Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 48 of 295
Found at i:14385091 original size:14 final size:14
Alignment explanation
Indices: 14385072--14385101 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14385062 ATTTAACCGA
14385072 ATATACATAAACTC
1 ATATACATAAACTC
*
14385086 ATATACATAAATTC
1 ATATACATAAACTC
14385100 AT
1 AT
14385102 GCATCATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATACATAAACTC
Found at i:14395624 original size:11 final size:11
Alignment explanation
Indices: 14395608--14395647 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
14395598 TTGGAGTAAC
14395608 AAAAAAATCAA
1 AAAAAAATCAA
*
14395619 AAAAAAATCGA
1 AAAAAAATCAA
*
14395630 AAAAAAATTAA
1 AAAAAAATCAA
14395641 AAAAAAA
1 AAAAAAA
14395648 GAAGTGACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:14396596 original size:18 final size:18
Alignment explanation
Indices: 14396575--14396609 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14396565 AGAAAAGAAA
14396575 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
14396593 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
14396610 AGAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:14418213 original size:52 final size:51
Alignment explanation
Indices: 14418157--14418254 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
14418147 CGAGTAAGTA
*
14418157 AAAAAAGGTCTCAAATAAATAATATATATAAAAAC-TTAAAGTAAATAGTAGT
1 AAAAAA-GTCTCAAATAAACAATATATATAAAAACTTTAAA-TAAATAGTAGT
* ** * *
14418209 AAAAAAGTTTGGAATGAACAATATGTATAAAAACTTTAAATAAATA
1 AAAAAAGTCTCAAATAAACAATATATATAAAAACTTTAAATAAATA
14418255 ACATATGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
51 28 0.72
52 11 0.28
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (51 bp):
AAAAAAGTCTCAAATAAACAATATATATAAAAACTTTAAATAAATAGTAGT
Found at i:14418572 original size:15 final size:16
Alignment explanation
Indices: 14418542--14418575 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14418532 ACATGACAGA
14418542 ATAACAAAATCAATAT
1 ATAACAAAATCAATAT
*
14418558 ATAATAAAA-CAATAT
1 ATAACAAAATCAATAT
14418573 ATA
1 ATA
14418576 CATGAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAACAAAATCAATAT
Found at i:14423621 original size:20 final size:20
Alignment explanation
Indices: 14423584--14423621 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14423574 GTGTGGCTTG
*
14423584 GGACATGCCAGTGTGGCCTA
1 GGACATGCCAGTGGGGCCTA
14423604 GGACATGGCC-GTGGGGCC
1 GGACAT-GCCAGTGGGGCC
14423622 AGGCCGTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.16, C:0.26, G:0.42, T:0.16
Consensus pattern (20 bp):
GGACATGCCAGTGGGGCCTA
Found at i:14425405 original size:12 final size:12
Alignment explanation
Indices: 14425365--14425398 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14425355 AAAACCCTAT
*
14425365 TTTTTCCTT-TC
1 TTTTTCTTTCTC
14425376 TTTTTCTTTCTC
1 TTTTTCTTTCTC
14425388 TTTTTCTTTCT
1 TTTTTCTTTCT
14425399 TTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:14434325 original size:16 final size:16
Alignment explanation
Indices: 14434304--14434338 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14434294 ATATATTTTG
14434304 TTAACCATTTACCCCA
1 TTAACCATTTACCCCA
14434320 TTAACCATTTACCCCA
1 TTAACCATTTACCCCA
14434336 TTA
1 TTA
14434339 GGTTTGCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAACCATTTACCCCA
Found at i:14435815 original size:36 final size:36
Alignment explanation
Indices: 14435768--14435839 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
14435758 CTTTTTGAAA
14435768 AAAAACAATTCCATGTTTCAAATAGGAACTGCTTTC
1 AAAAACAATTCCATGTTTCAAATAGGAACTGCTTTC
14435804 AAAAACAATTCCATGTTTCAAATAGGAACTGCTTTC
1 AAAAACAATTCCATGTTTCAAATAGGAACTGCTTTC
14435840 TAGTTGTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (36 bp):
AAAAACAATTCCATGTTTCAAATAGGAACTGCTTTC
Found at i:14455632 original size:33 final size:33
Alignment explanation
Indices: 14455590--14455657 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
14455580 ACATAGAGTG
14455590 GAATCGGGGAATCTCGCCGGCGGGTAATAAAAC
1 GAATCGGGGAATCTCGCCGGCGGGTAATAAAAC
14455623 GAATCGGGGAATCTCGCCGGCGGGTAATAAAAC
1 GAATCGGGGAATCTCGCCGGCGGGTAATAAAAC
14455656 GA
1 GA
14455658 TCTTTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.34, T:0.15
Consensus pattern (33 bp):
GAATCGGGGAATCTCGCCGGCGGGTAATAAAAC
Found at i:14456131 original size:41 final size:40
Alignment explanation
Indices: 14456044--14456130 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
14456034 ATACAAATAA
*
14456044 GAAAAAGGAAAACTCAAAAATTAGCTACGAATTTAAGCTT
1 GAAAAAAGAAAACTCAAAAATTAGCTACGAATTTAAGCTT
*
14456084 GAAAAAAGAAAAC-CTAAAAATTAGCTATGAATTTAAGCTT
1 GAAAAAAGAAAACTC-AAAAATTAGCTACGAATTTAAGCTT
14456124 GAAAAAA
1 GAAAAAA
14456131 AAATGAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.54, C:0.10, G:0.14, T:0.22
Consensus pattern (40 bp):
GAAAAAAGAAAACTCAAAAATTAGCTACGAATTTAAGCTT
Found at i:14457493 original size:16 final size:18
Alignment explanation
Indices: 14457474--14457514 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
14457464 TATGGTTACT
14457474 AAAAAA-AT-TAACAACA
1 AAAAAACATCTAACAACA
14457490 AAAAAACATCCTAACAACA
1 AAAAAACAT-CTAACAACA
14457509 AAAAAA
1 AAAAAA
14457515 TTATAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 2 0.09
19 14 0.64
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAACATCTAACAACA
Found at i:14459213 original size:30 final size:31
Alignment explanation
Indices: 14459160--14459217 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
14459150 CATGTAAAAA
14459160 CCTTTAAAATAATAATAAAAATTAACAAATG
1 CCTTTAAAATAATAATAAAAATTAACAAATG
14459191 CCTTTAAAATAA-AA-ACAAAATTAACAA
1 CCTTTAAAATAATAATA-AAAATTAACAA
14459218 TAAAATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 1 0.04
30 13 0.50
31 12 0.46
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (31 bp):
CCTTTAAAATAATAATAAAAATTAACAAATG
Found at i:14459750 original size:25 final size:25
Alignment explanation
Indices: 14459711--14459768 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
14459701 TAGCCCTTTC
* * *
14459711 GAGCTTTCCGTTATATGGTTCTTGT
1 GAGCTTCCCATTATATGGTTCTTAT
*
14459736 GAGTTTCCCATTATATGGTTCTTAT
1 GAGCTTCCCATTATATGGTTCTTAT
14459761 GAGCTTCC
1 GAGCTTCC
14459769 TGTTAAGAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.45
Consensus pattern (25 bp):
GAGCTTCCCATTATATGGTTCTTAT
Found at i:14463202 original size:44 final size:44
Alignment explanation
Indices: 14463139--14463227 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
14463129 GCGAATTATC
14463139 GGAACGATACTTTTGGACATAATTGCAATTACTACAGTCTAATT
1 GGAACGATACTTTTGGACATAATTGCAATTACTACAGTCTAATT
*
14463183 GGAACGATACTTTTGGACATAATTGCAATTACTATAGTCTAATT
1 GGAACGATACTTTTGGACATAATTGCAATTACTACAGTCTAATT
14463227 G
1 G
14463228 TATATGTTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (44 bp):
GGAACGATACTTTTGGACATAATTGCAATTACTACAGTCTAATT
Found at i:14472350 original size:79 final size:79
Alignment explanation
Indices: 14472215--14472361 Score: 267
Period size: 79 Copynumber: 1.9 Consensus size: 79
14472205 TTTGGGTTGA
14472215 TTTAGTTTGCTGTTAAACACATGTAAAGGTGACGACTTTTCATGATCTTTGCATAGTCATTTCTA
1 TTTAGTTTGCTGTTAAACACATGTAAAGGTGACGACTTTTCATGATCTTTGCATAGTCATTTCTA
14472280 GAATTTTTCTTTTT
66 GAATTTTTCTTTTT
* * *
14472294 TTTAGTTTGCTGTTAGAGACATGTAAAGGTGACGACTTTTCATGATCTTTGGATAGTCATTTCTA
1 TTTAGTTTGCTGTTAAACACATGTAAAGGTGACGACTTTTCATGATCTTTGCATAGTCATTTCTA
14472359 GAA
66 GAA
14472362 AATTTTTGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (79 bp):
TTTAGTTTGCTGTTAAACACATGTAAAGGTGACGACTTTTCATGATCTTTGCATAGTCATTTCTA
GAATTTTTCTTTTT
Found at i:14476416 original size:30 final size:30
Alignment explanation
Indices: 14476384--14476443 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
14476374 TGACATCCTT
*
14476384 AAACTATGATTCAGATTTTTAAATTGGTTTAA
1 AAACTATGATTCAGA-TTCTAAATTGGTTT-A
* *
14476416 AAATTATGATTGAGATTCTAAATTGGTT
1 AAACTATGATTCAGATTCTAAATTGGTT
14476444 CAGAGAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (30 bp):
AAACTATGATTCAGATTCTAAATTGGTTTA
Found at i:14480733 original size:18 final size:18
Alignment explanation
Indices: 14480686--14480747 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
14480676 AGTCACTCTT
* *
14480686 TAACAGTCAGTTATTCAG
1 TAACAATCAATTATTCAG
** * *
14480704 TAATGATAAATTATTTAG
1 TAACAATCAATTATTCAG
14480722 TAACAATCAATTATTCAG
1 TAACAATCAATTATTCAG
14480740 TAACAATC
1 TAACAATC
14480748 TTTTTACGCA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (18 bp):
TAACAATCAATTATTCAG
Found at i:14480937 original size:6 final size:6
Alignment explanation
Indices: 14480922--14480951 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14480912 GGAATACGCT
*
14480922 GTAACG GTAACA GTAACA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA
14480952 ATAGTGGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:14482092 original size:12 final size:12
Alignment explanation
Indices: 14482075--14482110 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
14482065 CTCAATTTCC
14482075 CTTTTCTTCTTT
1 CTTTTCTTCTTT
14482087 CTTTTCTTTCTTT
1 CTTTTC-TTCTTT
*
14482100 CTTTCCTTCTT
1 CTTTTCTTCTT
14482111 CTCTGTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTCTTCTTT
Found at i:14482119 original size:19 final size:19
Alignment explanation
Indices: 14482097--14482142 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
14482087 CTTTTCTTTC
14482097 TTTCTTTCCTTCT-TCTCTG
1 TTTCTTTCCTTCTAT-TCTG
14482116 TTTCGTTT-CTTCTATTCTG
1 TTTC-TTTCCTTCTATTCTG
14482135 TTTCTTTC
1 TTTCTTTC
14482143 TTTTATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.12
19 17 0.71
20 4 0.17
ACGTcount: A:0.02, C:0.26, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTCTTTCCTTCTATTCTG
Found at i:14482331 original size:18 final size:19
Alignment explanation
Indices: 14482303--14482356 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
14482293 ATAATATAAT
14482303 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
14482322 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
14482340 TATTTAA-TAACTAAATA
1 TATTTAATTAA-TAAATA
14482357 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:14482573 original size:20 final size:20
Alignment explanation
Indices: 14482533--14482569 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
14482523 TTACAAATAT
14482533 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
14482553 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
14482570 CACACACTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:14483821 original size:13 final size:13
Alignment explanation
Indices: 14483803--14483827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14483793 AATTTAATGA
14483803 TTTAAATAATTTT
1 TTTAAATAATTTT
14483816 TTTAAATAATTT
1 TTTAAATAATTT
14483828 AATTATCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAAATAATTTT
Found at i:14490728 original size:32 final size:32
Alignment explanation
Indices: 14490692--14490756 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
14490682 GGAAATAAAG
14490692 AAAAAATTATGTCGATTATAGCGGAAAGTCTC
1 AAAAAATTATGTCGATTATAGCGGAAAGTCTC
14490724 AAAAAATTATGTCGATTATAGCGGAAAGTCTC
1 AAAAAATTATGTCGATTATAGCGGAAAGTCTC
14490756 A
1 A
14490757 CAGTTTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (32 bp):
AAAAAATTATGTCGATTATAGCGGAAAGTCTC
Found at i:14499567 original size:18 final size:19
Alignment explanation
Indices: 14499531--14499569 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
14499521 TAAATATAAC
14499531 ATATATATTACAGTTAACATA
1 ATATATATTACA--TAACATA
14499552 ATATATATTACA-AACATA
1 ATATATATTACATAACATA
14499570 TAAATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (19 bp):
ATATATATTACATAACATA
Found at i:14512989 original size:11 final size:11
Alignment explanation
Indices: 14512955--14512990 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
14512945 AAAAGAATTA
14512955 TTTTATCTTTTT
1 TTTTA-CTTTTT
*
14512967 ATTTACTTTTT
1 TTTTACTTTTT
14512978 TTTTACTTTTT
1 TTTTACTTTTT
14512989 TT
1 TT
14512991 AACTCTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTACTTTTT
Found at i:14513150 original size:25 final size:26
Alignment explanation
Indices: 14513089--14513151 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
14513079 TTGCATCAAC
14513089 AATTAATTAATTTTTTTAATTTTTTTTA
1 AATTAATTAA-TTTTTTAA-TTTTTTTA
*
14513117 AA--AAATAATTTTTTAA-TTTTTTA
1 AATTAATTAATTTTTTAATTTTTTTA
14513140 AATTAATTAATT
1 AATTAATTAATT
14513152 GCTTACATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 9 0.29
25 15 0.48
26 5 0.16
28 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
AATTAATTAATTTTTTAATTTTTTTA
Found at i:14515460 original size:10 final size:10
Alignment explanation
Indices: 14515447--14515476 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14515437 TGTTCTCCAG
*
14515447 TTTTCTTCTT
1 TTTTTTTCTT
14515457 TTTTTTTCTT
1 TTTTTTTCTT
14515467 TTTTTTTCTT
1 TTTTTTTCTT
14515477 ATCCGATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:14518793 original size:31 final size:30
Alignment explanation
Indices: 14518747--14518813 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
14518737 ATATGATATA
*
14518747 AGTTTTTGTATTTTTTGTAAATTTAAAATTT
1 AGTTTTTGTATTTTTTAT-AATTTAAAATTT
*
14518778 AGTTATTT-TATTTTTTATATTTTAAAATTT
1 AGTT-TTTGTATTTTTTATAATTTAAAATTT
14518808 AAGTTT
1 -AGTTT
14518814 AATTTTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 12 0.38
31 17 0.53
32 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (30 bp):
AGTTTTTGTATTTTTTATAATTTAAAATTT
Found at i:14520217 original size:29 final size:29
Alignment explanation
Indices: 14520171--14520227 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
14520161 TTTAATTTTT
*
14520171 TTAATAGTATAGGAATTAAATTGATCTAA
1 TTAATAGTAGAGGAATTAAATTGATCTAA
* *
14520200 TTAATAGTAGAGGGATTAATTTGATCTA
1 TTAATAGTAGAGGAATTAAATTGATCTA
14520228 GCCCTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.39
Consensus pattern (29 bp):
TTAATAGTAGAGGAATTAAATTGATCTAA
Found at i:14524116 original size:32 final size:31
Alignment explanation
Indices: 14524080--14524148 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 31
14524070 ATATAAATTT
14524080 TAAAATAAATATATTTAAAAATAATGAA-AATA
1 TAAAAT-AATATATTT-AAAATAATGAATAATA
*
14524112 TAAAAT-ATATATTTAAAATAATTAATAATA
1 TAAAATAATATATTTAAAATAATGAATAATA
*
14524142 TGAAATA
1 TAAAATA
14524149 TTAAGTCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 10 0.30
30 17 0.52
32 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (31 bp):
TAAAATAATATATTTAAAATAATGAATAATA
Found at i:14524117 original size:28 final size:30
Alignment explanation
Indices: 14524086--14524149 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
14524076 ATTTTAAAAT
14524086 AAATATAT-TTAAAAATAATGAA-AATATA
1 AAATATATATTAAAAATAATGAATAATATA
* * *
14524114 AAATATATATTTAAAATAATTAATAATATG
1 AAATATATATTAAAAATAATGAATAATATA
14524144 AAATAT
1 AAATAT
14524150 TAAGTCCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 8 0.26
29 12 0.39
30 11 0.35
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATATATATTAAAAATAATGAATAATATA
Found at i:14524124 original size:30 final size:30
Alignment explanation
Indices: 14524088--14524149 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
14524078 TTTAAAATAA
14524088 ATATATTTAAAAATAATGAA-AATATAAAAT
1 ATATATTT-AAAATAATGAATAATATAAAAT
* *
14524118 ATATATTTAAAATAATTAATAATATGAAAT
1 ATATATTTAAAATAATGAATAATATAAAAT
14524148 AT
1 AT
14524150 TAAGTCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
ATATATTTAAAATAATGAATAATATAAAAT
Found at i:14532596 original size:31 final size:30
Alignment explanation
Indices: 14532541--14532598 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
14532531 CATTTTATTT
14532541 TTAATTTTAAAAATTTAATCAATTTAACTG
1 TTAATTTTAAAAATTTAATCAATTTAACTG
14532571 TTAATATTTATAAAATTT-ATCAATTTAA
1 TTAAT-TTTA-AAAATTTAATCAATTTAA
14532599 ATCTAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.19
31 14 0.54
32 7 0.27
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
TTAATTTTAAAAATTTAATCAATTTAACTG
Found at i:14534503 original size:20 final size:20
Alignment explanation
Indices: 14534453--14534503 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
14534443 TCTCTAAAAT
*
14534453 AATAACAAAATTAACAATAA
1 AATAACAAAAATAACAATAA
14534473 AATAA-ATAAAATAACGAAT-A
1 AATAACA-AAAATAAC-AATAA
14534493 AATAACAAAAA
1 AATAACAAAAA
14534504 AATAGCAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAACAAAAATAACAATAA
Found at i:14534515 original size:14 final size:13
Alignment explanation
Indices: 14534496--14534529 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
14534486 ACGAATAAAT
14534496 AACAAAAAAATAGC
1 AACAAAAAAATA-C
14534510 AACAAAAAAATAC
1 AACAAAAAAATAC
14534523 AA-AAAAA
1 AACAAAAA
14534530 CTGCTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 3 0.15
14 12 0.60
ACGTcount: A:0.79, C:0.12, G:0.03, T:0.06
Consensus pattern (13 bp):
AACAAAAAAATAC
Found at i:14535922 original size:3 final size:3
Alignment explanation
Indices: 14535914--14535938 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14535904 ACCCCCACGC
14535914 CAA CAA CAA CAA CAA CAA CAA CAA C
1 CAA CAA CAA CAA CAA CAA CAA CAA C
14535939 CAGGGAGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:14541273 original size:72 final size:70
Alignment explanation
Indices: 14541141--14541274 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 70
14541131 TTAGGGCCTA
* * **
14541141 AACTTTTTTTATCTAAGTTAGACCCTGAACTTGACAATTATTCTTACATTAAGGTTTGAATTGGG
1 AACTTTTTTTATCCAAGTTAGACCCTGAACTTGACAATTATTCTGACATTAAGGCCTGAATTGGG
14541206 GCTTG
66 GCTTG
* * *
14541211 AACTTCTTTTTAGTCCAAGTTAG-CTCTTGAACTTGACAATTATTCTGATATTGAGGCCTGAATT
1 AACTT-TTTTTA-TCCAAGTTAGAC-CCTGAACTTGACAATTATTCTGACATTAAGGCCTGAATT
14541275 TTATGGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 5 0.09
71 7 0.13
72 42 0.78
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (70 bp):
AACTTTTTTTATCCAAGTTAGACCCTGAACTTGACAATTATTCTGACATTAAGGCCTGAATTGGG
GCTTG
Found at i:14551673 original size:20 final size:19
Alignment explanation
Indices: 14551629--14551665 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14551619 CTCTAAGCAT
* *
14551629 AAATATTAAAATAATTTAA
1 AAATATTAAAAGAAATTAA
14551648 AAATATTAAAAGAAATTA
1 AAATATTAAAAGAAATTA
14551666 CAATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATATTAAAAGAAATTAA
Found at i:14551732 original size:4 final size:4
Alignment explanation
Indices: 14551725--14551750 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14551715 TAAAATACAC
14551725 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
14551751 AATAAGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:14558740 original size:19 final size:20
Alignment explanation
Indices: 14558690--14558740 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14558680 ATCTTTTCTT
14558690 TATTTAGTTA-TTATTTTGAA
1 TATTTA-TTATTTATTTTGAA
*
14558710 TATTTATTATTTATTTTTAA
1 TATTTATTATTTATTTTGAA
*
14558730 -ATTTCTTATTT
1 TATTTATTATTT
14558741 TGAATACGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTATTATTTATTTTGAA
Found at i:14563716 original size:12 final size:12
Alignment explanation
Indices: 14563699--14563732 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14563689 TGGCTCGCCC
14563699 ATATTAATTTTT
1 ATATTAATTTTT
*
14563711 ATATTATTTTTT
1 ATATTAATTTTT
14563723 ATA-TAATTTT
1 ATATTAATTTT
14563733 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14563911 original size:30 final size:31
Alignment explanation
Indices: 14563854--14563915 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
14563844 CAACTTAATA
14563854 AGCAAATGCCTCTAAAATAATTAAAAAAATT
1 AGCAAATGCCTCTAAAATAATTAAAAAAATT
* *
14563885 AGCAAATGTCTTTAAAATAA-TAAAAAAATT
1 AGCAAATGCCTCTAAAATAATTAAAAAAATT
14563915 A
1 A
14563916 ACAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (31 bp):
AGCAAATGCCTCTAAAATAATTAAAAAAATT
Found at i:14563996 original size:11 final size:11
Alignment explanation
Indices: 14563956--14563995 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
14563946 ACAATAACAA
14563956 CAAAATAATAG
1 CAAAATAATAG
*
14563967 CAACATAATAG
1 CAAAATAATAG
* *
14563978 TAAAATAGTAG
1 CAAAATAATAG
14563989 CAAAATA
1 CAAAATA
14563996 GGGAGAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:14567079 original size:19 final size:19
Alignment explanation
Indices: 14567055--14567098 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14567045 TAAATTAATT
14567055 TTTTAATAAAGTTTAAATA
1 TTTTAATAAAGTTTAAATA
** *
14567074 TTTTAATAATTTTTAAATT
1 TTTTAATAAAGTTTAAATA
14567093 TTTTAA
1 TTTTAA
14567099 CATTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTAATAAAGTTTAAATA
Found at i:14568216 original size:33 final size:34
Alignment explanation
Indices: 14568188--14568250 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
14568178 TTATTTGACT
14568188 AATTTT-TTTTAAAAAAAATATAAA-TATTTCTG
1 AATTTTCTTTTAAAAAAAATATAAATTATTTCTG
* * *
14568220 AATTTTCTTTTTAAGAAATTATAAATTATTT
1 AATTTTCTTTTAAAAAAAATATAAATTATTT
14568251 TCAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 6 0.23
33 15 0.58
34 5 0.19
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (34 bp):
AATTTTCTTTTAAAAAAAATATAAATTATTTCTG
Found at i:14587313 original size:10 final size:10
Alignment explanation
Indices: 14587298--14587322 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14587288 ATTAGATACT
14587298 TGTTTGATGG
1 TGTTTGATGG
14587308 TGTTTGATGG
1 TGTTTGATGG
14587318 TGTTT
1 TGTTT
14587323 CTTTAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.36, T:0.56
Consensus pattern (10 bp):
TGTTTGATGG
Found at i:14589964 original size:29 final size:29
Alignment explanation
Indices: 14589917--14589985 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
14589907 TTGCAAATAG
* *
14589917 GAACCAATAAAGAGGCCTGCGATCCCATA
1 GAACTAATAAAGAGGCCTGAGATCCCATA
* * *
14589946 GAATTAATAAAGTGGCCTGAGATCCCTTA
1 GAACTAATAAAGAGGCCTGAGATCCCATA
14589975 GAACTAATAAA
1 GAACTAATAAA
14589986 AACCTTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (29 bp):
GAACTAATAAAGAGGCCTGAGATCCCATA
Found at i:14591704 original size:27 final size:27
Alignment explanation
Indices: 14591673--14591726 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14591663 TGGATTAAAG
*
14591673 TTAATATTATACCACTTACGTAAGGGA
1 TTAATATTATAACACTTACGTAAGGGA
*
14591700 TTAATATTATAACACTTGCGTAAGGGA
1 TTAATATTATAACACTTACGTAAGGGA
14591727 GGTCAAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (27 bp):
TTAATATTATAACACTTACGTAAGGGA
Found at i:14592746 original size:31 final size:31
Alignment explanation
Indices: 14592711--14592771 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
14592701 AATAGCCTAG
* *
14592711 TGACTTGAATAAAAACTTTTAAATAATTTAA
1 TGACTTAAATAAAAACTTTCAAATAATTTAA
* *
14592742 TGACTTAAATGAAACCTTTCAAATAATTTA
1 TGACTTAAATAAAAACTTTCAAATAATTTA
14592772 GTGGCCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAATTTAA
Found at i:14607338 original size:60 final size:60
Alignment explanation
Indices: 14607243--14607356 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
14607233 AAAGTTTCAG
* *
14607243 TAAGAGTGTACTTATACACTCTGATACACCTTCATTTATTGCTTCTTTCATTAAGAAACT
1 TAAGAGTGTACTTATACACTCTGATACACCCTCATTTATTACTTCTTTCATTAAGAAACT
* *
14607303 TAAGAGTGTACTTATACACTTTGATACACCCTCATTTATTACTTTTTTCATTAA
1 TAAGAGTGTACTTATACACTCTGATACACCCTCATTTATTACTTCTTTCATTAA
14607357 AAAAATTTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (60 bp):
TAAGAGTGTACTTATACACTCTGATACACCCTCATTTATTACTTCTTTCATTAAGAAACT
Found at i:14613479 original size:21 final size:21
Alignment explanation
Indices: 14613453--14613493 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14613443 AGACGAGCAA
* *
14613453 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14613474 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14613494 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14617533 original size:20 final size:20
Alignment explanation
Indices: 14617510--14617550 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14617500 AAAAAACTTG
* *
14617510 TTAAAATATATTTAACAGTT
1 TTAAAACATATTTAAAAGTT
14617530 TTAAAACATATTTAAAAGTT
1 TTAAAACATATTTAAAAGTT
14617550 T
1 T
14617551 ATTGTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAAAACATATTTAAAAGTT
Found at i:14619369 original size:98 final size:102
Alignment explanation
Indices: 14619181--14619376 Score: 328
Period size: 98 Copynumber: 2.0 Consensus size: 102
14619171 GAGATAAAAC
*
14619181 TAGTTGAACAATTTGAACCGATTTGATAAATTTTTTTTATCTTTCTTAAAGTTTTTATGAATTTT
1 TAGTTGAACAATTTGAACCGATTTCATAAATTTTTTTTA-CTTTCTTAAAGTTTTTATGAATTTT
14619246 TAATTATTTATTTAATTATTGTTGGTCTAGCAAACTAG
65 TAATTATTTATTTAATTATTGTTGGTCTAGCAAACTAG
**
14619284 TAGTTGAACAATTTGAATTGATTTCATAAA-TTTTTTTA-TTT-TTAAAGTTTTTATGAA-TTTT
1 TAGTTGAACAATTTGAACCGATTTCATAAATTTTTTTTACTTTCTTAAAGTTTTTATGAATTTTT
14619345 AATTATTTATTTAATTATTGTTGGTCTAGCAA
66 AATTATTTATTTAATTATTGTTGGTCTAGCAA
14619377 TTGAATCGAT
Statistics
Matches: 90, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
98 36 0.40
99 16 0.18
100 3 0.03
102 8 0.09
103 27 0.30
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (102 bp):
TAGTTGAACAATTTGAACCGATTTCATAAATTTTTTTTACTTTCTTAAAGTTTTTATGAATTTTT
AATTATTTATTTAATTATTGTTGGTCTAGCAAACTAG
Found at i:14623920 original size:25 final size:25
Alignment explanation
Indices: 14623891--14623940 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14623881 TTTGCTCCAA
14623891 AAATTCCCATTCCACCCGGTCGTAC
1 AAATTCCCATTCCACCCGGTCGTAC
14623916 AAATTCCCATTCCACCCGGTCGTAC
1 AAATTCCCATTCCACCCGGTCGTAC
14623941 GCCTTGCTCA
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:0.40, G:0.12, T:0.24
Consensus pattern (25 bp):
AAATTCCCATTCCACCCGGTCGTAC
Found at i:14624113 original size:18 final size:18
Alignment explanation
Indices: 14624070--14624107 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
14624060 AAAGGCACTC
14624070 TGAGCAAGATCAATACAA
1 TGAGCAAGATCAATACAA
14624088 TGAGCAAGATCAATACAA
1 TGAGCAAGATCAATACAA
14624106 TG
1 TG
14624108 TTCAAGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
TGAGCAAGATCAATACAA
Found at i:14630345 original size:14 final size:14
Alignment explanation
Indices: 14630326--14630352 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14630316 TCTCAAACCT
14630326 AATGAGATATGTAG
1 AATGAGATATGTAG
14630340 AATGAGATATGTA
1 AATGAGATATGTA
14630353 TCTATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AATGAGATATGTAG
Found at i:14630584 original size:18 final size:18
Alignment explanation
Indices: 14630561--14630599 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
14630551 CTATTAATAT
14630561 TTATCAATTTCCACAAAG
1 TTATCAATTTCCACAAAG
*
14630579 TTATCAATTTCCACAAGG
1 TTATCAATTTCCACAAAG
14630597 TTA
1 TTA
14630600 ATATTTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (18 bp):
TTATCAATTTCCACAAAG
Found at i:14634336 original size:36 final size:36
Alignment explanation
Indices: 14634289--14634362 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
14634279 AAGTGCTTTA
14634289 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
1 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
14634325 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
1 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
14634361 AC
1 AC
14634363 GTCCAACTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (36 bp):
ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
Found at i:14640952 original size:30 final size:31
Alignment explanation
Indices: 14640891--14640952 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
14640881 CTTAACAAGT
*
14640891 AATGCCTCTAAAATAATCAAAAATTTTAACA
1 AATGCCTCTAAAATAATCAAAAATATTAACA
*
14640922 AATGCCTTTAAAATAAT-AAGAAA-ATTAACA
1 AATGCCTCTAAAATAATCAA-AAATATTAACA
14640952 A
1 A
14640953 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (31 bp):
AATGCCTCTAAAATAATCAAAAATATTAACA
Found at i:14641543 original size:13 final size:14
Alignment explanation
Indices: 14641525--14641557 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14641515 GATATTTTTC
14641525 TTTATATGT-AATA
1 TTTATATGTAAATA
14641538 TTTATATGTCAAATA
1 TTTATATGT-AAATA
14641553 TTTAT
1 TTTAT
14641558 CTTCTCTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTATATGTAAATA
Found at i:14643618 original size:25 final size:24
Alignment explanation
Indices: 14643590--14643753 Score: 84
Period size: 25 Copynumber: 7.0 Consensus size: 24
14643580 ACTTGGGATA
*
14643590 ATATAAAAAATATATGAATAATGT
1 ATATAAAAAATATATGAATAATAT
14643614 GATATTAAAAATATATATG--TAATAT
1 -ATA-TAAAAA-ATATATGAATAATAT
14643639 ATAT-AAAAA-AT-T--ATAATAT
1 ATATAAAAAATATATGAATAATAT
*
14643658 -TA-AAAAAATATAT-ACCTAATAT
1 ATATAAAAAATATATGA-ATAATAT
*
14643680 ATATAAAAAAATATATATACATAATAT
1 ATAT-AAAAAATATAT-GA-ATAATAT
* *
14643707 AGTATTAAAATATATAT-AATACATAC
1 A-TA-TAAAAAATATATGAATA-ATAT
* *
14643733 ATATTAGAAATA-AT-AATAATA
1 ATATAAAAAATATATGAATAATA
14643754 ATGTTACAAA
Statistics
Matches: 115, Mismatches: 8, Indels: 35
0.73 0.05 0.22
Matches are distributed among these distances:
18 7 0.06
19 9 0.08
20 3 0.03
21 1 0.01
22 13 0.11
23 9 0.08
24 9 0.08
25 24 0.21
26 11 0.10
27 16 0.14
28 12 0.10
29 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATAAAAAATATATGAATAATAT
Found at i:14643648 original size:50 final size:47
Alignment explanation
Indices: 14643517--14643724 Score: 151
Period size: 50 Copynumber: 4.3 Consensus size: 47
14643507 TAGTATTGAG
* * * * *
14643517 TATTAAAAGTATATATATAATATAGACAAAAAATATATGCATAATATA
1 TATTAAAAATATATATGTAATATATATAAAAAATATATGAATAAT-TA
* * **
14643565 GTATTGAAAATATTTACTTGGGATA-ATATAAAAAATATATGAATAATGTGA
1 -TATTAAAAATATATA--TGTAATATATATAAAAAATATATGAATAAT-T-A
14643616 TATTAAAAATATATATGTAATATATATAAAAAAT-TAT-AAT-ATTA
1 TATTAAAAATATATATGTAATATATATAAAAAATATATGAATAATTA
** *
14643660 -A--AAAAATATATACCTAATATATATAAAAAAATATATATACATAATATA
1 TATTAAAAATATATATGTAATATATAT-AAAAAATATAT-GA-ATAAT-TA
14643708 GTATTAAAATATATATA
1 -TATTAAAA-ATATATA
14643725 ATACATACAT
Statistics
Matches: 127, Mismatches: 16, Indels: 28
0.74 0.09 0.16
Matches are distributed among these distances:
41 21 0.17
42 7 0.06
43 4 0.03
44 1 0.01
45 2 0.02
46 4 0.03
47 5 0.04
48 10 0.08
49 23 0.18
50 34 0.27
51 5 0.04
52 4 0.03
53 7 0.06
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (47 bp):
TATTAAAAATATATATGTAATATATATAAAAAATATATGAATAATTA
Found at i:14643663 original size:16 final size:17
Alignment explanation
Indices: 14643637--14643669 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14643627 TATATGTAAT
*
14643637 ATATATAAAAAATTATA
1 ATATATAAAAAAATATA
14643654 ATAT-TAAAAAAATATA
1 ATATATAAAAAAATATA
14643670 TACCTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATATAAAAAAATATA
Found at i:14643669 original size:39 final size:40
Alignment explanation
Indices: 14643615--14643694 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
14643605 GAATAATGTG
* * *
14643615 ATATTAAAAATATATAT-GTAATATATATAAAAAATTATA
1 ATATTAAAAAAATATATACTAATATATATAAAAAAATATA
14643654 ATATTAAAAAAATATATACCTAATATATATAAAAAAATATA
1 ATATTAAAAAAATATATA-CTAATATATATAAAAAAATATA
14643695 TATACATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 16 0.44
41 20 0.56
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (40 bp):
ATATTAAAAAAATATATACTAATATATATAAAAAAATATA
Found at i:14643683 original size:26 final size:26
Alignment explanation
Indices: 14643654--14643755 Score: 95
Period size: 26 Copynumber: 3.9 Consensus size: 26
14643644 AAAAATTATA
*
14643654 ATATTAAAAAAATATATACCTAATAT
1 ATATTAAAAAAATATATACATAATAT
*
14643680 ATATAAAAAAATATATATACATAATAT
1 ATATTAAAAAA-ATATATACATAATAT
* *
14643707 AGTATT-AAAATATATATA-ATACATAC
1 A-TATTAAAAAAATATATACATA-ATAT
*
14643733 ATATTAGAAATAATA-ATA-ATAAT
1 ATATTA-AAAAAATATATACATAAT
14643756 GTTACAAAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.14
26 27 0.42
27 25 0.39
28 3 0.05
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (26 bp):
ATATTAAAAAAATATATACATAATAT
Found at i:14643689 original size:27 final size:28
Alignment explanation
Indices: 14643659--14643736 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
14643649 TTATAATATT
*
14643659 AAAAAAATATATACCTAATATA-TATAA
1 AAAAAAATATATACATAATATAGTATAA
* *
14643686 AAAAATATATATACATAATATAGTATTA
1 AAAAAAATATATACATAATATAGTATAA
* *
14643714 AAATATATATAATACATACATAT
1 AAAAAAATAT-ATACATA-ATAT
14643737 TAGAAATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 20 0.45
28 13 0.30
29 7 0.16
30 4 0.09
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAAAAATATATACATAATATAGTATAA
Found at i:14643831 original size:23 final size:23
Alignment explanation
Indices: 14643786--14643831 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14643776 AATACTTCAT
* *
14643786 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
14643809 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
14643832 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:14643964 original size:3 final size:3
Alignment explanation
Indices: 14643895--14643946 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
14643885 CATATAAGTG
* *
14643895 TAA TAA TAG TAT TAA -AA TTAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
14643939 TAA TAA TA
1 TAA TAA TA
14643947 GTAGCTATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.86
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:14645822 original size:85 final size:84
Alignment explanation
Indices: 14645654--14645954 Score: 381
Period size: 85 Copynumber: 3.5 Consensus size: 84
14645644 GCATGTGACT
* * * *
14645654 CGAGGTTCAACTCACCTCTCGCAATATGAGATGACTTTTGATAAAAACAGAATTTGAAAAACAGA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT--T-GAAACA-AAATTGAAAAACAGA
* *
14645719 AACTGAAAATGCCTCAGCATGTCC
61 AATTGAAAATACCTCAGCATGTCC
* *
14645743 CAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACATAAATTGAAAAAC-GAAAAT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA-AAATTGAAAAACAG-AAAT
14645807 TGAAAATACCTCAGCATGTCC
64 TGAAAATACCTCAGCATGTCC
* *
14645828 TGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTGACAAACAATAATTGAAAAACAGAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACAA-AATTGAAAAACAGAAA
*
14645892 TTGAAAATACCTCAGCATGTGAGC
63 TTGAAAATACCTCAGCATGT--CC
14645916 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
14645955 TTATGAACAG
Statistics
Matches: 188, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
84 6 0.03
85 70 0.37
86 40 0.21
87 1 0.01
88 37 0.20
89 34 0.18
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (84 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTGAAAAACAGAAATTG
AAAATACCTCAGCATGTCC
Found at i:14646010 original size:74 final size:73
Alignment explanation
Indices: 14645882--14646103 Score: 306
Period size: 75 Copynumber: 3.0 Consensus size: 73
14645872 CAATAATTGA
14645882 AAAACAGAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC--GT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAG
14645946 TTGATTTTTTT-
62 TTGATTTTTTTG
* *
14645957 ATGAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGT
1 A-AAACAGAAATTGAAAA-TACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
14646021 TGATTTTTTTG
63 TGATTTTTTTG
* *
14646032 AAAGACAGAAATTGAAAATACCTCAACGTGCATTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGC-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT
14646097 GATTTTT
64 GATTTTT
14646104 GAAATAGAAA
Statistics
Matches: 133, Mismatches: 6, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
72 1 0.01
73 2 0.02
74 43 0.32
75 64 0.48
76 23 0.17
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTG
Found at i:14654208 original size:4 final size:4
Alignment explanation
Indices: 14654199--14654223 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14654189 ATGTACATGT
14654199 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
14654224 CAAATATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:14658318 original size:23 final size:23
Alignment explanation
Indices: 14658230--14658339 Score: 66
Period size: 25 Copynumber: 4.6 Consensus size: 23
14658220 TATAGACAAA
*
14658230 AAAAATATATGCATAATATAGTATT
1 AAAAATATAT-AATAATATA-TATT
* * * *
14658255 GAAAATATTTACATGGGATA-ATATA
1 AAAAATATATA-AT--AATATATATT
*
14658280 AAAAATATATGAATAATGTGATATT
1 AAAAATATAT-AATAATAT-ATATT
14658305 AAAAATATAT-ATAATATATA-T
1 AAAAATATATAATAATATATATT
14658326 ATAAAAT-TATAATA
1 A-AAAATATATAATA
14658340 TTAAAAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
21 5 0.08
22 11 0.17
23 8 0.12
25 37 0.56
26 2 0.03
27 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (23 bp):
AAAAATATATAATAATATATATT
Found at i:14658325 original size:13 final size:13
Alignment explanation
Indices: 14658309--14658406 Score: 85
Period size: 13 Copynumber: 7.4 Consensus size: 13
14658299 GATATTAAAA
14658309 ATATATATAATAT
1 ATATATATAATAT
*
14658322 ATATATAAAAT-T
1 ATATATATAATAT
*
14658334 ATA-ATATTAAAAAT
1 ATATATA-T-AATAT
14658348 ATATATACCTAATAT
1 ATATATA--TAATAT
*
14658363 ATATATATAAAAT
1 ATATATATAATAT
*
14658376 ATATACATAATAT
1 ATATATATAATAT
*
14658389 AGTAT-TAAAATAT
1 A-TATATATAATAT
14658402 ATATA
1 ATATA
14658407 ATACATACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
11 3 0.04
12 7 0.10
13 36 0.53
14 7 0.10
15 14 0.21
16 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (13 bp):
ATATATATAATAT
Found at i:14658340 original size:26 final size:24
Alignment explanation
Indices: 14658306--14658426 Score: 93
Period size: 26 Copynumber: 4.8 Consensus size: 24
14658296 TGTGATATTA
*
14658306 AAAATAT-ATA-TAATATATATAT
1 AAAATATAATATTAAAATATATAT
14658328 AAAATTATAATATTAAAAATATATAT
1 AAAA-TATAATATT-AAAATATATAT
* *
14658354 ACCTAATATATATATATAAAATATATAC
1 A--AAATATA-ATAT-TAAAATATATAT
* *
14658382 ATAATATAGTATTAAAATATATAT
1 AAAATATAATATTAAAATATATAT
* *
14658406 AATACATACATATTAGAAATA
1 AAAATATA-ATATTA-AAATA
14658427 ATAATAATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.05
23 3 0.04
24 19 0.24
25 9 0.11
26 23 0.29
27 4 0.05
28 17 0.21
29 1 0.01
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
AAAATATAATATTAAAATATATAT
Found at i:14658377 original size:37 final size:37
Alignment explanation
Indices: 14658300--14658407 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 37
14658290 GAATAATGTG
*
14658300 ATATTAAAAATATATATAATATATATATAAAATTATA
1 ATATTAAAAATATATATAATATATATATAAAATTAAA
* *
14658337 ATATTAAAAATATATATACCTA-ATATAT-ATATATAAA
1 ATATTAAAAATATATATA-ATATATATATAAAAT-TAAA
* *
14658374 ATATATACATAATATAGTATTAAAATATATATAA
1 ATAT-TA-AAAATATA-TA-TAATATATATATAA
14658408 TACATACATA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
36 3 0.05
37 31 0.54
38 4 0.07
39 7 0.12
40 3 0.05
41 8 0.14
42 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (37 bp):
ATATTAAAAATATATATAATATATATATAAAATTAAA
Found at i:14658513 original size:23 final size:23
Alignment explanation
Indices: 14658468--14658513 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14658458 AATACTTCAT
* *
14658468 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
14658491 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
14658514 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:14658613 original size:30 final size:30
Alignment explanation
Indices: 14658577--14658643 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
14658567 CATATAAGTG
14658577 TAATAATAGTATTAAAATTAATAATAATAA
1 TAATAATAGTATTAAAATTAATAATAATAA
14658607 TAATAATAGTATTAAAATTAATAATAATAA
1 TAATAATAGTATTAAAATTAATAATAATAA
14658637 TAATAAT
1 TAATAAT
14658644 GATAATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
TAATAATAGTATTAAAATTAATAATAATAA
Found at i:14658679 original size:3 final size:3
Alignment explanation
Indices: 14658577--14658661 Score: 86
Period size: 3 Copynumber: 28.7 Consensus size: 3
14658567 CATATAAGTG
* * * *
14658577 TAA TAA TAG TAT TAA -AA TTAA TAA TAA TAA TAA TAA TAG TAT TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
14658622 -AA TTAA TAA TAA TAA TAA TAA TGA TAA TAA T-A TAA TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14658662 GTAGCTATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
2 6 0.09
3 59 0.86
4 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14667284 original size:22 final size:22
Alignment explanation
Indices: 14667222--14667284 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
14667212 TAATCCTTTA
14667222 AAAATCATAAAAATATAGATTATT
1 AAAATCATAAAAATAT--ATTATT
* * *
14667246 AAAATGATAAAATTATATTTTT
1 AAAATCATAAAAATATATTATT
**
14667268 ACTATCATAAAAATATA
1 AAAATCATAAAAATATA
14667285 CAATTTAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
22 18 0.56
24 14 0.44
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (22 bp):
AAAATCATAAAAATATATTATT
Found at i:14670891 original size:41 final size:40
Alignment explanation
Indices: 14670815--14670900 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
14670805 CAAATACATT
*
14670815 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
14670856 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
14670896 TAAAA
1 TAAAA
14670901 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.21
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:14676938 original size:15 final size:13
Alignment explanation
Indices: 14676929--14676984 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
14676919 AATATTATTA
14676929 AATTATATATTTT
1 AATTATATATTTT
14676942 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
14676957 AATAATAATTATATT
1 AATTAT-A-TATTTT
14676972 AATT-TATATTTT
1 AATTATATATTTT
14676984 A
1 A
14676985 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:14676954 original size:16 final size:16
Alignment explanation
Indices: 14676933--14676975 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
14676923 TTATTAAATT
14676933 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
14676949 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
14676964 AT-TATATTAATT
1 ATATATTTTAATT
14676976 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:14676972 original size:44 final size:43
Alignment explanation
Indices: 14676915--14676998 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 43
14676905 TATTGATTAT
*
14676915 TAATAATATTATTAAATTATATATTTTA-ATTATAATATATTTAA
1 TAATAATATTATT-AATT-TATATTTTATAGTATAATATATTTAA
*
14676959 TAATAAT-TATATTAATTTATATTTTATAGTATCATATATT
1 TAATAATAT-TATTAATTTATATTTTATAGTATAATATATT
14676999 ATGATTTGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
42 9 0.25
43 16 0.44
44 11 0.31
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (43 bp):
TAATAATATTATTAATTTATATTTTATAGTATAATATATTTAA
Found at i:14677015 original size:120 final size:120
Alignment explanation
Indices: 14676870--14677088 Score: 420
Period size: 120 Copynumber: 1.8 Consensus size: 120
14676860 GCAATAACAG
*
14676870 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATATTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
14676935 ATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTTATAGTA
66 ATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTTATAGTA
*
14676990 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
14677055 ATATTTTAATTATAATATATTTAATAATAATTAT
66 ATATTTTAATTATAATATATTTAATAATAATTAT
14677089 GTTTAAATAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
ATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTTATAGTA
Found at i:14677074 original size:16 final size:16
Alignment explanation
Indices: 14677053--14677094 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14677043 TTATTAAATT
*
14677053 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14677069 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14677084 AT-TATGTTTAA
1 ATATAT-TTTAA
14677095 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14677079 original size:15 final size:15
Alignment explanation
Indices: 14677044--14677085 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14677034 TTAAGAATTT
*
14677044 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14677058 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14677072 TATTTAATAATAAT
1 TATTTAATTATAAT
14677086 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14677265 original size:39 final size:40
Alignment explanation
Indices: 14677222--14677326 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
14677212 TTCCATTATG
14677222 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
14677261 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
14677306 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
14677327 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:14677320 original size:45 final size:44
Alignment explanation
Indices: 14677220--14677329 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
14677210 TTTTCCATTA
14677220 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
14677259 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
14677304 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
14677330 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:14677329 original size:16 final size:16
Alignment explanation
Indices: 14677308--14677377 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
14677298 TTGATTTGCT
*
14677308 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
14677324 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
14677340 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
14677356 AATACAGCTCTAATCC
1 ATTACACCTCTAATCC
*
14677372 AATACA
1 ATTACA
14677378 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.34, C:0.34, G:0.01, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:14689564 original size:15 final size:13
Alignment explanation
Indices: 14689555--14689610 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
14689545 AATATTATTA
14689555 AATTATATATTTT
1 AATTATATATTTT
14689568 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
14689583 AATAATAATTATATT
1 AATTAT-A-TATTTT
14689598 AATT-TATATTTT
1 AATTATATATTTT
14689610 A
1 A
14689611 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:14689580 original size:16 final size:16
Alignment explanation
Indices: 14689559--14689601 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
14689549 TTATTAAATT
14689559 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
14689575 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
14689590 AT-TATATTAATT
1 ATATATTTTAATT
14689602 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:14689598 original size:44 final size:43
Alignment explanation
Indices: 14689541--14689624 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 43
14689531 TATTGATTAT
*
14689541 TAATAATATTATTAAATTATATATTTTA-ATTATAATATATTTAA
1 TAATAATATTATT-AATT-TATATTTTATAGTATAATATATTTAA
*
14689585 TAATAAT-TATATTAATTTATATTTTATAGTATCATATATT
1 TAATAATAT-TATTAATTTATATTTTATAGTATAATATATT
14689625 ATGATTTGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
42 9 0.25
43 16 0.44
44 11 0.31
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (43 bp):
TAATAATATTATTAATTTATATTTTATAGTATAATATATTTAA
Found at i:14689641 original size:120 final size:120
Alignment explanation
Indices: 14689496--14689714 Score: 420
Period size: 120 Copynumber: 1.8 Consensus size: 120
14689486 GCAATAACAG
*
14689496 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATATTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
14689561 ATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTTATAGTA
66 ATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTTATAGTA
*
14689616 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
14689681 ATATTTTAATTATAATATATTTAATAATAATTAT
66 ATATTTTAATTATAATATATTTAATAATAATTAT
14689715 GTTTAAATAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
ATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTTATAGTA
Found at i:14689700 original size:16 final size:16
Alignment explanation
Indices: 14689679--14689720 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14689669 TTATTAAATT
*
14689679 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14689695 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14689710 AT-TATGTTTAA
1 ATATAT-TTTAA
14689721 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14689705 original size:15 final size:15
Alignment explanation
Indices: 14689670--14689711 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14689660 TTAAGAATTT
*
14689670 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14689684 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14689698 TATTTAATAATAAT
1 TATTTAATTATAAT
14689712 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14689891 original size:39 final size:40
Alignment explanation
Indices: 14689848--14689952 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
14689838 TTCCATTATG
14689848 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
14689887 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
14689932 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
14689953 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:14689946 original size:45 final size:44
Alignment explanation
Indices: 14689846--14689955 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
14689836 TTTTCCATTA
14689846 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
14689885 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
14689930 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
14689956 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:14689955 original size:16 final size:16
Alignment explanation
Indices: 14689934--14690003 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
14689924 TTGATTTGCT
*
14689934 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
14689950 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
14689966 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
14689982 AATACAGCTCTAATCC
1 ATTACACCTCTAATCC
*
14689998 AATACA
1 ATTACA
14690004 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.34, C:0.34, G:0.01, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:14695669 original size:36 final size:36
Alignment explanation
Indices: 14695592--14695661 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
14695582 CTGCACATAA
*
14695592 ATTTCCAGTCCCAGTGAACCCAATGATGCAACAAAC
1 ATTTCCAGTCCCAGTAAACCCAATGATGCAACAAAC
* *
14695628 ATTTCCAGTTCCAGTAAATCCAATGATGCAACAA
1 ATTTCCAGTCCCAGTAAACCCAATGATGCAACAA
14695662 GCTTTTCCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (36 bp):
ATTTCCAGTCCCAGTAAACCCAATGATGCAACAAAC
Found at i:14697083 original size:25 final size:27
Alignment explanation
Indices: 14697053--14697121 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
14697043 CATTACGGAG
*
14697053 AAATCA-AATACAAAAAA-GAAAGAAA
1 AAATCATAATAAAAAAAAGGAAAGAAA
* *
14697078 AAATCATATTAAAAAAAAGGGAAGAAA
1 AAATCATAATAAAAAAAAGGAAAGAAA
*
14697105 AAATCATATTAAAAAAA
1 AAATCATAATAAAAAAA
14697122 GGGTGATTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
25 6 0.15
26 9 0.23
27 24 0.62
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (27 bp):
AAATCATAATAAAAAAAAGGAAAGAAA
Found at i:14697124 original size:26 final size:27
Alignment explanation
Indices: 14697064--14697121 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
14697054 AATCAAATAC
*
14697064 AAAAAA-GAAAGAAAAAATCATATTAA
1 AAAAAAGGGAAGAAAAAATCATATTAA
14697090 AAAAAAGGGAAGAAAAAATCATATTAA
1 AAAAAAGGGAAGAAAAAATCATATTAA
14697117 AAAAA
1 AAAAA
14697122 GGGTGATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.14
Consensus pattern (27 bp):
AAAAAAGGGAAGAAAAAATCATATTAA
Found at i:14697320 original size:5 final size:5
Alignment explanation
Indices: 14697310--14697337 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14697300 CCTTTTAGAG
14697310 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14697338 GAAGATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:14698072 original size:23 final size:23
Alignment explanation
Indices: 14698037--14698084 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
14698027 CATTTATTTG
*
14698037 TTCATTTACTTATTTATATATTA
1 TTCATTCACTTATTTATATATTA
* *
14698060 TTCATTCATTTATTTATTTATTA
1 TTCATTCACTTATTTATATATTA
14698083 TT
1 TT
14698085 TTAATCATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (23 bp):
TTCATTCACTTATTTATATATTA
Found at i:14698110 original size:4 final size:4
Alignment explanation
Indices: 14697972--14698085 Score: 56
Period size: 4 Copynumber: 28.8 Consensus size: 4
14697962 TTTTAATTCT
* * * * * *
14697972 TTTA TTTA TTCA CTTA TTCA TTTG TTTA TTTA CTCA -TTA TTCCT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA
* * * * * * *
14698020 TTCTA TTCA TTTA TTTG TTCA TTTA CTTA TTTA TATA -TTA TTCA TTCA
1 TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
14698068 TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTT
14698086 TAATCATTGT
Statistics
Matches: 80, Mismatches: 23, Indels: 14
0.68 0.20 0.12
Matches are distributed among these distances:
3 8 0.10
4 65 0.81
5 6 0.08
6 1 0.01
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:14698182 original size:17 final size:17
Alignment explanation
Indices: 14698152--14698198 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
14698142 TCTTCTATTA
*
14698152 TTTATT-TTATTTATGAC
1 TTTATTATTA-TTATCAC
14698169 TTTATTATTATTATCAC
1 TTTATTATTATTATCAC
14698186 TATT-TTATTATTA
1 T-TTATTATTATTA
14698199 CCTATTCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATTATTATTATCAC
Found at i:14702777 original size:12 final size:12
Alignment explanation
Indices: 14702760--14702788 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14702750 TGATTTAGCG
14702760 AAGAAAGAGATT
1 AAGAAAGAGATT
14702772 AAGAAAGAGATT
1 AAGAAAGAGATT
14702784 AAGAA
1 AAGAA
14702789 TGATTACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (12 bp):
AAGAAAGAGATT
Found at i:14704509 original size:9 final size:9
Alignment explanation
Indices: 14704483--14704521 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
14704473 TTATCTTCAA
14704483 TTTTATTATC
1 TTTTATTA-C
14704493 GTTATTATTAC
1 -TT-TTATTAC
14704504 TTTTATTAC
1 TTTTATTAC
14704513 TTTTATTAC
1 TTTTATTAC
14704522 CGTACTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 16 0.59
10 2 0.07
11 3 0.11
12 6 0.22
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTATTAC
Found at i:14712886 original size:3 final size:3
Alignment explanation
Indices: 14712880--14713109 Score: 84
Period size: 3 Copynumber: 77.3 Consensus size: 3
14712870 AAAATACTAC
* * * *
14712880 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
14712923 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
14712967 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
14713012 AAT AAT AAT -CT ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * * *
14713057 -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT
14713103 AAT AAT A
1 AAT AAT A
14713110 GTGATGAGAA
Statistics
Matches: 166, Mismatches: 43, Indels: 36
0.68 0.18 0.15
Matches are distributed among these distances:
2 18 0.11
3 131 0.79
4 17 0.10
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14713387 original size:3 final size:3
Alignment explanation
Indices: 14713379--14713414 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14713369 ACACTACCAT
*
14713379 ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14713415 TAGAAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14713523 original size:3 final size:3
Alignment explanation
Indices: 14713509--14713538 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
14713499 AAATATACAC
14713509 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
14713539 TTAAAACGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:14715328 original size:204 final size:205
Alignment explanation
Indices: 14714572--14715360 Score: 1221
Period size: 205 Copynumber: 3.9 Consensus size: 205
14714562 AGATCTATTT
* * * * * * *
14714572 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* * * *
14714637 GTGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACTATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
14714701 GGATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGA
14714766 AGATGCCAAA
196 AGATGCCAAA
*
14714776 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCA
*
14714840 CGTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
* * *
14714905 TGGATCTGCTTCAG--TGAAATCGTCTGAAGGCGAGATCTGCGATGTGTCTGCTCTCTATCAAAG
130 TGGATCCGCTTCAGCAT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAG
14714968 TGAAGATGCCAAA
193 TGAAGATGCCAAA
* * *
14714981 CTTCGATTCGTTCTCTGACAATACAAAGATGACAAATTATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* *
14715046 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * * *
14715111 GGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGTTATGTGTCTGCTCTCTATCAAAGTG
131 GGATCCGCTTCAGC-ATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTG
14715175 AAGATGCCAAA
195 AAGATGCCAAA
*
14715186 CTTCGATTCGTT-TCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
14715250 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
14715315 GGATCCGCTTCAGCATAAACATCTGAAGGCGAGATCTACTATGTGT
131 GGATCCGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGT
14715361 GGCCTATTAC
Statistics
Matches: 537, Mismatches: 39, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
203 2 0.00
204 232 0.43
205 301 0.56
206 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGA
AGATGCCAAA
Found at i:14715342 original size:409 final size:409
Alignment explanation
Indices: 14714572--14715360 Score: 1273
Period size: 409 Copynumber: 1.9 Consensus size: 409
14714562 AGATCTATTT
* * * *
14714572 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCCCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * *
14714637 GTGAAAGCCAAATCAACTATGATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACTATCTTG
66 GTGAAAGCCAAATCAACTATGATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTG
14714702 GATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
131 GATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
14714767 GATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCT
196 GATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCT
*
14714832 CGTAATCACGTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCA
261 CGTAATCACGTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCA
* * *
14714897 AACCATCTTGGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCGATGTGTCTGCTCTCTA
326 AACCATCTTGGATCCGCTTCAGTGAAATCATCTGAAGGCGAGATCTACGATGTGTCTGCTCTCTA
14714962 TCAAAGTGAAGATGCCAAA
391 TCAAAGTGAAGATGCCAAA
* * * *
14714981 CTTCGATTCGTTCTCTGACAATACAAAGATGACAAATTATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCCCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * *
14715046 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * * * *
14715111 GGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGTTATGTGTCTGCTCTCTATCAAAGTG
130 GGATCCGCTTCAGC-ATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
14715175 AAGATGCCAAACTTCGATTCGTT-TCTGACGATACAGAGACGACAAATCATCTTAGATTTGC-TT
194 AAGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTT
*
14715238 CATCGTAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATG
259 C-TCGTAATCACGTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATG
*
14715303 CCAAACCATCTTGGATCCGCTTCAGCAT-AAA-CATCTGAAGGCGAGATCTACTATGTGT
323 CCAAACCATCTTGGATCCGCTTCAG--TGAAATCATCTGAAGGCGAGATCTACGATGTGT
14715361 GGCCTATTAC
Statistics
Matches: 350, Mismatches: 25, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
408 3 0.01
409 224 0.64
410 121 0.35
411 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (409 bp):
CTTCGATTCGTTCCCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAACTATGATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTG
GATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
GATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCT
CGTAATCACGTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCA
AACCATCTTGGATCCGCTTCAGTGAAATCATCTGAAGGCGAGATCTACGATGTGTCTGCTCTCTA
TCAAAGTGAAGATGCCAAA
Found at i:14728285 original size:46 final size:46
Alignment explanation
Indices: 14728220--14728447 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
14728210 TTATCTTCGA
* * * *
14728220 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* **
14728266 CATGGTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
14728312 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
14728358 CACGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
14728404 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
14728448 TTCAGAAAGC
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 162 0.98
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:14731609 original size:19 final size:21
Alignment explanation
Indices: 14731565--14731612 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
14731555 CCCCAAAACT
14731565 TCTATTTTCAATTCAATTTTG
1 TCTATTTTCAATTCAATTTTG
* *
14731586 TCTATTTTCGATTC-TTTTTG
1 TCTATTTTCAATTCAATTTTG
14731606 -CTATTTT
1 TCTATTTT
14731613 ATTATTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 13 0.52
ACGTcount: A:0.17, C:0.15, G:0.06, T:0.62
Consensus pattern (21 bp):
TCTATTTTCAATTCAATTTTG
Found at i:14731745 original size:3 final size:3
Alignment explanation
Indices: 14731644--14731728 Score: 54
Period size: 3 Copynumber: 29.0 Consensus size: 3
14731634 AGTTTTGTAT
**
14731644 TTA TTA TTA -TA TTA TT- TT- TTCA TTA GCA TTA TTA TTA TT- TTCA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT-A
* * * *
14731687 TTA TAA CTG TCA TTA TTA TTA TTA TTA TT- TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
14731729 GTTTCTACCA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
2 10 0.16
3 46 0.73
4 7 0.11
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14737398 original size:16 final size:18
Alignment explanation
Indices: 14737377--14737411 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
14737367 ATTTTTAATT
14737377 TAAA-TTTAAATT-TTTA
1 TAAATTTTAAATTATTTA
14737393 TAAATTTTAAATTATTTA
1 TAAATTTTAAATTATTTA
14737411 T
1 T
14737412 TGATGTGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAATTTTAAATTATTTA
Found at i:14738660 original size:11 final size:11
Alignment explanation
Indices: 14738644--14738670 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14738634 GATGTTGGTA
14738644 AAAAAAAAAAG
1 AAAAAAAAAAG
14738655 AAAAAAAAAAG
1 AAAAAAAAAAG
14738666 AAAAA
1 AAAAA
14738671 CCAGCTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:14739284 original size:3 final size:3
Alignment explanation
Indices: 14739276--14739311 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14739266 TAGATGTAGT
14739276 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14739312 ATTTTTACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.