Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 4 of 226
Found at i:1225944 original size:18 final size:18
Alignment explanation
Indices: 1225903--1225944 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1225893 ATCGTGACCA
*
1225903 TGATAGAGACCGTGATCG
1 TGATAGAGACCGTGAGCG
1225921 TGATAGAGACCGTGAGCG
1 TGATAGAGACCGTGAGCG
*
1225939 TTATAG
1 TGATAG
1225945 GGAGAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (18 bp):
TGATAGAGACCGTGAGCG
Found at i:1229503 original size:12 final size:12
Alignment explanation
Indices: 1229486--1229510 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1229476 TGTTTATAAA
1229486 TTGCCCCAAATT
1 TTGCCCCAAATT
1229498 TTGCCCCAAATT
1 TTGCCCCAAATT
1229510 T
1 T
1229511 CTAAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TTGCCCCAAATT
Found at i:1234416 original size:18 final size:18
Alignment explanation
Indices: 1234395--1234435 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1234385 TGAGCGTGAT
*
1234395 CGTGACCATGATAGAGAG
1 CGTGACCATGATAGAGAC
* *
1234413 CGTGATCGTGATAGAGAC
1 CGTGACCATGATAGAGAC
1234431 CGTGA
1 CGTGA
1234436 GCGCTATAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.34, T:0.20
Consensus pattern (18 bp):
CGTGACCATGATAGAGAC
Found at i:1234444 original size:18 final size:18
Alignment explanation
Indices: 1234403--1234465 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
1234393 ATCGTGACCA
* *
1234403 TGATAGAGAGCGTGATCG
1 TGATAGAGACCGTGAGCG
1234421 TGATAGAGACCGTGAGCG
1 TGATAGAGACCGTGAGCG
* * *
1234439 CT-ATAGGGAGCGGGAGCG
1 -TGATAGAGACCGTGAGCG
*
1234457 TGATCGAGA
1 TGATAGAGA
1234466 GCGGGATATT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.41, T:0.17
Consensus pattern (18 bp):
TGATAGAGACCGTGAGCG
Found at i:1242461 original size:23 final size:22
Alignment explanation
Indices: 1242435--1242479 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1242425 TAAACAACTT
* *
1242435 AACAATTCAATGATTTAAATGAA
1 AACAATTAAATAATTT-AATGAA
*
1242458 AACATTTAAATAATTTAATGAA
1 AACAATTAAATAATTTAATGAA
1242480 TATTTTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (22 bp):
AACAATTAAATAATTTAATGAA
Found at i:1243104 original size:17 final size:16
Alignment explanation
Indices: 1243084--1243134 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
1243074 TTGAATTTTT
1243084 ATTATTGTAATATTTAA
1 ATTATT-TAATATTTAA
* *
1243101 ATTATTAAAATAATTAA
1 ATTATT-TAATATTTAA
1243118 TATT-TTTAATATTTAA
1 -ATTATTTAATATTTAA
1243134 A
1 A
1243135 AAATAAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 1 0.04
16 8 0.29
17 16 0.57
18 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTATTTAATATTTAA
Found at i:1245126 original size:4 final size:4
Alignment explanation
Indices: 1245119--1245191 Score: 62
Period size: 4 Copynumber: 18.0 Consensus size: 4
1245109 TTTCTCCTTC
*
1245119 CTTT CTTT CCTT -TTT CTTTT CTTT CTTT CTTT CTTT C-TT -TTT CTTT
1 CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* *
1245165 CTGTTT CGTTT CTAT ATTT CTTT CTTT
1 C--TTT C-TTT CTTT CTTT CTTT CTTT
1245192 TTATTTATTC
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.11
4 38 0.67
5 9 0.16
6 4 0.07
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:1245171 original size:16 final size:15
Alignment explanation
Indices: 1245119--1245193 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
1245109 TTTCTCCTTC
*
1245119 CTTTCTTTCCTTTTT
1 CTTTCTTTTCTTTTT
1245134 CTTT-TCTTTC--TTT
1 CTTTCT-TTTCTTTTT
1245147 CTTTC-TTTCTTTTT
1 CTTTCTTTTCTTTTT
1245161 CTTTCTGTTTCGTTTCTAT
1 CTTTCT-TTTC-TTT-T-T
*
1245180 ATTTC-TTTCTTTTT
1 CTTTCTTTTCTTTTT
1245194 ATTTATTCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 19
0.70 0.03 0.27
Matches are distributed among these distances:
12 4 0.08
13 7 0.14
14 10 0.20
15 8 0.16
16 7 0.14
17 7 0.14
18 1 0.02
19 5 0.10
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.73
Consensus pattern (15 bp):
CTTTCTTTTCTTTTT
Found at i:1245185 original size:33 final size:31
Alignment explanation
Indices: 1245131--1245193 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
1245121 TTCTTTCCTT
* *
1245131 TTTCTTTTCTTTCTTTCTTTCTTTCTTTTTC
1 TTTCTTTTCTTTCTATATTTCTTTCTTTTTC
1245162 TTTCTGTTTCGTTTCTATATTTCTTTCTTTTT
1 TTTCT-TTTC-TTTCTATATTTCTTTCTTTTT
1245194 ATTTATTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.18
32 4 0.14
33 19 0.68
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (31 bp):
TTTCTTTTCTTTCTATATTTCTTTCTTTTTC
Found at i:1245185 original size:37 final size:38
Alignment explanation
Indices: 1245120--1245191 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
1245110 TTCTCCTTCC
* * * *
1245120 TTTCTTTCCTTTTTCTTTTCTTTCTTTCTTTCTTTCTT
1 TTTCTTTCCTGTTTCGTTTCTATATTTCTTTCTTTCTT
1245158 TTTCTTT-CTGTTTCGTTTCTATATTTCTTTCTTT
1 TTTCTTTCCTGTTTCGTTTCTATATTTCTTTCTTT
1245192 TTATTTATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 23 0.77
38 7 0.23
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (38 bp):
TTTCTTTCCTGTTTCGTTTCTATATTTCTTTCTTTCTT
Found at i:1246386 original size:14 final size:14
Alignment explanation
Indices: 1246367--1246393 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1246357 ACTCAATTAA
1246367 ATTTTTTTAAAAAT
1 ATTTTTTTAAAAAT
1246381 ATTTTTTTAAAAA
1 ATTTTTTTAAAAA
1246394 ATAATACAAA
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:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTTTAAAAAT
Found at i:1256259 original size:16 final size:16
Alignment explanation
Indices: 1256240--1256272 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1256230 TTGATATATG
*
1256240 TACATTTCTATTCCAT
1 TACATTTCTACTCCAT
1256256 TACATTTCTACTCCAT
1 TACATTTCTACTCCAT
1256272 T
1 T
1256273 TCAGTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.48
Consensus pattern (16 bp):
TACATTTCTACTCCAT
Found at i:1265994 original size:3 final size:3
Alignment explanation
Indices: 1265986--1266033 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
1265976 ATTCCCACTC
* * * *
1265986 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1266034 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1266034 original size:18 final size:18
Alignment explanation
Indices: 1265987--1266035 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
1265977 TTCCCACTCA
*
1265987 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
1266005 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
1266023 TAATATTAATACT
1 TAATAATAATACT
1266036 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:1266035 original size:12 final size:12
Alignment explanation
Indices: 1265986--1266033 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
1265976 ATTCCCACTC
*
1265986 ATAATAATAATA
1 ATAATACTAATA
1265998 ATAATACTAATA
1 ATAATACTAATA
1266010 ATAATACTAATA
1 ATAATACTAATA
* *
1266022 CTAATATTAATA
1 ATAATACTAATA
1266034 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:1266707 original size:11 final size:11
Alignment explanation
Indices: 1266693--1266718 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1266683 TTTTTTCTTC
1266693 TTTCTCCCCTG
1 TTTCTCCCCTG
1266704 TTTCTCCCCTG
1 TTTCTCCCCTG
1266715 TTTC
1 TTTC
1266719 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:1267100 original size:21 final size:21
Alignment explanation
Indices: 1267076--1267118 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1267066 AATAATAACT
1267076 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
1267097 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
1267118 A
1 A
1267119 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:1268145 original size:2 final size:2
Alignment explanation
Indices: 1268138--1268169 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1268128 GGGTTTTTAA
1268138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1268170 TACCCTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1268769 original size:19 final size:18
Alignment explanation
Indices: 1268747--1268789 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1268737 AAATTACAAA
* *
1268747 AAAAATCAAAATAATTTTT
1 AAAAATAAAAAT-ATTTAT
*
1268766 AAAATTAAAAATATTTAT
1 AAAAATAAAAATATTTAT
1268784 AAAAAT
1 AAAAAT
1268790 TCCAAAATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATAAAAATATTTAT
Found at i:1273598 original size:17 final size:18
Alignment explanation
Indices: 1273564--1273601 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1273554 AAATCCATTT
1273564 AAAAGAGTAAAAAGAAGA
1 AAAAGAGTAAAAAGAAGA
1273582 AAAAGAG-AAAGAA-AAGA
1 AAAAGAGTAAA-AAGAAGA
1273599 AAA
1 AAA
1273602 CCCCACAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAGAGTAAAAAGAAGA
Found at i:1280165 original size:28 final size:28
Alignment explanation
Indices: 1280124--1280194 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 28
1280114 TTAATGAAAA
1280124 AAAATTTAATAAAA-TTTGAGAG-TCTAATT
1 AAAATTT--TAAAATTTTGAGAGCT-TAATT
*
1280153 AAAACTTTTAAAATTTTGTGAGCTTAATT
1 AAAA-TTTTAAAATTTTGAGAGCTTAATT
1280182 AAAATTTTCAAAA
1 AAAATTTT-AAAA
1280195 AAAAAAAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
28 9 0.24
29 24 0.65
30 4 0.11
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (28 bp):
AAAATTTTAAAATTTTGAGAGCTTAATT
Found at i:1288311 original size:18 final size:18
Alignment explanation
Indices: 1288249--1288313 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 18
1288239 TAGGGTATTT
* *
1288249 TACAAAAATAATACAAAAC
1 TACAATAATAATAC-TAAC
*
1288268 TATCAATAATAATAAT-AC
1 TA-CAATAATAATACTAAC
1288286 T-CAA-AATAATACTAAC
1 TACAATAATAATACTAAC
1288302 TACAATAATAAT
1 TACAATAATAAT
1288314 TAGGGTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 8 0.21
16 6 0.16
17 3 0.08
18 9 0.24
19 2 0.05
20 10 0.26
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (18 bp):
TACAATAATAATACTAAC
Found at i:1297060 original size:25 final size:27
Alignment explanation
Indices: 1297022--1297074 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
1297012 TATAAAAAAT
*
1297022 TATTCTTAATAAAATAATATATAATTA
1 TATTCTTAATAAAATAAAATATAATTA
*
1297049 TATT-TTAA-AAAATAAAATATATTTA
1 TATTCTTAATAAAATAAAATATAATTA
1297074 T
1 T
1297075 GTGCGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 16 0.67
26 4 0.17
27 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TATTCTTAATAAAATAAAATATAATTA
Found at i:1301855 original size:19 final size:19
Alignment explanation
Indices: 1301797--1301855 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
1301787 TACCTTGTTC
*
1301797 TAACATACAAATATCAATTTT
1 TAACATA-AAAAAT-AATTTT
* * *
1301818 TAAGGATAAAAATTTATTTT
1 TAA-CATAAAAAATAATTTT
1301838 TAACATAAAAAATAATTT
1 TAACATAAAAAATAATTT
1301856 ACTATTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 12 0.40
20 8 0.27
21 7 0.23
22 3 0.10
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (19 bp):
TAACATAAAAAATAATTTT
Found at i:1314460 original size:20 final size:21
Alignment explanation
Indices: 1314421--1314463 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1314411 ACTTAATATG
1314421 TTTTAAAATATATCAAAAAAA
1 TTTTAAAATATATCAAAAAAA
1314442 TTTTAAAA-ATCAT-AAAAAAA
1 TTTTAAAATAT-ATCAAAAAAA
1314462 TT
1 TT
1314464 CAAAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTTAAAATATATCAAAAAAA
Found at i:1323433 original size:18 final size:19
Alignment explanation
Indices: 1323401--1323447 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
1323391 TGAGTTATTA
1323401 ATTTATATTTGAATTTAAT
1 ATTTATATTTGAATTTAAT
*
1323420 -TTTAATATTT-AATTTGAT
1 ATTT-ATATTTGAATTTAAT
1323438 ATTTATATTT
1 ATTTATATTT
1323448 TTTTTTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
ATTTATATTTGAATTTAAT
Found at i:1323476 original size:13 final size:13
Alignment explanation
Indices: 1323401--1323479 Score: 54
Period size: 12 Copynumber: 6.0 Consensus size: 13
1323391 TGAGTTATTA
*
1323401 ATTTATATTTGA-
1 ATTTAAATTTGAT
* *
1323413 ATTTAATTTTAAT
1 ATTTAAATTTGAT
1323426 ATTT-AATTTGAT
1 ATTTAAATTTGAT
* **
1323438 ATTTATATTTTTTT
1 ATTTA-AATTTGAT
*
1323452 TTGTTAAAATTTGAT
1 AT-TT-AAATTTGAT
1323467 ATTTAAATTTGAT
1 ATTTAAATTTGAT
1323480 TTCGATATTC
Statistics
Matches: 49, Mismatches: 13, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
12 19 0.39
13 13 0.27
14 8 0.16
15 8 0.16
16 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (13 bp):
ATTTAAATTTGAT
Found at i:1326286 original size:19 final size:19
Alignment explanation
Indices: 1326259--1326301 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1326249 ATATTTTCCG
1326259 TTTTCTCATTTATT-TAATAA
1 TTTTCTCATTT-TTCTAAT-A
1326279 TTTT-TCATTTTTCTAATA
1 TTTTCTCATTTTTCTAATA
1326297 TTTTC
1 TTTTC
1326302 AAGTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTCTCATTTTTCTAATA
Found at i:1332484 original size:19 final size:19
Alignment explanation
Indices: 1332460--1332502 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1332450 TGAAATATAT
*
1332460 TTTTAG-TTTAGTATTAATA
1 TTTTAGATTT-GTATTAAAA
*
1332479 TTTTAGATTTTTATTAAAA
1 TTTTAGATTTGTATTAAAA
1332498 TTTTA
1 TTTTA
1332503 AATATAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTAGATTTGTATTAAAA
Found at i:1335627 original size:3 final size:3
Alignment explanation
Indices: 1335619--1335647 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1335609 AAAACAAGTT
1335619 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1335648 GTTGTGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1348931 original size:30 final size:27
Alignment explanation
Indices: 1348896--1348984 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
1348886 AGAATTGGAT
1348896 CTAAATTTTGAAATTTAAAAAATAAGAGAA
1 CTAAATTTT-AAATTTAAAAAATAA-A-AA
* **
1348926 TTAAATTTTTAAAAATAAAAATATAAAAA
1 CTAAA-TTTTAAATTTAAAAA-ATAAAAA
* *
1348955 CTAAATTCTAAATTTATAAAAAAAAAAA
1 CTAAATTTTAAATTTA-AAAAATAAAAA
1348983 CT
1 CT
1348985 TATCGCATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 16 0.33
29 10 0.21
30 14 0.29
31 8 0.17
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (27 bp):
CTAAATTTTAAATTTAAAAAATAAAAA
Found at i:1348959 original size:29 final size:30
Alignment explanation
Indices: 1348896--1348961 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
1348886 AGAATTGGAT
**
1348896 CTAAATTTTGAAATTTAAAAAATAAGAGAA
1 CTAAATTTTGAAAAATAAAAAATAAGAGAA
* *
1348926 TTAAATTTTTAAAAATAAAAATATAA-A-AA
1 CTAAATTTTGAAAAATAAAAA-ATAAGAGAA
1348955 CTAAATT
1 CTAAATT
1348962 CTAAATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.27
30 18 0.60
31 4 0.13
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (30 bp):
CTAAATTTTGAAAAATAAAAAATAAGAGAA
Found at i:1354163 original size:16 final size:16
Alignment explanation
Indices: 1354142--1354177 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1354132 ATATGATTCC
1354142 TAAATAATTATAATTT
1 TAAATAATTATAATTT
1354158 TAAATAATTATAATTT
1 TAAATAATTATAATTT
1354174 TAAA
1 TAAA
1354178 GCTTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATAATTATAATTT
Found at i:1356731 original size:13 final size:12
Alignment explanation
Indices: 1356706--1356747 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1356696 GAACTCAGTC
1356706 TATTTTTTCATAT
1 TATTTTTT-ATAT
1356719 TAATTTTTTATAT
1 T-ATTTTTTATAT
*
1356732 TATTTTATATA-
1 TATTTTTTATAT
1356743 TATTT
1 TATTT
1356748 AAAATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 9 0.33
13 6 0.22
14 7 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTTTTTATAT
Found at i:1363746 original size:4 final size:4
Alignment explanation
Indices: 1363737--1363763 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1363727 GTTAGACCAA
1363737 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1363764 AATTTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:1369093 original size:8 final size:8
Alignment explanation
Indices: 1369080--1369107 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1369070 ATAAAACATA
1369080 ATCAATAC
1 ATCAATAC
1369088 ATCAATAC
1 ATCAATAC
1369096 ATCAATAC
1 ATCAATAC
1369104 ATCA
1 ATCA
1369108 CTATATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (8 bp):
ATCAATAC
Found at i:1370399 original size:12 final size:12
Alignment explanation
Indices: 1370382--1370406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1370372 AAAAGATATC
1370382 AATTTTTTTTAA
1 AATTTTTTTTAA
1370394 AATTTTTTTTAA
1 AATTTTTTTTAA
1370406 A
1 A
1370407 TGTATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTTTTTTTAA
Found at i:1370603 original size:29 final size:26
Alignment explanation
Indices: 1370569--1370631 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
1370559 AATTTAAATC
*
1370569 AATAAAATTTATAAATATTATTAAATTTT
1 AATAAAATTT-CAAATATTA--AAATTTT
1370598 AATAAAAATTTCAAATATTAAAATTTT
1 AAT-AAAATTTCAAATATTAAAATTTT
*
1370625 ATTAAAA
1 AATAAAA
1370632 ATTAGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.13
27 9 0.29
29 11 0.35
30 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAAAATTTCAAATATTAAAATTTT
Found at i:1370649 original size:17 final size:18
Alignment explanation
Indices: 1370627--1370666 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1370617 AAAATTTTAT
*
1370627 TAAAAATTAGAAAAAA-A
1 TAAAAATCAGAAAAAATA
*
1370644 TAAAAATCATAAAAAATA
1 TAAAAATCAGAAAAAATA
1370662 TAAAA
1 TAAAA
1370667 TTTTGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
TAAAAATCAGAAAAAATA
Found at i:1370678 original size:56 final size:55
Alignment explanation
Indices: 1370616--1370788 Score: 149
Period size: 55 Copynumber: 3.1 Consensus size: 55
1370606 TTTCAAATAT
1370616 TAAAATTTTATTAAAAATTAGAAAAAAATA-AAAATCATA-AAAAATATAAAATTTTG
1 TAAAATTTTA-TAAAAA-TAGAAAAAAATATAAAAT-ATATAAAAATATAAAATTTTG
* * * *** *
1370672 TAAAATTTTATAAAAATCGTAAAAAATATAAAATATATAGAAATATAAAAAAGTA
1 TAAAATTTTATAAAAATAGAAAAAAATATAAAATATATAAAAATATAAAATTTTG
* * *
1370727 TAAAATTTTAT-AAAGTCGTAAGAAAATTATATAAAATGTA-AAGAAATAT-AAATTTTG
1 TAAAATTTTATAAAAATAG-AA-AAAA--ATATAAAATATATAA-AAATATAAAATTTTG
1370784 TAAAA
1 TAAAA
1370789 AAATAATAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
54 19 0.20
55 35 0.37
56 14 0.15
57 10 0.11
58 17 0.18
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (55 bp):
TAAAATTTTATAAAAATAGAAAAAAATATAAAATATATAAAAATATAAAATTTTG
Found at i:1370770 original size:21 final size:21
Alignment explanation
Indices: 1370728--1370772 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1370718 AAAAAAGTAT
* *
1370728 AAAATTTTATAAAGTCGTAAG
1 AAAATTATATAAAATCGTAAG
1370749 AAAATTATATAAAAT-GTAAAG
1 AAAATTATATAAAATCGT-AAG
1370770 AAA
1 AAA
1370773 TATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (21 bp):
AAAATTATATAAAATCGTAAG
Found at i:1370773 original size:20 final size:20
Alignment explanation
Indices: 1370697--1370773 Score: 54
Period size: 21 Copynumber: 4.0 Consensus size: 20
1370687 ATCGTAAAAA
* *
1370697 ATATAAAATATATAGAAA-T
1 ATATAAAATGTAAAGAAATT
* *
1370716 ATA-AAAAAGTATA-AAATT
1 ATATAAAATGTAAAGAAATT
* *
1370734 TTATAAAGTCGT-AAGAAAATT
1 ATATAAAAT-GTAAAG-AAATT
1370755 ATATAAAATGTAAAGAAAT
1 ATATAAAATGTAAAGAAAT
1370774 ATAAATTTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.07
18 11 0.25
19 7 0.16
20 8 0.18
21 15 0.34
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (20 bp):
ATATAAAATGTAAAGAAATT
Found at i:1371327 original size:91 final size:89
Alignment explanation
Indices: 1371131--1371408 Score: 299
Period size: 91 Copynumber: 3.1 Consensus size: 89
1371121 TTTGAAAATT
** * * * * *
1371131 TTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGGAAAAAGAAAGAAGA
1 TTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTGCTCAATTGAGTGCAAAAA-AAAG-AGG
* ***
1371196 GGCTTAATTG-ATTT-TTTTGAGAAG
64 GGCTTAATTGCTTTTCTTTTTTTAAG
* * **
1371220 TTTGAGGGCCTTTTTGATGGATTTTGAAAGTTTAAGTGCTTAATTGAGTATAAAAAAAATGAGGG
1 TTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTGCTCAATTGAGTGCAAAAAAAA-GAGGG
1371285 GCTTAATTGCTTCTTCTTTTTTTAAG
65 GCTTAATTGCTT-TTCTTTTTTTAAG
* * *
1371311 TTTGAGGGCCTTTTTGATGTATTTTAAAAGTTTAAGTGCTCAATTGAGTGCAAAAAAAAAGATGG
1 TTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTGCTCAATTGAGTGC-AAAAAAAAGAGGG
*
1371376 GCTTAATTACTTTATTTCTTTTTTTAAG
65 GCTTAATTGC--T-TTTCTTTTTTTAAG
1371404 TTTGA
1 TTTGA
1371409 AGACTTTTTA
Statistics
Matches: 160, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
88 15 0.09
89 49 0.31
90 2 0.01
91 66 0.41
92 8 0.05
93 19 0.12
94 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (89 bp):
TTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTGCTCAATTGAGTGCAAAAAAAAGAGGGG
CTTAATTGCTTTTCTTTTTTTAAG
Found at i:1376061 original size:20 final size:21
Alignment explanation
Indices: 1376017--1376068 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
1376007 AAATCTAAAT
1376017 TTTTTATTT-T-AATATCATA
1 TTTTTATTTCTAAATATCATA
*
1376036 -TGTTATTTCTAAATA-CATA
1 TTTTTATTTCTAAATATCATA
1376055 TTTTTA-TTCTAAAT
1 TTTTTATTTCTAAAT
1376069 TTATGATCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 7 0.25
19 13 0.46
20 8 0.29
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTTATTTCTAAATATCATA
Found at i:1391349 original size:101 final size:100
Alignment explanation
Indices: 1391168--1391349 Score: 231
Period size: 101 Copynumber: 1.8 Consensus size: 100
1391158 TTATCAAACG
* * * * ** *
1391168 TTATTAGTCATGGCAAAATCTGAACCATCTATTTATACCCTACTTATATTAATCATGTTAAAATT
1 TTATTAGTCATGACAAAATCTGAACCATCCATTTACACCCTAATTATATTAATCATGACAAAATC
* *
1391233 CAAGCTTAATTCAATAATTATCGAACAAAATAATTA
66 CAAAC-TAATGCAATAATTATCGAACAAAATAATTA
*
1391269 TTATTAGTCATGACAAAATTTGAACCATCCATTTACACCCATAATTATAATTAATCATGACAAAA
1 TTATTAGTCATGACAAAATCTGAACCATCCATTTACACCC-TAATTAT-ATTAATCATGACAAAA
*
1391334 TCCAAAC-CATGCAATA
64 TCCAAACTAATGCAATA
1391350 GATTCTGATT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
101 43 0.63
102 6 0.09
103 19 0.28
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.34
Consensus pattern (100 bp):
TTATTAGTCATGACAAAATCTGAACCATCCATTTACACCCTAATTATATTAATCATGACAAAATC
CAAACTAATGCAATAATTATCGAACAAAATAATTA
Found at i:1395915 original size:12 final size:12
Alignment explanation
Indices: 1395898--1395923 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1395888 CGCAAGGATC
1395898 AATGGGAAAACG
1 AATGGGAAAACG
1395910 AATGGGAAAACG
1 AATGGGAAAACG
1395922 AA
1 AA
1395924 GAAAATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (12 bp):
AATGGGAAAACG
Found at i:1409419 original size:121 final size:122
Alignment explanation
Indices: 1409193--1409437 Score: 483
Period size: 121 Copynumber: 2.0 Consensus size: 122
1409183 AACACGGTTG
1409193 CTCAAGCTCTCACCATGTACAAAAGCCCAGTTTTAGTGATGTTTCTGCCAACGGTTCTCGTCTAA
1 CTCAAGCTCTCACCATGTACAAAAGCCCAGTTTTAGTGATGTTTCTGCCAACGGTTCTCGTCTAA
1409258 ACGTCTCTCCACCGAGCTATAAAACAGGCTCCTAGAAGAAAGAGTAGAACTGTATTT
66 ACGTCTCTCCACCGAGCTATAAAACAGGCTCCTAGAAGAAAGAGTAGAACTGTATTT
1409315 CTCAAGCTCTCACCATGTACAAAAGCCCAGTTTTAGTGATGTTTCTGCCAAC-GTTCTCGTCTAA
1 CTCAAGCTCTCACCATGTACAAAAGCCCAGTTTTAGTGATGTTTCTGCCAACGGTTCTCGTCTAA
1409379 ACGTCTCTCCACCGAGCTATAAAACAGGCTCCTAGAAGAAAGAGTAGAACTGTATTT
66 ACGTCTCTCCACCGAGCTATAAAACAGGCTCCTAGAAGAAAGAGTAGAACTGTATTT
1409436 CT
1 CT
1409438 GGGTCATTGT
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 71 0.58
122 52 0.42
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (122 bp):
CTCAAGCTCTCACCATGTACAAAAGCCCAGTTTTAGTGATGTTTCTGCCAACGGTTCTCGTCTAA
ACGTCTCTCCACCGAGCTATAAAACAGGCTCCTAGAAGAAAGAGTAGAACTGTATTT
Found at i:1412942 original size:28 final size:29
Alignment explanation
Indices: 1412884--1412950 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 29
1412874 ATAAAAAATA
**
1412884 ACCAAAATATTATAACCTTTTTTTTATTT
1 ACCAAAATATTATAACAATTTTTTTATTT
1412913 ACCAAAATATTATAA-AATTTTTTTATTT
1 ACCAAAATATTATAACAATTTTTTTATTT
1412941 ACCAAAATAT
1 ACCAAAATAT
1412951 AAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 21 0.58
29 15 0.42
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (29 bp):
ACCAAAATATTATAACAATTTTTTTATTT
Found at i:1412957 original size:28 final size:28
Alignment explanation
Indices: 1412902--1412957 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
1412892 ATTATAACCT
* *
1412902 TTTTTTTATTTACCAAAATATTATAAAA
1 TTTTTTTATTTACCAAAATATAAAAAAA
1412930 TTTTTTTATTTACCAAAATATAAAAAAA
1 TTTTTTTATTTACCAAAATATAAAAAAA
1412958 AAACAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (28 bp):
TTTTTTTATTTACCAAAATATAAAAAAA
Found at i:1413039 original size:27 final size:27
Alignment explanation
Indices: 1413009--1413087 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
1412999 GGCCAATCAC
*
1413009 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* *
1413036 ATTGGCGGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
1413063 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
1413088 GACTAAAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.28, C:0.23, G:0.33, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:1413217 original size:27 final size:27
Alignment explanation
Indices: 1413133--1413218 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
1413123 AATGAGGGCT
*
1413133 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCTCA
*
1413160 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
1413187 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
1413214 TTGGC
1 TTGGC
1413219 CTGATCAGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:1413293 original size:27 final size:27
Alignment explanation
Indices: 1413270--1413333 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
1413260 TTTTTTTTGT
1413270 ATATTTTGGTAAATAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAATTTTATA
**
1413297 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAATTTTATA
1413324 ATATTTTGGT
1 ATATTTTGGT
1413334 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAATTTTATA
Found at i:1413353 original size:6 final size:7
Alignment explanation
Indices: 1413333--1413357 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1413323 AATATTTTGG
1413333 TTATTTT
1 TTATTTT
1413340 TTATTTT
1 TTATTTT
1413347 TTATTTT
1 TTATTTT
1413354 TTAT
1 TTAT
1413358 AATAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTATTTT
Found at i:1414835 original size:14 final size:14
Alignment explanation
Indices: 1414818--1414850 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1414808 AAATAGTAGT
1414818 AACAATGAAAA-AAC
1 AACAA-GAAAATAAC
1414832 AACAAGAAAATAAC
1 AACAAGAAAATAAC
1414846 AACAA
1 AACAA
1414851 AACAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.73, C:0.15, G:0.06, T:0.06
Consensus pattern (14 bp):
AACAAGAAAATAAC
Found at i:1415544 original size:18 final size:17
Alignment explanation
Indices: 1415521--1415559 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
1415511 AAAGACTTAT
1415521 ATTTTAATTATGTGTTA
1 ATTTTAATTATGTGTTA
1415538 CATTTTAATTATGTGTTA
1 -ATTTTAATTATGTGTTA
1415556 ATTT
1 ATTT
1415560 CAATACTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (17 bp):
ATTTTAATTATGTGTTA
Found at i:1419306 original size:22 final size:22
Alignment explanation
Indices: 1419281--1419330 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1419271 AACATGGTAA
*
1419281 GTTAACAGGGTAAACTTAAGCT
1 GTTAACAGAGTAAACTTAAGCT
*
1419303 GTTAACAGAGTAAACTTCAGCT
1 GTTAACAGAGTAAACTTAAGCT
1419325 GTTAAC
1 GTTAAC
1419331 TTACCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (22 bp):
GTTAACAGAGTAAACTTAAGCT
Found at i:1433356 original size:14 final size:14
Alignment explanation
Indices: 1433306--1433356 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
1433296 TTTTATCAAT
*
1433306 ATAAAATATAATAA
1 ATAAAATATTATAA
1433320 ATAAGAATATTATAA
1 ATAA-AATATTATAA
*
1433335 ATATAATATTATATA
1 ATAAAATATTATA-A
1433350 A-AAAATA
1 ATAAAATA
1433357 AAAATACTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 18 0.56
15 14 0.44
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAAAATATTATAA
Found at i:1435104 original size:25 final size:25
Alignment explanation
Indices: 1435076--1435124 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
1435066 AGTGGCCAAA
1435076 ACAA-TCTTAAAAAATAAAAAACAAC
1 ACAACTCTTAAAAAA-AAAAAACAAC
*
1435101 ACAAGCTGTTAAAAAAAAAAAACA
1 ACAA-CTCTTAAAAAAAAAAAACA
1435125 TGTTTTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 8 0.38
27 9 0.43
ACGTcount: A:0.67, C:0.14, G:0.04, T:0.14
Consensus pattern (25 bp):
ACAACTCTTAAAAAAAAAAAACAAC
Found at i:1439437 original size:15 final size:16
Alignment explanation
Indices: 1439417--1439461 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
1439407 GTTTAAATTT
1439417 ATTATAAAATTAAT-A
1 ATTATAAAATTAATAA
1439432 ATTATAAAAATATAATAA
1 ATTAT-AAAAT-TAATAA
1439450 ATT-T-AAATTAAT
1 ATTATAAAATTAAT
1439462 TAACCTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.15
15 9 0.33
16 5 0.19
17 5 0.19
18 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATAAAATTAATAA
Found at i:1460765 original size:24 final size:24
Alignment explanation
Indices: 1460708--1460766 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1460698 AGGAGTAGAA
1460708 GATGCTCCAAAAGCAGGACTGCTT
1 GATGCTCCAAAAGCAGGACTGCTT
* **
1460732 GAAG-TGCCAAAAGCAGGTGTGCTT
1 GATGCT-CCAAAAGCAGGACTGCTT
1460756 GATGCTCCAAA
1 GATGCTCCAAA
1460767 TGTGCCTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.93
25 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (24 bp):
GATGCTCCAAAAGCAGGACTGCTT
Found at i:1460880 original size:24 final size:24
Alignment explanation
Indices: 1460848--1460926 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 24
1460838 TTCCAGTTGA
* * *
1460848 ACCAAAGGCCGGAGTGCTGGTAGC
1 ACCAAAGGCAGGAGTGCTCGTGGC
* * *
1460872 ACCAAAGGCAGGGGTGCTTGTGGA
1 ACCAAAGGCAGGAGTGCTCGTGGC
1460896 ACCAAAGGCAGGAGTGCTCGTGGC
1 ACCAAAGGCAGGAGTGCTCGTGGC
1460920 ACCAAAG
1 ACCAAAG
1460927 CTACCAAATG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.28, C:0.23, G:0.37, T:0.13
Consensus pattern (24 bp):
ACCAAAGGCAGGAGTGCTCGTGGC
Found at i:1461068 original size:24 final size:24
Alignment explanation
Indices: 1460990--1461069 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
1460980 ACTTGAAGAT
*
1460990 GCTCCAAAAGCAGGAGGGCTCGAA
1 GCTCCAAAAGCAGGAGTGCTCGAA
* * * *
1461014 CCCCCAAATGCAGGAGTGCTGGAA
1 GCTCCAAAAGCAGGAGTGCTCGAA
* * *
1461038 G-TGCCAAAAGCAGGTGTGCTTGAT
1 GCT-CCAAAAGCAGGAGTGCTCGAA
1461062 GCTCCAAA
1 GCTCCAAA
1461070 TGTGCCACCT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.30, T:0.15
Consensus pattern (24 bp):
GCTCCAAAAGCAGGAGTGCTCGAA
Found at i:1461178 original size:24 final size:24
Alignment explanation
Indices: 1461151--1461336 Score: 210
Period size: 24 Copynumber: 7.8 Consensus size: 24
1461141 TTCCAGTTGA
*
1461151 ACCAAAGGCAGGGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTACTTGTGGC
* * ** *
1461175 ACCAAAGGCTGGAGTACTCATGGA
1 ACCAAAGGCAGGGGTACTTGTGGC
*
1461199 ACCAAAGGCAGGGGTACTTGTGCC
1 ACCAAAGGCAGGGGTACTTGTGGC
* * *
1461223 ACCAAAAGCAGGGGCACTCGTGGC
1 ACCAAAGGCAGGGGTACTTGTGGC
* * *
1461247 ACCAAAAGCAGGGGCACTCGTGGC
1 ACCAAAGGCAGGGGTACTTGTGGC
1461271 ACCAAAGGCAGGGGTACTTGTGGC
1 ACCAAAGGCAGGGGTACTTGTGGC
* * *
1461295 ACCAAAAGCAGAGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTACTTGTGGC
* *
1461319 ACCGAAGGCAGGAGTACT
1 ACCAAAGGCAGGGGTACT
1461337 GGAACCAAAA
Statistics
Matches: 135, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 135 1.00
ACGTcount: A:0.28, C:0.24, G:0.34, T:0.14
Consensus pattern (24 bp):
ACCAAAGGCAGGGGTACTTGTGGC
Found at i:1461236 original size:72 final size:72
Alignment explanation
Indices: 1461151--1461336 Score: 255
Period size: 72 Copynumber: 2.6 Consensus size: 72
1461141 TTCCAGTTGA
* *
1461151 ACCAAAGGCAGGGGTGCTTGTGGCACCAAAGGCTGGAGTACTCATGGAACCAAAGGCAGGGGTAC
1 ACCAAAAGCAGGGGTGCTTGTGGCACCAAAGGCAGGAGTACTCATGGAACCAAAGGCAGGGGTAC
1461216 TTGTGCC
66 TTGTGCC
** * * * * * *
1461223 ACCAAAAGCAGGGGCACTCGTGGCACCAAAAGCAGGGGCACTCGTGGCACCAAAGGCAGGGGTAC
1 ACCAAAAGCAGGGGTGCTTGTGGCACCAAAGGCAGGAGTACTCATGGAACCAAAGGCAGGGGTAC
*
1461288 TTGTGGC
66 TTGTGCC
* *
1461295 ACCAAAAGCAGAGGTGCTTGTGGCACCGAAGGCAGGAGTACT
1 ACCAAAAGCAGGGGTGCTTGTGGCACCAAAGGCAGGAGTACT
1461337 GGAACCAAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 95 1.00
ACGTcount: A:0.28, C:0.24, G:0.34, T:0.14
Consensus pattern (72 bp):
ACCAAAAGCAGGGGTGCTTGTGGCACCAAAGGCAGGAGTACTCATGGAACCAAAGGCAGGGGTAC
TTGTGCC
Found at i:1473253 original size:7 final size:7
Alignment explanation
Indices: 1473241--1473305 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 7
1473231 CCATGACCTG
1473241 TTTTTAT
1 TTTTTAT
1473248 TTTTTA-
1 TTTTTAT
1473254 TTTTTAT
1 TTTTTAT
1473261 CTCTTTTCAT
1 -T-TTTT-AT
1473271 TTTGTTAT
1 TTT-TTAT
1473279 TTTTTAT
1 TTTTTAT
1473286 TATTTCTA-
1 T-TTT-TAT
*
1473294 TTTATAT
1 TTTTTAT
1473301 TTTTT
1 TTTTT
1473306 TTAAAAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
6 8 0.17
7 17 0.35
8 12 0.25
9 9 0.19
10 2 0.04
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:1475522 original size:62 final size:62
Alignment explanation
Indices: 1475425--1475547 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
1475415 TTTTTTTTGT
1475425 ATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCATAAAATCCAAAAATACGC
1 ATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCATAAAATCCAAAAATACGC
* *
1475487 ATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 ATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCATAAAATCCAAAAATACG
1475548 TCGAGTTTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (62 bp):
ATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCATAAAATCCAAAAATACGC
Found at i:1476842 original size:10 final size:12
Alignment explanation
Indices: 1476836--1476936 Score: 51
Period size: 12 Copynumber: 8.8 Consensus size: 12
1476826 AATAAAAAAA
1476836 CAAAAAAAAGAG
1 CAAAAAAAAGAG
1476848 C---AAAAA-AG
1 CAAAAAAAAGAG
1476856 CAAAAAAAAGTAAG
1 CAAAAAAAAG--AG
1476870 CAAAAGAAAACGAG
1 CAAAA-AAAA-GAG
*
1476884 -AAAACAAA-AG
1 CAAAAAAAAGAG
*
1476894 -AAAAAAAATA-
1 CAAAAAAAAGAG
*
1476904 AAAAATAAAAGAG
1 CAAAA-AAAAGAG
1476917 -AAAAAATAAGAG
1 CAAAAAA-AAGAG
1476929 -AAAAAAAA
1 CAAAAAAAA
1476937 CCTCTACCAG
Statistics
Matches: 73, Mismatches: 3, Indels: 27
0.71 0.03 0.26
Matches are distributed among these distances:
8 3 0.04
9 5 0.07
10 9 0.12
11 14 0.19
12 24 0.33
13 4 0.05
14 9 0.12
15 4 0.05
16 1 0.01
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (12 bp):
CAAAAAAAAGAG
Found at i:1476879 original size:18 final size:18
Alignment explanation
Indices: 1476858--1476900 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1476848 CAAAAAAGCA
* *
1476858 AAAAAAAGTAAGCAAAAG
1 AAAAAAAGAAAACAAAAG
**
1476876 AAAACGAGAAAACAAAAG
1 AAAAAAAGAAAACAAAAG
1476894 AAAAAAA
1 AAAAAAA
1476901 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAACAAAAG
Found at i:1476906 original size:9 final size:9
Alignment explanation
Indices: 1476829--1476908 Score: 54
Period size: 10 Copynumber: 8.6 Consensus size: 9
1476819 GGCAAAAAAT
*
1476829 AAAAAAACA
1 AAAAAAAGA
1476838 AAAAAAAGA
1 AAAAAAAGA
*
1476847 GCAAAAAAGCA
1 -AAAAAAAG-A
1476858 AAAAAAAGTA
1 AAAAAAAG-A
**
1476868 AGCAAAAG-
1 AAAAAAAGA
**
1476876 AAAACGAGA
1 AAAAAAAGA
1476885 AAACAAAAGA
1 AAA-AAAAGA
*
1476895 AAAAAAATA
1 AAAAAAAGA
1476904 AAAAA
1 AAAAA
1476909 TAAAAGAGAA
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
8 4 0.07
9 21 0.39
10 28 0.52
11 1 0.02
ACGTcount: A:0.79, C:0.07, G:0.11, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:1476906 original size:14 final size:14
Alignment explanation
Indices: 1476903--1476936 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1476893 GAAAAAAAAT
*
1476903 AAAAAATAAAAGAG
1 AAAAAATAAAAGAA
*
1476917 AAAAAATAAGAGAA
1 AAAAAATAAAAGAA
1476931 AAAAAA
1 AAAAAA
1476937 CCTCTACCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAAAATAAAAGAA
Found at i:1476933 original size:33 final size:34
Alignment explanation
Indices: 1476851--1476936 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 34
1476841 AAAAGAGCAA
1476851 AAAAGCAAAAAAAAGTAAGCAAAAGAAAACGAGAAAAC
1 AAAAG-AAAAAAAA-TAA--AAAAGAAAACGAGAAAAC
* *
1476889 AAAAGAAAAAAAATAAAAAATAAAA-GAGAAAAA
1 AAAAGAAAAAAAATAAAAAAGAAAACGAGAAAAC
1476922 ATAAGAGAAAAAAAA
1 A-AA-AGAAAAAAAA
1476937 CCTCTACCAG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 8 0.18
34 10 0.23
35 10 0.23
36 3 0.07
37 8 0.18
38 5 0.11
ACGTcount: A:0.78, C:0.05, G:0.13, T:0.05
Consensus pattern (34 bp):
AAAAGAAAAAAAATAAAAAAGAAAACGAGAAAAC
Found at i:1476934 original size:21 final size:21
Alignment explanation
Indices: 1476884--1476925 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1476874 AGAAAACGAG
*
1476884 AAAACAAAAGAAAAAAAATAA
1 AAAATAAAAGAAAAAAAATAA
*
1476905 AAAATAAAAGAGAAAAAATAA
1 AAAATAAAAGAAAAAAAATAA
1476926 GAGAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAATAAAAGAAAAAAAATAA
Found at i:1477375 original size:15 final size:15
Alignment explanation
Indices: 1477355--1477400 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
1477345 TACTTCACTC
*
1477355 AAAAAAAAGAAAACA
1 AAAAAAAAGAAAAAA
1477370 AAAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
1477385 AGAACAAAAAGAAAAA
1 A-AA-AAAAAGAAAAA
1477401 TGAGAGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 15 0.54
16 2 0.07
17 11 0.39
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAA
Found at i:1477920 original size:107 final size:108
Alignment explanation
Indices: 1477736--1477930 Score: 277
Period size: 107 Copynumber: 1.8 Consensus size: 108
1477726 TTTGTATTCT
** *
1477736 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTTAACAAATTTCCATCTT
1 AGCAAAATACGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTCAACAAATTTCCATCTT
1477801 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
* ** * *
1477844 AGCAAAATACGCTATCTTGATTGATTT-TTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATTT
1 AGCAAAATACGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTCAAC-AAATTTCCATCT
* *
1477907 TTTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
1477931 AGCATTTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
107 46 0.61
108 30 0.39
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (108 bp):
AGCAAAATACGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTCAACAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:1478478 original size:44 final size:44
Alignment explanation
Indices: 1478415--1478529 Score: 167
Period size: 44 Copynumber: 2.6 Consensus size: 44
1478405 TGAAGTCATT
* *
1478415 AAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGTAG
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
1478459 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
* * * * *
1478503 ATAGCAGGTCCTGTCTTCCTATATTGG
1 AAAGCAGATCTTGTCTTCATGTATTGG
1478530 TAGGAAGCAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (44 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
Found at i:1478682 original size:132 final size:134
Alignment explanation
Indices: 1478538--1479081 Score: 895
Period size: 132 Copynumber: 4.1 Consensus size: 134
1478528 GGTAGGAAGC
* *
1478538 AGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAACAGATCGTAGATGGCAGATT
1 AGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATT
1478603 TTACCTCAC-TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-GTTGGCAGTG
66 TTACCTCACGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGAGTTGGCAGTG
1478666 GAAT
131 GAAT
1478670 AGATTGAAGATTGCAGATCA-TGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
1 AGATTGAAGATTGCAGAT-ATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
*
1478734 TTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCT-CCTG-GTTGGCAG
65 TTTACCTCAC-GTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGAGTTGGCAG
1478797 TGGAAT
129 TGGAAT
*
1478803 AGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGA-T
1 AGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATT
* *
1478867 TTACCTCCACGTGACTACAGTGGAGTACATTGAAGTCGATAACTCTATCTCCCTGTATTTGGCAG
66 TTACCT-CACGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-AGTTGGCAG
1478932 TGGAAT
129 TGGAAT
*
1478938 AGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATT
1 AGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATT
* *
1479003 TTACCTC-CCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
66 TTACCTCACGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-AGTTGGCAGT
*
1479067 AGAAT
130 GGAAT
*
1479072 AGAGTGAAGA
1 AGATTGAAGA
1479082 AAACCAGATC
Statistics
Matches: 392, Mismatches: 11, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
132 115 0.29
133 86 0.22
134 107 0.27
135 77 0.20
136 7 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (134 bp):
AGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATT
TTACCTCACGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGAGTTGGCAGTG
GAAT
Found at i:1478842 original size:46 final size:46
Alignment explanation
Indices: 1478657--1479013 Score: 170
Period size: 46 Copynumber: 7.9 Consensus size: 46
1478647 ATCTCCCTGG
* *
1478657 TTGGCAGTGGAATAGATTGAAGATTGCAGATCATGCCTTCCTGTAT
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTAT
* * * * * *
1478703 TTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGA-
1 TTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTACCTTCCTGT-AT
* * * * ** * * * *
1478749 CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTATC-TCCTG--G
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTTCCTGTAT
*
1478790 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTAT
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTAT
* * * * *
1478836 TTGGCAG-CGAAGCAGATCGAAGATGGCAGAT-TTACC-TCCACGTGA-
1 TTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTACCTTCC-TGT-AT
* * * * * * * * *
1478881 CT-ACAGTGGAGTACATTGAAG-TCG-ATAACTCTATCTCCCTGTAT
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTTCCTGTAT
*
1478925 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTAT
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTAT
* * * * * *
1478971 TTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTG
1 TTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTACCTTCCTG
1479014 ACTACAGTGG
Statistics
Matches: 219, Mismatches: 69, Indels: 46
0.66 0.21 0.14
Matches are distributed among these distances:
41 1 0.00
42 18 0.08
43 14 0.06
44 32 0.15
45 46 0.21
46 103 0.47
47 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTAT
Found at i:1479122 original size:268 final size:262
Alignment explanation
Indices: 1478576--1479101 Score: 795
Period size: 268 Copynumber: 2.0 Consensus size: 262
1478566 TGTATTTGGC
* *
1478576 AGCGAAACAGATCGTAGATGGCAGATTTTACCTCACTGACTACAGTGGAGTACATTGAAGCCGAT
1 AGCGAAGCAGATCGAAGATGGCAGATTTTACCTCACTGACTACAGTGGAGTACATTGAAGCCGAT
1478641 AACTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGATCATGCCTTCCTGTATTTG
66 AACTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGATCATGCCTTCCTGTATTTG
1478706 GCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGC
131 GCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCC-GTGACTACAGTGGAGTACATTGAAGC
* * *** * * *
1478771 CGATAACTCTATCTCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTAT
195 CGATAACTCTATCTCCTGGTTGGCAGTAGAATAGAGTGAAGAAACCAGATCTTACCTCCCTGCAT
*
1478836 TTGG
260 AT-G
*
1478840 CAGCGAAGCAGATCGAAGATGGCAGA-TTTACCTCCACGTGACTACAGTGGAGTACATTGAAGTC
1 -AGCGAAGCAGATCGAAGATGGCAGATTTTACCT-CAC-TGACTACAGTGGAGTACATTGAAGCC
* *
1478904 GATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGT
63 GATAACTCTATCTCCCTG--GTTGGCAGTGGAATAGATTGAAGATTGCAGATCATGCCTTCCTGT
1478969 ATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCC-TGACTACAGTGGAGTACATTG
126 ATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCGTGACTACAGTGGAGTACATTG
* *
1479033 AAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCT
191 AAGCCGATAACTCTATCT-CCTG--GTTGGCAGTAGAATAGAGTGAAG-AAACCAGATCTTACCT
1479098 CCCT
252 CCCT
1479102 AAGCAATAGT
Statistics
Matches: 239, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
264 7 0.03
265 26 0.11
266 82 0.34
267 4 0.02
268 86 0.36
269 20 0.08
270 14 0.06
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (262 bp):
AGCGAAGCAGATCGAAGATGGCAGATTTTACCTCACTGACTACAGTGGAGTACATTGAAGCCGAT
AACTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGATCATGCCTTCCTGTATTTG
GCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCGTGACTACAGTGGAGTACATTGAAGCC
GATAACTCTATCTCCTGGTTGGCAGTAGAATAGAGTGAAGAAACCAGATCTTACCTCCCTGCATA
TG
Found at i:1479642 original size:82 final size:82
Alignment explanation
Indices: 1479086--1479652 Score: 902
Period size: 82 Copynumber: 6.9 Consensus size: 82
1479076 TGAAGAAAAC
* *
1479086 CAGATCTTATCTCCCTAAGCAATAGTTGAGCAGATCGCGTCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
1479151 CGGAGC-GAACAAAACCA
66 CGGAGCAG-ACAAAACCA
* * *
1479168 CAGATCATATATCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATATCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
1479233 CGGAGCAGACAAAACCA
66 CGGAGCAGACAAAACCA
*
1479250 CAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
* *
1479315 CGGAGCGGACAAAACCC
66 CGGAGCAGACAAAACCA
*
1479332 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
*
1479397 CGGAGCGGACAAAACCA
66 CGGAGCAGACAAAACCA
* *
1479414 CAGATCTTATCTCTCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGAAGTAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
*
1479479 CGGAGCGGACAAAACCA
66 CGGAGCAGACAAAACCA
*
1479496 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTAACTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
*
1479561 CGGAACAGACAAAACCA
66 CGGAGCAGACAAAACCA
* * * * * * * *
1479578 CAGATCTTATATCCCTAAGCAGTAATGGAGCAGATCACATCTAGTCTTATCTCCTTAGGTAGTAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
*
1479643 TGGAGCAGAC
66 CGGAGCAGAC
1479653 GAAAGAAACC
Statistics
Matches: 451, Mismatches: 33, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
82 450 1.00
83 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (82 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
CGGAGCAGACAAAACCA
Found at i:1480744 original size:9 final size:10
Alignment explanation
Indices: 1480724--1480750 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1480714 AGAAAGAAGG
1480724 AAAAATTAAA
1 AAAAATTAAA
1480734 AAAAATTAAA
1 AAAAATTAAA
1480744 AAAAATT
1 AAAAATT
1480751 GGGCTTTATA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:1481020 original size:7 final size:7
Alignment explanation
Indices: 1481008--1481081 Score: 62
Period size: 7 Copynumber: 9.9 Consensus size: 7
1480998 CCATGACCTG
1481008 TTTTTAT
1 TTTTTAT
1481015 TTTTTAT
1 TTTTTAT
1481022 TTTTTA-
1 TTTTTAT
1481028 TTTTTAT
1 TTTTTAT
1481035 CTCTTTTCAT
1 -T-TTTT-AT
1481045 TTTGTTATT
1 TTT-TTA-T
1481054 TTTTTAT
1 TTTTTAT
1481061 TATTTCTA-
1 T-TTT-TAT
*
1481069 TTTATAT
1 TTTTTAT
1481076 TTTTTA
1 TTTTTA
1481082 AAAAAAAAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
6 8 0.14
7 22 0.39
8 11 0.20
9 13 0.23
10 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:1481078 original size:31 final size:29
Alignment explanation
Indices: 1481009--1481081 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
1480999 CATGACCTGT
* *
1481009 TTTTATTTTTTATTTTTTATTTTTATCTC
1 TTTTATTTTTTATTTTTTATTATTATCTA
1481038 TTTTCATTTTGTTATTTTTTTATTATT-TCTA
1 TTTT-ATTTT-TTA-TTTTTTATTATTATCTA
1481069 TTTATATTTTTTA
1 TTT-TATTTTTTA
1481082 AAAAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 4 0.11
30 8 0.21
31 14 0.37
32 12 0.32
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTTATTTTTTATTTTTTATTATTATCTA
Found at i:1486365 original size:55 final size:56
Alignment explanation
Indices: 1486257--1486365 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
1486247 TTTAAAAATA
* * * *
1486257 TTTTCTATTTAATTAAAAACATTATAATATAAAAAAATACATCATCATGTATTTAT
1 TTTTCTATTTAAATAAAAACATTATAATATAAAAAAATACAACATAATCTATTTAT
1486313 TTTTCTATTTAAATAAAAACATTATAATAT-AAAAAATACAACATAATCTATTT
1 TTTTCTATTTAAATAAAAACATTATAATATAAAAAAATACAACATAATCTATTT
1486366 CATATTTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 20 0.41
56 29 0.59
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (56 bp):
TTTTCTATTTAAATAAAAACATTATAATATAAAAAAATACAACATAATCTATTTAT
Found at i:1486685 original size:16 final size:17
Alignment explanation
Indices: 1486661--1486696 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1486651 ATATTATTTA
*
1486661 TTTATAAATAAATAAGT
1 TTTATAAATAAATAAAT
1486678 TTTA-AAATAAATAAAT
1 TTTATAAATAAATAAAT
1486694 TTT
1 TTT
1486697 TGACAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTATAAATAAATAAAT
Found at i:1498608 original size:11 final size:11
Alignment explanation
Indices: 1498589--1498623 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1498579 AACACCGAAC
*
1498589 TTTTTGGGTAA
1 TTTTCGGGTAA
1498600 TTTTCGGGTAA
1 TTTTCGGGTAA
1498611 TTTTCGGGTAA
1 TTTTCGGGTAA
1498622 TT
1 TT
1498624 CGGTTAATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:1498631 original size:9 final size:9
Alignment explanation
Indices: 1498602--1498649 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
1498592 TTGGGTAATT
1498602 TTCGGGTAA
1 TTCGGGTAA
1498611 TTTTCGGGTAA
1 --TTCGGGTAA
*
1498622 TTCGGTTAA
1 TTCGGGTAA
1498631 -TCGGGTAA
1 TTCGGGTAA
1498639 TTCGGGTAA
1 TTCGGGTAA
1498648 TT
1 TT
1498650 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 7 0.21
9 18 0.53
11 9 0.26
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:1498636 original size:17 final size:17
Alignment explanation
Indices: 1498614--1498648 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1498604 CGGGTAATTT
*
1498614 TCGGGTAATTCGGTTAA
1 TCGGGTAATTCGGGTAA
1498631 TCGGGTAATTCGGGTAA
1 TCGGGTAATTCGGGTAA
1498648 T
1 T
1498649 TTTTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.34
Consensus pattern (17 bp):
TCGGGTAATTCGGGTAA
Found at i:1500490 original size:29 final size:30
Alignment explanation
Indices: 1500450--1500526 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 30
1500440 AAGTTTCTTG
*
1500450 AAATTATGTTTTGACCCCTAAAATTCCT-A
1 AAATTATATTTTGACCCCTAAAATTCCTCA
* * * * *
1500479 AAATTATATTTTAATCCTTAAATTTTCTCA
1 AAATTATATTTTGACCCCTAAAATTCCTCA
* *
1500509 AAATTACACTTTGACCCC
1 AAATTATATTTTGACCCC
1500527 AGAAGTTTTG
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (30 bp):
AAATTATATTTTGACCCCTAAAATTCCTCA
Found at i:1500880 original size:11 final size:11
Alignment explanation
Indices: 1500861--1500927 Score: 61
Period size: 11 Copynumber: 6.5 Consensus size: 11
1500851 CCGAGAGAAG
*
1500861 AAGAGGAAAAA
1 AAGAAGAAAAA
1500872 AAGAAGAAAAA
1 AAGAAGAAAAA
1500883 AAG-AGAAAAA
1 AAGAAGAAAAA
* **
1500893 AAAAAG-AAGG
1 AAGAAGAAAAA
1500903 AAGAAG--AAA
1 AAGAAGAAAAA
*
1500912 AAGAAAAAAAA
1 AAGAAGAAAAA
1500923 AAGAA
1 AAGAA
1500928 AAAGAAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.13
10 16 0.36
11 23 0.51
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:1500912 original size:16 final size:17
Alignment explanation
Indices: 1500872--1500933 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
1500862 AGAGGAAAAA
1500872 AAGAAGAAAAA-AAGAG
1 AAGAAGAAAAAGAAGAG
*
1500888 AA-AAAAAAAAGAAG-G
1 AAGAAGAAAAAGAAGAG
* *
1500903 AAGAAGAAAAAGAAAAA
1 AAGAAGAAAAAGAAGAG
*
1500920 AAAAAGAAAAAGAA
1 AAGAAGAAAAAGAA
1500934 AAATAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 10 0.26
16 15 0.39
17 13 0.34
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAGAAGAG
Found at i:1500928 original size:11 final size:11
Alignment explanation
Indices: 1500867--1500936 Score: 68
Period size: 12 Copynumber: 5.6 Consensus size: 11
1500857 GAAGAAGAGG
1500867 AAAAAAAGAAGA
1 AAAAAAAGAA-A
1500879 AAAAAAGAGAAA
1 AAAAAA-AGAAA
1500891 AAAAAAAGAAGGAA
1 AAAAAAAG-A--AA
1500905 GAAGAAAAAGAAA
1 -AA-AAAAAGAAA
1500918 AAAAAAAGAAA
1 AAAAAAAGAAA
1500929 AAGAAAAA
1 AA-AAAAA
1500937 TAAATTTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
11 13 0.25
12 21 0.41
13 6 0.12
14 2 0.04
15 3 0.06
16 6 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:1501123 original size:24 final size:25
Alignment explanation
Indices: 1501086--1501146 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
1501076 GGAAAATAAA
1501086 CCAACAGGCCCAACAGCCTAGCAGG
1 CCAACAGGCCCAACAGCCTAGCAGG
* *
1501111 CCAACA-GCCCAACAGCTTGGCAGG
1 CCAACAGGCCCAACAGCCTAGCAGG
*
1501135 CCAGCAGGCCCA
1 CCAACAGGCCCA
1501147 TTACAGCAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 21 0.66
25 11 0.34
ACGTcount: A:0.30, C:0.41, G:0.25, T:0.05
Consensus pattern (25 bp):
CCAACAGGCCCAACAGCCTAGCAGG
Found at i:1501250 original size:9 final size:9
Alignment explanation
Indices: 1501236--1501261 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1501226 CAGTCTAGGA
1501236 AAAAAAGAG
1 AAAAAAGAG
1501245 AAAAAAGAG
1 AAAAAAGAG
1501254 AAAAAAGA
1 AAAAAAGA
1501262 AAAGGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:1501722 original size:17 final size:18
Alignment explanation
Indices: 1501700--1501739 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1501690 TTAAAAAAAT
*
1501700 AAAAATTCTCGTG-TTTC
1 AAAAATTCTCATGTTTTC
*
1501717 AAAAATTTTCATGTTTTC
1 AAAAATTCTCATGTTTTC
1501735 AAAAA
1 AAAAA
1501740 ACAATTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (18 bp):
AAAAATTCTCATGTTTTC
Found at i:1501732 original size:41 final size:38
Alignment explanation
Indices: 1501670--1501766 Score: 95
Period size: 41 Copynumber: 2.4 Consensus size: 38
1501660 AATTAATAAT
*
1501670 TGTTTCAAAAATCTTTGTGTTTAAAAAAATAAAAATTCTCG
1 TGTTTCAAAAAT-TTTATGTTT-AAAAAA-AAAAATTCTCG
** * *
1501711 TGTTTCAAAAATTTTCATGTTTTCAAAAAACAATTTTCG
1 TGTTTCAAAAATTTT-ATGTTTAAAAAAAAAAATTCTCG
1501750 TGTTTTCAAAAAATTTT
1 TG-TTTC-AAAAATTTT
1501767 TATCGTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 11 0.23
40 11 0.23
41 26 0.54
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (38 bp):
TGTTTCAAAAATTTTATGTTTAAAAAAAAAAATTCTCG
Found at i:1501772 original size:22 final size:22
Alignment explanation
Indices: 1501720--1501762 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1501710 GTGTTTCAAA
*
1501720 AATTTTCATGTTTTCAAAAAAC
1 AATTTTCGTGTTTTCAAAAAAC
1501742 AATTTTCGTGTTTTCAAAAAA
1 AATTTTCGTGTTTTCAAAAAA
1501763 TTTTTATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
AATTTTCGTGTTTTCAAAAAAC
Found at i:1501819 original size:35 final size:36
Alignment explanation
Indices: 1501743--1501842 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 36
1501733 TCAAAAAACA
**
1501743 ATTTTCGTGTTTTCAAAAAATTTTTATCGTATTTTATAG
1 ATTTTCGTGTTTT-AAAAAA-AATT-TCGTATTTTATAG
1501782 ATTTTCGTGTTTT-AAAAAAATTTCGTATTTCTA-AG
1 ATTTTCGTGTTTTAAAAAAAATTTCGTATTT-TATAG
*
1501817 ATTCTT-GTATTTCTAAAAAAAATTTC
1 ATT-TTCGTGTTT-TAAAAAAAATTTC
1501843 CGTGTTTTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
35 18 0.33
36 7 0.13
37 16 0.30
39 13 0.24
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (36 bp):
ATTTTCGTGTTTTAAAAAAAATTTCGTATTTTATAG
Found at i:1501871 original size:20 final size:20
Alignment explanation
Indices: 1501817--1501873 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
1501807 TATTTCTAAG
*
1501817 ATTCTTGTATTTCTAAAAAAA
1 ATTCTTGTGTTTC-AAAAAAA
*
1501838 ATT-TCCGTGTTTTCAAAAAAA
1 ATTCT-TGTG-TTTCAAAAAAA
1501859 ATTCTTGTGTTTCAA
1 ATTCTTGTGTTTCAA
1501874 TCGGATCACG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 7 0.23
21 18 0.60
22 5 0.17
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTCTTGTGTTTCAAAAAAA
Found at i:1502655 original size:3 final size:3
Alignment explanation
Indices: 1502647--1502686 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1502637 GGTCGGTGCT
1502647 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1502687 AAAATCAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1507860 original size:29 final size:28
Alignment explanation
Indices: 1507797--1507860 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
1507787 CTCGACCCCC
*
1507797 TTAATTTTGTAAAATTTCTTTCTAACCT
1 TTAATTTTGTAAAATTTCTTTCTAACAT
* *
1507825 TTGAATTTTG-AAAATTTTTATTTTAACAT
1 TT-AATTTTGTAAAATTTCT-TTCTAACAT
1507854 TATAATT
1 T-TAATT
1507861 AATGTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 10 0.33
29 19 0.63
30 1 0.03
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.55
Consensus pattern (28 bp):
TTAATTTTGTAAAATTTCTTTCTAACAT
Found at i:1518382 original size:18 final size:19
Alignment explanation
Indices: 1518348--1518389 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1518338 AATAATTAGA
1518348 ATAAATATTTATAAAAATT
1 ATAAATATTTATAAAAATT
*
1518367 ATAAATA-TTCTAAAAATT
1 ATAAATATTTATAAAAATT
*
1518385 CTAAA
1 ATAAA
1518390 AAATACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAATATTTATAAAAATT
Found at i:1523283 original size:69 final size:69
Alignment explanation
Indices: 1523207--1523343 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
1523197 AAGGTTAAAT
1523207 TAAATAATGTGTAAAAGTTGAATGTTAATTTTTAGAATCAAAACTAAACTAACACAATATATAAA
1 TAAATAATGTGTAAAAGTTGAATGTTAATTTTTAGAATCAAAACTAAACTAACACAATATATAAA
1523272 TATA
66 TATA
*
1523276 TAAATAATGTGTAAAAGTTGAATGTTAATTTTTAGAATCAAAACTAAACTAACATAATATATAAA
1 TAAATAATGTGTAAAAGTTGAATGTTAATTTTTAGAATCAAAACTAAACTAACACAATATATAAA
1523341 TAT
66 TAT
1523344 TTGAGGATTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (69 bp):
TAAATAATGTGTAAAAGTTGAATGTTAATTTTTAGAATCAAAACTAAACTAACACAATATATAAA
TATA
Found at i:1523825 original size:3 final size:3
Alignment explanation
Indices: 1523819--1523867 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
1523809 AATGATGATA
*
1523819 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ACC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1523867 A
1 A
1523868 CCTTCTCTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:1528196 original size:58 final size:56
Alignment explanation
Indices: 1528094--1528204 Score: 127
Period size: 58 Copynumber: 1.9 Consensus size: 56
1528084 TTAACTAATT
* *
1528094 TTTTAAATTTTTAAAAAATATTTTTTATAAATTTTATACATTTAAATAATTTTAATGA
1 TTTTAAATTTTTAAAAAATAATCTTTATAAATTTTATACATTT-AA-AATTTTAATGA
* * *
1528152 TTTTAAATTTTT-AAAATTAATCTTTATAACTTTTTTTA-ATTTTAAAATTTTAA
1 TTTTAAATTTTTAAAAAATAATCTTTATAA-ATTTTATACA-TTTAAAATTTTAA
1528205 AAAATTAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
56 8 0.17
57 17 0.37
58 21 0.46
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (56 bp):
TTTTAAATTTTTAAAAAATAATCTTTATAAATTTTATACATTTAAAATTTTAATGA
Found at i:1537352 original size:32 final size:32
Alignment explanation
Indices: 1537311--1537373 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1537301 TGAGCCGATT
1537311 GTTTAGTTCTTAAGAAATAATATATTTGCACA
1 GTTTAGTTCTTAAGAAATAATATATTTGCACA
1537343 GTTTAGTTCTTAAGAAATAATATATTTGCAC
1 GTTTAGTTCTTAAGAAATAATATATTTGCAC
1537374 GTGTTATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (32 bp):
GTTTAGTTCTTAAGAAATAATATATTTGCACA
Found at i:1541652 original size:16 final size:16
Alignment explanation
Indices: 1541624--1541663 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1541614 GGAATCAGTT
1541624 ATATT-AATGTTATTTA
1 ATATTAAAT-TTATTTA
*
1541640 ATTTTAAATTTATTTA
1 ATATTAAATTTATTTA
1541656 ATATTAAA
1 ATATTAAA
1541664 ATAATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATATTAAATTTATTTA
Found at i:1541673 original size:26 final size:26
Alignment explanation
Indices: 1541650--1541700 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
1541640 ATTTTAAATT
1541650 TATTTAATATTAAAATAATATAAAAA
1 TATTTAATATTAAAATAATATAAAAA
*
1541676 TATTTAATATTAAAATAATACAAAA
1 TATTTAATATTAAAATAATATAAAA
1541701 TTCATCATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TATTTAATATTAAAATAATATAAAAA
Found at i:1542340 original size:14 final size:16
Alignment explanation
Indices: 1542309--1542343 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
1542299 AGCTTAACAA
1542309 TTTAATATTTATTAAT
1 TTTAATATTTATTAAT
1542325 TTTAATA-TTA-TAAT
1 TTTAATATTTATTAAT
1542339 TTTAA
1 TTTAA
1542344 AAGTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 3 0.16
16 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAATATTTATTAAT
Found at i:1549559 original size:14 final size:14
Alignment explanation
Indices: 1549540--1549566 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1549530 AAATAAACAT
1549540 AATAAATAAATTTA
1 AATAAATAAATTTA
1549554 AATAAATAAATTT
1 AATAAATAAATTT
1549567 CTCAATTAAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAATAAATTTA
Found at i:1552900 original size:25 final size:25
Alignment explanation
Indices: 1552847--1552904 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
1552837 AAATATATAT
1552847 TATAATATTATATCTTAATAATTAAG
1 TATAATATTATATCTTAATAATT-AG
*
1552873 TATATATATTATAT-TTATTATATT-G
1 TATA-ATATTATATCTTAATA-ATTAG
1552898 TATAATA
1 TATAATA
1552905 ATAATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 3 0.10
25 5 0.17
26 9 0.31
27 12 0.41
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
TATAATATTATATCTTAATAATTAG
Found at i:1553961 original size:40 final size:39
Alignment explanation
Indices: 1553849--1553973 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
1553839 TCAATTAGAT
* * *
1553849 ACTGGGTGTGAATCTATTACTTCGGATTAATTCGATGAGGC
1 ACTGGGTGTCAAT-TATTACTTCGAATT-ATCCGATGAGGC
* * * * *
1553890 ACTGGGTGCCAA-T-GTACTTC-AGTTTAGCCGATGAGAC
1 ACTGGGTGTCAATTATTACTTCGA-ATTATCCGATGAGGC
*
1553927 ACTGGGTGTCAACTTATTACTTCGAATTATCCGATGAGGT
1 ACTGGGTGTCAA-TTATTACTTCGAATTATCCGATGAGGC
1553967 ACTGGGT
1 ACTGGGT
1553974 ACCAATTTGG
Statistics
Matches: 65, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
37 20 0.31
38 8 0.12
39 2 0.03
40 24 0.37
41 11 0.17
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (39 bp):
ACTGGGTGTCAATTATTACTTCGAATTATCCGATGAGGC
Found at i:1555739 original size:60 final size:58
Alignment explanation
Indices: 1555656--1555771 Score: 142
Period size: 60 Copynumber: 2.0 Consensus size: 58
1555646 AAATAGTTAG
* * * * *
1555656 GTGATCATTTTGTAACTTATCATATTTGAGTGACAAAACAAGAAATTTACTAATAATTGA
1 GTGACCATTTCGTAACTTATCATAATTAAGTGACAAAA-AA-AAATTTACAAATAATTGA
* * *
1555716 GTGACCATTTCGTAATTTTTCATAATTAAGTGACAAAAAATAATTTACAAATAATT
1 GTGACCATTTCGTAACTTATCATAATTAAGTGACAAAAAAAAATTTACAAATAATT
1555772 AGGTGATTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 14 0.29
59 2 0.04
60 32 0.67
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (58 bp):
GTGACCATTTCGTAACTTATCATAATTAAGTGACAAAAAAAAATTTACAAATAATTGA
Found at i:1558641 original size:41 final size:41
Alignment explanation
Indices: 1558579--1558680 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
1558569 AATGACGAAT
* * *
1558579 CCCCCAAAATGGAAAATTTTAGGATCTAGCAAGGACCTCAA
1 CCCCTAAAATGAAAAATTTTAGGATCTAGCAAAGACCTCAA
* * *
1558620 CCCCTAAAATGAAAAATTTTAGGGTCTGGCAAAGATCTCAA
1 CCCCTAAAATGAAAAATTTTAGGATCTAGCAAAGACCTCAA
*
1558661 CTCCTAAAATGAAAAATTTT
1 CCCCTAAAATGAAAAATTTT
1558681 CATTCAAGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (41 bp):
CCCCTAAAATGAAAAATTTTAGGATCTAGCAAAGACCTCAA
Found at i:1563328 original size:16 final size:17
Alignment explanation
Indices: 1563302--1563339 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1563292 GATGGGAGGA
*
1563302 TTCTCTTCTTCTTCTTT
1 TTCTCTTCTTCATCTTT
1563319 TTCT-TTCTTCATCTTT
1 TTCTCTTCTTCATCTTT
*
1563335 CTCTC
1 TTCTC
1563340 CTTTTATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (17 bp):
TTCTCTTCTTCATCTTT
Found at i:1569862 original size:19 final size:20
Alignment explanation
Indices: 1569838--1569881 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
1569828 ATATAACTTT
*
1569838 AAAAAA-TAGTAATATTATA
1 AAAAAACTAATAATATTATA
*
1569857 AAAAAACCTAATGATATTATA
1 AAAAAA-CTAATAATATTATA
1569878 AAAA
1 AAAA
1569882 TTATAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAACTAATAATATTATA
Found at i:1570469 original size:19 final size:19
Alignment explanation
Indices: 1570394--1570472 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
1570384 CATCTTTTAA
1570394 TTAA-ATTTTTAAAA-ATT
1 TTAATATTTTTAAAATATT
* * *
1570411 TAAATATATTCAAAATATT
1 TTAATATTTTTAAAATATT
*
1570430 TTTAT-TCTTTTAAAATGATT
1 TTAATAT-TTTTAAAAT-ATT
1570450 TTAATGATTTTTAAAA-ATT
1 TTAAT-ATTTTTAAAATATT
1570469 TTAA
1 TTAA
1570473 AAATTAATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.06
18 9 0.19
19 20 0.42
20 7 0.15
21 8 0.17
22 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (19 bp):
TTAATATTTTTAAAATATT
Found at i:1576505 original size:150 final size:150
Alignment explanation
Indices: 1576229--1576531 Score: 554
Period size: 150 Copynumber: 2.0 Consensus size: 150
1576219 TTAAACGTAT
1576229 TGAGAATAGCTCTACAGTTAAGGAAACTGCTGGAAACAACTGCAATGAAGACAGTGAGGATTTAA
1 TGAGAATAGCTCTACAGTTAAGGAAACTGCTGGAAACAACTGCAATGAAGACAGTGAGGATTTAA
* *
1576294 GTCAAGTTGTTGATTCTTCAGGCTTAGAGGATGTGGTTAGTGGTGGAAGGTCAACTGAGGGAGAA
66 GTCAAGTTGTTGATTCTTCAGGCTTAGAGGATGTGGTTAGTGGTAGAAGGTCAACTAAGGGAGAA
*
1576359 AGTCCCATGGTTGATGATTC
131 AATCCCATGGTTGATGATTC
1576379 TGAGAATAGCTCTA-AGGTTAAGGAAACTGCTGGAAACAACTGCAATGAAGACAGTGAGGATTTA
1 TGAGAATAGCTCTACA-GTTAAGGAAACTGCTGGAAACAACTGCAATGAAGACAGTGAGGATTTA
*
1576443 AGTCAAGTTGTTGATTCTTTAGGCTTAGAGGATGTGGTTAGTGGTAGAAGGTCAACTAAGGGAGA
65 AGTCAAGTTGTTGATTCTTCAGGCTTAGAGGATGTGGTTAGTGGTAGAAGGTCAACTAAGGGAGA
1576508 AAATCCCATGGTTGATGATTC
130 AAATCCCATGGTTGATGATTC
1576529 TGA
1 TGA
1576532 TCGCCCTCCG
Statistics
Matches: 148, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 1 0.01
150 147 0.99
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (150 bp):
TGAGAATAGCTCTACAGTTAAGGAAACTGCTGGAAACAACTGCAATGAAGACAGTGAGGATTTAA
GTCAAGTTGTTGATTCTTCAGGCTTAGAGGATGTGGTTAGTGGTAGAAGGTCAACTAAGGGAGAA
AATCCCATGGTTGATGATTC
Found at i:1582761 original size:17 final size:17
Alignment explanation
Indices: 1582727--1582761 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1582717 GTTTTCTTTC
**
1582727 TTTATTTTTTTATTTTT
1 TTTATTTTTTTAAATTT
1582744 TTTATTTTTTTAAATTT
1 TTTATTTTTTTAAATTT
1582761 T
1 T
1582762 CATGGTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTTTTAAATTT
Found at i:1583126 original size:22 final size:22
Alignment explanation
Indices: 1583098--1583142 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1583088 ATCTATGCTC
1583098 CTCAAGCTGCCAATTGCATGTA
1 CTCAAGCTGCCAATTGCATGTA
1583120 CTCAAGCTGCCAATTGCATGTA
1 CTCAAGCTGCCAATTGCATGTA
1583142 C
1 C
1583143 ATTGCAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (22 bp):
CTCAAGCTGCCAATTGCATGTA
Found at i:1586175 original size:22 final size:20
Alignment explanation
Indices: 1586149--1586189 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1586139 CAAATATAAA
*
1586149 TTCATCTCATCTTGTATGTGGC
1 TTCATCT-ATCTGGTA-GTGGC
1586171 TTCATCTATCTGGTAGTGG
1 TTCATCTATCTGGTAGTGG
1586190 AACATGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.44
Consensus pattern (20 bp):
TTCATCTATCTGGTAGTGGC
Done.