Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 15 of 147
Found at i:3243630 original size:21 final size:22
Alignment explanation
Indices: 3243573--3243635 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
3243563 TTTTTTTTCA
3243573 TTTTT-TCATTTTCTCATTCTTTT
1 TTTTTCTCATTTT-TCA-TCTTTT
**
3243596 TTTTTCTTTTTTTTTCATC-TTT
1 TTTTTC-TCATTTTTCATCTTTT
3243618 TTTTTCTCATTTTTCATC
1 TTTTTCTCATTTTTCATC
3243636 CATTGTTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 10 0.29
22 9 0.26
23 7 0.21
24 3 0.09
25 5 0.15
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTTCTCATTTTTCATCTTTT
Found at i:3246989 original size:17 final size:17
Alignment explanation
Indices: 3246969--3247008 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
3246959 ACTTTTCCTC
**
3246969 AAAAATTTATTTTTTTG
1 AAAAATTTATTTTTAAG
3246986 -AAAATTTATTTTTAAG
1 AAAAATTTATTTTTAAG
3247002 AAAAATT
1 AAAAATT
3247009 AGATACTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AAAAATTTATTTTTAAG
Found at i:3247067 original size:5 final size:5
Alignment explanation
Indices: 3247059--3247162 Score: 52
Period size: 5 Copynumber: 19.6 Consensus size: 5
3247049 TTATTTACAG
*
3247059 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAGAAAT AAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -A-AAAT AAAAT AAAAT
* * * *
3247104 AATAAAG AAAAGT AAAACA AAAAT AAAAAT AAAAT AAAAAT AAAAG AACAT
1 -A-AAAT AAAA-T AAAA-T AAAAT -AAAAT AAAAT -AAAAT AAAAT AAAAT
*
3247155 TAAAT AAA
1 AAAAT AAA
3247163 CCTAGTCTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 38 0.51
6 22 0.29
7 5 0.07
8 3 0.04
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:3247109 original size:12 final size:11
Alignment explanation
Indices: 3247059--3247148 Score: 56
Period size: 11 Copynumber: 7.7 Consensus size: 11
3247049 TTATTTACAG
*
3247059 AAAATAAAATA
1 AAAAAAAAATA
3247070 ATAAAACAAAATA
1 A-AAAA-AAAATA
* *
3247083 AAAGTGAGAAATA
1 AAA--AAAAAATA
3247096 AAAAAAATAAT-
1 AAAAAAA-AATA
* *
3247107 AAAGAAAAGTA
1 AAAAAAAAATA
*
3247118 AAACAAAAATA
1 AAAAAAAAATA
*
3247129 AAAATAAAATA
1 AAAAAAAAATA
3247140 AAAATAAAA
1 AAAA-AAAA
3247149 GAACATTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
10 2 0.03
11 31 0.52
12 11 0.18
13 15 0.25
14 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:3247126 original size:6 final size:6
Alignment explanation
Indices: 3247059--3247148 Score: 53
Period size: 6 Copynumber: 14.5 Consensus size: 6
3247049 TTATTTACAG
* *
3247059 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTGA GAAATA AAAA-A AATAATA
1 AAAATA AAAATA A-AAATA -AAAATA AAAAT-A AAAATA AAAATA AA-AATA
* *
3247108 AAGAAAA GTAAAACA AAAATA AAAAT- AAAATA AAAATA AAA
1 AA-AATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAA
3247149 GAACATTAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
5 13 0.19
6 34 0.51
7 15 0.22
8 3 0.04
9 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:3247136 original size:17 final size:17
Alignment explanation
Indices: 3247111--3247148 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3247101 AATAATAAAG
*
3247111 AAAAGTAAAACAAAAAT
1 AAAAATAAAACAAAAAT
*
3247128 AAAAATAAAATAAAAAT
1 AAAAATAAAACAAAAAT
3247145 AAAA
1 AAAA
3247149 GAACATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (17 bp):
AAAAATAAAACAAAAAT
Found at i:3247138 original size:35 final size:34
Alignment explanation
Indices: 3247059--3247149 Score: 89
Period size: 35 Copynumber: 2.6 Consensus size: 34
3247049 TTATTTACAG
* * *
3247059 AAAATAAAATAATAAAACAAAATAAAAGTGAGAAAT
1 AAAATAAAATAATAAAA-AAAGTAAAAG-CAAAAAT
3247095 AAAA-AAAATAATAAAGAAAAGTAAAA-CAAAAAT
1 AAAATAAAATAATAAA-AAAAGTAAAAGCAAAAAT
3247128 AAAAATAAAATAA-AAATAAAAG
1 -AAAATAAAATAATAAA-AAAAG
3247150 AACATTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
33 5 0.10
34 12 0.25
35 26 0.54
36 5 0.10
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (34 bp):
AAAATAAAATAATAAAAAAAGTAAAAGCAAAAAT
Found at i:3247721 original size:24 final size:25
Alignment explanation
Indices: 3247692--3247743 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
3247682 TCGGAATCTG
* *
3247692 AAAATTTT-TCAAAAATTTCCAAAA
1 AAAATTTTCCCAAAAATCTCCAAAA
3247716 AAAATTTTCGCCAAAAATCTCCAAAA
1 AAAATTTTC-CCAAAAATCTCCAAAA
3247742 AA
1 AA
3247744 TCTTTCCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.33
26 16 0.67
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATTTTCCCAAAAATCTCCAAAA
Found at i:3248058 original size:22 final size:22
Alignment explanation
Indices: 3248030--3248090 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
3248020 CCAAAAAAAG
** *
3248030 AAAAAAAATCTGATAAACGAGA
1 AAAAAAAATCAAATAAACGAAA
3248052 AAAAAAAATCAAATAAACGAAA
1 AAAAAAAATCAAATAAACGAAA
3248074 AAAGAAAAA--AAATAAAC
1 AAA-AAAAATCAAATAAAC
3248091 AGATAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.23
22 22 0.63
23 5 0.14
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAAAAAATCAAATAAACGAAA
Found at i:3248102 original size:21 final size:21
Alignment explanation
Indices: 3248078--3248164 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
3248068 ACGAAAAAAG
*
3248078 AAAAAAAATAA-ACAGATAATT
1 AAAAAAAATAATA-AGATAAAT
*
3248099 AAAAATAATAATAAGATAAAT
1 AAAAAAAATAATAAGATAAAT
* * *
3248120 AAAAAATATTACAAGATAAAT
1 AAAAAAAATAATAAGATAAAT
3248141 AAAATAATAATAAT-A-ATAAAT
1 AAAA-AA-AATAATAAGATAAAT
3248162 AAA
1 AAA
3248165 TTATAATAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
21 47 0.87
22 4 0.07
23 3 0.06
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAAAAAATAATAAGATAAAT
Found at i:3248125 original size:42 final size:42
Alignment explanation
Indices: 3248078--3248164 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
3248068 ACGAAAAAAG
* *
3248078 AAAAAAAATAA-ACAGATAATTAAAAATAATAATAA-GATAAAT
1 AAAAAAAATAACA-AGATAAAT-AAAATAATAATAATAATAAAT
* *
3248120 AAAAAATATTACAAGATAAATAAAATAATAATAATAATAAAT
1 AAAAAAAATAACAAGATAAATAAAATAATAATAATAATAAAT
3248162 AAA
1 AAA
3248165 TTATAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 13 0.33
42 25 0.64
43 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.23
Consensus pattern (42 bp):
AAAAAAAATAACAAGATAAATAAAATAATAATAATAATAAAT
Found at i:3248158 original size:17 final size:16
Alignment explanation
Indices: 3248142--3248283 Score: 73
Period size: 17 Copynumber: 8.6 Consensus size: 16
3248132 AAGATAAATA
3248142 AAATAATAATAATAAT
1 AAATAATAATAATAAT
*
3248158 AAATAAATTATAATAAT
1 AAAT-AATAATAATAAT
3248175 AAAT-AT-ATAACTAGAT
1 AAATAATAATAA-TA-AT
3248191 AAATAA-AATACATATAT
1 AAATAATAATA-ATA-AT
* *
3248208 AAATATTAACAA-AA-
1 AAATAATAATAATAAT
3248222 AAATGAATAAATAAATAA-
1 AAAT-AAT-AAT-AATAAT
*
3248240 AGATATACAT-ATATTAAT
1 A-A-ATA-ATAATAATAAT
* *
3248258 ACATAGTAATAATAAAT
1 AAATAATAATAAT-AAT
3248275 AAATAATAA
1 AAATAATAA
3248284 ATACATAAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 33
0.68 0.08 0.23
Matches are distributed among these distances:
14 8 0.08
15 8 0.08
16 20 0.21
17 45 0.46
18 10 0.10
19 2 0.02
20 4 0.04
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:3248162 original size:4 final size:4
Alignment explanation
Indices: 3248135--3248292 Score: 60
Period size: 4 Copynumber: 39.2 Consensus size: 4
3248125 ATATTACAAG
*
3248135 ATAA ATAA A-ATA AT-A AT-A AT-A ATAA ATAA ATTATA AT-A ATAA ATAT
1 ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA
* * * * * * *
3248181 ATAA CTAG ATAA ATAAA ATAC ATAT ATAA ATATTA ACAA AAAA ATGA ATAA
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA
* * * * * *
3248232 ATAA ATAA AGAT ATAC ATAT ATTA ATAC ATAGTA AT-A ATAA ATAA AT-A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA
*
3248280 ATAA ATAC ATAA A
1 ATAA ATAA ATAA A
3248293 ATACAAAAGA
Statistics
Matches: 115, Mismatches: 26, Indels: 26
0.69 0.16 0.16
Matches are distributed among these distances:
3 19 0.17
4 82 0.71
5 7 0.06
6 7 0.06
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:3248170 original size:20 final size:21
Alignment explanation
Indices: 3248100--3248176 Score: 81
Period size: 20 Copynumber: 3.8 Consensus size: 21
3248090 CAGATAATTA
*
3248100 AAAATAATAATAA-GATAAAT
1 AAAATAATAATAATAATAAAT
*
3248120 AAAA-AATATTACA-AGATAAAT
1 AAAATAATAATA-ATA-ATAAAT
3248141 AAAATAATAATAATAATAAAT
1 AAAATAATAATAATAATAAAT
*
3248162 -AAATTATAATAATAA
1 AAAATAATAATAATAA
3248177 ATATATAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.12
20 19 0.39
21 17 0.35
22 7 0.14
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (21 bp):
AAAATAATAATAATAATAAAT
Found at i:3248179 original size:21 final size:21
Alignment explanation
Indices: 3248093--3248292 Score: 86
Period size: 21 Copynumber: 9.0 Consensus size: 21
3248083 AAATAAACAG
*
3248093 ATAATTAAA-AATAATAATAA
1 ATAAATAAATAATAATAATAA
* * *
3248113 GATAAATAAAAAATATTACA-AG
1 -ATAAATAAATAATAATA-ATAA
3248135 ATAAATAAAATAATAATAAT-A
1 ATAAAT-AAATAATAATAATAA
*
3248156 ATAAATAAATTATAATAATAA
1 ATAAATAAATAATAATAATAA
* * *
3248177 ATATATAACTAGATAAATAAAATAC
1 ATAAATAAATA-AT-AAT--AATAA
* * * *
3248202 ATATATAAATATTAACAAAAAA
1 ATAAATAAATAATAA-TAATAA
*
3248224 ATGAATAAATAAATAA-AGATATA
1 ATAAATAAAT-AATAATA-ATA-A
* * *
3248247 CATATATTAATACATAGTAAT-A
1 -ATAAATAAATA-ATAATAATAA
3248269 ATAAATAAATAATAAATACATAA
1 ATAAATAAATAAT-AATA-ATAA
3248292 A
1 A
3248293 ATACAAAAGA
Statistics
Matches: 133, Mismatches: 27, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
20 14 0.11
21 43 0.32
22 34 0.26
23 14 0.11
24 13 0.10
25 15 0.11
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (21 bp):
ATAAATAAATAATAATAATAA
Found at i:3248193 original size:33 final size:32
Alignment explanation
Indices: 3248156--3248217 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
3248146 AATAATAATA
3248156 ATAAATAAATTATA-ATA-ATAAATATATAACTAG
1 ATAAATAAA--ATACATATATAAATAT-TAACTAG
3248189 ATAAATAAAATACATATATAAATATTAAC
1 ATAAATAAAATACATATATAAATATTAAC
3248218 AAAAAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 3 0.11
32 7 0.26
33 17 0.63
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (32 bp):
ATAAATAAAATACATATATAAATATTAACTAG
Found at i:3248195 original size:20 final size:19
Alignment explanation
Indices: 3248091--3248197 Score: 64
Period size: 17 Copynumber: 5.6 Consensus size: 19
3248081 AAAAATAAAC
* *
3248091 AGATAATTAAAAATAATAAT
1 AGATAAATAAATAT-ATAAT
*
3248111 AAGATAAATAAAAAATATTACA-
1 -AGATAAAT-AAATATA-TA-AT
3248133 AGATAAATAAA-ATAATAAT
1 AGATAAATAAATAT-ATAAT
* *
3248152 A-AT-AATAAATAAATTAT
1 AGATAAATAAATATATAAT
3248169 A-AT-AATAAATATATAACT
1 AGATAAATAAATATATAA-T
3248187 AGATAAATAAA
1 AGATAAATAAA
3248198 ATACATATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
17 24 0.33
18 6 0.08
19 7 0.10
20 10 0.14
21 16 0.22
22 8 0.11
23 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AGATAAATAAATATATAAT
Found at i:3251706 original size:22 final size:22
Alignment explanation
Indices: 3251660--3251706 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3251650 ATTTTAAAAT
* * *
3251660 TTTAATAAAAATTATATATAAA
1 TTTAATAAAAATAAAAAATAAA
*
3251682 TTTAATAAAAATAAAAAATATA
1 TTTAATAAAAATAAAAAATAAA
3251704 TTT
1 TTT
3251707 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAATAAA
Found at i:3259947 original size:24 final size:24
Alignment explanation
Indices: 3259919--3259972 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
3259909 TCTTATTTGT
3259919 ATTTCCTACCAGTTTCCAGATTTA
1 ATTTCCTACCAGTTTCCAGATTTA
* * * *
3259943 ATTT-CTGCCAGTTTTCAGCTTTT
1 ATTTCCTACCAGTTTCCAGATTTA
3259966 ATTTCCT
1 ATTTCCT
3259973 TTATTCTTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTCCTACCAGTTTCCAGATTTA
Found at i:3260894 original size:19 final size:19
Alignment explanation
Indices: 3260853--3260894 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3260843 TACTTGTATG
* **
3260853 TTTAATTTTCTGCTTTTCT
1 TTTAATTTTCTGCATTTAA
3260872 TTTAATTTTCTGCATTTAA
1 TTTAATTTTCTGCATTTAA
3260891 TTTA
1 TTTA
3260895 TTACACTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTAATTTTCTGCATTTAA
Found at i:3261078 original size:37 final size:37
Alignment explanation
Indices: 3261037--3261111 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
3261027 AGTAAACTTT
* * *
3261037 AGTTCTTAGTTAATTCCCTTTTCCATAATTTGTAGTA
1 AGTTCTTAGTCAATTACCTTCTCCATAATTTGTAGTA
3261074 AGTTCTTAGTCAATTACCTTCTCCATAATTTGTAGTA
1 AGTTCTTAGTCAATTACCTTCTCCATAATTTGTAGTA
3261111 A
1 A
3261112 TTAAATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (37 bp):
AGTTCTTAGTCAATTACCTTCTCCATAATTTGTAGTA
Found at i:3267352 original size:5 final size:5
Alignment explanation
Indices: 3267338--3267381 Score: 52
Period size: 5 Copynumber: 8.0 Consensus size: 5
3267328 ACTATTTATT
3267338 TTTTA TTTTTA TTTTA TTTTTA TTTTA TTTTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA -TTTTA TTTTA --TTTTA TTTTA TTTTA
3267382 AGATAATAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 20 0.57
6 10 0.29
7 5 0.14
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:3267352 original size:11 final size:11
Alignment explanation
Indices: 3267338--3267380 Score: 77
Period size: 11 Copynumber: 3.8 Consensus size: 11
3267328 ACTATTTATT
3267338 TTTTATTTTTA
1 TTTTATTTTTA
3267349 TTTTATTTTTA
1 TTTTATTTTTA
3267360 TTTTATTTTTTA
1 TTTTA-TTTTTA
3267372 TTTTATTTT
1 TTTTATTTT
3267381 AAGATAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:3267381 original size:17 final size:17
Alignment explanation
Indices: 3267332--3267381 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
3267322 GGCCCAACTA
3267332 TTTATTTTTTATTTTTAT
1 TTTATTTTTTA-TTTTAT
3267350 TTTA-TTTTTATTTTAT
1 TTTATTTTTTATTTTAT
3267366 TTT-TTATTTTATTTTA
1 TTTATT-TTTTATTTTA
3267382 AGATAATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.33
17 16 0.53
18 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTTTATTTTAT
Found at i:3268398 original size:26 final size:26
Alignment explanation
Indices: 3268355--3268408 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
3268345 AATGATAGAA
**
3268355 TTTATAAAAATTTCAAATGTTAAATT
1 TTTATAAAAATTTCAAATGAGAAATT
** *
3268381 TTTATAAACTTTTTAAATGAGAAATT
1 TTTATAAAAATTTCAAATGAGAAATT
3268407 TT
1 TT
3268409 GTCTAAAGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (26 bp):
TTTATAAAAATTTCAAATGAGAAATT
Found at i:3268716 original size:171 final size:171
Alignment explanation
Indices: 3268525--3268970 Score: 691
Period size: 171 Copynumber: 2.6 Consensus size: 171
3268515 AAAAAATACA
* *
3268525 AATTATCCAAGGATGAGATTCTTAAAAATTTCAAATGGTAAATTTTTTAAGAAAACTCTATGTGA
1 AATTATTCAATGATGAGATTCTTAAAAATTTCAAATGGTAAATTTTTTAAGAAAACTCTATGTGA
*
3268590 GAAATCTTATCTAAATTTGTCACAAATTGTGGAATAATTTACATGGAGTTTCAATAAAAGAACTA
66 GAAATCTTATCTAAATTTGTCACAAATTGTGGAATAATTTACATAGAGTTTCAATAAAAGAACTA
*
3268655 TACTTTTTTTCAAATAAAAATTTTAGTTGAAAATATTTAGC
131 TACTTTTTTCCAAATAAAAATTTTAGTTGAAAATATTTAGC
3268696 AATTATTCAATGATGAGATTCTTAAAAATTTCAAATGGTAAATTTTTTAAGAAAACTCTATGTGA
1 AATTATTCAATGATGAGATTCTTAAAAATTTCAAATGGTAAATTTTTTAAGAAAACTCTATGTGA
* * *
3268761 GAAATCTTATCTAAATTTGTCACAAATTGTGGAATAATTTAGATAGAGTTTCAATAAAAGAATTG
66 GAAATCTTATCTAAATTTGTCACAAATTGTGGAATAATTTACATAGAGTTTCAATAAAAGAACTA
3268826 TACTTTTTTCCAAATAAAAATTTTAGTTGAAAATATTTAGC
131 TACTTTTTTCCAAATAAAAATTTTAGTTGAAAATATTTAGC
* * ** *
3268867 AATTATTCAATGATGAGATTCTTAGAAATTTCAAATGATAAA-TTCCTAA-AAAATCTCTAAGTG
1 AATTATTCAATGATGAGATTCTTAAAAATTTCAAATGGTAAATTTTTTAAGAAAA-CTCTATGTG
* * * * * * *
3268930 AAAAAT-TTCTTTAAATTTGTCTCAAATGGTGAAAGAATTTA
65 AGAAATCTTATCTAAATTTGTCACAAATTGTGGAATAATTTA
3268971 AATGAAATTT
Statistics
Matches: 255, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
169 33 0.13
170 18 0.07
171 204 0.80
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (171 bp):
AATTATTCAATGATGAGATTCTTAAAAATTTCAAATGGTAAATTTTTTAAGAAAACTCTATGTGA
GAAATCTTATCTAAATTTGTCACAAATTGTGGAATAATTTACATAGAGTTTCAATAAAAGAACTA
TACTTTTTTCCAAATAAAAATTTTAGTTGAAAATATTTAGC
Found at i:3270077 original size:70 final size:70
Alignment explanation
Indices: 3269989--3270128 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
3269979 CAAATTGAAT
*
3269989 CTTTTCCGTTAGTAGCTTGTGATAAGT-AAGGATTGGAATGCCTTACTAGTCTGTGATGAATTAT
1 CTTTTCCGTTAGTAGCTTGTGATAAGTGAA-GATTGAAATGCCTTACTAGTCTGTGATGAATTAT
3270053 GATCTA
65 GATCTA
* *
3270059 CTTTTTCGTTGGTAGCTTGTGATAAGTGAAGATTGAAATGCCTTACTAGTCTGTGATGAATTATG
1 CTTTTCCGTTAGTAGCTTGTGATAAGTGAAGATTGAAATGCCTTACTAGTCTGTGATGAATTATG
3270124 ATCTA
66 ATCTA
3270129 AGGAAAGTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 64 0.97
71 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (70 bp):
CTTTTCCGTTAGTAGCTTGTGATAAGTGAAGATTGAAATGCCTTACTAGTCTGTGATGAATTATG
ATCTA
Found at i:3274458 original size:21 final size:21
Alignment explanation
Indices: 3274433--3274485 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3274423 TCTTTTGATG
*
3274433 AGAATCTTTGAAGTTCAAATA
1 AGAATATTTGAAGTTCAAATA
* *
3274454 AGAATATTTGAATTTCAAAGA
1 AGAATATTTGAAGTTCAAATA
*
3274475 AAAATATTTGA
1 AGAATATTTGA
3274486 GTTTTGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (21 bp):
AGAATATTTGAAGTTCAAATA
Found at i:3274672 original size:22 final size:22
Alignment explanation
Indices: 3274646--3274739 Score: 70
Period size: 22 Copynumber: 4.4 Consensus size: 22
3274636 AAATTTGTCA
3274646 AATGTGAACCTTTGAACTTTTG
1 AATGTGAACCTTTGAACTTTTG
* * * *
3274668 GATGTGAACC-CTAAATTTATTG
1 AATGTGAACCTTTGAACTT-TTG
3274690 AATGAT-AACCTTTGAA--TTTG
1 AATG-TGAACCTTTGAACTTTTG
* * *
3274710 AATGAGAAGCTTCGAACTTTTG
1 AATGTGAACCTTTGAACTTTTG
*
3274732 GATGTGAA
1 AATGTGAA
3274740 TCTTCAAAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
20 15 0.28
21 6 0.11
22 29 0.54
23 4 0.07
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (22 bp):
AATGTGAACCTTTGAACTTTTG
Found at i:3276490 original size:143 final size:145
Alignment explanation
Indices: 3276232--3276625 Score: 349
Period size: 143 Copynumber: 2.7 Consensus size: 145
3276222 AGGAAGTACT
** * *
3276232 AAATTACTAAAAAACCCTTTAAGGGGTGTTTTCGTAATTTGATATTTTCAAGCTAAGATTTTTCT
1 AAATTACTAAAAAACCCTTTAAGAAGTATTTTCGTAATTTGATATTTTCAAGCTAAGATTTTTCC
* *
3276297 GAAACTTTTCAAATCTCAGTTTTATAAAATTTCATGATTTTTAAAACATTTGAAATTATAGCATT
66 GAAACTTTTCAAATCTCAATTTTATAAAATTTCATAATTTTTAAAACATTTGAAATTATAGCATT
3276362 ACCTCAAAAAGTATG
131 ACCTCAAAAAGTATG
* * * *
3276377 AAATTACTAAAACACCC-TT-AGAAGTATTTTCGTAATTTGATCTTCTT-AAGTTCAGA-TTTTC
1 AAATTACTAAAAAACCCTTTAAGAAGTATTTTCGTAATTTGATATT-TTCAAGCTAAGATTTTTC
* * **** **
3276438 ACGAAACTTTTCAGATCTCAATTTTATAAAATTTTATAATTTTTGGTGCATTTGAAAACATAGCA
65 -CGAAACTTTTCAAATCTCAATTTTATAAAATTTCATAATTTTTAAAACATTTGAAATTATAGCA
* * *
3276503 GTACC-CTAAGAG-ATG
129 TTACCTCAAAAAGTATG
**** * * * * * *
3276518 TAAAATTACT-AAAATTTTTCTTAAG-GGTATTTTCATAATTT-AGTCTTTCCAAGCT-TGAATT
1 --AAATTACTAAAAAACCCT-TTAAGAAGTATTTTCGTAATTTGA-TATTTTCAAGCTAAGATTT
* * *
3276579 TTCACGAAACTTTTCAAATCTTAATTTTATAATATTTCATCATTTTT
62 TTC-CGAAACTTTTCAAATCTCAATTTTATAAAATTTCATAATTTTT
3276626 TGGGCTTTAA
Statistics
Matches: 203, Mismatches: 36, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
141 3 0.01
142 13 0.06
143 97 0.48
144 72 0.35
145 18 0.09
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (145 bp):
AAATTACTAAAAAACCCTTTAAGAAGTATTTTCGTAATTTGATATTTTCAAGCTAAGATTTTTCC
GAAACTTTTCAAATCTCAATTTTATAAAATTTCATAATTTTTAAAACATTTGAAATTATAGCATT
ACCTCAAAAAGTATG
Found at i:3280483 original size:7 final size:7
Alignment explanation
Indices: 3280471--3280531 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
3280461 AACTGTGAAT
3280471 CCCTAAA
1 CCCTAAA
3280478 CCCTAAAA
1 CCCT-AAA
3280486 CCAC-AAA
1 CC-CTAAA
*
3280493 TCCTAAA
1 CCCTAAA
3280500 -CCT-AA
1 CCCTAAA
3280505 CCCTAAA
1 CCCTAAA
*
3280512 --CTAAG
1 CCCTAAA
3280517 CCCTAAA
1 CCCTAAA
3280524 CCCTAAA
1 CCCTAAA
3280531 C
1 C
3280532 TATAATCCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
5 6 0.14
6 7 0.16
7 25 0.57
8 5 0.11
9 1 0.02
ACGTcount: A:0.44, C:0.39, G:0.02, T:0.15
Consensus pattern (7 bp):
CCCTAAA
Found at i:3280511 original size:12 final size:13
Alignment explanation
Indices: 3280494--3280525 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3280484 AACCACAAAT
3280494 CCTAAACCTAA-C
1 CCTAAACCTAAGC
3280506 CCTAAA-CTAAGC
1 CCTAAACCTAAGC
3280518 CCTAAACC
1 CCTAAACC
3280526 CTAAACTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 13 0.72
13 1 0.06
ACGTcount: A:0.41, C:0.41, G:0.03, T:0.16
Consensus pattern (13 bp):
CCTAAACCTAAGC
Found at i:3281485 original size:18 final size:18
Alignment explanation
Indices: 3281418--3281486 Score: 50
Period size: 20 Copynumber: 3.6 Consensus size: 18
3281408 CCACTAAATA
*
3281418 TTTAT-ATAAATAATTTT
1 TTTATAATAAATAATTAT
*
3281435 TTTAAAATATAATAAATTAAT
1 TTTATAATA-AAT-AATT-AT
**
3281456 AATATAGTATAAATAATTAT
1 TTTATA--ATAAATAATTAT
3281476 TTTATAATAAA
1 TTTATAATAAA
3281487 ATTTAAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
17 4 0.10
18 8 0.21
19 3 0.08
20 10 0.26
21 8 0.21
22 3 0.08
23 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (18 bp):
TTTATAATAAATAATTAT
Found at i:3282621 original size:13 final size:13
Alignment explanation
Indices: 3282603--3282628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3282593 GTTTCATTTT
3282603 TATTTTTTAAAAA
1 TATTTTTTAAAAA
3282616 TATTTTTTAAAAA
1 TATTTTTTAAAAA
3282629 AAATATCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:3282983 original size:17 final size:17
Alignment explanation
Indices: 3282963--3282995 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3282953 TAATTATTGT
*
3282963 ATTTATTTACTTAAATA
1 ATTTATTTAATTAAATA
3282980 ATTTATTTAATTAAAT
1 ATTTATTTAATTAAAT
3282996 TTGTGCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTATTTAATTAAATA
Found at i:3284000 original size:13 final size:13
Alignment explanation
Indices: 3283980--3284011 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3283970 ATATATTTAA
3283980 AAAATAAAAAAAT
1 AAAATAAAAAAAT
*
3283993 ATAATAAAAAAAT
1 AAAATAAAAAAAT
3284006 AAAATA
1 AAAATA
3284012 TGTATCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:3291435 original size:25 final size:24
Alignment explanation
Indices: 3291407--3291471 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
3291397 TAAGTAAATG
*
3291407 TTTAAAGA-TTTAATTGGATAAAAAA
1 TTTAAA-ATTTTAATT-AATAAAAAA
3291432 TTTAAAATTTTAATTAATAAAAAA
1 TTTAAAATTTTAATTAATAAAAAA
**
3291456 TAAAAAATTTATAATT
1 TTTAAAATTT-TAATT
3291472 TGATTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (24 bp):
TTTAAAATTTTAATTAATAAAAAA
Found at i:3291441 original size:24 final size:23
Alignment explanation
Indices: 3291407--3291466 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
3291397 TAAGTAAATG
*
3291407 TTTAAAGATTTAATTGGATAAAAAA
1 TTTAAA-ATTTAATT-AATAAAAAA
3291432 TTTAAAATTTTAATTAATAAAAAA
1 TTTAAAA-TTTAATTAATAAAAAA
**
3291456 TAAAAAATTTA
1 TTTAAAATTTA
3291467 TAATTTGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 14 0.45
25 13 0.42
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (23 bp):
TTTAAAATTTAATTAATAAAAAA
Found at i:3293504 original size:22 final size:22
Alignment explanation
Indices: 3293468--3293521 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
3293458 CCATTTGATA
*
3293468 AGATTCACA-TCTAGAAGAATC
1 AGATTCTCACTCTAGAAGAATC
3293489 AGATTCTCACTCTAGAAGAATC
1 AGATTCTCACTCTAGAAGAATC
3293511 AGATTCTCACT
1 AGATTCTCACT
3293522 AACTCCTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (22 bp):
AGATTCTCACTCTAGAAGAATC
Found at i:3298401 original size:23 final size:24
Alignment explanation
Indices: 3298336--3298413 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 24
3298326 ATGTTAGTCC
* * *
3298336 AATTATTAATAAAAAT-TATTTTT
1 AATTTTTATTAAAAATCAATTTTT
*
3298359 ACTTATTTATTAAAAATCAATTTTT
1 AATT-TTTATTAAAAATCAATTTTT
* *
3298384 AATTTTT-TTTAAAATCAATATTT
1 AATTTTTATTAAAAATCAATTTTT
3298407 AATTTTT
1 AATTTTT
3298414 GGAAATTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 24 0.52
24 13 0.28
25 9 0.20
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTTTTATTAAAAATCAATTTTT
Found at i:3298831 original size:18 final size:17
Alignment explanation
Indices: 3298789--3298822 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3298779 ACATTTCATG
3298789 AAAAAAATAGAAAATTT
1 AAAAAAATAGAAAATTT
3298806 AAAAAAATAGAAAATTT
1 AAAAAAATAGAAAATTT
3298823 TATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAAAAATAGAAAATTT
Found at i:3298949 original size:26 final size:25
Alignment explanation
Indices: 3298898--3298946 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3298888 TCAAAAATAC
*
3298898 AAAAACTTAAAAATATGAAATTTTA
1 AAAAAATTAAAAATATGAAATTTTA
3298923 AAAAAATTAAAAA-ATTGAAATTTT
1 AAAAAATTAAAAATA-TGAAATTTT
3298947 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAAAATTAAAAATATGAAATTTTA
Found at i:3298954 original size:8 final size:8
Alignment explanation
Indices: 3298940--3298975 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
3298930 TAAAAAATTG
3298940 AAATTTTT
1 AAATTTTT
*
3298948 AATTTTTT
1 AAATTTTT
3298956 AAATTTTT
1 AAATTTTT
3298964 AAA-TTTT
1 AAATTTTT
3298971 AAATT
1 AAATT
3298976 GAATATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AAATTTTT
Found at i:3299023 original size:26 final size:26
Alignment explanation
Indices: 3298993--3299042 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
3298983 CTTAAAAATC
3298993 TTGAAATTTTCTAAAAAAATAGAATA
1 TTGAAATTTTCTAAAAAAATAGAATA
* *
3299019 TTGAATTTTTTTAAAAAAATAGAA
1 TTGAAATTTTCTAAAAAAATAGAA
3299043 ACTGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (26 bp):
TTGAAATTTTCTAAAAAAATAGAATA
Found at i:3299095 original size:43 final size:41
Alignment explanation
Indices: 3299031--3299127 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 41
3299021 GAATTTTTTT
3299031 AAAAAAATAGAAACTGA-TTTTAAAAAATTCAAA-AAAATGATTTTC
1 AAAAAAAT--AAACT-ACTTTTAAAAAATT-AAATAAAAT-A-TTTC
* * *
3299076 AAAAAATTAAACTACTTTTAAAATATTAAATTAAATATTTC
1 AAAAAAATAAACTACTTTTAAAAAATTAAATAAAATATTTC
3299117 AAAAAAATAAA
1 AAAAAAATAAA
3299128 AAAAATATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
41 14 0.30
42 5 0.11
43 20 0.43
45 7 0.15
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (41 bp):
AAAAAAATAAACTACTTTTAAAAAATTAAATAAAATATTTC
Found at i:3299127 original size:22 final size:22
Alignment explanation
Indices: 3299079--3299136 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
3299069 GATTTTCAAA
* * *
3299079 AAATTAAACTACTTTTAAAATATT
1 AAATTAAA-TA-TTTCAAAAAAAT
3299103 AAATTAAATATTTCAAAAAAAT
1 AAATTAAATATTTCAAAAAAAT
**
3299125 AAAAAAAATATT
1 AAATTAAATATT
3299137 GAAAATATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 19 0.66
23 2 0.07
24 8 0.28
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATTAAATATTTCAAAAAAAT
Found at i:3301116 original size:20 final size:20
Alignment explanation
Indices: 3301079--3301118 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3301069 TGAAAAAGGT
*
3301079 GTAAAATAAAATTATAAAAA
1 GTAAAATAAAAATATAAAAA
*
3301099 GTAAAATAAAAATGTAAAAA
1 GTAAAATAAAAATATAAAAA
3301119 AAATTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (20 bp):
GTAAAATAAAAATATAAAAA
Found at i:3301586 original size:17 final size:18
Alignment explanation
Indices: 3301559--3301606 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
3301549 AATATAAATA
*
3301559 TATTTTTATATTTTTTAT
1 TATTATTATATTTTTTAT
3301577 T-TTATTATATCTTTTTAT
1 TATTATTATAT-TTTTTAT
*
3301595 TATTTTTATATT
1 TATTATTATATT
3301607 AAACGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 8 0.31
18 10 0.38
19 8 0.31
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTATTATATTTTTTAT
Found at i:3301691 original size:11 final size:11
Alignment explanation
Indices: 3301665--3301697 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
3301655 ATTAAAAGAT
3301665 ATAATTAAAT-
1 ATAATTAAATA
3301675 ATAATTAAATA
1 ATAATTAAATA
3301686 ATAATTAAATA
1 ATAATTAAATA
3301697 A
1 A
3301698 AATAAAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATTAAATA
Found at i:3301697 original size:8 final size:10
Alignment explanation
Indices: 3301663--3301696 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
3301653 AAATTAAAAG
3301663 ATATAATTAA
1 ATATAATTAA
3301673 ATATAATTAA
1 ATATAATTAA
3301683 ATAATAATTAA
1 AT-ATAATTAA
3301694 ATA
1 ATA
3301697 AAATAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATAATTAA
Found at i:3302029 original size:23 final size:23
Alignment explanation
Indices: 3302003--3302060 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
3301993 TCCTTTCTTT
3302003 TTTTTTTTTTCTCA-TCATCATTC
1 TTTTTTTTTT-TCATTCATCATTC
* * *
3302026 TTTTTTGTTTTCATTCTTCTTTC
1 TTTTTTTTTTTCATTCATCATTC
3302049 TTTTCTTTTTTT
1 TTTT-TTTTTTT
3302061 TTCTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 20 0.69
24 6 0.21
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTTTTTTTCATTCATCATTC
Found at i:3302041 original size:16 final size:16
Alignment explanation
Indices: 3302020--3302067 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
3302010 TTTCTCATCA
*
3302020 TCATTCTTTTTTGTTT
1 TCATTCTTTTTTCTTT
*
3302036 TCATTCTTCTTTCTTT
1 TCATTCTTTTTTCTTT
*
3302052 TC-TTTTTTTTTCTTT
1 TCATTCTTTTTTCTTT
3302067 T
1 T
3302068 TTTTTCCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (16 bp):
TCATTCTTTTTTCTTT
Found at i:3302065 original size:15 final size:15
Alignment explanation
Indices: 3302026--3302072 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
3302016 ATCATCATTC
* *
3302026 TTTTTTGTTTTCATTC
1 TTTTTTCTTTTC-TTT
*
3302042 TTCTTTCTTTTCTTT
1 TTTTTTCTTTTCTTT
3302057 TTTTTTCTTTT-TTT
1 TTTTTTCTTTTCTTT
3302071 TT
1 TT
3302073 CCCTTTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 5 0.19
15 12 0.44
16 10 0.37
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Found at i:3302079 original size:12 final size:10
Alignment explanation
Indices: 3302039--3302073 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
3302029 TTTGTTTTCA
3302039 TTCTTCTTTCTT
1 TTCTT-TTT-TT
3302051 TTCTTTTTTT
1 TTCTTTTTTT
3302061 TTCTTTTTTT
1 TTCTTTTTTT
3302071 TTC
1 TTC
3302074 CCTTTTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.65
11 3 0.13
12 5 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:3303323 original size:22 final size:23
Alignment explanation
Indices: 3303297--3303349 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
3303287 TATATTTTGA
* *
3303297 ATTTTTTAGAAAAT-TTTAATAT
1 ATTTTTTAAAAAATATTAAATAT
3303319 ATTTTTTAAAAAATATTAAATAT
1 ATTTTTTAAAAAATATTAAATAT
3303342 ATTATTTT
1 ATT-TTTT
3303350 TCAATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 13 0.48
23 10 0.37
24 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTTTTTAAAAAATATTAAATAT
Found at i:3303366 original size:16 final size:16
Alignment explanation
Indices: 3303345--3303376 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3303335 TAAATATATT
3303345 ATTTTTCAATATTTTG
1 ATTTTTCAATATTTTG
*
3303361 ATTTTTCAATTTTTTG
1 ATTTTTCAATATTTTG
3303377 CTTCAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (16 bp):
ATTTTTCAATATTTTG
Found at i:3303600 original size:19 final size:20
Alignment explanation
Indices: 3303578--3303626 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3303568 CTTTTAAAAG
3303578 TTTTAAAAATTGAAAAT-T-A
1 TTTTAAAAATTG-AAATCTAA
3303597 TTTTATAAAATTGAAATCTAA
1 TTTTA-AAAATTGAAATCTAA
3303618 TTTTAAAAA
1 TTTTAAAAA
3303627 AAAGGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.33
20 12 0.44
21 6 0.22
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
TTTTAAAAATTGAAATCTAA
Found at i:3303627 original size:21 final size:20
Alignment explanation
Indices: 3303578--3303627 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
3303568 CTTTTAAAAG
3303578 TTTT-AAAAATTGAAAATTA
1 TTTTAAAAAATTGAAAATTA
*
3303597 TTTTATAAAATTG-AAATCTAA
1 TTTTAAAAAATTGAAAAT-T-A
3303618 TTTTAAAAAA
1 TTTTAAAAAA
3303628 AAGGAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 8 0.31
20 8 0.31
21 10 0.38
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAATTGAAAATTA
Found at i:3309544 original size:18 final size:18
Alignment explanation
Indices: 3309518--3309553 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3309508 AGAGGGTGAT
3309518 AATACAAAAAAAAAGAAA
1 AATACAAAAAAAAAGAAA
* *
3309536 AATATAAAAAAAATGAAA
1 AATACAAAAAAAAAGAAA
3309554 GCTTAGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.06, T:0.11
Consensus pattern (18 bp):
AATACAAAAAAAAAGAAA
Found at i:3310604 original size:18 final size:18
Alignment explanation
Indices: 3310581--3310622 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
3310571 TTCTCTCATA
*
3310581 AAACCTACTTGAAATCC-T
1 AAACCTACATGAAA-CCTT
3310599 AAACCTACATGAAACCTT
1 AAACCTACATGAAACCTT
3310617 AAACCT
1 AAACCT
3310623 TTAACTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.43, C:0.29, G:0.05, T:0.24
Consensus pattern (18 bp):
AAACCTACATGAAACCTT
Found at i:3310678 original size:18 final size:17
Alignment explanation
Indices: 3310657--3310735 Score: 79
Period size: 18 Copynumber: 4.4 Consensus size: 17
3310647 TATTTTAAAC
3310657 CCTAAACTTTCCTAAAAT
1 CCTAAACTTTCC-AAAAT
3310675 CCTAAACCTTTCCAAAA-
1 CCTAAA-CTTTCCAAAAT
* * *
3310692 CCTTAAACCTTTTCGAAAC
1 CC-TAAA-CTTTCCAAAAT
3310711 CCTAAACTTTTCCAAAAT
1 CCTAAAC-TTTCCAAAAT
3310729 CCTAAAC
1 CCTAAAC
3310736 CTACTAGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.06
18 41 0.79
19 8 0.15
ACGTcount: A:0.38, C:0.32, G:0.01, T:0.29
Consensus pattern (17 bp):
CCTAAACTTTCCAAAAT
Found at i:3310693 original size:36 final size:35
Alignment explanation
Indices: 3310653--3310735 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
3310643 AACCTATTTT
*
3310653 AAACCCTAAACTTTCCTAAAATCCTAAACCTTTCCA
1 AAACCCTAAACTTTCC-AAAACCCTAAACCTTTCCA
* * * *
3310689 AAACCTTAAACCTTTTCGAAACCCTAAACTTTTCCA
1 AAACCCTAAA-CTTTCCAAAACCCTAAACCTTTCCA
*
3310725 AAATCCTAAAC
1 AAACCCTAAAC
3310736 CTACTAGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 1 0.03
36 33 0.85
37 5 0.13
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.28
Consensus pattern (35 bp):
AAACCCTAAACTTTCCAAAACCCTAAACCTTTCCA
Found at i:3310736 original size:36 final size:36
Alignment explanation
Indices: 3310675--3310790 Score: 114
Period size: 36 Copynumber: 3.2 Consensus size: 36
3310665 TTCCTAAAAT
* *
3310675 CCTAAACCTTTCCAAAA-CCTTAAACCTTTTCGAAAC
1 CCTAAACTTTTCCAAAATCC-TAAACCTTCTCGAAAC
* *
3310711 CCTAAACTTTTCCAAAATCCTAAACCTACTAGAAAC
1 CCTAAACTTTTCCAAAATCCTAAACCTTCTCGAAAC
* * *
3310747 CTTAAAC-TTTCTCATAATCTTAAA-CTGTCTC-AAAC
1 CCTAAACTTTTC-CAAAATCCTAAACCT-TCTCGAAAC
3310782 CCTAAACTT
1 CCTAAACTT
3310791 ATGTTATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
35 16 0.24
36 48 0.73
37 2 0.03
ACGTcount: A:0.37, C:0.30, G:0.03, T:0.30
Consensus pattern (36 bp):
CCTAAACTTTTCCAAAATCCTAAACCTTCTCGAAAC
Found at i:3311178 original size:15 final size:15
Alignment explanation
Indices: 3311158--3311201 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
3311148 GTAAAACATA
3311158 ACATGAAATTAAAAG
1 ACATGAAATTAAAAG
3311173 ACATG-AATCTAAAAG
1 ACATGAAAT-TAAAAG
* *
3311188 GCATGATATTAAAA
1 ACATGAAATTAAAA
3311202 AGGAAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.23
Consensus pattern (15 bp):
ACATGAAATTAAAAG
Found at i:3311423 original size:16 final size:15
Alignment explanation
Indices: 3311369--3311424 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
3311359 GAAAAACAAT
*
3311369 AATGTAAATTGTGGA
1 AATGTAAATTGTAGA
3311384 AATGTAAATTGTAAAGA
1 AATGTAAATTGT--AGA
*
3311401 AAT-TAAATTGCTTGA
1 AATGTAAATTG-TAGA
3311416 AATGTAAAT
1 AATGTAAAT
3311425 AATATGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 17 0.49
16 12 0.34
17 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (15 bp):
AATGTAAATTGTAGA
Found at i:3317135 original size:23 final size:23
Alignment explanation
Indices: 3317109--3317153 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3317099 TCTACAAAAA
3317109 AAAAAAAAAACTAAAGAAAATAC
1 AAAAAAAAAACTAAAGAAAATAC
**
3317132 AAAAAAAAAACTTGAGAAAATA
1 AAAAAAAAAACTAAAGAAAATA
3317154 ACTTTAGGCT
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:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (23 bp):
AAAAAAAAAACTAAAGAAAATAC
Found at i:3318158 original size:21 final size:21
Alignment explanation
Indices: 3318120--3318164 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3318110 GAACTTGATT
*
3318120 ATAAAAATTTATAAAAATCTA
1 ATAAAAATTTATAAAAATATA
*
3318141 ATAAAATTATTAT-AAAATATA
1 ATAAAAAT-TTATAAAAATATA
3318162 ATA
1 ATA
3318165 CATAGGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAAATTTATAAAAATATA
Found at i:3318332 original size:14 final size:14
Alignment explanation
Indices: 3318315--3318341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3318305 CCATTTTCTC
3318315 TTTTTTTTTTTCAT
1 TTTTTTTTTTTCAT
3318329 TTTTTTTTTTTCA
1 TTTTTTTTTTTCA
3318342 CACGGATGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTTTCAT
Found at i:3319340 original size:52 final size:52
Alignment explanation
Indices: 3319274--3319430 Score: 203
Period size: 52 Copynumber: 3.0 Consensus size: 52
3319264 TGGACAAGAA
* * *
3319274 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
*
3319326 GACTTGCAAGAGAAGAATTCTAAAAGAAA-AGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGA-GGATTCTTAATAGGCAAGTTT
* * *
3319378 GACTTACAGGAGAAGAATTTTAAGAGGAAAG-GGATTCTTAAT-GGACAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGG-CAAGTTT
3319430 G
1 G
3319431 TATGATTATA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
51 3 0.03
52 86 0.92
53 4 0.04
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:3325175 original size:11 final size:11
Alignment explanation
Indices: 3325159--3325196 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
3325149 AGTCTTGTAA
3325159 AAAAATTTTTT
1 AAAAATTTTTT
*
3325170 AAAAATTTATT
1 AAAAATTTTTT
*
3325181 AAATATTTTTT
1 AAAAATTTTTT
3325192 AAAAA
1 AAAAA
3325197 AATTAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAAATTTTTT
Found at i:3328042 original size:76 final size:76
Alignment explanation
Indices: 3327957--3328123 Score: 325
Period size: 76 Copynumber: 2.2 Consensus size: 76
3327947 ACGTGAAATT
*
3327957 CTATCCTAATTTGTAGATAAAAAATGACTAAAACATCCTATTAGAGGGTGCATACCTTTCAAATA
1 CTATCCTAATTTGTAGATAAAAAATGACCAAAACATCCTATTAGAGGGTGCATACCTTTCAAATA
3328022 CCCCAAACATC
66 CCCCAAACATC
3328033 CTATCCTAATTTGTAGATAAAAAATGACCAAAACATCCTATTAGAGGGTGCATACCTTTCAAATA
1 CTATCCTAATTTGTAGATAAAAAATGACCAAAACATCCTATTAGAGGGTGCATACCTTTCAAATA
3328098 CCCCAAACATC
66 CCCCAAACATC
3328109 CTATCCTAATTTGTA
1 CTATCCTAATTTGTA
3328124 TCACCAACAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 90 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (76 bp):
CTATCCTAATTTGTAGATAAAAAATGACCAAAACATCCTATTAGAGGGTGCATACCTTTCAAATA
CCCCAAACATC
Found at i:3330001 original size:160 final size:158
Alignment explanation
Indices: 3329774--3330095 Score: 565
Period size: 160 Copynumber: 2.0 Consensus size: 158
3329764 TACTAATATG
* *
3329774 TTTATTAGTTTAATGTTAATTTTCAAGCTAATTGAATTGCTATTATTTTAATAGTGTAATAAAAT
1 TTTATTAGTTTAATGTTAATTTTCAAACTAATTGAATTGCTATTATTTTAATAGTGCAATAAAAT
*
3329839 AAAATACTAATATAAATCGTATA-ATCCATCATTTTTAAAAGTCATGTCCTTATAGATTCTCGAA
66 AAAATACTAATATAAATC--ATACA-CCATCATTTTTAAAAGTCATGTCCTTATAGATTCTCAAA
*
3329903 TTTTCCATTCCCAATGCCACCTCTGCTAAAA
128 TTTTCCATTCCCAATGCCACCTCTGATAAAA
*
3329934 TTTATTAGTTTAATGTTAATTTTCAAACTAATTGAATTGCTATTATTTTAATAGTGCAATCAAAT
1 TTTATTAGTTTAATGTTAATTTTCAAACTAATTGAATTGCTATTATTTTAATAGTGCAATAAAAT
3329999 AAAATACTAATATAAATCATACACCATCATTTTTAAAAGTCATGTCCTTATAGATTCTCAAATTT
66 AAAATACTAATATAAATCATACACCATCATTTTTAAAAGTCATGTCCTTATAGATTCTCAAATTT
3330064 TCCATTCCCAATGCCACCTCTGATAAAA
131 TCCATTCCCAATGCCACCTCTGATAAAA
3330092 TTTA
1 TTTA
3330096 CGTATTTAGT
Statistics
Matches: 156, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
158 75 0.48
159 1 0.01
160 80 0.51
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (158 bp):
TTTATTAGTTTAATGTTAATTTTCAAACTAATTGAATTGCTATTATTTTAATAGTGCAATAAAAT
AAAATACTAATATAAATCATACACCATCATTTTTAAAAGTCATGTCCTTATAGATTCTCAAATTT
TCCATTCCCAATGCCACCTCTGATAAAA
Found at i:3333841 original size:47 final size:49
Alignment explanation
Indices: 3333789--3333924 Score: 127
Period size: 47 Copynumber: 2.7 Consensus size: 49
3333779 TTATTTTAAT
3333789 TTTAAATTATTTTGAATATGAATTATTTCGAATTTAAAT-ATTT-TTTG-
1 TTTAAATTATTTTGAAT-TGAATTATTTCGAATTTAAATAATTTATTTGA
* * * * *
3333836 TTTAAATAATTATGAATTCAACTCATTTCGATTTTAAATAATTTAGATTTGATA
1 TTTAAATTATTTTGAATTGAA-TTATTTCGAATTTAAATAATTT--ATTTG--A
* *
3333890 TTTAAATTATTTTGACTTGAATTATTTAG-ATTTAA
1 TTTAAATTATTTTGAATTGAATTATTTCGAATTTAA
3333925 GTTATTTTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
46 3 0.04
47 30 0.43
48 4 0.06
51 4 0.06
52 5 0.07
53 6 0.09
54 17 0.25
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.51
Consensus pattern (49 bp):
TTTAAATTATTTTGAATTGAATTATTTCGAATTTAAATAATTTATTTGA
Found at i:3333885 original size:22 final size:22
Alignment explanation
Indices: 3333860--3333901 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3333850 AATTCAACTC
3333860 ATTTCGAT-TTTAAATAATTTAG
1 ATTT-GATATTTAAATAATTTAG
*
3333882 ATTTGATATTTAAATTATTT
1 ATTTGATATTTAAATAATTT
3333902 TGACTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (22 bp):
ATTTGATATTTAAATAATTTAG
Found at i:3333909 original size:22 final size:22
Alignment explanation
Indices: 3333868--3333909 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3333858 TCATTTCGAT
*
3333868 TTTAAATAATTTAGATTTGATA
1 TTTAAATAATTTAGACTTGATA
* *
3333890 TTTAAATTATTTTGACTTGA
1 TTTAAATAATTTAGACTTGA
3333910 ATTATTTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (22 bp):
TTTAAATAATTTAGACTTGATA
Found at i:3333953 original size:21 final size:21
Alignment explanation
Indices: 3333929--3333986 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
3333919 ATTTAAGTTA
*
3333929 TTTTAAATTTAATT-TATTAAT
1 TTTTAAATTAAATTATATT-AT
3333950 TTTTAAAATTAAATTATATTAT
1 TTTT-AAATTAAATTATATTAT
*
3333972 ATTTAAA-TAAATTAT
1 TTTTAAATTAAATTAT
3333987 TTGATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 8 0.24
21 7 0.21
22 14 0.42
23 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAAATTAAATTATATTAT
Found at i:3341057 original size:17 final size:17
Alignment explanation
Indices: 3341031--3341107 Score: 136
Period size: 17 Copynumber: 4.5 Consensus size: 17
3341021 TTTGCCTCTC
3341031 AAATTTTTGTAAAAATG
1 AAATTTTTGTAAAAATG
*
3341048 AAAATTTTGTAAAAATG
1 AAATTTTTGTAAAAATG
3341065 AAATTTTTGTAAAAATG
1 AAATTTTTGTAAAAATG
3341082 AAATTTTTGTAAAAATG
1 AAATTTTTGTAAAAATG
*
3341099 GAATTTTTG
1 AAATTTTTG
3341108 GATTAATCAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (17 bp):
AAATTTTTGTAAAAATG
Found at i:3348724 original size:20 final size:20
Alignment explanation
Indices: 3348699--3348738 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3348689 TTAGAAAAAC
*
3348699 TAATTAAAGTTCTATGTTAA
1 TAATTAAAGTTATATGTTAA
3348719 TAATTAAAGTTATATGTTAA
1 TAATTAAAGTTATATGTTAA
3348739 GTTATTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (20 bp):
TAATTAAAGTTATATGTTAA
Found at i:3355147 original size:26 final size:26
Alignment explanation
Indices: 3355118--3355171 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
3355108 GTTAGCATGT
*
3355118 AATGATAATTCGAAACTTGTTCTTGA
1 AATGATAATTCGAAACTTGTTCTAGA
* ** *
3355144 AATGGTAATTTTAACCTTGTTCTAGA
1 AATGATAATTCGAAACTTGTTCTAGA
3355170 AA
1 AA
3355172 ACCAATTGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (26 bp):
AATGATAATTCGAAACTTGTTCTAGA
Found at i:3356443 original size:33 final size:33
Alignment explanation
Indices: 3356401--3356469 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
3356391 GTTGCTAATT
3356401 TCTTCAACATAGTCTCCAACAAGAATAATGTCA
1 TCTTCAACATAGTCTCCAACAAGAATAATGTCA
3356434 TCTTCAACATAGTCTCCAACAAGAATAATGTCA
1 TCTTCAACATAGTCTCCAACAAGAATAATGTCA
3356467 TCT
1 TCT
3356470 GCATAGACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.29
Consensus pattern (33 bp):
TCTTCAACATAGTCTCCAACAAGAATAATGTCA
Found at i:3357740 original size:42 final size:42
Alignment explanation
Indices: 3357681--3357761 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
3357671 AAACTCAAGA
3357681 TTTTCATGAATTAAAAACAGCCAATCAAAGGAGTAATTTTGG
1 TTTTCATGAATTAAAAACAGCCAATCAAAGGAGTAATTTTGG
* * *
3357723 TTTTCATGCATTAAAAACAGCTAATCATAGGAGTAATTT
1 TTTTCATGAATTAAAAACAGCCAATCAAAGGAGTAATTT
3357762 ACTCCTTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (42 bp):
TTTTCATGAATTAAAAACAGCCAATCAAAGGAGTAATTTTGG
Found at i:3359244 original size:264 final size:263
Alignment explanation
Indices: 3358741--3359270 Score: 857
Period size: 264 Copynumber: 2.0 Consensus size: 263
3358731 AACGGCTATT
* * *
3358741 TTTCCTTTAGGTGAATTTTGACAAACATGGTGTGATTGGTCTGGCATTGTGAAAAACCATACTTC
1 TTTCCTTCAGGTGAATTTTGACAAACATGGTGTGATCGATCTGGCATTGTGAAAAACCATACTTC
* *
3358806 TTTACCACTTTTGTTAGTCTATTAAACCATGCACGTGGGGATTGTTGAGACCATATAAAGACTTT
66 TTTACCACTTTTATTAGTCTATCAAACCATGCACGTGGGGATTGTTGAGACCATATAAAGACTTT
* * * *
3358871 TAAAGTTTACATGCCTTGCCAAAATTGTCTTGGTTTTTGAATCTTGGAGGGATTTCCACATAAAC
131 TAAAGTTTACATACCTTGCCAAAATTGTCCTGATTTTTGAATCCTGGAGGGATTTCCACATAAAC
* *
3358936 TTCTTCTTCTAGGTTGCTATTAAGAAATGAGTTTTTTGACATCTAGTTGGTGGAGTGGCCAATCT
196 TTCTTCTTCTAGGTTGCTATTAAGAAATGAGTTTTTTGACATCTAGTTGGTGGAATAGCCAATCT
3359001 AGA
261 AGA
3359004 TTTCCTTCAGGTGAATGTTTGACAAACATGGTGTGATCGATCTGGCATTGTGAAAAACCATACTT
1 TTTCCTTCAGGTGAAT-TTTGACAAACATGGTGTGATCGATCTGGCATTGTGAAAAACCATACTT
*
3359069 CTTTACCACTTTTATTAGTCTATCAAACCATGCGCGTGGGGATTGTTTGAGACCATATAAAGACT
65 CTTTACCACTTTTATTAGTCTATCAAACCATGCACGTGGGGATTG-TTGAGACCATATAAAGACT
* * * ** *
3359134 TTTGAAGTTTGCATACCTTGCCAAAATTGTCCTGATTTTTGAATCCTGGAGGGGTTTCCATGTCA
129 TTTAAAGTTTACATACCTTGCCAAAATTGTCCTGATTTTTGAATCCTGGAGGGATTTCCACATAA
3359199 ACTTCTTCTTCTAGGTTGCTATTAAGAAATGCA-TTTTTT-ACATCTAGTTGGTGGAATAGCCAA
194 ACTTCTTCTTCTAGGTTGCTATTAAGAAATG-AGTTTTTTGACATCTAGTTGGTGGAATAGCCAA
3359262 TCTAGA
258 TCTAGA
3359268 TTT
1 TTT
3359271 GTTACCAATG
Statistics
Matches: 246, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
263 15 0.06
264 119 0.48
265 111 0.45
266 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (263 bp):
TTTCCTTCAGGTGAATTTTGACAAACATGGTGTGATCGATCTGGCATTGTGAAAAACCATACTTC
TTTACCACTTTTATTAGTCTATCAAACCATGCACGTGGGGATTGTTGAGACCATATAAAGACTTT
TAAAGTTTACATACCTTGCCAAAATTGTCCTGATTTTTGAATCCTGGAGGGATTTCCACATAAAC
TTCTTCTTCTAGGTTGCTATTAAGAAATGAGTTTTTTGACATCTAGTTGGTGGAATAGCCAATCT
AGA
Found at i:3359944 original size:39 final size:39
Alignment explanation
Indices: 3359890--3359969 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
3359880 CACTTTGGGC
* *
3359890 TTGGAGGATTTGGTTGGATGTTTTGGACTTGAAATGGAG
1 TTGGAGGATTTGGTTGGATGTTTTGGACATGAAAGGGAG
3359929 TTGGAGGATTTGGTTGGATGTTTTGGACATGAAAGGGAG
1 TTGGAGGATTTGGTTGGATGTTTTGGACATGAAAGGGAG
3359968 TT
1 TT
3359970 TGAGAAGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.03, G:0.39, T:0.38
Consensus pattern (39 bp):
TTGGAGGATTTGGTTGGATGTTTTGGACATGAAAGGGAG
Found at i:3361698 original size:96 final size:96
Alignment explanation
Indices: 3361534--3361723 Score: 335
Period size: 96 Copynumber: 2.0 Consensus size: 96
3361524 GCAGGCTAGT
*
3361534 AAATTTGTTTAGGGTGGGTGGAGATAAAATAAAATTATGTATTATATATAATAAAAAAGTAAAAG
1 AAATTTGTTTAGGGTGGGCGGAGATAAAATAAAATTATGTATTATATATAATAAAAAAGTAAAAG
* *
3361599 TAAACATGGTATATAAGACACTAAATTTAGA
66 TAAACATAGTATATAAAACACTAAATTTAGA
* *
3361630 AAATTTGTTTAGGGTGGGCGGAGATAAAATAAAATTGTGTATTATATATGATAAAAAAGTAAAAG
1 AAATTTGTTTAGGGTGGGCGGAGATAAAATAAAATTATGTATTATATATAATAAAAAAGTAAAAG
3361695 TAAACATAGTATATAAAACACTAAATTTA
66 TAAACATAGTATATAAAACACTAAATTTA
3361724 AACACAATGA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (96 bp):
AAATTTGTTTAGGGTGGGCGGAGATAAAATAAAATTATGTATTATATATAATAAAAAAGTAAAAG
TAAACATAGTATATAAAACACTAAATTTAGA
Found at i:3367842 original size:2 final size:2
Alignment explanation
Indices: 3367835--3367859 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3367825 CTATTTCATT
3367835 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3367860 TTCTTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3380076 original size:65 final size:65
Alignment explanation
Indices: 3379952--3380077 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 65
3379942 TGTTGAAATT
* * * *
3379952 TTTTTTTTTAATTTGTACTGATGATAAAAAAAATGAGATAATAGCAATAACAGATCATTTTATTA
1 TTTTTTTTAAATTTGTACTGATGATAAAAAAAATGAGATAACAGCAAAAACAGACCATTTTATTA
* * * **
3380017 TTTTTTTTAAATTTGTACTGATGATGAAAAAAATGGGATAGCAGCAAAAATGGACCATTTT
1 TTTTTTTTAAATTTGTACTGATGATAAAAAAAATGAGATAACAGCAAAAACAGACCATTTT
3380078 GCTACTATTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (65 bp):
TTTTTTTTAAATTTGTACTGATGATAAAAAAAATGAGATAACAGCAAAAACAGACCATTTTATTA
Found at i:3386616 original size:3 final size:3
Alignment explanation
Indices: 3386601--3386654 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
3386591 CTTTATTCAT
*
3386601 TTC TTC CTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3386649 TTC TTC
1 TTC TTC
3386655 ACATATTGCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:3390107 original size:52 final size:51
Alignment explanation
Indices: 3390051--3390192 Score: 160
Period size: 52 Copynumber: 2.7 Consensus size: 51
3390041 ATAAAAAAAG
* * * ** *
3390051 AATTTCAAGAGAAAGATAATTCTTAATAGGTAAATTTGACTTGCATGAGAAT
1 AATTTTAAGAGAAA-ATAATTCTTAATAGGTAAGTTTGACTTACAACAGAAA
* *
3390103 AATTTTAAGAAGAAAAAAATTCTTAATAGATAAGTTTGACTTACAACAGAAA
1 AATTTTAAG-AGAAAATAATTCTTAATAGGTAAGTTTGACTTACAACAGAAA
*
3390155 AATTTTAA-AGGAAAATGGATTCTTAATAGGTAAGTTTG
1 AATTTTAAGA-GAAAAT-AATTCTTAATAGGTAAGTTTG
3390193 TTTGGTTATA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
50 1 0.01
51 5 0.07
52 65 0.86
53 5 0.07
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (51 bp):
AATTTTAAGAGAAAATAATTCTTAATAGGTAAGTTTGACTTACAACAGAAA
Found at i:3391078 original size:52 final size:52
Alignment explanation
Indices: 3391013--3391163 Score: 171
Period size: 52 Copynumber: 2.9 Consensus size: 52
3391003 GGATAAAAAA
** * *
3391013 ACTTACAAAAGAAGAATTCTAAGAG-AAAGAGAATTTTTAATAGGTAAATTTG
1 ACTTACAGGAGAAGAATTCTAAGAGAAAAAAG-ATTTTTAATAGGCAAATTTG
* *
3391065 ACTTACAGGAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGCAAGTTTG
1 ACTTACAGGAGAAGAATTCTAAGAGAAAAAAGATTTTTAATAGGCAAATTTG
* * * * *
3391117 ATTTATAGGAGAA-AATTTCTAAAAGAAAAAATATTTTTAATAAGCAA
1 ACTTACAGGAGAAGAA-TTCTAAGAGAAAAAAGATTTTTAATAGGCAA
3391164 GTCTGTATGA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.02
52 78 0.92
53 5 0.06
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (52 bp):
ACTTACAGGAGAAGAATTCTAAGAGAAAAAAGATTTTTAATAGGCAAATTTG
Found at i:3394666 original size:3 final size:3
Alignment explanation
Indices: 3394658--3394723 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
3394648 GTTACCGGCC
*
3394658 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
3394706 ATA ATA ATA ATC ATA ATA
1 ATA ATA ATA ATA ATA ATA
3394724 TGTAAAAGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3396116 original size:46 final size:46
Alignment explanation
Indices: 3396049--3396141 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
3396039 TTGCGTGAGA
*
3396049 ATGAAAGGTTTATGAGAGCTCAGAACTCATCACTAGGGGGGAGTAC
1 ATGAAAGGTTTATGAGAGCTCAGAACTCACCACTAGGGGGGAGTAC
*
3396095 ATGAAAGGTTTATGAGAGCTCAGAACTCACCACTTGGGGGGAGTAC
1 ATGAAAGGTTTATGAGAGCTCAGAACTCACCACTAGGGGGGAGTAC
3396141 A
1 A
3396142 CTAGCTGTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (46 bp):
ATGAAAGGTTTATGAGAGCTCAGAACTCACCACTAGGGGGGAGTAC
Found at i:3402451 original size:7 final size:7
Alignment explanation
Indices: 3402430--3402476 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
3402420 GCCTTTAATT
3402430 TTTTTAA
1 TTTTTAA
3402437 -TTTT-A
1 TTTTTAA
3402442 TTTTTAA
1 TTTTTAA
3402449 TTTTTAA
1 TTTTTAA
3402456 TTTTGTAA
1 TTTT-TAA
3402464 TTTTCT-A
1 TTTT-TAA
3402471 TTTTTA
1 TTTTTA
3402477 GTAACCTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
5 1 0.03
6 9 0.26
7 17 0.49
8 8 0.23
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTTTAA
Found at i:3402473 original size:15 final size:13
Alignment explanation
Indices: 3402430--3402476 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 13
3402420 GCCTTTAATT
3402430 TTTTTAA-TTTTA
1 TTTTTAATTTTTA
3402442 TTTTTAATTTTTAA
1 TTTTTAATTTTT-A
3402456 TTTTGTAATTTTCTA
1 TTTT-TAATTTT-TA
3402471 TTTTTA
1 TTTTTA
3402477 GTAACCTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.23
13 4 0.13
14 7 0.23
15 12 0.39
16 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTTTA
Found at i:3411456 original size:29 final size:29
Alignment explanation
Indices: 3411398--3411456 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
3411388 CAAACTCACC
* ** *
3411398 CTTTTCTTCTTTCTCTCTATTTTTTTTGA
1 CTTTTATTCTTTCTCTCTATGGTTTGTGA
3411427 CTTTTATTCTTTCTCTTCT-TGGTTTGTGA
1 CTTTTATTCTTTCTC-TCTATGGTTTGTGA
3411456 C
1 C
3411457 ACCACTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.07, C:0.20, G:0.08, T:0.64
Consensus pattern (29 bp):
CTTTTATTCTTTCTCTCTATGGTTTGTGA
Found at i:3413879 original size:10 final size:10
Alignment explanation
Indices: 3413864--3413890 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3413854 GATAGTGTTC
3413864 AAAAGAAATG
1 AAAAGAAATG
3413874 AAAAGAAATG
1 AAAAGAAATG
3413884 AAAAGAA
1 AAAAGAA
3413891 TTTGTGTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (10 bp):
AAAAGAAATG
Found at i:3414154 original size:22 final size:25
Alignment explanation
Indices: 3414111--3414156 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
3414101 TAATGTATAA
*
3414111 ATATTATTATATATCATAAATTTTC
1 ATATTATTATATATAATAAATTTTC
3414136 ATATTATT-TAT-TAAT-AATTTT
1 ATATTATTATATATAATAAATTTT
3414157 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 3 0.15
25 8 0.40
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
ATATTATTATATATAATAAATTTTC
Found at i:3419834 original size:51 final size:52
Alignment explanation
Indices: 3419737--3419839 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
3419727 AATAACTATA
* * *
3419737 CAAACTTACCTATTAAGAATCTCTTTCCTTTTAGAATTCTTTTTCTGTAAGT
1 CAAACTTACATATTAAGAATCTCTTTCCTTTTAGAATTCTTCTTCTGCAAGT
* * * *
3419789 CAAACTTACATATTAAGATTTTTTTTTC-TTTAGAATTCTTCTTCTGCAAGT
1 CAAACTTACATATTAAGAATCTCTTTCCTTTTAGAATTCTTCTTCTGCAAGT
3419840 TTTTTTGTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 21 0.48
52 23 0.52
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (52 bp):
CAAACTTACATATTAAGAATCTCTTTCCTTTTAGAATTCTTCTTCTGCAAGT
Found at i:3420707 original size:52 final size:52
Alignment explanation
Indices: 3420615--3420769 Score: 183
Period size: 52 Copynumber: 3.0 Consensus size: 52
3420605 AATAACCATA
* * *
3420615 CAAACTTGCCTATT-AAAAATCTTTTTCTTTTAGAATTCTTTTTTTGCAAGT
1 CAAACTTGCTTATTAAAAAATCTTTTTCTTTTAGAATTCTTTTTCTACAAGT
*
3420666 CAAACTTGCTTATTAAAAAAT-TTTTTCCTTTTAGAATTCTTTTTCTATAAGT
1 CAAACTTGCTTATTAAAAAATCTTTTT-CTTTTAGAATTCTTTTTCTACAAGT
* * * *
3420718 CAAACTTGCTTATT-AAGAATCTATTTTTTTTTTA-AATTCTTCTTCTATAAGT
1 CAAACTTGCTTATTAAAAAATC--TTTTTCTTTTAGAATTCTTTTTCTACAAGT
3420770 TTTCTTATCC
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
51 23 0.25
52 59 0.64
53 5 0.05
54 5 0.05
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.50
Consensus pattern (52 bp):
CAAACTTGCTTATTAAAAAATCTTTTTCTTTTAGAATTCTTTTTCTACAAGT
Found at i:3425624 original size:29 final size:28
Alignment explanation
Indices: 3425567--3425632 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
3425557 AATAATTAAA
* *
3425567 ATTAATATTATATTTTGATTTTACTATTT
1 ATTAAT-TTATATTTTGATTTGACAATTT
3425596 ATTAATTTATGATTTTGTATTTGA-AATTT
1 ATTAATTTAT-ATTTTG-ATTTGACAATTT
*
3425625 AATAATTT
1 ATTAATTT
3425633 TTTTGTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.12
29 23 0.72
30 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (28 bp):
ATTAATTTATATTTTGATTTGACAATTT
Found at i:3430597 original size:40 final size:39
Alignment explanation
Indices: 3430542--3430620 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
3430532 CAAATTCTGA
* *
3430542 ATTAGATTTTAACTCTTTCCTTTCTGAGTCTCACTTACTC
1 ATTAGATTTTAACTCTTTCCTTTC-AAGTCTAACTTACTC
3430582 ATTAGATTTTAACTCTTTCCTTTCAAGTCTAACTTACTC
1 ATTAGATTTTAACTCTTTCCTTTCAAGTCTAACTTACTC
3430621 TGTATTGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
39 13 0.35
40 24 0.65
ACGTcount: A:0.23, C:0.24, G:0.06, T:0.47
Consensus pattern (39 bp):
ATTAGATTTTAACTCTTTCCTTTCAAGTCTAACTTACTC
Found at i:3432174 original size:42 final size:42
Alignment explanation
Indices: 3432110--3432203 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
3432100 ATGTGCCATA
3432110 GAGCTGCACTTTAATACACAGTTCTGGAAGGGATTTGTGATG
1 GAGCTGCACTTTAATACACAGTTCTGGAAGGGATTTGTGATG
* *
3432152 GAGCAGCACTTTAATACACAGTTCTTGAAGGGATTTGTGATG
1 GAGCTGCACTTTAATACACAGTTCTGGAAGGGATTTGTGATG
3432194 GAGCTGCACT
1 GAGCTGCACT
3432204 ATTATATATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
GAGCTGCACTTTAATACACAGTTCTGGAAGGGATTTGTGATG
Found at i:3436153 original size:48 final size:48
Alignment explanation
Indices: 3436097--3436194 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
3436087 CATTGTTTTT
3436097 ATGAGAATGATTGGTGATTTAAAGCAGAGAGAATATGATATATTTATG
1 ATGAGAATGATTGGTGATTTAAAGCAGAGAGAATATGATATATTTATG
*
3436145 ATGAGAATGATTGGTGATTTAAAGCAGAGGGAATATGATATATTTATG
1 ATGAGAATGATTGGTGATTTAAAGCAGAGAGAATATGATATATTTATG
3436193 AT
1 AT
3436195 CATGATGAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.34
Consensus pattern (48 bp):
ATGAGAATGATTGGTGATTTAAAGCAGAGAGAATATGATATATTTATG
Found at i:3436770 original size:2 final size:2
Alignment explanation
Indices: 3436763--3436791 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3436753 TATAAATAGA
3436763 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3436792 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3439807 original size:12 final size:11
Alignment explanation
Indices: 3439782--3439815 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3439772 TAGGGTTGAT
3439782 AAAGCAAAAGC
1 AAAGCAAAAGC
3439793 AAAGCAAAGAGC
1 AAAGCAAA-AGC
*
3439805 AAAGAAAAAGC
1 AAAGCAAAAGC
3439816 CAAGGGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.65, C:0.15, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAGCAAAAGC
Found at i:3440574 original size:15 final size:15
Alignment explanation
Indices: 3440556--3440608 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
3440546 ACGGATTATG
*
3440556 ATATTATAATCTTAA
1 ATATTATAATATTAA
3440571 ATATTATAATAATTATA
1 ATATTATAAT-ATTA-A
* *
3440588 ATATTATAATTTTTA
1 ATATTATAATATTAA
3440603 ATATTA
1 ATATTA
3440609 AGTTTGACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 17 0.52
16 5 0.15
17 11 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTATAATATTAA
Found at i:3440587 original size:9 final size:8
Alignment explanation
Indices: 3440550--3440608 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
3440540 GATATTACGG
*
3440550 ATTATGAT
1 ATTATAAT
3440558 ATTATAAT
1 ATTATAAT
*
3440566 CTTA-AAT
1 ATTATAAT
3440573 ATTATAAT
1 ATTATAAT
3440581 AATTATAAT
1 -ATTATAAT
3440590 ATTATAAT
1 ATTATAAT
*
3440598 -TTTTAAT
1 ATTATAAT
3440605 ATTA
1 ATTA
3440609 AGTTTGACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
7 12 0.28
8 23 0.53
9 8 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (8 bp):
ATTATAAT
Found at i:3450416 original size:18 final size:17
Alignment explanation
Indices: 3450379--3450417 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
3450369 CTGGCATAAC
* *
3450379 AAAAAAAAGAACACATT
1 AAAAAAAAGAACAAAAT
3450396 AAAAAAAAGTAACAAAAT
1 AAAAAAAAG-AACAAAAT
3450414 AAAA
1 AAAA
3450418 TGTAAGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.77, C:0.08, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAAAAGAACAAAAT
Found at i:3452294 original size:6 final size:6
Alignment explanation
Indices: 3452283--3452371 Score: 60
Period size: 6 Copynumber: 14.8 Consensus size: 6
3452273 ATTTATCTTC
* *
3452283 ATTTTT ATTTTT -TTGTTT -TATTT A-TTTT ATTCATTT ATCTTT A-TTTT
1 ATTTTT ATTTTT ATT-TTT ATTTTT ATTTTT ATT--TTT ATTTTT ATTTTT
* * * *
3452330 ATTTTT AAGTTTT ATATTT ATTTTT ATCTTT ATTTGT ATTTT
1 ATTTTT -ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
3452372 ATCTCATTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
5 13 0.20
6 41 0.64
7 5 0.08
8 5 0.08
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:3452310 original size:9 final size:9
Alignment explanation
Indices: 3452286--3452333 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
3452276 TATCTTCATT
3452286 TTTATTTT-
1 TTTATTTTA
*
3452294 TTTGTTTTA
1 TTTATTTTA
3452303 TTTATTTTA
1 TTTATTTTA
* *
3452312 TTCATTTATC
1 TTTATTT-TA
3452322 TTTATTTTA
1 TTTATTTTA
3452331 TTT
1 TTT
3452334 TTAAGTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 7 0.22
9 18 0.56
10 7 0.22
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3452311 original size:5 final size:5
Alignment explanation
Indices: 3452285--3452387 Score: 56
Period size: 6 Copynumber: 20.2 Consensus size: 5
3452275 TTATCTTCAT
* *
3452285 TTTTA -TTT- TTTTG TTTTA -TTTA TTTTA -TTCA -TTTA TCTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA
* *
3452331 TTTTTAA GTTTTA TATTTA TTTTTA TCTTTA TTTGTA TTTTA TCTCA -TTTA
1 -TTTT-A -TTTTA T-TTTA -TTTTA T-TTTA TTT-TA TTTTA TTTTA TTTTA
3452382 TTTTA T
1 TTTTA T
3452388 CATTATTGCT
Statistics
Matches: 78, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
4 18 0.23
5 26 0.33
6 28 0.36
7 6 0.08
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:3452318 original size:42 final size:42
Alignment explanation
Indices: 3452260--3452371 Score: 130
Period size: 41 Copynumber: 2.8 Consensus size: 42
3452250 TTATATCTTA
* * **
3452260 TATTTATTTT-TGCATTTATCTTCATTTTTATTTTTTTGTTT
1 TATTTATTTTATTCATTTATCTTTATTTTTATTTTTAAGTTT
3452301 TATTTATTTTATTCATTTATCTTTA-TTTTATTTTTAAGTTT
1 TATTTATTTTATTCATTTATCTTTATTTTTATTTTTAAGTTT
*
3452342 TA--TA-TTTATT--TTTATCTTTATTTGTATTTT
1 TATTTATTTTATTCATTTATCTTTATTTTTATTTT
3452372 ATCTCATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
36 10 0.16
37 8 0.12
38 6 0.09
39 2 0.03
41 26 0.41
42 12 0.19
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (42 bp):
TATTTATTTTATTCATTTATCTTTATTTTTATTTTTAAGTTT
Found at i:3452328 original size:36 final size:35
Alignment explanation
Indices: 3452286--3452371 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
3452276 TATCTTCATT
* *
3452286 TTTATTTTTTTGTTTTA-TTTAT-TTTATTCATTTATC
1 TTTATTTTATT-TTTAAGTTTATATTTATT--TTTATC
3452322 TTTATTTTATTTTTAAGTTTTATATTTATTTTTATC
1 TTTATTTTATTTTTAAG-TTTATATTTATTTTTATC
3452358 TTTATTTGTATTTT
1 TTTATTT-TATTTT
3452372 ATCTCATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
35 4 0.09
36 23 0.52
37 11 0.25
38 6 0.14
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (35 bp):
TTTATTTTATTTTTAAGTTTATATTTATTTTTATC
Found at i:3452386 original size:31 final size:30
Alignment explanation
Indices: 3452305--3452394 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
3452295 TTGTTTTATT
*
3452305 TATTTTATTCATTTATCTTTAT-TTTATTTT
1 TATTTTATTCATTTAT-TTTATCTTTATTTG
3452335 TAAGTTTTA-T-ATTTATTTTTATCTTTATTTG
1 T-A-TTTTATTCATTTA-TTTTATCTTTATTTG
*
3452366 TATTTTATCTCATTTATTTTATCATTATT
1 TATTTTAT-TCATTTATTTTATCTTTATT
3452395 GCTTATCTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
29 5 0.10
30 12 0.24
31 24 0.47
32 10 0.20
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (30 bp):
TATTTTATTCATTTATTTTATCTTTATTTG
Found at i:3453046 original size:30 final size:29
Alignment explanation
Indices: 3452994--3453062 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
3452984 AAAAATGAAC
* *
3452994 AAAATGCAAATGAAAATTATAACTAGTCCT
1 AAAATGCAAATGAAAATAATAACTAG-ACT
*
3453024 AAAATGCAAA-GACACATAATAACTAGACT
1 AAAATGCAAATGA-AAATAATAACTAGACT
*
3453053 AAAATACAAA
1 AAAATGCAAA
3453063 ATGTGAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.38
30 21 0.62
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (29 bp):
AAAATGCAAATGAAAATAATAACTAGACT
Found at i:3457476 original size:67 final size:65
Alignment explanation
Indices: 3457145--3457481 Score: 195
Period size: 67 Copynumber: 5.1 Consensus size: 65
3457135 AAACCTAGTC
* * ** * * *
3457145 ATTTTCGACCTCGATTCAATCTAGGTCATTTAATTTTTTGACTTAC-GATTCAATCCTTATCACT
1 ATTTTCAACCTCGATTCAATCCAAATCATTTAATTTTCTGACTTACAG-TTTAAT-CTCATCACT
3457209 TAT
64 T-T
* ** * * * * **
3457212 TTTTTTTATCTCTATTCAATCCAGATCATTTAATATTT-TGACTTACA-ATTAAGTTCTGGTCAC
1 ATTTTCAACCTCGATTCAATCCAAATCATTTAAT-TTTCTGACTTACAGTTTAA--TCTCATCAC
3457275 -TT
63 TTT
** * * * * * *
3457277 ATTTTTGACCTTCG-TTCAA-CTCAGATCATTTAATTTTTTGAATTACGGTTTAGTCCCAATCAC
1 ATTTTCAACC-TCGATTCAATC-CAAATCATTTAATTTTCTGACTTACAGTTTAATCTC-ATCAC
3457340 -TT
63 TTT
* * * * * * * *
3457342 ATTTTCAACTTCGGTTCAATCTAAATCATTTAATTTTCTAACTTGCAATTCAATACCTC-CCACC
1 ATTTTCAACCTCGATTCAATCCAAATCATTTAATTTTCTGACTTACAGTTTAAT--CTCATCA-C
3457406 TTT
63 TTT
*
3457409 ATTTTCAACCTCGATTCAATCCAAATCATTTAATTTTCTGACTTATAGTTTAATCTCGATCATCT
1 ATTTTCAACCTCGATTCAATCCAAATCATTTAATTTTCTGACTTACAGTTTAATCTC-ATCA-CT
3457474 TT
64 TT
3457476 ATTTTC
1 ATTTTC
3457482 GATTTTAGCT
Statistics
Matches: 206, Mismatches: 47, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
64 9 0.04
65 79 0.38
66 11 0.05
67 103 0.50
68 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (65 bp):
ATTTTCAACCTCGATTCAATCCAAATCATTTAATTTTCTGACTTACAGTTTAATCTCATCACTTT
Found at i:3457707 original size:2 final size:2
Alignment explanation
Indices: 3457700--3457724 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3457690 ATCCAAATTT
3457700 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3457725 TATTTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3457974 original size:17 final size:19
Alignment explanation
Indices: 3457952--3457986 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3457942 TAAATGCCCA
3457952 ATTTTAT-A-TTTTATCTC
1 ATTTTATCACTTTTATCTC
3457969 ATTTTATCACTTTTATCT
1 ATTTTATCACTTTTATCT
3457987 TTATGCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTATCACTTTTATCTC
Found at i:3458034 original size:6 final size:6
Alignment explanation
Indices: 3458002--3458118 Score: 58
Period size: 6 Copynumber: 18.5 Consensus size: 6
3457992 CTTATGAGTG
* ** * *
3458002 TATTTAT TA-TTT TATATTT TATATT TATTTT TATAAT TATGTT CATTTT
1 TATTT-T TATTTT TAT-TTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * *
3458051 TATTTTT TATTTT ATTTATTT TATTCATT TATCTT TA-TTT TACTTT TACGTTT
1 TA-TTTT TATTTT -TAT-TTT TATT--TT TATTTT TATTTT TATTTT TA-TTTT
*
3458104 TATTTT TATCTT TAT
1 TATTTT TATTTT TAT
3458119 CGTTACTTTA
Statistics
Matches: 85, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
5 7 0.08
6 47 0.55
7 23 0.27
8 8 0.09
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (6 bp):
TATTTT
Found at i:3458063 original size:5 final size:5
Alignment explanation
Indices: 3458055--3458143 Score: 51
Period size: 5 Copynumber: 17.2 Consensus size: 5
3458045 CATTTTTATT
*
3458055 TTTTA TTTTA -TTTA TTTTA -TTCA -TTTA TCTTTA TTTTA CTTTTA CGTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA -TTTTA --TTTTA
* * *
3458106 TTTTTA TCTTTA TCGTTA CTTTA TCTTA -TTTA TTTTA T
1 -TTTTA T-TTTA T-TTTA TTTTA TTTTA TTTTA TTTTA T
3458144 CATTATTGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 13 0.19
5 25 0.37
6 24 0.36
7 5 0.07
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:3458074 original size:14 final size:14
Alignment explanation
Indices: 3458055--3458092 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3458045 CATTTTTATT
3458055 TTTTATTTTATTTA
1 TTTTATTTTATTTA
*
3458069 TTTTA-TTCATTTA
1 TTTTATTTTATTTA
3458082 TCTTTATTTTA
1 T-TTTATTTTA
3458093 CTTTTACGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.40
14 9 0.45
15 3 0.15
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTTATTTA
Done.