTGTACATGGCG
Found at i:32183742 original size:15 final size:15
Alignment explanation
Indices: 32183718--32183778 Score: 95
Period size: 15 Copynumber: 4.1 Consensus size: 15
32183708 TATTGTCTTC
*
32183718 CTTGCAATCACATTG
1 CTTGCAATCACATTA
*
32183733 CTTACAATCACATTA
1 CTTGCAATCACATTA
32183748 CTTGCAATCACATTA
1 CTTGCAATCACATTA
*
32183763 CTTGTAATCACATTA
1 CTTGCAATCACATTA
32183778 C
1 C
32183779 ATTGTAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (15 bp):
CTTGCAATCACATTA
Found at i:32184230 original size:17 final size:18
Alignment explanation
Indices: 32184194--32184231 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
32184184 ATTTTATATT
32184194 AATATTTTAATAGTTTAA
1 AATATTTTAATAGTTTAA
32184212 AATATATTTAA-AG-TTAA
1 AATAT-TTTAATAGTTTAA
32184229 AAT
1 AAT
32184232 TTAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
AATATTTTAATAGTTTAA
Found at i:32186172 original size:111 final size:111
Alignment explanation
Indices: 32185970--32186190 Score: 415
Period size: 111 Copynumber: 2.0 Consensus size: 111
32185960 ATAAAAAAGA
*
32185970 GCCTCACTTTTCTGAGTTGGCCTTCTTATATTAGCATAGTTCGTTGTTTTACAAATCCACAAGCT
1 GCCTAACTTTTCTGAGTTGGCCTTCTTATATTAGCATAGTTCGTTGTTTTACAAATCCACAAGCT
*
32186035 GAAACTAGGCCAATCCTACCTGATCTAACCATTTGAATTGTTTTCT
66 GAAACTAGGCCAATCCTACCTCATCTAACCATTTGAATTGTTTTCT
32186081 GCCTAACTTTTCTGAGTTGGCCTTCTTATATTAGCATAGTTCGTTGTTTTACAAATCCACAAGCT
1 GCCTAACTTTTCTGAGTTGGCCTTCTTATATTAGCATAGTTCGTTGTTTTACAAATCCACAAGCT
*
32186146 GAAACTAGGCTAATCCTACCTCATCTAACCATTTGAATTGTTTTC
66 GAAACTAGGCCAATCCTACCTCATCTAACCATTTGAATTGTTTTC
32186191 CCATCCTTTC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (111 bp):
GCCTAACTTTTCTGAGTTGGCCTTCTTATATTAGCATAGTTCGTTGTTTTACAAATCCACAAGCT
GAAACTAGGCCAATCCTACCTCATCTAACCATTTGAATTGTTTTCT
Found at i:32186702 original size:223 final size:225
Alignment explanation
Indices: 32186311--32186761 Score: 667
Period size: 223 Copynumber: 2.0 Consensus size: 225
32186301 TTTTTTTCAG
*
32186311 AATAAATTACAAAACGCTCTTAAGTTTTAATCATATATAATTCTACACGGGTCTATTAATTTTTA
1 AATAAATTACAAAACACTCTTAAGTTTTAATCATATAT-ATTCTACACGGGTCTATTAATTTTTA
* *
32186376 AATGAACACTCCGTCTCAAATATGTAAACAATATTAATACTTAAACGTAAAATGTCTAAAATACA
65 AATGAACACTCCGTATCAAATATGTAAACAATATTAATACTTAAACGTAAAATGTCAAAAATACA
* * *
32186441 TTTATTCTTTTTTCACTTTTTTCTTTTCTCTTTGATCTACCAATAACGTTCTCTTACACCAATTT
130 TTTATTCTTTTTTCACTTTTTTCTTTTATCTTTGATCTACCAATAACATTCTCTTACACCAATTC
32186506 TGTAATTTGATTGACAAGAATTAATATGATA
195 TGTAATTTGATTGACAAGAATTAATATGATA
* * *
32186537 AATAAATTACATAACACTCTTAAGTTTTAATCATA-AT-TTC-ACATGGGTTTATTAATTTTTAA
1 AATAAATTACAAAACACTCTTAAGTTTTAATCATATATATTCTACACGGGTCTATTAATTTTT-A
* * * ** * * * *
32186599 AATGAACATTCTGTATCAAATGTGTAAATGATGTTAAT-GTCTAAACGTGAAATGTCAAAAATAT
65 AATGAACACTCCGTATCAAATATGTAAACAATATTAATACT-TAAACGTAAAATGTCAAAAATAC
* *
32186663 ATTTATTCTTTTTTTACTTTTTTCTTTTATCTTTGATCTACCGATAACATTCTCTTACACCAATT
129 ATTTATTCTTTTTTCACTTTTTTCTTTTATCTTTGATCTACCAATAACATTCTCTTACACCAATT
32186728 CTGTAATTTGATTGACAAGAATTAATATGATA
194 CTGTAATTTGATTGACAAGAATTAATATGATA
32186760 AA
1 AA
32186762 CTTGTATCCG
Statistics
Matches: 203, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
222 19 0.09
223 149 0.73
225 2 0.01
226 33 0.16
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (225 bp):
AATAAATTACAAAACACTCTTAAGTTTTAATCATATATATTCTACACGGGTCTATTAATTTTTAA
ATGAACACTCCGTATCAAATATGTAAACAATATTAATACTTAAACGTAAAATGTCAAAAATACAT
TTATTCTTTTTTCACTTTTTTCTTTTATCTTTGATCTACCAATAACATTCTCTTACACCAATTCT
GTAATTTGATTGACAAGAATTAATATGATA
Found at i:32191036 original size:13 final size:13
Alignment explanation
Indices: 32191020--32191046 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32191010 CAATTAATCC
32191020 AATAATTTAATTA
1 AATAATTTAATTA
32191033 AATAATTTAATTA
1 AATAATTTAATTA
32191046 A
1 A
32191047 GTCCTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTTAATTA
Found at i:32191128 original size:36 final size:35
Alignment explanation
Indices: 32191081--32191196 Score: 126
Period size: 36 Copynumber: 3.3 Consensus size: 35
32191071 AATTGTTTAC
*
32191081 TTTAATAAATTAAGTCAAATAACTTAATTAAACAAT
1 TTTAATCAATTAAGTC-AATAACTTAATTAAACAAT
* * * *
32191117 TTTAATCAATTAGGCTCAATGATTTATTTAAACAA-
1 TTTAATCAATTAAG-TCAATAACTTAATTAAACAAT
* * *
32191152 TTTAATTAATTAAGCCCAACAACTTAATTAAACAAT
1 TTTAATCAATTAAG-TCAATAACTTAATTAAACAAT
32191188 TTTAATCAA
1 TTTAATCAA
32191197 GTAATTGAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
35 28 0.43
36 35 0.54
37 2 0.03
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (35 bp):
TTTAATCAATTAAGTCAATAACTTAATTAAACAAT
Found at i:32191183 original size:35 final size:35
Alignment explanation
Indices: 32191081--32191189 Score: 119
Period size: 35 Copynumber: 3.1 Consensus size: 35
32191071 AATTGTTTAC
* *
32191081 TTTAATAAATTAAGTCAAATAACTTAATTAAACAA
1 TTTAATAAATTAAGCCCAATAACTTAATTAAACAA
* * * * * *
32191116 TTTTAATCAATTAGGCTCAATGATTTATTTAAACAA
1 -TTTAATAAATTAAGCCCAATAACTTAATTAAACAA
* *
32191152 TTTAATTAATTAAGCCCAACAACTTAATTAAACAA
1 TTTAATAAATTAAGCCCAATAACTTAATTAAACAA
32191187 TTT
1 TTT
32191190 TAATCAAGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
35 31 0.53
36 27 0.47
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.38
Consensus pattern (35 bp):
TTTAATAAATTAAGCCCAATAACTTAATTAAACAA
Found at i:32191900 original size:10 final size:10
Alignment explanation
Indices: 32191870--32191928 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 10
32191860 AGACACCTAA
32191870 AAAATA-AAT
1 AAAATATAAT
* *
32191879 AAAAAAT-TT
1 AAAATATAAT
*
32191888 AAATTATAAT
1 AAAATATAAT
*
32191898 AAAATAAAAT
1 AAAATATAAT
32191908 AAAATATAA-
1 AAAATATAAT
32191917 AAAATA-AAT
1 AAAATATAAT
32191926 AAA
1 AAA
32191929 GAAAATAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
8 2 0.05
9 20 0.51
10 17 0.44
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATATAAT
Found at i:32191923 original size:27 final size:26
Alignment explanation
Indices: 32191867--32191936 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
32191857 TGTAGACACC
* * **
32191867 TAAAAAATAAATAAAAAATTTAAATTA
1 TAAAAAATAAA-ATAAAATATAAAAAA
32191894 TAATAAAATAAAATAAAATATAAAAAA
1 TAA-AAAATAAAATAAAATATAAAAAA
*
32191921 TAAATAAAGAAAATAA
1 TAAA-AAATAAAATAA
32191937 TTAAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.03
27 27 0.75
28 8 0.22
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.24
Consensus pattern (26 bp):
TAAAAAATAAAATAAAATATAAAAAA
Found at i:32191933 original size:13 final size:12
Alignment explanation
Indices: 32191868--32191945 Score: 54
Period size: 13 Copynumber: 6.5 Consensus size: 12
32191858 GTAGACACCT
32191868 AAAAAATAAATA
1 AAAAAATAAATA
* *
32191880 AAAAATTTAAATT
1 AAAAA-ATAAATA
* *
32191893 ATAATA-AAAT-
1 AAAAAATAAATA
*
32191903 AAAATA-AAATA
1 AAAAAATAAATA
32191914 TAAAAAATAAATA
1 -AAAAAATAAATA
*
32191927 AAGAAAATAATTA
1 AA-AAAATAAATA
32191940 AAAAAA
1 AAAAAA
32191946 AGAGGTATGG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
10 9 0.17
11 4 0.08
12 16 0.30
13 24 0.45
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (12 bp):
AAAAAATAAATA
Found at i:32191946 original size:13 final size:13
Alignment explanation
Indices: 32191895--32191946 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
32191885 TTTAAATTAT
32191895 AATAAAATAAAATAA
1 AATAAAA-AAAAT-A
*
32191910 AATATAAAAAATA
1 AATAAAAAAAATA
*
32191923 AATAAAGAAAATA
1 AATAAAAAAAATA
*
32191936 ATTAAAAAAAA
1 AATAAAAAAAA
32191947 GAGGTATGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 21 0.66
14 5 0.16
15 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AATAAAAAAAATA
Found at i:32192194 original size:13 final size:12
Alignment explanation
Indices: 32192175--32192212 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
32192165 AGAACCCCCA
32192175 AAAAAAAAGAAG
1 AAAAAAAAGAAG
32192187 ACAAAAAAA-AAG
1 A-AAAAAAAGAAG
32192199 AAAGAAAAAGAAG
1 AAA-AAAAAGAAG
32192212 A
1 A
32192213 GAGAGAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.09
12 10 0.43
13 11 0.48
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:32202099 original size:62 final size:62
Alignment explanation
Indices: 32202023--32202204 Score: 282
Period size: 58 Copynumber: 3.0 Consensus size: 62
32202013 GCATTAAAGA
*
32202023 ATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
1 ATTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
* * * * *
32202085 ATTTAAATCAAACCTGTTTTGAGATAAGTCGAGCCTAAATTAAGTTTAGGAATTTCAA---T
1 ATTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
32202144 -TTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
1 ATTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
32202205 NNNNNNNNNN
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
58 52 0.49
59 1 0.01
61 1 0.01
62 52 0.49
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (62 bp):
ATTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
Found at i:32204126 original size:3 final size:3
Alignment explanation
Indices: 32204120--32204159 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
32204110 AAAAAATGAA
32204120 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
32204160 TCATGAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32206710 original size:34 final size:34
Alignment explanation
Indices: 32206668--32206756 Score: 144
Period size: 33 Copynumber: 2.6 Consensus size: 34
32206658 CAAAATTTTA
*
32206668 CACTTTTCAGGCTCCAAAACCAGCAAAAAAATGG
1 CACTTTTCAGCCTCCAAAACCAGCAAAAAAATGG
**
32206702 CTTTTTTCAGCCTCC-AAACCAGCAAAAAAATGG
1 CACTTTTCAGCCTCCAAAACCAGCAAAAAAATGG
32206735 CACTTTTCAGCCTCCAAAACCA
1 CACTTTTCAGCCTCCAAAACCA
32206757 ACCCTTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
33 31 0.63
34 18 0.37
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.21
Consensus pattern (34 bp):
CACTTTTCAGCCTCCAAAACCAGCAAAAAAATGG
Found at i:32217491 original size:73 final size:73
Alignment explanation
Indices: 32217372--32217591 Score: 359
Period size: 73 Copynumber: 3.0 Consensus size: 73
32217362 CCATTCAATC
* * * *
32217372 AAATGAGTATGTTAACGCTATGGCTTATACTTGCTTCTTTAATTTGTTGCCAGTTCCCACCTGCT
1 AAATGAGTATGTTAACGCTATCGCTTATGCTCGCTTCTTTAATTTGTTGCCAGTTCCCACATGCT
32217437 GCAGCAGG
66 GCAGCAGG
* * *
32217445 AAATGAGAACGTTAACGCTATCGATTATGCTCGCTTCTTTAATTTGTTGCCAGTTCCCACATGCT
1 AAATGAGTATGTTAACGCTATCGCTTATGCTCGCTTCTTTAATTTGTTGCCAGTTCCCACATGCT
32217510 GCAGCAGG
66 GCAGCAGG
* *
32217518 AAATGAGTATGTCAACGCTATCGCTTACGCTCGCTTCTTTAATTTGTTGCCAGTTCCCACATGCT
1 AAATGAGTATGTTAACGCTATCGCTTATGCTCGCTTCTTTAATTTGTTGCCAGTTCCCACATGCT
32217583 GCAGCAGG
66 GCAGCAGG
32217591 A
1 A
32217592 GATGTTTGGG
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 135 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (73 bp):
AAATGAGTATGTTAACGCTATCGCTTATGCTCGCTTCTTTAATTTGTTGCCAGTTCCCACATGCT
GCAGCAGG
Found at i:32221024 original size:30 final size:30
Alignment explanation
Indices: 32220990--32221048 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
32220980 TCACAAGTAC
* *
32220990 TTATTTGATTAGAAATAAAAGTACAAAAAT
1 TTATTTGACTACAAATAAAAGTACAAAAAT
*
32221020 TTATTTGACTCCAAATAAAAGTACAAAAA
1 TTATTTGACTACAAATAAAAGTACAAAAA
32221049 CTTGATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (30 bp):
TTATTTGACTACAAATAAAAGTACAAAAAT
Found at i:32222493 original size:51 final size:51
Alignment explanation
Indices: 32222388--32222530 Score: 193
Period size: 51 Copynumber: 2.9 Consensus size: 51
32222378 AATTCTAATT
* * *
32222388 ATAATTTTACCACCATAAGTGGAT-AATAATTTTACCATCAGAATCTAAGA
1 ATAATTTTACCACCAGAAGTGGATGGATAATTTTACCATCAAAATCTAAGA
* * * *
32222438 ATAATTTTACCACCAGAAGTGAATGGATAATTTTACTATTAAAATCTAAGG
1 ATAATTTTACCACCAGAAGTGGATGGATAATTTTACCATCAAAATCTAAGA
*
32222489 ATAATTTTACCACTAGAAGTGGATGGATAA-TTTACCA-CAAAA
1 ATAATTTTACCACCAGAAGTGGATGGATAATTTTACCATCAAAA
32222531 AGTGGATAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 4 0.05
50 28 0.35
51 49 0.60
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (51 bp):
ATAATTTTACCACCAGAAGTGGATGGATAATTTTACCATCAAAATCTAAGA
Found at i:32222522 original size:25 final size:26
Alignment explanation
Indices: 32222388--32222537 Score: 103
Period size: 25 Copynumber: 5.9 Consensus size: 26
32222378 AATTCTAATT
* * *
32222388 ATAATTTTACCACCATAAGTGGAT-A
1 ATAATTTTACCACTAGAAGTGGATGG
** * *
32222413 ATAATTTTACCA-TCAGAA-TCTAAGA
1 ATAATTTTACCACT-AGAAGTGGATGG
* *
32222438 ATAATTTTACCACCAGAAGTGAATGG
1 ATAATTTTACCACTAGAAGTGGATGG
* * * ** *
32222464 ATAATTTTACTATTA-AAATCTAAGG
1 ATAATTTTACCACTAGAAGTGGATGG
32222489 ATAATTTTACCACTAGAAGTGGATGG
1 ATAATTTTACCACTAGAAGTGGATGG
* *
32222515 ATAA-TTTACCACAAAAAGTGGAT
1 ATAATTTTACCACTAGAAGTGGAT
32222538 AAATGTTGTA
Statistics
Matches: 95, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
24 2 0.02
25 68 0.72
26 25 0.26
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (26 bp):
ATAATTTTACCACTAGAAGTGGATGG
Found at i:32222719 original size:18 final size:18
Alignment explanation
Indices: 32222692--32222730 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
32222682 CTTAACCCAC
32222692 TAACCCACCAGAAGTGAA
1 TAACCCACCAGAAGTGAA
* *
32222710 TAACCTACCAGAAGTGGA
1 TAACCCACCAGAAGTGAA
32222728 TAA
1 TAA
32222731 ATAATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.15
Consensus pattern (18 bp):
TAACCCACCAGAAGTGAA
Found at i:32223144 original size:37 final size:37
Alignment explanation
Indices: 32223073--32223144 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
32223063 TCCTTTAATA
* *
32223073 TGTTTTCATTATATTTAAATGATATGTTCTTATTATG
1 TGTTTTAATTATATTTAAATGATATGTTCATATTATG
*
32223110 TGTTTTAATTATACATTT-AATGTTAT-TTCATATTA
1 TGTTTTAATTAT--ATTTAAATGATATGTTCATATTA
32223145 ACTTGTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 19 0.63
38 7 0.23
39 4 0.13
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (37 bp):
TGTTTTAATTATATTTAAATGATATGTTCATATTATG
Found at i:32227403 original size:24 final size:26
Alignment explanation
Indices: 32227376--32227430 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
32227366 TATGAAATAG
32227376 ATATACAATAAT-AAT-TATATT-ATC
1 ATATACAATAATGAATGTATATTGA-C
**
32227400 ATATTTAATAATGAATGTATATTGAC
1 ATATACAATAATGAATGTATATTGAC
32227426 ATATA
1 ATATA
32227431 TAAATATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 10 0.40
25 3 0.12
26 11 0.44
27 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (26 bp):
ATATACAATAATGAATGTATATTGAC
Found at i:32227612 original size:22 final size:21
Alignment explanation
Indices: 32227555--32227618 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
32227545 TTTTATTTTT
*
32227555 ATTTTTTATTATAATCTTATATA
1 ATTTTTTA-TAT-TTCTTATATA
* *
32227578 TTTTATTTTTATTTCTTAATATA
1 ATTT-TTTATATTTCTT-ATATA
*
32227601 ATTTTTTATATTTTTTAT
1 ATTTTTTATATTTCTTAT
32227619 TTTAATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 14 0.42
23 14 0.42
24 3 0.09
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTTATATTTCTTATATA
Found at i:32227621 original size:35 final size:33
Alignment explanation
Indices: 32227540--32227614 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
32227530 TTTAAATGTC
* *
32227540 ATATATTTTATTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTTATTTCTTAATATAATCTT
*
32227573 ATATATTTTATTTTTATTTCTTAATATAATTTT
1 ATATATTTTATTTTTATTTCTTAATATAATCTT
*
32227606 TTATATTTT
1 ATATATTTT
32227615 TTATTTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTCTTAATATAATCTT
Found at i:32227630 original size:26 final size:27
Alignment explanation
Indices: 32227542--32227632 Score: 75
Period size: 26 Copynumber: 3.4 Consensus size: 27
32227532 TAAATGTCAT
*
32227542 ATATT-TTATTTT-TATTTTTTATTATA
1 ATATTATT-TTTTATATTTTTTATTTTA
* *
32227568 ATCTTATATATTTTAT-TTTTATT-TCTTA
1 ATATTAT-T-TTTTATATTTT-TTATTTTA
*
32227596 ATATAATTTTTTATATTTTTTATTTTA
1 ATATTATTTTTTATATTTTTTATTTTA
32227623 AT-TTATTTTT
1 ATATTATTTTT
32227633 CTTTTAAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
26 19 0.37
27 12 0.23
28 18 0.35
29 3 0.06
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (27 bp):
ATATTATTTTTTATATTTTTTATTTTA
Found at i:32244250 original size:17 final size:18
Alignment explanation
Indices: 32244212--32244252 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
32244202 TTATTTTTAA
*
32244212 TTTTATATTATTATTATT
1 TTTTATATTATTATTATG
32244230 TTTTATATT-TTAGTT-TG
1 TTTTATATTATTA-TTATG
32244247 TTTTAT
1 TTTTAT
32244253 TATAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTATATTATTATTATG
Found at i:32244250 original size:18 final size:18
Alignment explanation
Indices: 32244194--32244238 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
32244184 AGCCATCCCC
*
32244194 TTTTTT-TATTATTTTTA
1 TTTTTTATATTATTATTA
*
32244211 -ATTTTATATTATTATTA
1 TTTTTTATATTATTATTA
32244228 TTTTTTATATT
1 TTTTTTATATT
32244239 TTAGTTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTATATTATTATTA
Found at i:32244285 original size:17 final size:17
Alignment explanation
Indices: 32244196--32244287 Score: 50
Period size: 17 Copynumber: 5.3 Consensus size: 17
32244186 CCATCCCCTT
32244196 TTTTTA-TTATTT-TTA
1 TTTTTATTTATTTATTA
*
32244211 ATTTTATATTA-TTATTA
1 TTTTTAT-TTATTTATTA
*
32244228 TTTTT-TATATTTTAGTT-
1 TTTTTATTTA-TTTA-TTA
**
32244245 TGTTTTATTATAATTTTAAAA
1 T-TTTTATT-T-A-TTTATTA
32244266 TTTTTATTTATTTATTA
1 TTTTTATTTATTTATTA
32244283 TTTTT
1 TTTTT
32244288 CTCTTTCAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
15 7 0.12
16 3 0.05
17 24 0.41
18 7 0.12
19 2 0.03
20 8 0.14
21 7 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTTATTTATTTATTA
Found at i:32244744 original size:118 final size:117
Alignment explanation
Indices: 32244617--32244928 Score: 403
Period size: 127 Copynumber: 2.6 Consensus size: 117
32244607 AATAACTATT
* * * *
32244617 GAAAAAAAAAGTAATAACCATATGGAAGGAAGGAAGCGTTTTAGGGTTTTCCTTTTTCGGGCAAT
1 GAAAAAAAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTT-GGGTTTTCCTTTTT-AGGCAAT
32244682 ATTGCCAAGTGTTAAGT-AAGGAAGCCCTTTGAGGTTTCCTATTG-AAAACCAAA
64 ATTGCCAAGTGTTAAGTCAA-GAAGCCCTTTGAGGTTTCCTATTGAAAAACCAAA
32244735 GAAAAAAAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGGACTTTCCTCCTTAAGAATAT
1 GAAAAAAAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGG--TTT--TCCTT-----T-T
* * *
32244800 TAAGCAATATTGCCAAGTGTTAAGTCAAGAAGCCCTTTGAGGTTTCTTATTGAAAAATCAAA
56 TAGGCAATATTGCCAAGTGTTAAGTCAAGAAGCCCTTTGAGGTTTCCTATTGAAAAACCAAA
* * *
32244862 GAAAAAAAAAGTAATAATCATGTAGAAGGAAGGAAGCCTTTTGGGCTTTCCTCTTTAGGCAATAT
1 GAAAAAAAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGGTTTTCCTTTTTAGGCAATAT
32244927 TG
66 TG
32244929 TCTAAGGTGG
Statistics
Matches: 171, Mismatches: 11, Indels: 25
0.83 0.05 0.12
Matches are distributed among these distances:
117 15 0.09
118 40 0.23
119 3 0.02
121 5 0.03
123 4 0.02
125 2 0.01
126 46 0.27
127 56 0.33
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (117 bp):
GAAAAAAAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGGTTTTCCTTTTTAGGCAATAT
TGCCAAGTGTTAAGTCAAGAAGCCCTTTGAGGTTTCCTATTGAAAAACCAAA
Found at i:32244841 original size:126 final size:126
Alignment explanation
Indices: 32244677--32244914 Score: 417
Period size: 127 Copynumber: 1.9 Consensus size: 126
32244667 CCTTTTTCGG
32244677 GCAATATTGCCAAGTGTTAAGTAAGGAAGCCCTTTGAGGTTTCCTATTG-AAAACCAAAGAAAAA
1 GCAATATTGCCAAGTGTTAAGTAAGGAAGCCCTTTGAGGTTTCCTATTGAAAAACCAAAGAAAAA
32244741 AAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGGACTTTCCTCCTTAAGAATATTAA
66 AAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGG-CTTTCCTCCTTAAGAATATTAA
* *
32244803 GCAATATTGCCAAGTGTTAAGTCAA-GAAGCCCTTTGAGGTTTCTTATTGAAAAATCAAAGAAAA
1 GCAATATTGCCAAGTGTTAAGT-AAGGAAGCCCTTTGAGGTTTCCTATTGAAAAACCAAAGAAAA
*
32244867 AAAAAGTAATAATCATGTAGAAGGAAGGAAGCCTTTTGGGCTTTCCTC
65 AAAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGGCTTTCCTC
32244915 TTTAGGCAAT
Statistics
Matches: 107, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
126 53 0.50
127 54 0.50
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (126 bp):
GCAATATTGCCAAGTGTTAAGTAAGGAAGCCCTTTGAGGTTTCCTATTGAAAAACCAAAGAAAAA
AAAAGTAATAATCATATAGAAGGAAGGAAGCCTTTTGGGCTTTCCTCCTTAAGAATATTAA
Found at i:32244979 original size:15 final size:15
Alignment explanation
Indices: 32244959--32245027 Score: 102
Period size: 15 Copynumber: 4.6 Consensus size: 15
32244949 TTTACCATGC
*
32244959 AATGTGATTACAGGT
1 AATGTGATTACAAGT
*
32244974 AATGTGATTATAAGT
1 AATGTGATTACAAGT
32244989 AATGTGATTACAAGT
1 AATGTGATTACAAGT
**
32245004 AATGTGATTACAAAC
1 AATGTGATTACAAGT
32245019 AATGTGATT
1 AATGTGATT
32245028 GTAGGGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (15 bp):
AATGTGATTACAAGT
Found at i:32245288 original size:33 final size:33
Alignment explanation
Indices: 32245246--32245331 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
32245236 TTTTAATGTC
*
32245246 ATATATTTTATTTTTATTTC-TTATTATAATCTT
1 ATATATTTTATTTTTATTTCTTTAATATAAT-TT
32245279 ATATATTTTATTTTTATTTCTTTAATATAATTT
1 ATATATTTTATTTTTATTTCTTTAATATAATTT
* *
32245312 TTATATTATATTTTATATTT
1 ATATATTTTATTTT-TATTT
32245332 TATTTTACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 34 0.71
34 14 0.29
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTCTTTAATATAATTT
Found at i:32245321 original size:14 final size:12
Alignment explanation
Indices: 32245247--32245343 Score: 60
Period size: 11 Copynumber: 8.1 Consensus size: 12
32245237 TTTAATGTCA
32245247 TATATTTTAT-T
1 TATATTTTATAT
*
32245258 TTTATTTCT-TAT
1 TATATTT-TATAT
32245270 TATAATCTTATATAT
1 TAT-AT-TT-TATAT
*
32245285 TTTATTTT-TAT
1 TATATTTTATAT
* *
32245296 T-TCTTTAATAT
1 TATATTTTATAT
*
32245307 AAT-TTTTATAT
1 TATATTTTATAT
32245318 TATATTTTATAT
1 TATATTTTATAT
*
32245330 TTTATTTTACTAT
1 TATATTTTA-TAT
32245343 T
1 T
32245344 TTTTATTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
10 4 0.06
11 23 0.34
12 22 0.33
13 8 0.12
14 5 0.07
15 5 0.07
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:32245331 original size:20 final size:21
Alignment explanation
Indices: 32245308--32245352 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
32245298 CTTTAATATA
32245308 ATTTTTATATTA-TATTTTAT
1 ATTTTTATATTACTATTTTAT
* *
32245328 A-TTTTATTTTACTATTTTTT
1 ATTTTTATATTACTATTTTAT
32245348 ATTTT
1 ATTTT
32245353 AATTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 9 0.43
20 9 0.43
21 3 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTTATATTACTATTTTAT
Found at i:32249105 original size:18 final size:18
Alignment explanation
Indices: 32249082--32249142 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
32249072 ATGGGACGGT
32249082 TTTTATTATTTTTTTTTA
1 TTTTATTATTTTTTTTTA
*
32249100 TTTTATTTTTTAATTTATTTA
1 TTTTATTATTT--TTT-TTTA
* *
32249121 ATTTATTTATTTTTTTTAA
1 TTTTA-TTATTTTTTTTTA
32249140 TTT
1 TTT
32249143 ATGTGTCTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 6 0.18
21 8 0.24
22 5 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTATTTTTTTTTA
Found at i:32249119 original size:27 final size:28
Alignment explanation
Indices: 32249087--32249144 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
32249077 ACGGTTTTTA
**
32249087 TTATTTTTTTTTATTT-TATTTTTTAAT
1 TTATTTTAATTTATTTATATTTTTTAAT
*
32249114 TTA-TTTAATTTATTTATTTTTTTTAAT
1 TTATTTTAATTTATTTATATTTTTTAAT
32249141 TTAT
1 TTAT
32249145 GTGTCTACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (28 bp):
TTATTTTAATTTATTTATATTTTTTAAT
Found at i:32249138 original size:13 final size:13
Alignment explanation
Indices: 32249081--32249144 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
32249071 GATGGGACGG
32249081 TTTTTA-TTATTTT
1 TTTTTATTTA-TTT
32249094 TTTTTATTT-TATT
1 TTTTTATTTAT-TT
*
32249107 TTTTAATTTATTT
1 TTTTTATTTATTT
**
32249120 AATTTATTTATTT
1 TTTTTATTTATTT
32249133 TTTTTAATTTAT
1 TTTTT-ATTTAT
32249145 GTGTCTACAG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 1 0.02
13 31 0.76
14 9 0.22
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTATTTATTT
Found at i:32256945 original size:2 final size:2
Alignment explanation
Indices: 32256938--32256998 Score: 50
Period size: 2 Copynumber: 30.0 Consensus size: 2
32256928 AAGTTAAACA
* * * * *
32256938 AT AT AT AT GT AT AT GT AT GT AT AT AT AT AT AT AC AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
32256980 GT AT AT AT AC ACT AT AT AT
1 AT AT AT AT AT A-T AT AT AT
32256999 GTGTGTGTGT
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
2 43 0.98
3 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (2 bp):
AT
Found at i:32256984 original size:18 final size:19
Alignment explanation
Indices: 32256963--32257000 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
32256953 TATGTATATA
32256963 TATATATACA-TATACATG
1 TATATATACACTATACATG
*
32256981 TATATATACACTATATATG
1 TATATATACACTATACATG
32257000 T
1 T
32257001 GTGTGTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (19 bp):
TATATATACACTATACATG
Found at i:32266525 original size:35 final size:35
Alignment explanation
Indices: 32266481--32266552 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
32266471 ATAGTGCATG
32266481 AAAACCATTAATACTTGAAACTGCATAGTAAGACA
1 AAAACCATTAATACTTGAAACTGCATAGTAAGACA
* *
32266516 AAAATCATTAATACTTGAAACTGCGTAGTAAGACA
1 AAAACCATTAATACTTGAAACTGCATAGTAAGACA
32266551 AA
1 AA
32266553 GTTGCCAGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (35 bp):
AAAACCATTAATACTTGAAACTGCATAGTAAGACA
Found at i:32279579 original size:3 final size:3
Alignment explanation
Indices: 32279573--32279604 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
32279563 CTTTTTTTTT
32279573 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
32279605 TAGTTCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:32281385 original size:23 final size:23
Alignment explanation
Indices: 32281359--32281404 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
32281349 TATAAGAAAT
*
32281359 ATAATTAC-TATATTATATATATA
1 ATAA-TACTTATAGTATATATATA
*
32281382 ATAATACTTTTAGTATATATATA
1 ATAATACTTATAGTATATATATA
32281405 CTTTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATAATACTTATAGTATATATATA
Found at i:32281415 original size:17 final size:17
Alignment explanation
Indices: 32281375--32281425 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
32281365 ACTATATTAT
*
32281375 ATATATAATAATACTTTTA
1 ATATAT-AT-ATACTTTAA
*
32281394 GTATATATATACTTTAA
1 ATATATATATACTTTAA
*
32281411 ATATAAATATA-TTTA
1 ATATATATATACTTTA
32281426 TTTTACATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 17 0.61
18 2 0.07
19 5 0.18
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATATATATACTTTAA
Found at i:32281471 original size:15 final size:17
Alignment explanation
Indices: 32281441--32281473 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
32281431 CATTTTGTGT
32281441 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
32281458 TAAC-TTAT-AAAATTA
1 TAACATTATAAAAATTA
32281473 T
1 T
32281474 TAATTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:32281953 original size:40 final size:40
Alignment explanation
Indices: 32281870--32282008 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
32281860 TATATTTTTT
* *
32281870 GTTATTTAAGTTTATGTTATTTGTTTGGATATTTGTATTTA
1 GTTATTTAAGTTTATGTT-GTTGTTTGGATATTTATATTTA
* * * *
32281911 GTTATTTAAATTTATGTTGTTATTTGGATATTTATGTATA
1 GTTATTTAAGTTTATGTTGTTGTTTGGATATTTATATTTA
* * * * *
32281951 GTTGTTTAAGTTTATATCGTTGTATGGATATTTATTTTTA
1 GTTATTTAAGTTTATGTTGTTGTTTGGATATTTATATTTA
32281991 GTTATTTAAGTTTATGTT
1 GTTATTTAAGTTTATGTT
32282009 TAAGATATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 64 0.79
41 17 0.21
ACGTcount: A:0.24, C:0.01, G:0.17, T:0.59
Consensus pattern (40 bp):
GTTATTTAAGTTTATGTTGTTGTTTGGATATTTATATTTA
Found at i:32290012 original size:2 final size:2
Alignment explanation
Indices: 32290005--32290084 Score: 94
Period size: 2 Copynumber: 41.0 Consensus size: 2
32289995 AAAATAATTT
** *
32290005 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA GG NA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
32290047 AA T- TA T- 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 TA
32290085 GAGTATGTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
1 3 0.04
2 63 0.93
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:32291175 original size:62 final size:61
Alignment explanation
Indices: 32291108--32291299 Score: 197
Period size: 62 Copynumber: 3.1 Consensus size: 61
32291098 TAACTAAATA
* * *
32291108 AAAAATTATTATAAGGGTAAAATTATAAAATTTTTAAAAATAAAAATATATTAGAAAAATTT
1 AAAAATTATTATAAAGATAAAATTATAAAATTTTTAAAAATAAAAATAAATTA-AAAAATTT
* * * * * * * *
32291170 TAAAATTTTTCTAATGATGAAATTATAAAATTTCTAAAAAGTAAAAACAAATTACAAAATTT
1 AAAAATTATTATAAAGATAAAATTATAAAATTTTTAAAAA-TAAAAATAAATTAAAAAATTT
* * * *
32291232 AAAAATTATTGA-AAAAACAAAATTATAAAATTTTTAAAATATATATATAAATTATAAAAATTT
1 AAAAATTATT-ATAAAGATAAAATTATAAAATTTTTAAAA-ATAAAAATAAATTA-AAAAATTT
32291295 AAAAA
1 AAAAA
32291300 ATTGTTAAAA
Statistics
Matches: 104, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
62 80 0.77
63 24 0.23
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (61 bp):
AAAAATTATTATAAAGATAAAATTATAAAATTTTTAAAAATAAAAATAAATTAAAAAATTT
Found at i:32293291 original size:27 final size:28
Alignment explanation
Indices: 32293261--32293353 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 28
32293251 ATATATATAT
32293261 ATAAATAAATAATAATAATAATAAT-AA
1 ATAAATAAATAATAATAATAATAATAAA
** *
32293288 ATAAATAAATAATTTTAAATTATAATAAA
1 ATAAATAAATAATAAT-AATAATAATAAA
32293317 ATAAACTAAA-ATATAA-AATAAT-ATAAA
1 ATAAA-TAAATA-ATAATAATAATAATAAA
32293344 ATAAAATAAA
1 AT-AAATAAA
32293354 AAAAAAAAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
27 25 0.45
28 16 0.29
29 8 0.15
30 6 0.11
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (28 bp):
ATAAATAAATAATAATAATAATAATAAA
Found at i:32293318 original size:21 final size:20
Alignment explanation
Indices: 32293269--32293354 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
32293259 ATATAAATAA
32293269 ATAATAATAATAATAATAAAT
1 ATAATAA-AATAATAATAAAT
**
32293290 A-AAT-AAATAATTTTAAATT
1 ATAATAAAATAATAATAAA-T
*
32293309 ATAATAAAATAA-ACTAAA-
1 ATAATAAAATAATAATAAAT
32293327 AT-ATAAAATAAT-ATAAAAT
1 ATAATAAAATAATAAT-AAAT
*
32293346 AAAATAAAA
1 ATAATAAAA
32293355 AAAAAAAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
17 10 0.19
18 15 0.29
19 4 0.08
20 16 0.31
21 7 0.13
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAAAATAATAATAAAT
Found at i:32293321 original size:5 final size:5
Alignment explanation
Indices: 32293311--32293358 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
32293301 TTTAAATTAT
* *
32293311 AATAA AATAA ACTAAA ATATAA AATAA TATAA AATAA AATAA AA-AA AA
1 AATAA AATAA AAT-AA A-ATAA AATAA AATAA AATAA AATAA AATAA AA
32293359 AAAGGGGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 4 0.11
5 26 0.70
6 6 0.16
7 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:32293342 original size:22 final size:22
Alignment explanation
Indices: 32293311--32293361 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
32293301 TTTAAATTAT
* *
32293311 AATAAAATAAACTAAAATATAA
1 AATAAAATAAAATAAAATAAAA
*
32293333 AATAATATAAAATAAAATAAAA
1 AATAAAATAAAATAAAATAAAA
*
32293355 AAAAAAA
1 AATAAAA
32293362 GGGGATGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAAAATAAAATAAAATAAAA
Found at i:32293402 original size:11 final size:11
Alignment explanation
Indices: 32293386--32293410 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32293376 GTACGCCTAG
32293386 CCATCCCTTCC
1 CCATCCCTTCC
32293397 CCATCCCTTCC
1 CCATCCCTTCC
32293408 CCA
1 CCA
32293411 ACCACCCTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.64, G:0.00, T:0.24
Consensus pattern (11 bp):
CCATCCCTTCC
Found at i:32294394 original size:8 final size:8
Alignment explanation
Indices: 32294381--32294407 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
32294371 TATTTTTTAA
32294381 AAAAAAAT
1 AAAAAAAT
32294389 AAAAAAAT
1 AAAAAAAT
32294397 AAAAAAAT
1 AAAAAAAT
32294405 AAA
1 AAA
32294408 TAANNNNNNN
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:32294824 original size:7 final size:7
Alignment explanation
Indices: 32294812--32294841 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
32294802 TAAAGTATAT
32294812 ATAAATA
1 ATAAATA
32294819 ATAAATA
1 ATAAATA
32294826 ATAAATA
1 ATAAATA
32294833 ATAAATA
1 ATAAATA
32294840 AT
1 AT
32294842 CCAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAAATA
Found at i:32306970 original size:12 final size:12
Alignment explanation
Indices: 32306953--32306977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32306943 GTTTACTGCG
32306953 TTTTTGTTTGTT
1 TTTTTGTTTGTT
32306965 TTTTTGTTTGTT
1 TTTTTGTTTGTT
32306977 T
1 T
32306978 AATTTGCTGT
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTTTGTTTGTT
Found at i:32325924 original size:63 final size:63
Alignment explanation
Indices: 32325851--32325976 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
32325841 ATTGGGGCTC
32325851 AAGCTTATTTAAGTTTTTAATCATTGACTGGAAGAGAAAAGTTTTAAGCAGTTACTGCAGGTG
1 AAGCTTATTTAAGTTTTTAATCATTGACTGGAAGAGAAAAGTTTTAAGCAGTTACTGCAGGTG
32325914 AAGCTTATTTAAGTTTTTAATCATTGACTGGAAGAGAAAAGTTTTAAGCAGTTACTGCAGGTG
1 AAGCTTATTTAAGTTTTTAATCATTGACTGGAAGAGAAAAGTTTTAAGCAGTTACTGCAGGTG
32325977 TATTGGGAGA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (63 bp):
AAGCTTATTTAAGTTTTTAATCATTGACTGGAAGAGAAAAGTTTTAAGCAGTTACTGCAGGTG
Found at i:32337366 original size:25 final size:25
Alignment explanation
Indices: 32337338--32337396 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
32337328 GCTTTGGCAC
*
32337338 AAAATTCATTTGAATGACAAATGTT
1 AAAATTCATTTGAATAACAAATGTT
*
32337363 AAAATTCATTTGAATAAGAAATGTT
1 AAAATTCATTTGAATAACAAATGTT
32337388 AAAATTCAT
1 AAAATTCAT
32337397 AAGGCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (25 bp):
AAAATTCATTTGAATAACAAATGTT
Found at i:32353873 original size:14 final size:14
Alignment explanation
Indices: 32353848--32353881 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32353838 TTATGTTTAC
32353848 ATATAT-ATTATAT
1 ATATATAATTATAT
32353861 ATATATAATTATAT
1 ATATATAATTATAT
*
32353875 ATTTATA
1 ATATATA
32353882 TTGTAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATAATTATAT
Found at i:32354675 original size:2 final size:2
Alignment explanation
Indices: 32354668--32354692 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32354658 CTGACTTCAA
32354668 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32354693 AAATTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32363936 original size:15 final size:13
Alignment explanation
Indices: 32363903--32363946 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
32363893 AAATTTTTTG
32363903 ATATTTTTTAAATA
1 ATATTTTTTAAA-A
*
32363917 AT-TTTTTGAAAA
1 ATATTTTTTAAAA
32363929 ATATTTTTTAAAA
1 ATATTTTTTAAAA
32363942 ATATT
1 ATATT
32363947 AATAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 3 0.11
13 22 0.81
14 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:32365215 original size:11 final size:11
Alignment explanation
Indices: 32365199--32365235 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
32365189 AAATAAAATT
32365199 AATATATGTTC
1 AATATATGTTC
32365210 AATATA--TT-
1 AATATATGTTC
32365218 AATATATGTTC
1 AATATATGTTC
32365229 AATATAT
1 AATATAT
32365236 TAATATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
10 2 0.09
11 13 0.57
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (11 bp):
AATATATGTTC
Found at i:32365233 original size:17 final size:17
Alignment explanation
Indices: 32365196--32365247 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
32365186 CCAAAATAAA
32365196 ATTAATATATGTTCAATAT
1 ATTAATATATGTTC-A-AT
32365215 ATTAATATATGTTCAAT
1 ATTAATATATGTTCAAT
*
32365232 A-TATTAATATGTTCAA
1 ATTAAT-ATATGTTCAA
32365248 CATATATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 3 0.10
17 13 0.42
18 1 0.03
19 14 0.45
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTAATATATGTTCAAT
Found at i:32365254 original size:19 final size:19
Alignment explanation
Indices: 32365196--32365241 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
32365186 CCAAAATAAA
32365196 ATTAATATATGTTCAATAT
1 ATTAATATATGTTCAATAT
32365215 ATTAATATATGTTCAATAT
1 ATTAATATATGTTCAATAT
32365234 ATTAATAT
1 ATTAATAT
32365242 GTTCAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (19 bp):
ATTAATATATGTTCAATAT
Found at i:32365587 original size:28 final size:28
Alignment explanation
Indices: 32365547--32365619 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
32365537 TAATAAGGGG
*
32365547 TGTAATAACTTTTTTTTTTCAACT-TGACA
1 TGTAATAA-TTTTTTTTTTCAA-TATAACA
*
32365576 TGTAATAATTTTTTTTTTCAATATAATA
1 TGTAATAATTTTTTTTTTCAATATAACA
32365604 TGTAATAATTTTTTTT
1 TGTAATAATTTTTTTT
32365620 AACACAACGT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.02
28 32 0.78
29 8 0.20
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (28 bp):
TGTAATAATTTTTTTTTTCAATATAACA
Found at i:32367747 original size:3 final size:3
Alignment explanation
Indices: 32367735--32367773 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
32367725 CAAACAAACC
32367735 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
32367774 ATACCGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:32371738 original size:24 final size:24
Alignment explanation
Indices: 32371696--32371773 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
32371686 TTAAGTTGTT
* *
32371696 ACACACTATATACAAAAACATGTG
1 ACACACCATGTACAAAAACATGTG
* * *
32371720 AGATACCATGTACAGAAACATGTG
1 ACACACCATGTACAAAAACATGTG
**
32371744 ACACGTCATGTACAAAAACATGTG
1 ACACACCATGTACAAAAACATGTG
32371768 ACACAC
1 ACACAC
32371774 TATATTGAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.19
Consensus pattern (24 bp):
ACACACCATGTACAAAAACATGTG
Found at i:32371897 original size:29 final size:29
Alignment explanation
Indices: 32371842--32371927 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 29
32371832 GTTAAAAAAG
*
32371842 GTTGTTACACGCCATGTTGAAAAAAAAAATACT
1 GTTGTTACACGCCATATTG----AAAAAATACT
*
32371875 GTTGTTACACGCCATATTGAAAAAATATT
1 GTTGTTACACGCCATATTGAAAAAATACT
* *
32371904 ATTGTTACACGCCATATTCAAAAA
1 GTTGTTACACGCCATATTGAAAAA
32371928 CATTTTGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 31 0.63
33 18 0.37
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (29 bp):
GTTGTTACACGCCATATTGAAAAAATACT
Found at i:32371935 original size:27 final size:29
Alignment explanation
Indices: 32371843--32371939 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 29
32371833 TTAAAAAAGG
* * *
32371843 TTGTTACACGCCATGTTGAAAAAAAAAATACTG
1 TTGTTACACGCCATATTG--AAAAAACAT--TA
*
32371876 TTGTTACACGCCATATTGAAAAAATATTA
1 TTGTTACACGCCATATTGAAAAAACATTA
*
32371905 TTGTTACACGCCATATT-CAAAAACATT-
1 TTGTTACACGCCATATTGAAAAAACATTA
32371932 TTGTTACA
1 TTGTTACA
32371940 TTTTAATGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 8 0.14
28 8 0.14
29 18 0.31
31 8 0.14
33 17 0.29
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (29 bp):
TTGTTACACGCCATATTGAAAAAACATTA
Found at i:32372528 original size:10 final size:10
Alignment explanation
Indices: 32372507--32372543 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
32372497 AACATTTTTG
32372507 TTAAATTATAA
1 TTAAA-TATAA
32372518 TTAAATATAA
1 TTAAATATAA
*
32372528 TTAAAAATAA
1 TTAAATATAA
32372538 TTAAAT
1 TTAAAT
32372544 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAATATAA
Found at i:32374013 original size:2 final size:2
Alignment explanation
Indices: 32374008--32374035 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32373998 ATATATATAT
32374008 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32374036 TTAATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32378637 original size:21 final size:20
Alignment explanation
Indices: 32378613--32378665 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
32378603 AATTAAAAAA
*
32378613 TTAAAAATTATTTGAATTTAT
1 TTAAAAATTATATGAATTT-T
*
32378634 TTAAATAGTT-TATGAATTTT
1 TTAAA-AATTATATGAATTTT
32378654 TTAAAATATTAT
1 TTAAAA-ATTAT
32378666 GTCTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 14 0.54
22 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (20 bp):
TTAAAAATTATATGAATTTT
Found at i:32380701 original size:21 final size:21
Alignment explanation
Indices: 32380638--32380711 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
32380628 TGGTTTTTAG
* *
32380638 GGTTTTTTGAATTGATTTAAA
1 GGTTTATTGAATCGATTTAAA
* * * *
32380659 AGTTTACTGAA-CCAGTTCAAA
1 GGTTTATTGAATCGA-TTTAAA
32380680 GGTTTATTGAATCGATTTAAA
1 GGTTTATTGAATCGATTTAAA
* *
32380701 GATTTGTTGAA
1 GGTTTATTGAA
32380712 ATCAATTCGA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
20 1 0.03
21 36 0.92
22 2 0.05
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (21 bp):
GGTTTATTGAATCGATTTAAA
Found at i:32380805 original size:20 final size:21
Alignment explanation
Indices: 32380754--32380806 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
32380744 AAAGGGTTTG
* *
32380754 TTGAATCGGTTTTAGTGGTTA
1 TTGAATCGATTTTAGTAGTTA
* * *
32380775 ATGTATTGATTTTAG-AGTTA
1 TTGAATCGATTTTAGTAGTTA
32380795 TTGAATCGATTT
1 TTGAATCGATTT
32380807 AGGAGCTGCC
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.49
Consensus pattern (21 bp):
TTGAATCGATTTTAGTAGTTA
Found at i:32380883 original size:21 final size:22
Alignment explanation
Indices: 32380831--32380883 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
32380821 TAGTTTTAAA
* *
32380831 GTTTATTGAATCATTTTTAAGG
1 GTTTATTAAATCAATTTTAAGG
*
32380853 G-TTATCAAATCAATTTT-AGG
1 GTTTATTAAATCAATTTTAAGG
32380873 GTTTATTAAAT
1 GTTTATTAAAT
32380884 TGATTTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (22 bp):
GTTTATTAAATCAATTTTAAGG
Found at i:32384625 original size:24 final size:24
Alignment explanation
Indices: 32384593--32384657 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
32384583 TCAGATGGAA
*
32384593 TGGAAGGCT-TGGGTGCAAGTGAAC
1 TGGAAGGCTCT-GGTGCAAGAGAAC
*
32384617 TGGAAGGCTCTGGTGCAAGAGGAC
1 TGGAAGGCTCTGGTGCAAGAGAAC
*
32384641 TGGAAGGCTCAGGTGCA
1 TGGAAGGCTCTGGTGCA
32384658 GTAATAGGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 36 0.97
25 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.42, T:0.18
Consensus pattern (24 bp):
TGGAAGGCTCTGGTGCAAGAGAAC
Found at i:32390450 original size:4 final size:4
Alignment explanation
Indices: 32390443--32390483 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
32390433 CATCTATATA
32390443 TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
32390484 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
4 33 0.94
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:32390464 original size:18 final size:18
Alignment explanation
Indices: 32390437--32390493 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
32390427 AAGAAACATC
*
32390437 TATATATATGTATGTATG
1 TATATGTATGTATGTATG
32390455 TATATGTATGTATGTATG
1 TATATGTATGTATGTATG
* *
32390473 --TATGTATGTATATATA
1 TATATGTATGTATGTATG
32390489 TATAT
1 TATAT
32390494 AACCAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.41
18 20 0.59
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (18 bp):
TATATGTATGTATGTATG
Found at i:32401401 original size:51 final size:50
Alignment explanation
Indices: 32401318--32401438 Score: 160
Period size: 52 Copynumber: 2.4 Consensus size: 50
32401308 ATAATTAAAT
32401318 TATGAAAAG--ATAATTATTCATTTCATAAGACA-TAATTTTTAAAATAT-A
1 TATGAAAAGTCAT-ATT-TTCATTTCATAAGACATTAATTTTTAAAATATAA
*
32401366 TATGAAAAGTCATTATTTTCNATTTCAATAAGACATTAATTTTTAAATTATAA
1 TATGAAAAGTCA-TATTTTC-ATTTC-ATAAGACATTAATTTTTAAAATATAA
32401419 TATGAAAAGTCATATTTTCA
1 TATGAAAAGTCATATTTTCA
32401439 ACATTTTCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 11
0.84 0.01 0.14
Matches are distributed among these distances:
48 9 0.14
49 3 0.05
50 9 0.14
51 10 0.15
52 21 0.32
53 13 0.20
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (50 bp):
TATGAAAAGTCATATTTTCATTTCATAAGACATTAATTTTTAAAATATAA
Done.