Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 196 of 226
Found at i:58932632 original size:51 final size:51
Alignment explanation
Indices: 58932550--58932717 Score: 212
Period size: 51 Copynumber: 3.3 Consensus size: 51
58932540 TCCACTTCAA
* * *
58932550 CTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTATCTTTAG
1 CTTTAATCTGTTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTTAG
* * * * *
58932601 CTTTAATCTGTTCCACTACAAAGCCAAGGAAATAAGATTCGCTGCCTTCAG
1 CTTTAATCTGTTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTTAG
* * *
58932652 CTTTAATCTGTTCCACTGCAACA-TCAGGGAAACAAGATTCACTACCTTTAA
1 CTTTAATCTGTTCCACTGCAA-AGCCAGGGAAACAAGATTCGCTACCTTTAG
*
58932703 CTTTAATCCGTTCCA
1 CTTTAATCTGTTCCA
58932718 TTGTAACGCC
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 98 0.99
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
CTTTAATCTGTTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTTAG
Found at i:58932729 original size:102 final size:102
Alignment explanation
Indices: 58932544--58932751 Score: 272
Period size: 102 Copynumber: 2.0 Consensus size: 102
58932534 ATCCACTCCA
** * * *
58932544 CTTCAACTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTATCTTTAGCTTTAATC
1 CTTCAACTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCACTACCTTTAACTTTAATC
*
58932609 TGTTCCACTACAAAGCCAAGGAAATAAGATTCGCTGC
66 CGTTCCACTACAAAGCCAAGGAAATAAGATTCGCTGC
* * *
58932646 CTTCAGCTTTAATCTGTTCCACTGCAACATCAGGGAAACAAGATTCACTACCTTTAACTTTAATC
1 CTTCAACTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCACTACCTTTAACTTTAATC
* ** * * * *
58932711 CGTTCCATTGTAACGCCAAGGAGATAGGATTTGCTGC
66 CGTTCCACTACAAAGCCAAGGAAATAAGATTCGCTGC
58932748 CTTC
1 CTTC
58932752 GATCTGCTCC
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (102 bp):
CTTCAACTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCACTACCTTTAACTTTAATC
CGTTCCACTACAAAGCCAAGGAAATAAGATTCGCTGC
Found at i:58932990 original size:132 final size:131
Alignment explanation
Indices: 58932752--58933206 Score: 624
Period size: 132 Copynumber: 3.5 Consensus size: 131
58932742 TGCTGCCTTC
* *
58932752 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCATTGCTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* * *
58932817 GGGAGATAGGACTGATGGCTTAAATCTGCTTCCCTATTACCTTGGAAAAATAAGATTCACCGTCT
66 AGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTATTACCTTGG-AAAATAAGATTCACTGTCT
*
58932882 CT
130 TT
* * * * * *
58932884 GATCTGCTCCACTACTGCTTAGAGAGACATGATCTACAATCTTTAACATATTCTACTGCTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* * * * *
58932949 AGGAGATAGGACTGGTGGCTTAAATCTGTTTCCTTACTACCTTGGGAAGATAAGATTCACTATCT
66 AGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTATTACCTT-GGAAAATAAGATTCACTGTCT
58933014 TT
130 TT
* *
58933016 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTGCTGC-CT
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* * * * *
58933080 AGAGAAATAGGACTAGTGGCTTAAATTTGCTTCCCCATTACCTTAGGAATATAAGATTCACTGTC
66 AG-GAGATAGGACTGGTGGCTTAAATCTGCTTCCCTATTACCTT-GGAAAATAAGATTCACTGTC
58933145 TTT
129 TTT
* * *
58933148 GATCTACTCCACTACTGCTTAGGGAGACAGGATTTACAATCTTCAACTTACTCCACTGC
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
58933207 AAACTTAGAG
Statistics
Matches: 283, Mismatches: 38, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
131 3 0.01
132 278 0.98
133 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (131 bp):
GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
AGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTATTACCTTGGAAAATAAGATTCACTGTCTT
T
Found at i:58934570 original size:42 final size:42
Alignment explanation
Indices: 58934501--58934619 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 42
58934491 GGAATAACAA
* * *
58934501 GATCACCACATGCCCCAATCTGATCGAAATTTGAGCTACTCT
1 GATCACCTCATGCCCCATTCTGATCGAAATTTGAGCTACCCT
*
58934543 GATCACCTCATGCCCCATTCTGTTCGAAATTTGAGCTACCCT
1 GATCACCTCATGCCCCATTCTGATCGAAATTTGAGCTACCCT
* *
58934585 GATCACCTCATGGCCCATTTTGATC-AACATTTGAG
1 GATCACCTCATGCCCCATTCTGATCGAA-ATTTGAG
58934620 ACGCCCTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.03
42 67 0.97
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.29
Consensus pattern (42 bp):
GATCACCTCATGCCCCATTCTGATCGAAATTTGAGCTACCCT
Found at i:58934758 original size:17 final size:19
Alignment explanation
Indices: 58934726--58934765 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
58934716 TTTCTTCTCT
*
58934726 TTTTCTTTTCTTTCA-TCA
1 TTTTCATTTCTTTCATTCA
58934744 TTTTCATTT-TTTCATTCA
1 TTTTCATTTCTTTCATTCA
58934762 TTTT
1 TTTT
58934766 TTTTATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCATTTCTTTCATTCA
Found at i:58936091 original size:39 final size:39
Alignment explanation
Indices: 58935983--58936100 Score: 130
Period size: 40 Copynumber: 3.0 Consensus size: 39
58935973 AACGTTTGGA
* *
58935983 TAAAAAAAGCCGCTAAAAATCAAGCATTAGCGGCGTTTT
1 TAAAAAAAGCCACTAAAAATCAAGCATTAGCGGCCTTTT
* * * *
58936022 TAAAAAAACACCACTAAAGATCGAGTATTAGCGGCACTTTT
1 TAAAAAAA-GCCACTAAAAATCAAGCATTAGCGGC-CTTTT
* * *
58936063 TAAAAAATGCCACTAAAAAT-TAGCATTAGCGGCGTTTT
1 TAAAAAAAGCCACTAAAAATCAAGCATTAGCGGCCTTTT
58936101 CCAAGAAGTG
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
38 4 0.06
39 19 0.29
40 31 0.48
41 11 0.17
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (39 bp):
TAAAAAAAGCCACTAAAAATCAAGCATTAGCGGCCTTTT
Found at i:58936205 original size:41 final size:41
Alignment explanation
Indices: 58936147--58936551 Score: 542
Period size: 41 Copynumber: 9.9 Consensus size: 41
58936137 GAGTTTTCGT
* *
58936147 GGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* *
58936188 GGCTTTAGCGGCGTTTTTGAAGAAGCACCACTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* * * * *
58936229 AGCTTTAGCGTCATTTTTGAAGAAGCACCGCTAATGCTTGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* * *
58936270 GGCTTTAACGGCATTTTTGAAGAAGCGCCGCTAATTCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* *
58936311 GGCTTTAGCGGTGTTTTTGAAGAAGCGCCACTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* * *
58936352 GGCTTTAGCGGCATTTTTGAAGAAGCGCCGTTAATTCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* * *
58936393 GGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGTTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* *
58936434 GGCTTTAGCGGTGTTTTTGAAGAAGCGTCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
* * * *
58936475 GGATTTAGCGACGTTTTTTGAAGAAGTGCCGCTAATGCTTGG
1 GGCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCGG
*
58936517 GGCTTTAGCGGTGTTTTT-AGAGAAGCGCCGCTAAT
1 GGCTTTAGCGGCGTTTTTGA-AGAAGCGCCGCTAAT
58936552 ACTCCGATTT
Statistics
Matches: 316, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
40 1 0.00
41 280 0.89
42 35 0.11
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGG
Found at i:58938308 original size:23 final size:23
Alignment explanation
Indices: 58938273--58938318 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
58938263 ATCACTTAAC
*
58938273 TAAAAATTTTTAGTAGA-CAAAA
1 TAAAAATTTTTAGCAGAGCAAAA
58938295 TAAAAGATTTTTAGCAGAGCAAAA
1 TAAAA-ATTTTTAGCAGAGCAAAA
58938319 CGAAGTCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 11 0.52
24 5 0.24
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (23 bp):
TAAAAATTTTTAGCAGAGCAAAA
Found at i:58940109 original size:19 final size:19
Alignment explanation
Indices: 58940081--58940123 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
58940071 ACTATAAAAT
58940081 TTATAAGTTTTCTAAATAA
1 TTATAAGTTTTCTAAATAA
*
58940100 TTATAGGTTTTCTAAATAA
1 TTATAAGTTTTCTAAATAA
58940119 TTATA
1 TTATA
58940124 TAACCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (19 bp):
TTATAAGTTTTCTAAATAA
Found at i:58940189 original size:13 final size:13
Alignment explanation
Indices: 58940171--58940198 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58940161 TTCTAAATTT
58940171 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
58940184 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
58940197 AT
1 AT
58940199 TTATTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:58940190 original size:30 final size:30
Alignment explanation
Indices: 58940149--58940262 Score: 124
Period size: 30 Copynumber: 3.8 Consensus size: 30
58940139 TGTTTTAATA
*
58940149 TCTATATAAGTTTTCTAAATTTATAAGTTT
1 TCTAAATAAGTTTTCTAAATTTATAAGTTT
* *
58940179 TCTAAATAAGTTTTCTAAATTTATTAGTAT
1 TCTAAATAAGTTTTCTAAATTTATAAGTTT
* * * *
58940209 T-AAAATTTA-TTAGTATAAATTTATAAGTTT
1 TCTAAA-TAAGTT-TTCTAAATTTATAAGTTT
*
58940239 TCTAAATAAGTGTTCTAAATTTAT
1 TCTAAATAAGTTTTCTAAATTTAT
58940263 TAGTAATAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
29 5 0.08
30 57 0.86
31 4 0.06
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (30 bp):
TCTAAATAAGTTTTCTAAATTTATAAGTTT
Found at i:58940216 original size:16 final size:16
Alignment explanation
Indices: 58940195--58940287 Score: 72
Period size: 16 Copynumber: 6.1 Consensus size: 16
58940185 TAAGTTTTCT
58940195 AAATTTATTAGTATTA
1 AAATTTATTAGTATTA
58940211 AAATTTATTAGTA-T-
1 AAATTTATTAGTATTA
* * *
58940225 AAATTTATAAGTTTTCT
1 AAATTTATTAGTATT-A
* *
58940242 AAA--TA--AGTGTTCT
1 AAATTTATTAGTATT-A
*
58940255 AAATTTATTAGTAATA
1 AAATTTATTAGTATTA
58940271 AAATTTATTAGTATTA
1 AAATTTATTAGTATTA
58940287 A
1 A
58940288 TTTTATAAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
13 10 0.16
14 11 0.17
15 6 0.10
16 29 0.46
17 7 0.11
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (16 bp):
AAATTTATTAGTATTA
Found at i:58940236 original size:60 final size:61
Alignment explanation
Indices: 58940164--58940308 Score: 256
Period size: 60 Copynumber: 2.4 Consensus size: 61
58940154 ATAAGTTTTC
* *
58940164 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTATTAAAATTTATTAGTA-
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
58940224 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
*
58940285 TAATTTTATAAGTTTTCTAAATAA
1 TAAATTTATAAGTTTTCTAAATAA
58940309 TTATATATTT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
60 58 0.72
61 23 0.28
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
Found at i:58940290 original size:30 final size:30
Alignment explanation
Indices: 58940196--58940290 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
58940186 AAGTTTTCTA
*
58940196 AATTTATTAGTATTAAAATTTATTAGTATA
1 AATTTATTAGTATTAAAATTTATTAGTATT
* * * * *
58940226 AATTTATAAGTTTTCTAAA-TAAGT-GT-TCT
1 AATTTATTAGTATT-AAAATTTATTAGTAT-T
*
58940255 AAATTTATTAGTAATAAAATTTATTAGTATT
1 -AATTTATTAGTATTAAAATTTATTAGTATT
58940286 AATTT
1 AATTT
58940291 TATAAGTTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
28 1 0.02
29 5 0.11
30 34 0.72
31 6 0.13
32 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (30 bp):
AATTTATTAGTATTAAAATTTATTAGTATT
Found at i:58940319 original size:19 final size:17
Alignment explanation
Indices: 58940297--58940336 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
58940287 ATTTTATAAG
58940297 TTTTCTAAATAATTATATA
1 TTTT-TAAA-AATTATATA
*
58940316 TTTTTAAAATTTATATA
1 TTTTTAAAAATTATATA
58940333 TTTT
1 TTTT
58940337 ATTTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
19 4 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAAAATTATATA
Found at i:58940485 original size:12 final size:11
Alignment explanation
Indices: 58940468--58940691 Score: 85
Period size: 12 Copynumber: 21.1 Consensus size: 11
58940458 ATAAACTTAC
58940468 ATAACTTACAT
1 ATAACTTACAT
*
58940479 AATAACTTATAT
1 -ATAACTTACAT
*
58940491 ATAAGCTTGC--
1 ATAA-CTTACAT
58940501 ATAACTTACAT
1 ATAACTTACAT
58940512 AATAACTTAC--
1 -ATAACTTACAT
58940522 ATAACTTA-AT
1 ATAACTTACAT
*
58940532 ACATAACTTATAT
1 --ATAACTTACAT
*
58940545 ATAAGCTTGC--
1 ATAA-CTTACAT
58940555 ATAACTTACAT
1 ATAACTTACAT
58940566 AATAACTTAC--
1 -ATAACTTACAT
*
58940576 ATAACTTATAT
1 ATAACTTACAT
*
58940587 ATAA-TAACAT
1 ATAACTTACAT
*
58940597 AATAAATTACAT
1 -ATAACTTACAT
**
58940609 A-ATACTTGATGTT
1 ATA-ACTT-A-CAT
58940622 ATAA--TAC--
1 ATAACTTACAT
*
58940629 ATAACTTATAT
1 ATAACTTACAT
*
58940640 ATAAGCTTGC--
1 ATAA-CTTACAT
58940650 ATAACTTACAT
1 ATAACTTACAT
58940661 AATAACTTAC--
1 -ATAACTTACAT
58940671 ATAACTTAC--
1 ATAACTTACAT
58940680 ATAACTTACAT
1 ATAACTTACAT
58940691 A
1 A
58940692 ATACACCACT
Statistics
Matches: 162, Mismatches: 19, Indels: 63
0.66 0.08 0.26
Matches are distributed among these distances:
7 4 0.02
9 48 0.30
10 18 0.11
11 26 0.16
12 60 0.37
13 5 0.03
14 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.36
Consensus pattern (11 bp):
ATAACTTACAT
Found at i:58940487 original size:21 final size:21
Alignment explanation
Indices: 58940461--58940612 Score: 107
Period size: 21 Copynumber: 7.0 Consensus size: 21
58940451 AAATGTTATA
58940461 AACTTACATAACTTACATAAT
1 AACTTACATAACTTACATAAT
* *
58940482 AACTTATATATAAGCTTGCATAACT
1 AAC-T-TACATAA-CTTACATAA-T
* *
58940507 TACATA-ATAACTTACATAACTT
1 AACTTACATAACTTACATAA--T
*
58940529 AA--TACATAACTTATAT-AT
1 AACTTACATAACTTACATAAT
*
58940547 AAGCTTGCATAACTTACATAAT
1 AA-CTTACATAACTTACATAAT
*
58940569 AACTTACATAACTTATATATAAT
1 AACTTACATAAC-T-TACATAAT
* *
58940592 AACATA-ATAAATTACATAAT
1 AACTTACATAACTTACATAAT
58940612 A
1 A
58940613 CTTGATGTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 25
0.72 0.10 0.17
Matches are distributed among these distances:
18 3 0.03
20 11 0.11
21 43 0.41
22 16 0.15
23 20 0.19
24 8 0.08
25 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (21 bp):
AACTTACATAACTTACATAAT
Found at i:58940504 original size:33 final size:33
Alignment explanation
Indices: 58940457--58940520 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
58940447 AAAAAAATGT
58940457 TATAAACTTACATAACTTACATAATAACTTATA
1 TATAAACTTACATAACTTACATAATAACTTATA
* *
58940490 TATAAGCTTGCATAACTTACATAATAACTTA
1 TATAAACTTACATAACTTACATAATAACTTA
58940521 CATAACTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (33 bp):
TATAAACTTACATAACTTACATAATAACTTATA
Found at i:58940654 original size:21 final size:21
Alignment explanation
Indices: 58940626--58940683 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
58940616 GATGTTATAA
*
58940626 TACATAACTTATAT-ATAAGCT
1 TACATAACTTACATAATAA-CT
*
58940647 TGCATAACTTACATAATAACT
1 TACATAACTTACATAATAACT
58940668 TACATAACTTACATAA
1 TACATAACTTACATAA
58940684 CTTACATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (21 bp):
TACATAACTTACATAATAACT
Found at i:58940674 original size:9 final size:9
Alignment explanation
Indices: 58940662--58940813 Score: 135
Period size: 9 Copynumber: 18.0 Consensus size: 9
58940652 AACTTACATA
58940662 ATAACTTAC
1 ATAACTTAC
58940671 ATAACTTAC
1 ATAACTTAC
58940680 ATAACTTAC
1 ATAACTTAC
58940689 ATAA--TAC
1 ATAACTTAC
**
58940696 ACCACTTAC
1 ATAACTTAC
58940705 ATAACTTAC
1 ATAACTTAC
*
58940714 ATAGCTTAC
1 ATAACTTAC
*
58940723 AT-TC-TAC
1 ATAACTTAC
*
58940730 ACAACTTAC
1 ATAACTTAC
*
58940739 ATAACATAC
1 ATAACTTAC
58940748 ATAA--TAC
1 ATAACTTAC
*
58940755 AGAACTTAC
1 ATAACTTAC
**
58940764 ATAAAATAC
1 ATAACTTAC
58940773 --AACTTAC
1 ATAACTTAC
*
58940780 ATATCTTAC
1 ATAACTTAC
58940789 ATAAC--AC
1 ATAACTTAC
58940796 ATAACTTAC
1 ATAACTTAC
*
58940805 ATAATTTAC
1 ATAACTTAC
58940814 TTAATACGTA
Statistics
Matches: 114, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
7 27 0.24
8 2 0.02
9 85 0.75
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:58940702 original size:25 final size:24
Alignment explanation
Indices: 58940668--58940820 Score: 98
Period size: 25 Copynumber: 6.1 Consensus size: 24
58940658 CATAATAACT
58940668 TACATAACTTACATAACTTACATAA
1 TACA-AACTTACATAACTTACATAA
* *
58940693 TACACCACTTACATAACTTACATAGCT
1 TACA-AACTTACATAACTTACATA--A
** *
58940720 TACATTC-TACACAACTTACATAACA
1 TACAAACTTACATAACTTACAT-A-A
*
58940745 TACATAA--TACAGAACTTACATAAAA
1 TACA-AACTTACATAACTTACAT--AA
*
58940770 TAC-AACTTACATATCTTACATAA
1 TACAAACTTACATAACTTACATAA
* * *
58940793 CACATAACTTACATAATTTACTTAA
1 TACA-AACTTACATAACTTACATAA
58940818 TAC
1 TAC
58940821 GTAAATATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
23 6 0.06
25 88 0.86
26 4 0.04
27 4 0.04
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (24 bp):
TACAAACTTACATAACTTACATAA
Found at i:58940708 original size:34 final size:34
Alignment explanation
Indices: 58940649--58940751 Score: 124
Period size: 34 Copynumber: 3.1 Consensus size: 34
58940639 TATAAGCTTG
*
58940649 CATAACTTACATAAT----AACTTACATAACTTA
1 CATAACTTACATAATACACAACTTACATAACATA
* *
58940679 CATAACTTACATAATACACCACTTACATAACTTA
1 CATAACTTACATAATACACAACTTACATAACATA
* **
58940713 CATAGCTTACATTCTACACAACTTACATAACATA
1 CATAACTTACATAATACACAACTTACATAACATA
58940747 CATAA
1 CATAA
58940752 TACAGAACTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
30 15 0.24
34 47 0.76
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (34 bp):
CATAACTTACATAATACACAACTTACATAACATA
Found at i:58940775 original size:41 final size:41
Alignment explanation
Indices: 58940730--58940808 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
58940720 TACATTCTAC
*
58940730 ACAACTTACATAACATACATAATACAGAACTTACATAAAAT
1 ACAACTTACATAACATACATAACACAGAACTTACATAAAAT
* * *
58940771 ACAACTTACATATCTTACATAACACATAACTTACATAA
1 ACAACTTACATAACATACATAACACAGAACTTACATAA
58940809 TTTACTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.27
Consensus pattern (41 bp):
ACAACTTACATAACATACATAACACAGAACTTACATAAAAT
Found at i:58940797 original size:16 final size:16
Alignment explanation
Indices: 58940778--58940808 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58940768 AATACAACTT
*
58940778 ACATATCTTACATAAC
1 ACATAACTTACATAAC
58940794 ACATAACTTACATAA
1 ACATAACTTACATAA
58940809 TTTACTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (16 bp):
ACATAACTTACATAAC
Found at i:58945993 original size:19 final size:20
Alignment explanation
Indices: 58945969--58946007 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58945959 GTCAATATTT
*
58945969 TTATCA-TTTTGACTTTTAA
1 TTATCATTTTTAACTTTTAA
58945988 TTATCATTTTTAACTTTTAA
1 TTATCATTTTTAACTTTTAA
58946008 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
TTATCATTTTTAACTTTTAA
Found at i:58946259 original size:43 final size:43
Alignment explanation
Indices: 58946204--58946521 Score: 444
Period size: 43 Copynumber: 7.4 Consensus size: 43
58946194 GCGTTTTAAA
* * * *
58946204 AAAAATGCCGCTAAAGGTCAAGGCCTTTAGCGGCGTTTGT-GG
1 AAAAACGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAGG
* *
58946246 TAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAGG
1 -AAAAACGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAGG
* *
58946290 AAAAAGTGCCGCTAAAGGTCATGGTCTATAGTGGCGTTTGT-GG
1 AAAAA-CGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAGG
*
58946333 AAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTATAGG
1 AAAAA-CGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAGG
*
58946377 AAAAACGCCGCTAAAGGTCATGGTCTATAACGGCGTTTGTAGG
1 AAAAACGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAGG
58946420 AAAAACGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGT-GTG
1 AAAAACGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAG-G
* * *
58946463 AAAAATGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAGG
* *
58946506 GAAAACACCGCTAAAG
1 AAAAACGCCGCTAAAG
58946522 TTAGCGACGC
Statistics
Matches: 251, Mismatches: 19, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
42 1 0.00
43 208 0.83
44 42 0.17
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAGG
Found at i:58948035 original size:23 final size:23
Alignment explanation
Indices: 58948009--58948053 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
58947999 CTTCTGGAAA
*
58948009 AAGAACACAAAAAAAACAGTTTC
1 AAGAAAACAAAAAAAACAGTTTC
*
58948032 AAGAAAATAAAAAAAACAGTTT
1 AAGAAAACAAAAAAAACAGTTT
58948054 AAAAGGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (23 bp):
AAGAAAACAAAAAAAACAGTTTC
Found at i:58949863 original size:106 final size:105
Alignment explanation
Indices: 58949621--58949922 Score: 406
Period size: 106 Copynumber: 2.8 Consensus size: 105
58949611 TTTCTAATTG
* ** * *
58949621 AGGCAATGTTTTGATTTTGGAAATTCAAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGAGTTTGGAAATTTGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
* * * * **
58949686 CGTTTAACCAAATGGCTTAATATCCTTTTAAATTTTTAAAATA
63 CGTTTAACCAAATAGCTAAATATCCTTTAAAAATTACAAAATA
*
58949729 AGGCAATGTTTTGTGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGAGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
58949794 TCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 TTAACCAAATAGCTAAATATCCTTT-AAAAATTACAAAATA
* * *
58949835 AGGCAATGTTTTGCGTTTGGAAATTTGAGGAATGTGCCGTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGAGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
* *
58949900 TTAACCAAATTGCCAAATATCCT
66 TTAACCAAATAGCTAAATATCCT
58949923 CTTGAATTTT
Statistics
Matches: 174, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
105 30 0.17
106 93 0.53
107 26 0.15
108 25 0.14
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (105 bp):
AGGCAATGTTTTGAGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
TTAACCAAATAGCTAAATATCCTTTAAAAATTACAAAATA
Found at i:58953988 original size:18 final size:18
Alignment explanation
Indices: 58953965--58954000 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58953955 ACACGTGATG
58953965 GATATAACACCCGATCGA
1 GATATAACACCCGATCGA
58953983 GATATAACACCCGATCGA
1 GATATAACACCCGATCGA
58954001 ATTGTATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (18 bp):
GATATAACACCCGATCGA
Found at i:58961802 original size:48 final size:48
Alignment explanation
Indices: 58961642--58961802 Score: 137
Period size: 48 Copynumber: 3.3 Consensus size: 48
58961632 GCAATTGAAA
* * * *
58961642 AGATTGAGGCCACAACGGCAAATCTTATTTCAAGCGGTACAGTGGAAC
1 AGATTGAAGCCACAACGGCAAATCTTATTTCAGGCGATGCAGTGGAAC
* * * ** * * * * *
58961690 AGATTGAAGCTACAATGGCGAATCTCATATCCCTGAC-ATTGCAAT-CAAA
1 AGATTGAAGCCACAACGGCAAATCT--TATTTCAGGCGA-TGCAGTGGAAC
*
58961739 AGATTGAGGCCACAACGGCAAATCTTATTTCAGGCGATGCAGTGGAAC
1 AGATTGAAGCCACAACGGCAAATCTTATTTCAGGCGATGCAGTGGAAC
*
58961787 AGATTGAAGCTACAAC
1 AGATTGAAGCCACAAC
58961803 AGCGGATCTT
Statistics
Matches: 81, Mismatches: 27, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
47 11 0.14
48 38 0.47
49 23 0.28
50 9 0.11
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (48 bp):
AGATTGAAGCCACAACGGCAAATCTTATTTCAGGCGATGCAGTGGAAC
Found at i:58961828 original size:97 final size:98
Alignment explanation
Indices: 58961630--58961999 Score: 406
Period size: 100 Copynumber: 3.8 Consensus size: 98
58961620 TAACCATAGT
* * * * *
58961630 TTGCAATTGAAAAGATTGAGGCCACAACGGCAAATCTTA-TTTCAAGCGGTACAGTGGAACAGAT
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCAAATCTTACTTTCAGGCGATGCAGTGGAACAGAT
*
58961694 TGAAGCTACAATGGCGAATCTCATATCCCTGACA
66 TGAAGCTACAATGGCGAATCTTAT-TCCCTGACA
*
58961728 TTGCAA-TCAAAAGATTGAGGCCACAACGGCAAATCTTA-TTTCAGGCGATGCAGTGGAACAGAT
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCAAATCTTACTTTCAGGCGATGCAGTGGAACAGAT
** * * *
58961791 TGAAGCTACAACAGCGGATCTTACTTCCATGATA
66 TGAAGCTACAATGGCGAATCTTA-TTCCCTGACA
* * * ** * **
58961825 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-ACTTTGCAGTGGAACAG
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCAAATCTTACTTT-C-AGGCGATGCAGTGGAACAG
* * *
58961889 ATTGAAGCCACAATGGTGAATCTTATTTCCCCGACA
64 ATTGAAGCTACAATGGCGAATCTTA-TTCCCTGACA
* * * * *
58961925 TTGCAACTCAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCAAATCTTACTT-TCAGGCGATGCAGTGGAACAGA
58961990 TTGAAGCTAC
65 TTGAAGCTAC
58962000 GACGTTAAAC
Statistics
Matches: 225, Mismatches: 40, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
97 85 0.38
98 33 0.15
99 4 0.02
100 102 0.45
101 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (98 bp):
TTGCAATTCAAAAGATTGAAGCCACAACGGCAAATCTTACTTTCAGGCGATGCAGTGGAACAGAT
TGAAGCTACAATGGCGAATCTTATTCCCTGACA
Found at i:58961969 original size:50 final size:50
Alignment explanation
Indices: 58961690--58961969 Score: 196
Period size: 50 Copynumber: 5.7 Consensus size: 50
58961680 ACAGTGGAAC
* * *
58961690 AGATTGAAGCTACAATGGCGAATCTCA-TATCCCTGACATTGCAA-TCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACT-TCCCTGACATTGCAAGTCAAA
* * * * * * *
58961739 AGATTGAGGCCACAACGGCAAATCTTA-TT-TCAGGCGA-TGC-AGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAC-ATTGCAAGT-CAAA
* * * * * * *
58961787 AGATTGAAGCTACAACAGCGGATCTTACTTCCATGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAAGTCAAA
* * * * * * * *
58961837 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAACTTTGC-AGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAAGT-CAAA
* * * * *
58961887 AGATTGAAGCCACAATGGTGAATCTTATTTCCCCGACATTGCAACTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAAGTCAAA
*
58961937 AGATTGAAGCCACAATGGCGAATCTTACTTCCC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCC
58961970 AGGCGATGCA
Statistics
Matches: 176, Mismatches: 46, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
46 1 0.01
47 7 0.04
48 26 0.15
49 28 0.16
50 110 0.62
51 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAAGTCAAA
Found at i:58961991 original size:50 final size:50
Alignment explanation
Indices: 58961642--58961996 Score: 183
Period size: 50 Copynumber: 7.2 Consensus size: 50
58961632 GCAATTGAAA
* * * * * *
58961642 AGATTGAGGCCACAACGGCAAATCTTA-TT-TCAAGCGGTACAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGGAAC
* * * * * * * *
58961690 AGATTGAAGCTACAATGGCGAATCTCA-TATCCCTGAC-ATTGCAAT-CAAA
1 AGATTGAAGCCACAACGGCGAATCTTACT-TCCCAGGCGA-TGCAGTGGAAC
* * *
58961739 AGATTGAGGCCACAACGGCAAATCTTA-TT-TCAGGCGATGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGGAAC
* * * * ** * ** *
58961787 AGATTGAAGCTACAACAGCGGATCTTACTT-CCATGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGGAAC
* * * * * **
58961837 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-ACTTTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGCGATGCAGTGGAAC
* * * * * * * *
58961887 AGATTGAAGCCACAATGGTGAATCTTATTTCCCCGAC-ATTGCAACT-CAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGC-AGTGGAAC
* *
58961937 AGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGGAAC
58961987 AGATTGAAGC
1 AGATTGAAGC
58961997 TACGACGTTA
Statistics
Matches: 227, Mismatches: 66, Indels: 26
0.71 0.21 0.08
Matches are distributed among these distances:
47 8 0.04
48 49 0.22
49 37 0.16
50 125 0.55
51 6 0.03
52 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGGAAC
Found at i:58962079 original size:44 final size:44
Alignment explanation
Indices: 58962029--58962184 Score: 165
Period size: 44 Copynumber: 3.5 Consensus size: 44
58962019 AAGCCAATCC
*
58962029 TATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAAACACAGATCT
* ** *
58962073 TATCTCCCTGAAGTTACAGTGGAGCA-GACAGAAGAAAC-CA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAG-AGGA-TTAA-AAACACAGATCT
* * * * **
58962117 TGTCTCTCTGAAGTTGCAGTAGAGCGGATTAAAGTCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAAACACAGATCT
58962161 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
58962185 CAGACCAAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.02
43 4 0.05
44 74 0.84
45 5 0.06
46 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAAACACAGATCT
Found at i:58962158 original size:88 final size:88
Alignment explanation
Indices: 58962009--58962189 Score: 283
Period size: 88 Copynumber: 2.1 Consensus size: 88
58961999 CGACGTTAAA
*
58962009 CAGACAGAAAAAGCCAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCACAGATCTT
1 CAGACAGAAAAAGCCAATCCTATCTCCCTGAAGTTGCAGTAGAGAGGATTAAAACCACAGATCTT
58962074 ATCTCCCTGAAGTTACAGTGGAG
66 ATCTCCCTGAAGTTACAGTGGAG
* * * **
58962097 CAGACAGAAGAAA-CCAATCCTGTCTCTCTGAAGTTGCAGTAGAGCGGATTAAAGTCACAGATCT
1 CAGACAGAA-AAAGCCAATCCTATCTCCCTGAAGTTGCAGTAGAGAGGATTAAAACCACAGATCT
*
58962161 TATCTCCCTGAAGTTGCAGTGGAG
65 TATCTCCCTGAAGTTACAGTGGAG
58962185 CAGAC
1 CAGAC
58962190 CAAAGCCATG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 82 0.96
89 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (88 bp):
CAGACAGAAAAAGCCAATCCTATCTCCCTGAAGTTGCAGTAGAGAGGATTAAAACCACAGATCTT
ATCTCCCTGAAGTTACAGTGGAG
Found at i:58964687 original size:106 final size:105
Alignment explanation
Indices: 58964454--58964755 Score: 415
Period size: 106 Copynumber: 2.8 Consensus size: 105
58964444 TTTCTAATTG
* * *
58964454 AGGCAATGTTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
* * * **
58964519 CGTTTAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAATA
63 CGTTTAACCAAATAGCTAAATATCCTTTAAAAATTACAAAATA
**
58964562 AGGCAATGTTTTGTATTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
58964627 TCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 TTAACCAAATAGCTAAATATCCTTT-AAAAATTACAAAATA
* * * *
58964668 AGGTAATGTTTTGCGTTTGGAAATTTGAGGAATGTGCCGTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
* *
58964733 TTAACCAAATTGCCAAATATCCT
66 TTAACCAAATAGCTAAATATCCT
58964756 CTTGAATTTT
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
105 30 0.17
106 91 0.53
107 26 0.15
108 26 0.15
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (105 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
TTAACCAAATAGCTAAATATCCTTTAAAAATTACAAAATA
Found at i:58966294 original size:18 final size:18
Alignment explanation
Indices: 58966255--58966298 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
58966245 AGACTTGAAC
*
58966255 AAATAAAGCAAATATAGCA
1 AAATGAAGCAAATATA-CA
58966274 AAATGAAGCAAACTATA-A
1 AAATGAAGCAAA-TATACA
58966292 AAATGAA
1 AAATGAA
58966299 ATGCAACGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 11 0.48
20 4 0.17
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.16
Consensus pattern (18 bp):
AAATGAAGCAAATATACA
Found at i:58967237 original size:26 final size:25
Alignment explanation
Indices: 58967208--58967263 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
58967198 AAAATAAATA
*
58967208 AATAAA-TAAAAATGGAATGTATATAT
1 AATAAAGTAAAAAT-GAAAGTATA-AT
*
58967234 AATAAAGTAAACATGAAAGTATAAT
1 AATAAAGTAAAAATGAAAGTATAAT
58967259 AATAA
1 AATAA
58967264 TAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 7 0.26
26 14 0.52
27 6 0.22
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.27
Consensus pattern (25 bp):
AATAAAGTAAAAATGAAAGTATAAT
Found at i:58967262 original size:3 final size:3
Alignment explanation
Indices: 58967254--58967287 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
58967244 ACATGAAAGT
58967254 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
58967288 GTAACAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:58967396 original size:3 final size:3
Alignment explanation
Indices: 58967388--58967538 Score: 91
Period size: 3 Copynumber: 52.3 Consensus size: 3
58967378 ATAACAATGG
* * *
58967388 ATA ATA ATA GTA ATA ATA A-A ATA ATA ATA TTA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
58967435 CTT ATA ATA ATT GTA ATA A-A ATA ATA ATGA CT- ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * * * *
58967478 ATA AAA ATG CTA ATA TTA ATA TTG ATA ATA ATA AT- ATT ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
58967524 A-A ATA ATA TTA ATA A
1 ATA ATA ATA ATA ATA A
58967539 CAAGAGTAAT
Statistics
Matches: 109, Mismatches: 32, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
2 13 0.12
3 94 0.86
4 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:58967421 original size:23 final size:23
Alignment explanation
Indices: 58967388--58967481 Score: 100
Period size: 23 Copynumber: 4.0 Consensus size: 23
58967378 ATAACAATGG
58967388 ATAATAATAGTAATAATAAAATA
1 ATAATAATAGTAATAATAAAATA
*
58967411 ATAATATTAGTAATAATAATAATA
1 ATAATAATAGTAATAATAA-AATA
* * * **
58967435 CTTATAATAATTGTAATAAAATA
1 ATAATAATAGTAATAATAAAATA
*
58967458 ATAATGACTA-TAATAATAAAATA
1 ATAAT-AATAGTAATAATAAAATA
58967481 A
1 A
58967482 AAATGCTAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
23 37 0.65
24 20 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAATAATAGTAATAATAAAATA
Found at i:58967485 original size:29 final size:29
Alignment explanation
Indices: 58967425--58967483 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
58967415 TATTAGTAAT
**
58967425 AATAATAATACTTATAATAATTGTAATAA
1 AATAATAATACTTATAATAATTAAAATAA
58967454 AATAATAATGAC-TATAATAA-TAAAATAA
1 AATAATAAT-ACTTATAATAATTAAAATAA
58967482 AA
1 AA
58967484 ATGCTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 8 0.30
29 17 0.63
30 2 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
AATAATAATACTTATAATAATTAAAATAA
Found at i:58968718 original size:45 final size:45
Alignment explanation
Indices: 58968636--58968722 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
58968626 GGAGATAAAG
* * *
58968636 AAAAGTCATAATCATTGCATCAATTTCACTACCAAAAAAAAAAAA
1 AAAAGTCATAATCATTGCATCAATTCCACGACAAAAAAAAAAAAA
* * *
58968681 AAAAGTCATAGTCATTGCATCCATTCCTCGACAAAAAAAAAA
1 AAAAGTCATAATCATTGCATCAATTCCACGACAAAAAAAAAA
58968723 GCCATAGTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.22
Consensus pattern (45 bp):
AAAAGTCATAATCATTGCATCAATTCCACGACAAAAAAAAAAAAA
Found at i:58969238 original size:19 final size:20
Alignment explanation
Indices: 58969213--58969259 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
58969203 AATGATAAAA
58969213 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
58969233 -ATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAATTT
58969252 AATAAAAA
1 AATAAAAA
58969260 ATATAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:58969701 original size:24 final size:24
Alignment explanation
Indices: 58969674--58969722 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
58969664 TGTTCTCATG
*
58969674 TTTAGTAAATTTTAA-ATATTTTTA
1 TTTAGTAAAGTTTAATA-ATTTTTA
*
58969698 TTTATTAAAGTTTAATAATTTTTA
1 TTTAGTAAAGTTTAATAATTTTTA
58969722 T
1 T
58969723 AACTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTAGTAAAGTTTAATAATTTTTA
Found at i:58973986 original size:47 final size:46
Alignment explanation
Indices: 58973933--58974099 Score: 170
Period size: 44 Copynumber: 3.7 Consensus size: 46
58973923 TCATATAAGA
*
58973933 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAATAATTTTATGAAATTATATAT-ATTATTAAATT
* *
58973980 ATATTTAATATTAATTA-TTT-T-AAATTATATATATTCATATAAGA--
1 ATATTTATTATTAATAATTTTATGAAATTATATATATT-AT-TAA-ATT
* *
58974024 ATATTTATTATCAATAATTTTATGAAATTATATATTATTACTAAATT
1 ATATTTATTATTAATAATTTTATGAAATTATATA-TATTATTAAATT
* *
58974071 ATATTTA--A-TAATAATTATATTAAATTATA
1 ATATTTATTATTAATAATTTTATGAAATTATA
58974100 CAAATTCATA
Statistics
Matches: 101, Mismatches: 10, Indels: 21
0.77 0.08 0.16
Matches are distributed among these distances:
43 3 0.03
44 45 0.45
45 9 0.09
46 8 0.08
47 32 0.32
48 4 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (46 bp):
ATATTTATTATTAATAATTTTATGAAATTATATATATTATTAAATT
Found at i:58974028 original size:44 final size:44
Alignment explanation
Indices: 58973921--58974143 Score: 159
Period size: 47 Copynumber: 4.9 Consensus size: 44
58973911 ATTTTAGTAA
* **
58973921 ATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATAT
1 ATTCATATAAGAATATTTAATATTAATTA-TTT-T-AAATTATATAT
58973968 CATT-AT-TAA-ATTATATTTAATATTAATTATTTTAAATTATATAT
1 -ATTCATATAAGA--ATATTTAATATTAATTATTTTAAATTATATAT
* * *
58974012 ATTCATATAAGAATATTTATTATCAATAATTTTATGAAATTATATATT
1 ATTCATATAAGAATATTTAATATTAATTA-TTT-T-AAATTATATA-T
** * * * *
58974060 ATT-ACTA-AATTATATTTAATAATAATTATATTAAATTATACAA
1 ATTCA-TATAAGAATATTTAATATTAATTATTTTAAATTATATAT
* *
58974103 ATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATT
1 ATTCATATAAGAATATTTA--A-TATTAATTATTTTAAATT
58974144 TTATTAAATC
Statistics
Matches: 141, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
43 8 0.06
44 45 0.32
45 9 0.06
46 11 0.08
47 59 0.42
48 9 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (44 bp):
ATTCATATAAGAATATTTAATATTAATTATTTTAAATTATATAT
Found at i:58974028 original size:91 final size:91
Alignment explanation
Indices: 58973919--58974133 Score: 340
Period size: 91 Copynumber: 2.4 Consensus size: 91
58973909 TGATTTTAGT
* *
58973919 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAATATTTATTATTAATAATTTTATGAAATTATATATCATTACTAAATTATAT
* * *
58973984 TTAATATTAATTATTTTAAATTATAT
66 TTAATAATAATTATATTAAATTATAC
* * *
58974010 ATATTCATATAAGAATATTTATTATCAATAATTTTATGAAATTATATATTATTACTAAATTATAT
1 AAATTCATATAAGAATATTTATTATTAATAATTTTATGAAATTATATATCATTACTAAATTATAT
58974075 TTAATAATAATTATATTAAATTATAC
66 TTAATAATAATTATATTAAATTATAC
* *
58974101 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAATATTTATTATTAATAATT
58974134 ATTTTAAATT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 112 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTCATATAAGAATATTTATTATTAATAATTTTATGAAATTATATATCATTACTAAATTATAT
TTAATAATAATTATATTAAATTATAC
Found at i:58974439 original size:120 final size:120
Alignment explanation
Indices: 58974140--58974549 Score: 745
Period size: 120 Copynumber: 3.4 Consensus size: 120
58974130 AATTATTTTA
*
58974140 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
58974205 ATAGTATCATATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTT-AGTAAATTCATATAAGAATATTGATTATTAAG
58974261 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
58974326 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
58974381 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
*
58974445 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
58974501 AATTTTATTAAATTATATAATTTT-ATTAAAAT-TATTTAATAATAATTAT
1 AATTTTATTAAATCATAT-ATTTTAATTAAAATATATTTAATAATAATTAT
58974550 GTTAAAATAT
Statistics
Matches: 284, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
119 17 0.06
120 173 0.61
121 94 0.33
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:58974518 original size:59 final size:59
Alignment explanation
Indices: 58974214--58974518 Score: 197
Period size: 57 Copynumber: 5.1 Consensus size: 59
58974204 TATAGTATCA
58974214 TATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 TATATTATGA-TTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
58974274 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGATTAT-TAA-GA-ATTTTATTA-AA
58974332 T
59 T
*
58974333 CATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
58974394 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATGT-TAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGAT-TATTAA-GA-ATTTTATTA-AA
58974452 T
59 T
*
58974453 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
58974514 TATAT
1 TATAT
58974519 AATTTTATTA
Statistics
Matches: 182, Mismatches: 31, Indels: 65
0.65 0.11 0.23
Matches are distributed among these distances:
56 12 0.07
57 34 0.19
58 18 0.10
59 27 0.15
60 3 0.02
61 22 0.12
62 21 0.12
63 34 0.19
64 11 0.06
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:58974524 original size:18 final size:19
Alignment explanation
Indices: 58974501--58974540 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
58974491 GATTATTAAG
58974501 AATTTTATT-AAATTATAT
1 AATTTTATTAAAATTATAT
*
58974519 AATTTTATTAAAATTATTT
1 AATTTTATTAAAATTATAT
58974538 AAT
1 AAT
58974541 AATAATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTATTAAAATTATAT
Found at i:58974792 original size:16 final size:16
Alignment explanation
Indices: 58974771--58974838 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
58974761 GATTTGCTAT
58974771 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58974787 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
58974803 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
58974819 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58974835 TACA
1 TACA
58974839 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58982944 original size:20 final size:21
Alignment explanation
Indices: 58982901--58982954 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
58982891 ATGTGAAAAA
*
58982901 TAAATAAATAAATCATTAAGT
1 TAAAAAAATAAATCATTAAGT
* *
58982922 TAAAAAAATAACTC-TTAATT
1 TAAAAAAATAAATCATTAAGT
58982942 TAAAGAAAATAAA
1 TAAA-AAAATAAA
58982955 CGTAATTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (21 bp):
TAAAAAAATAAATCATTAAGT
Found at i:58986485 original size:127 final size:123
Alignment explanation
Indices: 58986193--58986537 Score: 514
Period size: 127 Copynumber: 2.8 Consensus size: 123
58986183 TTTCGAGTTA
* * *
58986193 ACGTTTTTGATCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTAAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
* * *
58986258 TCG-AGCCCTCGAGGACGCGCTTTCGCTA-AGTAGGTCATGGATGAAATAATTTTTTTG
66 TCGCA-CCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGATGAAATAATTTTTTTC
* * *
58986315 ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAACAGGATGCTATTTGAGACGAATTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
*
58986380 TCGCACCCTCGTGGACGCGTTTTTGCTACAGTAGGTCATGGATGAAATAAGTTTTTTTTTTC
66 TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGATGAAATAA----TTTTTTTC
* *
58986442 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAATAATTTATGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
*
58986507 TCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 TCGCACCCTCGTGGACGCGCTTTTGCTACAG
58986538 CAGCATGTTT
Statistics
Matches: 200, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
122 82 0.41
123 22 0.11
127 96 0.48
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (123 bp):
ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGATGAAATAATTTTTTTC
Found at i:58989795 original size:25 final size:25
Alignment explanation
Indices: 58989756--58989877 Score: 219
Period size: 25 Copynumber: 4.9 Consensus size: 25
58989746 TCAAAAAATT
58989756 TTCTA-TTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
*
58989780 TTCTATTTTATTACATCAAATAAAT
1 TTCTATTTTATTACATCAAATAAAC
*
58989805 TTCTATTTTATTACATTAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
58989830 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
58989855 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
58989878 TATTAAAATA
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
24 5 0.05
25 88 0.95
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:58989909 original size:45 final size:46
Alignment explanation
Indices: 58989718--58989932 Score: 179
Period size: 50 Copynumber: 4.6 Consensus size: 46
58989708 TAAGCTCATG
* * *
58989718 TTATTACATCGAATAATATCAAAATAAC-TCAAAAAATTTTCTA-T
1 TTATTACATCAAATAATATTAAAATAACATCAAAAAAATTTCTATT
** * *
58989762 TTATTACATCAAATAA-ACTTCTATTTTATTACATCAAATAAATTTCTATT
1 TTATTACATCAAATAATA--T-TA--AAATAACATCAAAAAAATTTCTATT
* ** * * *
58989812 TTATTACATTAAATAA-ACTTCTATTTTATTACATCAAATAAACTTCTATT
1 TTATTACATCAAATAATA--T-TA--AAATAACATCAAAAAAATTTCTATT
58989862 TTATTACATCAAATAATATTAAAATAAC-TCAAAAAAATTTCTATT
1 TTATTACATCAAATAATATTAAAATAACATCAAAAAAATTTCTATT
*
58989907 TTATTACATCAAATAATATCAAAATA
1 TTATTACATCAAATAATATTAAAATA
58989933 TTCAAAATAT
Statistics
Matches: 147, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.01
44 15 0.10
45 41 0.28
46 5 0.03
48 6 0.04
49 14 0.10
50 64 0.44
51 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (46 bp):
TTATTACATCAAATAATATTAAAATAACATCAAAAAAATTTCTATT
Found at i:58989918 original size:25 final size:25
Alignment explanation
Indices: 58989746--58989922 Score: 215
Period size: 25 Copynumber: 7.3 Consensus size: 25
58989736 TCAAAATAAC
58989746 TCAAA-AAATTTTCTA-TTTATTACA
1 TCAAATAAA-TTTCTATTTTATTACA
*
58989770 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
58989795 TCAAATAAATTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
* *
58989820 TTAAATAAACTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
*
58989845 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
* ** *
58989870 TCAAAT-AATAT-TA--AAATAAC-
1 TCAAATAAATTTCTATTTTATTACA
*
58989890 TCAAAAAAATTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
58989915 TCAAATAA
1 TCAAATAA
58989923 TATCAAAATA
Statistics
Matches: 130, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
20 5 0.04
21 8 0.06
22 2 0.02
23 2 0.02
24 17 0.13
25 96 0.74
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (25 bp):
TCAAATAAATTTCTATTTTATTACA
Found at i:58990367 original size:18 final size:18
Alignment explanation
Indices: 58990344--58990383 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
58990334 GACTTGGAAA
*
58990344 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
58990362 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
58990380 AGGA
1 AGGA
58990384 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:58991043 original size:7 final size:7
Alignment explanation
Indices: 58991033--58991058 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
58991023 GTTATTACAT
58991033 AATACTA
1 AATACTA
58991040 AATACTA
1 AATACTA
58991047 AATACTA
1 AATACTA
58991054 AATAC
1 AATAC
58991059 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:58992963 original size:18 final size:18
Alignment explanation
Indices: 58992940--58992981 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
58992930 CCCATTAACT
*
58992940 AAACCCGAATCTATACCC
1 AAACCCGAATCTAAACCC
*
58992958 AAACCCGAATCTAAACCT
1 AAACCCGAATCTAAACCC
58992976 AAACCC
1 AAACCC
58992982 TAAACCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.05, T:0.14
Consensus pattern (18 bp):
AAACCCGAATCTAAACCC
Found at i:58995843 original size:20 final size:20
Alignment explanation
Indices: 58995805--58995843 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58995795 TACGACCAAT
* * *
58995805 GGTTTTGATATTTGTTGTTA
1 GGTTTTAATATTGGGTGTTA
58995825 GGTTTTAATATTGGGTGTT
1 GGTTTTAATATTGGGTGTT
58995844 GAAAGGTCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (20 bp):
GGTTTTAATATTGGGTGTTA
Found at i:58996564 original size:21 final size:21
Alignment explanation
Indices: 58996540--58996583 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
58996530 TATTTTTCCT
58996540 AAGTTTAAAGCTATTGTTGAA
1 AAGTTTAAAGCTATTGTTGAA
58996561 AAGTTTAAAGCTATTGTTGAA
1 AAGTTTAAAGCTATTGTTGAA
58996582 AA
1 AA
58996584 ATACTTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (21 bp):
AAGTTTAAAGCTATTGTTGAA
Found at i:58999464 original size:6 final size:5
Alignment explanation
Indices: 58999431--58999463 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
58999421 TTCTTTTGAT
*
58999431 TTTTA TTTTA TTTTA TTTTA TTTT- TTTCA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
58999464 CGACTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:59000151 original size:3 final size:3
Alignment explanation
Indices: 59000143--59000188 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
59000133 ATTTTAATCC
*
59000143 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59000189 CCTTCTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:59016186 original size:13 final size:13
Alignment explanation
Indices: 59016168--59016194 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59016158 CACTGATTAC
59016168 ATATATATATAAT
1 ATATATATATAAT
59016181 ATATATATATAAT
1 ATATATATATAAT
59016194 A
1 A
59016195 ATCAGTACAT
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):
ATATATATATAAT
Found at i:59020539 original size:42 final size:41
Alignment explanation
Indices: 59020488--59020648 Score: 196
Period size: 42 Copynumber: 3.9 Consensus size: 41
59020478 TTGAGAAAAA
* *
59020488 CGCCACTGAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAG
* * * *
59020530 CGCCGCTGAAGAACATGTTCTTTAGCAGCGTTTTTATATAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTTAAG
* * *
59020572 CGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTATTAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTT-TTAAG
* *
59020614 TGCCACTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTT
59020649 GTACAAAAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 101 0.98
43 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (41 bp):
CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAG
Found at i:59021058 original size:21 final size:21
Alignment explanation
Indices: 59021034--59021080 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
59021024 TTTGAACCTT
* *
59021034 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCCCTCGCTGCAGCATC
*
59021055 TGCTTCCCTCGCTGCCGCATC
1 TGCTTCCCTCGCTGCAGCATC
59021076 TGCTT
1 TGCTT
59021081 TAAGTTGTAG
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:0.04, C:0.43, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCATC
Found at i:59026594 original size:7 final size:7
Alignment explanation
Indices: 59026584--59026629 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
59026574 TGATATATTT
59026584 TTATGTA
1 TTATGTA
59026591 TTATGTAA
1 TTATGT-A
59026599 GTTATGTAA
1 -TTATGT-A
59026608 GTTATGTA
1 -TTATGTA
59026616 TTATGTA
1 TTATGTA
59026623 TTATGTA
1 TTATGTA
59026630 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:59026605 original size:9 final size:9
Alignment explanation
Indices: 59026591--59027305 Score: 675
Period size: 9 Copynumber: 79.8 Consensus size: 9
59026581 TTTTTATGTA
59026591 TTATGTAAG
1 TTATGTAAG
59026600 TTATGTAAG
1 TTATGTAAG
59026609 TTATGT-A-
1 TTATGTAAG
59026616 TTATGT-A-
1 TTATGTAAG
59026623 TTATGTAAG
1 TTATGTAAG
59026632 -TACTGTAAG
1 TTA-TGTAAG
*
59026641 TAATGTAAG
1 TTATGTAAG
*
59026650 TTGTGT-A-
1 TTATGTAAG
* *
59026657 TAATAATAA-
1 TTAT-GTAAG
*
59026666 TTATGTGAG
1 TTATGTAAG
*
59026675 TTGTGT-A-
1 TTATGTAAG
*
59026682 TAATGTAAG
1 TTATGTAAG
*
59026691 TTAAG-AAGG
1 TTATGTAA-G
59026700 TTATGT-A-
1 TTATGTAAG
*
59026707 TAATGTAAG
1 TTATGTAAG
59026716 TTATGTAAG
1 TTATGTAAG
* * *
59026725 TAATTTAAT
1 TTATGTAAG
59026734 TTATGTAAG
1 TTATGTAAG
*
59026743 TTATGCAAG
1 TTATGTAAG
* *
59026752 TTATTTAAT
1 TTATGTAAG
59026761 TTATGTAAG
1 TTATGTAAG
*
59026770 TTATGTAAA
1 TTATGTAAG
*
59026779 TTATTTAAG
1 TTATGTAAG
59026788 TTATGTAAG
1 TTATGTAAG
59026797 TTATGTAAG
1 TTATGTAAG
* *
59026806 TTATTTAAT
1 TTATGTAAG
*
59026815 TTATGTAGG
1 TTATGTAAG
59026824 TTATGTAAG
1 TTATGTAAG
* * * *
59026833 TCCACGGAAT
1 T-TATGTAAG
59026843 TTATGTAAG
1 TTATGTAAG
59026852 TTATGTAAG
1 TTATGTAAG
* *
59026861 TTATTTAAT
1 TTATGTAAG
59026870 TTATGTAAG
1 TTATGTAAG
59026879 TTATGTAAG
1 TTATGTAAG
* *
59026888 TTATTTAAT
1 TTATGTAAG
*
59026897 TTATGTAGG
1 TTATGTAAG
59026906 TTATGTAAG
1 TTATGTAAG
59026915 TTATGTAAG
1 TTATGTAAG
* *
59026924 TTATTTAAT
1 TTATGTAAG
59026933 TTATGTAAG
1 TTATGTAAG
* *
59026942 TTATTTAAT
1 TTATGTAAG
59026951 TTATGTAAG
1 TTATGTAAG
59026960 TTATGTAAG
1 TTATGTAAG
* *
59026969 TTATTTAAT
1 TTATGTAAG
*
59026978 TTATGTAGG
1 TTATGTAAG
59026987 TTATGTAAG
1 TTATGTAAG
59026996 TTATGTAAG
1 TTATGTAAG
* *
59027005 TTATTTAAT
1 TTATGTAAG
*
59027014 TTATGCAAG
1 TTATGTAAG
59027023 TTTATGTAAG
1 -TTATGTAAG
59027033 TTATGTAAG
1 TTATGTAAG
* *
59027042 TTATTTAAT
1 TTATGTAAG
59027051 TTATGTAAG
1 TTATGTAAG
59027060 TTATGTAAG
1 TTATGTAAG
* *
59027069 TTATTTAAT
1 TTATGTAAG
*
59027078 TTATGTAGG
1 TTATGTAAG
59027087 TTATGTAAG
1 TTATGTAAG
59027096 TTATGTAAG
1 TTATGTAAG
* *
59027105 TTATTTAAT
1 TTATGTAAG
*
59027114 TTATGCAAG
1 TTATGTAAG
59027123 TTTATGTAAG
1 -TTATGTAAG
*
59027133 TTATGCAAG
1 TTATGTAAG
*
59027142 TTTAT-TAAT
1 -TTATGTAAG
59027151 TTATGTAAG
1 TTATGTAAG
* *
59027160 TTATTTAAT
1 TTATGTAAG
*
59027169 TTATGTAGG
1 TTATGTAAG
59027178 TTATGTAAG
1 TTATGTAAG
59027187 TTATGTAAG
1 TTATGTAAG
* *
59027196 TTATTTAAT
1 TTATGTAAG
*
59027205 TTATGCAAG
1 TTATGTAAG
59027214 TTTATGTAAG
1 -TTATGTAAG
59027224 TTATGTAAG
1 TTATGTAAG
* *
59027233 TTATTTAAT
1 TTATGTAAG
59027242 TTATGTAAG
1 TTATGTAAG
*
59027251 TTGTGTAAG
1 TTATGTAAG
* *
59027260 TTATTTAAT
1 TTATGTAAG
59027269 TTATGTAAG
1 TTATGTAAG
*
59027278 TTATGCAAG
1 TTATGTAAG
*
59027287 CTTATATACAAG
1 -TTATGT--AAG
59027299 TTATGTA
1 TTATGTA
59027306 TTATAACATA
Statistics
Matches: 561, Mismatches: 123, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
7 24 0.04
8 17 0.03
9 474 0.84
10 38 0.07
11 5 0.01
12 3 0.01
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:59027393 original size:21 final size:21
Alignment explanation
Indices: 59027369--59027419 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
59027359 AATTATTATG
59027369 TAAGTTATGCAAGCTTAAATA
1 TAAGTTATGCAAGCTTAAATA
*
59027390 TAAGTTATGCAAGCTTATATA
1 TAAGTTATGCAAGCTTAAATA
*
59027411 CAAGTTATG
1 TAAGTTATG
59027420 TATTATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
TAAGTTATGCAAGCTTAAATA
Found at i:59027399 original size:116 final size:116
Alignment explanation
Indices: 59027274--59027514 Score: 448
Period size: 116 Copynumber: 2.1 Consensus size: 116
59027264 TTAATTTATG
59027274 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTAT-TATG
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGT-TG
59027338 CTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
65 CTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
*
59027390 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGTTGT
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGTTGC
*
59027455 TATTATATATAAGTTCTGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
66 TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
59027506 TAAGTTATG
1 TAAGTTATG
59027515 TATTATATAA
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
116 121 0.99
117 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.43
Consensus pattern (116 bp):
TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGTTGC
TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
Found at i:59027659 original size:62 final size:62
Alignment explanation
Indices: 59027575--59027694 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 62
59027565 TAGAAACTTA
* * * *** *
59027575 TAAACTTAATACACATATATTTTATTTCTCCCAAATTTAGAACACTTATTTAGAAAACGAAG
1 TAAACTTAATACACATAAATTTTAATACAAACAAATTTAGAAAACTTATTTAGAAAACGAAG
* *
59027637 TAAATTTAATACTA-ATAAATTTTAATACAAATAAATTTAGAAAACTTATTTAGAAAAC
1 TAAACTTAATAC-ACATAAATTTTAATACAAACAAATTTAGAAAACTTATTTAGAAAAC
59027695 TTATATAGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
62 47 0.98
63 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (62 bp):
TAAACTTAATACACATAAATTTTAATACAAACAAATTTAGAAAACTTATTTAGAAAACGAAG
Found at i:59027662 original size:16 final size:16
Alignment explanation
Indices: 59027637--59027674 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
59027627 GAAAACGAAG
*
59027637 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
59027652 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
59027668 TAAATTT
1 TAAATTT
59027675 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:59027689 original size:13 final size:13
Alignment explanation
Indices: 59027671--59027703 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
59027661 ATACAAATAA
59027671 ATTTAGAAAACTT
1 ATTTAGAAAACTT
59027684 ATTTAGAAAACTT
1 ATTTAGAAAACTT
*
59027697 ATATAGA
1 ATTTAGA
59027704 TATTAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:59029216 original size:27 final size:27
Alignment explanation
Indices: 59029186--59029241 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
59029176 ACCAATAAGA
59029186 AAGCAAAATCAAAATTAAAAATACGAC
1 AAGCAAAATCAAAATTAAAAATACGAC
59029213 AAGCAAAATCAAAATTAAAAATACGAC
1 AAGCAAAATCAAAATTAAAAATACGAC
59029240 AA
1 AA
59029242 AACCCAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (27 bp):
AAGCAAAATCAAAATTAAAAATACGAC
Found at i:59031847 original size:21 final size:20
Alignment explanation
Indices: 59031821--59031861 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59031811 CTCTAAACCT
*
59031821 TAAACCTCAATCTCCAAGCCC
1 TAAACCT-AAACTCCAAGCCC
*
59031842 TAAACCTAAACTCTAAGCCC
1 TAAACCTAAACTCCAAGCCC
59031862 AAATCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.39, G:0.05, T:0.20
Consensus pattern (20 bp):
TAAACCTAAACTCCAAGCCC
Found at i:59032538 original size:133 final size:131
Alignment explanation
Indices: 59032206--59032605 Score: 439
Period size: 133 Copynumber: 3.0 Consensus size: 131
59032196 ATCCGAACCG
* * * * *
59032206 TTTCCGGCGTTTTTTAACATTTCGCCACTAAAG-CATAAAAAGGAAACAACAAAACAGTACCGTT
1 TTTCCGGCGTTTTTTAA-AATGCGCCACTAAAGAAAT-AAAATGAAACAACAAAACGGTA-CGTT
* * * *
59032270 TTGCTCAAAATTATTCCTCAAATTAGATTTCTTTACCGGCGTTTCTCC-AATAACGCCACTATAT
63 TTGCTCAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTC-CCGAA-AACGCCGCTA-AT
59032334 CCCAATA
125 CCCAATA
* * * * * *
59032341 TTTGCGGCATTTTTTACAATGCGCCACTAAGGAAATAAAATGAAGCAATAAAACGGTAGCGTTTT
1 TTTCCGGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTA-CGTTTT
*
59032406 G-TCCAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCCCTGAAAACGCCGCTAAT-GC
65 GCT-CAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCCC-GAAAACGCCGCTAATCCC
* *
59032469 ATTCT
128 AAT-A
*
59032474 TTTCCGGTGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACTGTTTT
1 TTTCCGGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTAC-GTTTT
* * * * * *
59032539 GCTCAAATTTTTTCCTCAAATTCGTTATCGTTACCAGCGTTTCTCAGAAAACGCCGCTAATTCCA
65 GCTCAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTC-CCGAAAACGCCGCTAATCCCA
59032604 AT
129 AT
59032606 TTTTTGCGGC
Statistics
Matches: 223, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
132 4 0.02
133 113 0.51
134 88 0.39
135 18 0.08
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (131 bp):
TTTCCGGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACGTTTTG
CTCAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCCCGAAAACGCCGCTAATCCCAAT
A
Found at i:59042160 original size:22 final size:22
Alignment explanation
Indices: 59042135--59042178 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
59042125 AACCCTTAAA
59042135 CCTTGTGT-TTCTTCTTTCTTTC
1 CCTT-TGTCTTCTTCTTTCTTTC
* *
59042157 CCTTTTTCTTTTTCTTTCTTTC
1 CCTTTGTCTTCTTCTTTCTTTC
59042179 TTTCTGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.00, C:0.27, G:0.05, T:0.68
Consensus pattern (22 bp):
CCTTTGTCTTCTTCTTTCTTTC
Found at i:59045580 original size:50 final size:50
Alignment explanation
Indices: 59045453--59045701 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
59045443 GATAATAACA
* * * ** * *
59045453 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
59045504 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
59045554 TGCCAACGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
59045604 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
59045659 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
59045702 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:59045628 original size:100 final size:104
Alignment explanation
Indices: 59045452--59045701 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 104
59045442 TGATAATAAC
* **
59045452 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
59045517 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
59045554 -TGCCAACGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
59045617 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
59045659 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
59045702 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 34 0.26
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:59045817 original size:13 final size:13
Alignment explanation
Indices: 59045796--59045827 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
59045786 GCTTGGATCA
*
59045796 TCATCAAATAAAT
1 TCATAAAATAAAT
59045809 TCATAAAATAAAT
1 TCATAAAATAAAT
59045822 TCATAA
1 TCATAA
59045828 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:59046074 original size:30 final size:30
Alignment explanation
Indices: 59046039--59046096 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
59046029 CCTCGACTCT
*
59046039 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
59046069 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
59046097 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:59048330 original size:12 final size:11
Alignment explanation
Indices: 59048309--59048435 Score: 53
Period size: 11 Copynumber: 11.2 Consensus size: 11
59048299 AAATACCTCT
59048309 AAAATAATAAC
1 AAAATAATAAC
*
59048320 AAAATTAATAAT
1 AAAA-TAATAAC
* *
59048332 AAAACAATAGTTAT
1 AAAATAATA---AC
*
59048346 ACAATATATAATC
1 AAAATA-ATAA-C
*
59048359 AATAACAATAA-
1 AA-AATAATAAC
*
59048370 A-AATAGTAAC
1 AAAATAATAAC
*
59048380 AATATAATAAC
1 AAAATAATAAC
* *
59048391 AAAATTATAGC
1 AAAATAATAAC
* *
59048402 AAAACAATGA-
1 AAAATAATAAC
* *
59048412 AAAACAATAAA
1 AAAATAATAAC
59048423 AAAATAATAAC
1 AAAATAATAAC
59048434 AA
1 AA
59048436 TCTTTTTTAA
Statistics
Matches: 85, Mismatches: 21, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
9 6 0.07
10 10 0.12
11 41 0.48
12 11 0.13
13 5 0.06
14 9 0.11
15 3 0.04
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.22
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:59057477 original size:6 final size:6
Alignment explanation
Indices: 59057466--59057491 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59057456 AGGACTCCTC
59057466 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
59057492 TCTTCCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:59060601 original size:21 final size:21
Alignment explanation
Indices: 59060563--59060607 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59060553 CGGCTTACGT
*
59060563 ACATGGGCATGCGAAGCAGTC
1 ACATGGGCATGCGAAGCAGCC
* * *
59060584 ACATGGGCGTGTGGAGCAGCC
1 ACATGGGCATGCGAAGCAGCC
59060605 ACA
1 ACA
59060608 CGACCATGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.36, T:0.13
Consensus pattern (21 bp):
ACATGGGCATGCGAAGCAGCC
Found at i:59060731 original size:126 final size:126
Alignment explanation
Indices: 59060519--59060754 Score: 346
Period size: 126 Copynumber: 1.9 Consensus size: 126
59060509 ACATGACCTT
* * * * *
59060519 GTGATTTTATATTACATGGGCACAATGAGTTACACGGCTTACGTACATGGGCATGCGAAGCAGTC
1 GTGACTTTATATTACACGGGCACAATGAGTTACACGACTTACGTACACGGGCATGCGAAGCAATC
*
59060584 ACATGGGCGTGTGGAGCAGCCACACGACCATGTCAAGAGCCACACGATGCGACACGGTCGC
66 ACACGGGCGTGTGGAGCAGCCACACGACCATGTCAAGAGCCACACGATGCGACACGGTCGC
* * * * *
59060645 GTGACTTTATATTACACGGGCATAGTGAGTTACACGATTTATGTACACGGGCATGTGAAGCAATC
1 GTGACTTTATATTACACGGGCACAATGAGTTACACGACTTACGTACACGGGCATGCGAAGCAATC
* * *
59060710 ACACGGGCGTGTGGAGTAGCCACACGGCCATGTCAAGAGCGACAC
66 ACACGGGCGTGTGGAGCAGCCACACGACCATGTCAAGAGCCACAC
59060755 AGTTTGGACT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 96 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (126 bp):
GTGACTTTATATTACACGGGCACAATGAGTTACACGACTTACGTACACGGGCATGCGAAGCAATC
ACACGGGCGTGTGGAGCAGCCACACGACCATGTCAAGAGCCACACGATGCGACACGGTCGC
Found at i:59068472 original size:18 final size:18
Alignment explanation
Indices: 59068451--59068503 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
59068441 AATTTAAAAT
59068451 ATTTATAAAATTTTTAAA
1 ATTTATAAAATTTTTAAA
**
59068469 ATTTAT-ATTTTTTTAAA
1 ATTTATAAAATTTTTAAA
* *
59068486 A-ATATAAAAATTTTAAA
1 ATTTATAAAATTTTTAAA
59068503 A
1 A
59068504 AAATCTAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 3 0.11
17 19 0.68
18 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTATAAAATTTTTAAA
Found at i:59070410 original size:59 final size:59
Alignment explanation
Indices: 59070318--59070434 Score: 234
Period size: 59 Copynumber: 2.0 Consensus size: 59
59070308 ACTAAACTTA
59070318 CTCATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCTT
1 CTCATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCTT
59070377 CTCATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCT
1 CTCATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCT
59070435 ATTCACTCGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (59 bp):
CTCATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCTT
Found at i:59080013 original size:24 final size:24
Alignment explanation
Indices: 59079955--59080021 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
59079945 GGCCCGAATT
*
59079955 ATATATTAAATATATA-TTTTTAT
1 ATATATTAAATATATATTTTTTAC
* * *
59079978 TTTTAATCAAATATATATTTTTTAC
1 ATAT-ATTAAATATATATTTTTTAC
59080003 ATATATTAAATATATATTT
1 ATATATTAAATATATATTT
59080022 AATATGGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 2 0.06
24 25 0.71
25 8 0.23
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATATTAAATATATATTTTTTAC
Found at i:59081816 original size:25 final size:25
Alignment explanation
Indices: 59081788--59081837 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59081778 ATAAGCGTCT
59081788 CGATATTTAACTCTCACGAGCTTCC
1 CGATATTTAACTCTCACGAGCTTCC
59081813 CGATATTTAACTCTCACGAGCTTCC
1 CGATATTTAACTCTCACGAGCTTCC
59081838 TGATTAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (25 bp):
CGATATTTAACTCTCACGAGCTTCC
Found at i:59081908 original size:74 final size:75
Alignment explanation
Indices: 59081805--59081962 Score: 185
Period size: 74 Copynumber: 2.1 Consensus size: 75
59081795 TAACTCTCAC
* * * * * *
59081805 GAGCTTCCCGATATTTAACTCTCACGAGCTTCCTGATTA-ATGGCTCTCTTGAGCTTCCCATT-T
1 GAGCTTCCCGATAATTAACTCGCAAGAGCTTCCT-ATTATATAGCTCACATGAGCTTCCCATTAT
59081868 ATGGCTCGTAT
65 ATGGCTCGTAT
* * *
59081879 GAGCTTTCCGATAATTAGCTCGCAAGAGCTTCCTATTATATAGCTCACATGAGCTTCCCGTTATA
1 GAGCTTCCCGATAATTAACTCGCAAGAGCTTCCTATTATATAGCTCACATGAGCTTCCCATTATA
* * *
59081944 TGGCTTGGAA
66 TGGCTCGTAT
59081954 GAGCTTCCC
1 GAGCTTCCC
59081963 TTTTACATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
73 4 0.06
74 48 0.70
75 17 0.25
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (75 bp):
GAGCTTCCCGATAATTAACTCGCAAGAGCTTCCTATTATATAGCTCACATGAGCTTCCCATTATA
TGGCTCGTAT
Found at i:59081922 original size:25 final size:25
Alignment explanation
Indices: 59081855--59081962 Score: 85
Period size: 25 Copynumber: 4.4 Consensus size: 25
59081845 TGGCTCTCTT
* * *
59081855 GAGCTTCCCATT-TATGGCTCGTAT
1 GAGCTTCCCATTATATAGCTCGCAA
* *
59081879 GAGCTTTCCGATAAT-TAGCTCGCAA
1 GAGC-TTCCCATTATATAGCTCGCAA
* * *
59081904 GAGCTTCCTATTATATAGCTCACAT
1 GAGCTTCCCATTATATAGCTCGCAA
* * * *
59081929 GAGCTTCCCGTTATATGGCTTGGAA
1 GAGCTTCCCATTATATAGCTCGCAA
59081954 GAGCTTCCC
1 GAGCTTCCC
59081963 TTTTACATGT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
24 12 0.18
25 52 0.80
26 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCGCAA
Found at i:59087308 original size:2 final size:2
Alignment explanation
Indices: 59087301--59087328 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59087291 TAACCACCAA
59087301 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
59087329 TAAAGCAGCA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59100218 original size:156 final size:156
Alignment explanation
Indices: 59099992--59100458 Score: 868
Period size: 156 Copynumber: 3.0 Consensus size: 156
59099982 GAAGCAATAA
* * *
59099992 CTGAAAACTACTTGGAAATATTTGACCTA-C--GTTACCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
59100054 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
59100119 TTTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
59100145 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
59100210 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
59100275 TTTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
59100301 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
*
59100366 TACCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
*
59100431 CTTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
59100457 CT
1 CT
59100459 ACTAAGAGAA
Statistics
Matches: 306, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
153 28 0.09
154 1 0.00
156 277 0.91
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (156 bp):
CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
TTTACCTTTTCTTTTAAAGCAGAAAG
Found at i:59102954 original size:21 final size:21
Alignment explanation
Indices: 59102930--59102988 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
59102920 ACCTTTCTTC
59102930 TTTTTTATTTATTTTTT-CTAT
1 TTTTTTATTTATTTTTTACT-T
**
59102951 TTTTTGCTTT-TTTTTTACTT
1 TTTTTTATTTATTTTTTACTT
59102971 TTTTATGTATTTATTTTT
1 TTTT-T-TATTTATTTTT
59102989 AGGTTATTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 11 0.37
21 11 0.37
22 3 0.10
23 5 0.17
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTTATTTATTTTTTACTT
Found at i:59121389 original size:24 final size:24
Alignment explanation
Indices: 59121362--59121407 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
59121352 ATTGTATTGG
*
59121362 ATGAAGAGGAGGAAGATGAAGATT
1 ATGAAGAGGAGGAAGAAGAAGATT
* *
59121386 ATGAGGTGGAGGAAGAAGAAGA
1 ATGAAGAGGAGGAAGAAGAAGA
59121408 AGATGACGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (24 bp):
ATGAAGAGGAGGAAGAAGAAGATT
Found at i:59121410 original size:33 final size:33
Alignment explanation
Indices: 59121359--59121422 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
59121349 AAAATTGTAT
* * * *
59121359 TGGATGAAGAGGAGGAAGATGAAGATTATGAGG
1 TGGAGGAAGAAGAAGAAGATGAAGATGATGAGG
*
59121392 TGGAGGAAGAAGAAGAAGATGACGATGATGA
1 TGGAGGAAGAAGAAGAAGATGAAGATGATGA
59121423 TGATGAAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.41, T:0.16
Consensus pattern (33 bp):
TGGAGGAAGAAGAAGAAGATGAAGATGATGAGG
Found at i:59138947 original size:20 final size:20
Alignment explanation
Indices: 59138922--59138963 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59138912 TACAAAAAGT
*
59138922 AATAATTTTCAAAAATT-CAA
1 AATAATTAT-AAAAATTCCAA
59138942 AATAATTATAAAAATTCCAA
1 AATAATTATAAAAATTCCAA
59138962 AA
1 AA
59138964 ATTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATTATAAAAATTCCAA
Found at i:59138954 original size:18 final size:18
Alignment explanation
Indices: 59138932--59138991 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
59138922 AATAATTTTC
59138932 AAAAATTCAAAATAATTAT
1 AAAAATTCAAAA-AATTAT
*
59138951 AAAAATTCCAAAAATTAT
1 AAAAATTCAAAAAATTAT
* * *
59138969 ATATACTTTAAAAAA-TAT
1 A-AAAATTCAAAAAATTAT
59138987 AAAAA
1 AAAAA
59138992 ATATAAAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 11 0.33
19 20 0.61
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATTCAAAAAATTAT
Found at i:59138997 original size:45 final size:45
Alignment explanation
Indices: 59138906--59139000 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 45
59138896 CTCTCTCAAC
* *
59138906 AAAAATTACAAAAAGTAATAATTTTCAAAAATTCAAAATAATTAT
1 AAAAATTACAAAAAGTAATAACTTTAAAAAATTCAAAATAATTAT
* *
59138951 AAAAATTCCAAAAATTATATATACTTTAAAAAATAT-AAAA-AA-TAT
1 AAAAATTACAAAAAGTA-ATA-ACTTTAAAAAAT-TCAAAATAATTAT
59138996 AAAAA
1 AAAAA
59139001 GAATCACGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
45 23 0.53
46 5 0.12
47 14 0.33
48 1 0.02
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (45 bp):
AAAAATTACAAAAAGTAATAACTTTAAAAAATTCAAAATAATTAT
Found at i:59147656 original size:7 final size:7
Alignment explanation
Indices: 59147644--59147684 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
59147634 TATTAGTTTA
*
59147644 ATAAATC
1 ATAAACC
*
59147651 ATAAATC
1 ATAAACC
59147658 ATAAACC
1 ATAAACC
59147665 ATAAACC
1 ATAAACC
59147672 ATAAACC
1 ATAAACC
59147679 ATAAAC
1 ATAAAC
59147685 AACTTCACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.20
Consensus pattern (7 bp):
ATAAACC
Found at i:59147939 original size:23 final size:23
Alignment explanation
Indices: 59147897--59147940 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
59147887 GTAAAACCGA
*
59147897 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
59147920 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
59147941 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:59153484 original size:23 final size:22
Alignment explanation
Indices: 59153458--59153523 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
59153448 GAAATGTATA
59153458 TTTTAAATATTTTATAATATTAT
1 TTTTAAATATTTTA-AATATTAT
* *
59153481 TTTTAAAAATTTTAAAAATTAT
1 TTTTAAATATTTTAAATATTAT
* *
59153503 TTTTTAATATTATAAAATATT
1 TTTTAAATATT-TTAAATATT
59153524 TAAAATAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAATATTTTAAATATTAT
Found at i:59153526 original size:31 final size:32
Alignment explanation
Indices: 59153486--59153546 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 32
59153476 ATTATTTTTA
*
59153486 AAAATTTT-AA-AAATTATTTTTTAATATTAT
1 AAAATTTTAAATAAATTATTTTTAAATATTAT
59153516 AAAATATTTAAAATAAATTATTTTTAAATAT
1 AAAAT-TTT-AAATAAATTATTTTTAAATAT
59153547 ATGACCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 5 0.19
31 3 0.12
33 2 0.08
34 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
AAAATTTTAAATAAATTATTTTTAAATATTAT
Found at i:59153597 original size:23 final size:22
Alignment explanation
Indices: 59153571--59153626 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
59153561 TTATTATTTG
*
59153571 TTTTATAATATTATAAATATAT
1 TTTTTTAATATTATAAATATAT
59153593 ATTTTTTAAT-TT-TAAATATAT
1 -TTTTTTAATATTATAAATATAT
59153614 TTTTTTAA-ATTAT
1 TTTTTTAATATTAT
59153627 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.33
21 10 0.33
22 2 0.07
23 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTTAATATTATAAATATAT
Found at i:59153621 original size:14 final size:14
Alignment explanation
Indices: 59153602--59153669 Score: 72
Period size: 13 Copynumber: 4.9 Consensus size: 14
59153592 TATTTTTTAA
59153602 TTTTAAATATATTT
1 TTTTAAATATATTT
59153616 TTTTAAAT-TATTT
1 TTTTAAATATATTT
59153629 TTTTAAA-ATTATGATT
1 TTTTAAATA-TAT--TT
*
59153645 TTTTAAA-AT-TAT
1 TTTTAAATATATTT
59153657 TTTTAAATATATT
1 TTTTAAATATATT
59153670 CAAAAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
12 8 0.17
13 14 0.30
14 13 0.28
15 1 0.02
16 10 0.22
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (14 bp):
TTTTAAATATATTT
Found at i:59153624 original size:21 final size:22
Alignment explanation
Indices: 59153565--59153624 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 22
59153555 TCAAATTTAT
59153565 TATTTGTTTTATAATATTATAAATA
1 TATTT-TTTTA-AAT-TTATAAATA
59153590 TATATTTTTT-AATTT-TAAATA
1 TAT-TTTTTTAAATTTATAAATA
59153611 TATTTTTTTAAATT
1 TATTTTTTTAAATT
59153625 ATTTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.18
21 13 0.39
22 2 0.06
23 3 0.09
25 7 0.21
26 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTTTTTTAAATTTATAAATA
Found at i:59153627 original size:13 final size:14
Alignment explanation
Indices: 59153602--59153660 Score: 77
Period size: 14 Copynumber: 4.1 Consensus size: 14
59153592 TATTTTTTAA
59153602 TTTT-AAATATATTT
1 TTTTAAAAT-TATTT
59153616 TTTT-AAATTATTT
1 TTTTAAAATTATTT
59153629 TTTTAAAATTATGATT
1 TTTTAAAATTAT--TT
59153645 TTTTAAAATTATTT
1 TTTTAAAATTATTT
59153659 TT
1 TT
59153661 AAATATATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.21
14 19 0.45
16 14 0.33
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTAAAATTATTT
Found at i:59153647 original size:17 final size:16
Alignment explanation
Indices: 59153612--59153656 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
59153602 TTTTAAATAT
*
59153612 ATTTTTTTAAATTAT-
1 ATTTTTTAAAATTATG
59153627 -TTTTTTAAAATTATG
1 ATTTTTTAAAATTATG
59153642 ATTTTTTAAAATTAT
1 ATTTTTTAAAATTAT
59153657 TTTTAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.48
16 14 0.52
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTTTAAAATTATG
Found at i:59153757 original size:111 final size:111
Alignment explanation
Indices: 59153616--59153815 Score: 287
Period size: 111 Copynumber: 1.8 Consensus size: 111
59153606 AAATATATTT
* * *
59153616 TTTTAAATTATTTTTTTAAAATTATGATTTTTTAAAATTATTTTTAAATATATTCAAA-AAAATT
1 TTTTAAATTATTTTATTAAAATTATGATTTTTTAAAAATATTTTTAAAGATATTCAAACAAAATT
*
59153680 TAAATTCTATTTAAAATTTAAAAAGTAAAAAATTATGTTTTTTAAA
66 TAAATTATATTTAAAATTTAAAAAGTAAAAAATTATGTTTTTTAAA
* ****
59153726 TTTTAAATATACTTTTATT-AAATTATGATTTTTTAAAAATATTTTTATAGATATTCAAACGTTT
1 TTTTAAAT-TA-TTTTATTAAAATTATGATTTTTTAAAAATATTTTTAAAGATATTCAAACAAAA
59153790 TTTAAATTATATTTAAAATTTAAAAA
64 TTTAAATTATATTTAAAATTTAAAAA
59153816 AATAATATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
110 8 0.10
111 39 0.50
112 31 0.40
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (111 bp):
TTTTAAATTATTTTATTAAAATTATGATTTTTTAAAAATATTTTTAAAGATATTCAAACAAAATT
TAAATTATATTTAAAATTTAAAAAGTAAAAAATTATGTTTTTTAAA
Found at i:59153913 original size:14 final size:14
Alignment explanation
Indices: 59153890--59153957 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
59153880 TTGATAAAAA
59153890 ATATTA-AAAATAT
1 ATATTAGAAAATAT
*
59153903 ATATTAGAAAATTT
1 ATATTAGAAAATAT
* *
59153917 ATATATATTAAAAAAT
1 ATAT-TA-GAAAATAT
*
59153933 A-ATTTGAAAATAT
1 ATATTAGAAAATAT
59153946 ATATTAGAAAAT
1 ATATTAGAAAAT
59153958 TTATTTTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
13 13 0.30
14 20 0.47
15 4 0.09
16 6 0.14
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATTAGAAAATAT
Found at i:59153922 original size:29 final size:30
Alignment explanation
Indices: 59153890--59153980 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
59153880 TTGATAAAAA
*
59153890 ATATTAAAAATATATATTAGAAAATTTATAT
1 ATATTAAAAATATATATTTGAAAATTT-TAT
59153921 ATATTAAAAA-ATA-ATTTGAAAA---TAT
1 ATATTAAAAATATATATTTGAAAATTTTAT
* * *
59153946 ATATTAGAAAATTTATTTTTTAAAATTTTAT
1 ATATTA-AAAATATATATTTGAAAATTTTAT
59153977 ATAT
1 ATAT
59153981 GATTTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 9 0.18
26 4 0.08
27 2 0.04
28 7 0.14
29 8 0.16
30 3 0.06
31 17 0.34
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (30 bp):
ATATTAAAAATATATATTTGAAAATTTTAT
Found at i:59153928 original size:31 final size:29
Alignment explanation
Indices: 59153890--59153949 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
59153880 TTGATAAAAA
*
59153890 ATATTAAAAATATATATTAGAAAATTTATAT
1 ATATTAAAAA-ATA-ATTAGAAAATATATAT
*
59153921 ATATTAAAAAATAATTTGAAAATATATAT
1 ATATTAAAAAATAATTAGAAAATATATAT
59153950 TAGAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 14 0.52
30 3 0.11
31 10 0.37
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
ATATTAAAAAATAATTAGAAAATATATAT
Found at i:59153969 original size:41 final size:39
Alignment explanation
Indices: 59153874--59153970 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 39
59153864 ATAAAAAATG
59153874 ATTTATTTGA-TAAAAAATATTAAAAATATATATTAGAAA
1 ATTTATTT-ATTAAAAAATATTAAAAATATATATTAGAAA
*
59153913 ATTTATATATATTAAAAAATAATTTGAAAATATATATTAGAAA
1 ATTTAT-T-TATTAAAAAAT-A-TTAAAAATATATATTAGAAA
*
59153956 ATTTATTTTTTAAAA
1 ATTTATTTATTAAAA
59153971 TTTTATATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
39 6 0.12
40 2 0.04
41 16 0.31
42 2 0.04
43 25 0.49
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (39 bp):
ATTTATTTATTAAAAAATATTAAAAATATATATTAGAAA
Found at i:59154023 original size:12 final size:13
Alignment explanation
Indices: 59154008--59154067 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 13
59153998 GAATATCTTT
59154008 AAAAATAATTTAA
1 AAAAATAATTTAA
59154021 AAATTAATAATTTAAA
1 AAA--AATAATTT-AA
59154037 AAATTAATAATTTAA
1 AAA--AATAATTTAA
59154052 AAAAATTATATTTAA
1 AAAAA-TA-ATTTAA
59154067 A
1 A
59154068 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.12
14 2 0.05
15 20 0.48
16 15 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATAATTTAA
Found at i:59154040 original size:16 final size:16
Alignment explanation
Indices: 59154011--59154067 Score: 84
Period size: 16 Copynumber: 3.7 Consensus size: 16
59154001 TATCTTTAAA
59154011 AATAATTT-AAAAATT
1 AATAATTTAAAAAATT
59154026 AATAATTTAAAAAATT
1 AATAATTTAAAAAATT
59154042 AATAATTTAAAAAAATT
1 AATAATTT-AAAAAATT
59154059 -AT-ATTTAAA
1 AATAATTTAAA
59154068 TTTTTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.08
15 12 0.30
16 17 0.43
17 8 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATTTAAAAAATT
Found at i:59154085 original size:20 final size:20
Alignment explanation
Indices: 59154060--59154121 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
59154050 AAAAAAATTA
* *
59154060 TATTTAAATTTTTTAAAAAG
1 TATTTAAAATATTTAAAAAG
59154080 TATTTAAAATATTTAAAATA-
1 TATTTAAAATATTTAAAA-AG
59154100 TACATTTAAAATATTATAAAAA
1 T--ATTTAAAATATT-TAAAAA
59154122 ATAATAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 17 0.47
21 1 0.03
22 13 0.36
23 5 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTTAAAATATTTAAAAAG
Found at i:59154210 original size:8 final size:8
Alignment explanation
Indices: 59154197--59154237 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
59154187 AATAATATTT
59154197 AAATTTAA
1 AAATTTAA
59154205 AAATTTAA
1 AAATTTAA
*
59154213 AAATTTATTT
1 AAATTTA--A
59154223 AAATTTAA
1 AAATTTAA
59154231 AAATTTA
1 AAATTTA
59154238 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 22 0.76
10 7 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTAA
Found at i:59154213 original size:45 final size:45
Alignment explanation
Indices: 59154163--59154253 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
59154153 ATAATATATT
*
59154163 TTTAAATATTT-TATAAATTTAAAAAATAATATTTAAA-TTTAAAAA
1 TTTAAAAATTTATATAAATTT-AAAAAT-ATATTTAAATTTTAAAAA
* *
59154208 TTTAAAAATTTATTTAAATTTAAAAATTTATTTAAATTTTAAAAA
1 TTTAAAAATTTATATAAATTTAAAAATATATTTAAATTTTAAAAA
59154253 T
1 T
59154254 AATATTATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
44 8 0.20
45 25 0.61
46 8 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (45 bp):
TTTAAAAATTTATATAAATTTAAAAATATATTTAAATTTTAAAAA
Found at i:59154228 original size:18 final size:18
Alignment explanation
Indices: 59154205--59154253 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
59154195 TTAAATTTAA
59154205 AAATTTAAAAATTTATTT
1 AAATTTAAAAATTTATTT
59154223 AAATTTAAAAATTTATTT
1 AAATTTAAAAATTTATTT
59154241 AAATTTTAAAAAT
1 AAA-TTTAAAAAT
59154254 AATATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTAAAAATTTATTT
Done.