Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 172 of 221
Found at i:51476262 original size:47 final size:47
Alignment explanation
Indices: 51476170--51476272 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 47
51476160 TAAACAAACC
* * *
51476170 AATAGATAAATGTGGAAAAGCCACCAGAATCGCATATAAACTGCCAG
1 AATAGATATATGTGGAAAAGCCACCAGAATCGCATACAAACTGCCAA
** * **
51476217 AATAGATATATGTGGTCAAGCCACCATAATCGCAGT-CAAGTTGCCAA
1 AATAGATATATGTGGAAAAGCCACCAGAATCGCA-TACAAACTGCCAA
*
51476264 AAAAGATAT
1 AATAGATAT
51476273 GTGGTTAAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
47 45 0.98
48 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (47 bp):
AATAGATATATGTGGAAAAGCCACCAGAATCGCATACAAACTGCCAA
Found at i:51477576 original size:17 final size:18
Alignment explanation
Indices: 51477545--51477597 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
51477535 TGAGTAAATC
* *
51477545 ATTTAGTTTTCTTTATTT
1 ATTTAGTTTTATTTAGTT
51477563 ATTTA-TTTTATTTAGTT
1 ATTTAGTTTTATTTAGTT
*
51477580 -TTTATTTTTATTTAGTT
1 ATTTAGTTTTATTTAGTT
51477597 A
1 A
51477598 AAATTTGACG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 4 0.13
17 22 0.71
18 5 0.16
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.72
Consensus pattern (18 bp):
ATTTAGTTTTATTTAGTT
Found at i:51479042 original size:22 final size:22
Alignment explanation
Indices: 51478999--51479057 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
51478989 GGGTAGGAAA
*
51478999 CTGCATCTGGT-TCTAATCTGTT
1 CTGCATCT-GTATCTGATCTGTT
*
51479021 CTGCATCTGTATCTGATTTGTT
1 CTGCATCTGTATCTGATCTGTT
*
51479043 ATGCATCT-TATCTGA
1 CTGCATCTGTATCTGA
51479058 ACCATTACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (22 bp):
CTGCATCTGTATCTGATCTGTT
Found at i:51484172 original size:15 final size:15
Alignment explanation
Indices: 51484152--51484183 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51484142 GCTTGCTATA
51484152 TTGTTCTTTTTTATG
1 TTGTTCTTTTTTATG
51484167 TTGTTCTTTTTTATG
1 TTGTTCTTTTTTATG
51484182 TT
1 TT
51484184 CATGCACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.12, T:0.75
Consensus pattern (15 bp):
TTGTTCTTTTTTATG
Found at i:51485749 original size:44 final size:44
Alignment explanation
Indices: 51485686--51485778 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
51485676 TCTCGACTTT
51485686 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
1 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
*
51485730 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAT
1 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
51485774 CATTT
1 CATTT
51485779 ATTGAATATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (44 bp):
CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
Found at i:51485782 original size:21 final size:22
Alignment explanation
Indices: 51485757--51485800 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
51485747 CAAATATAAG
*
51485757 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
51485778 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
51485800 T
1 T
51485801 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:51486547 original size:11 final size:12
Alignment explanation
Indices: 51486516--51486548 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
51486506 CCATTGATTC
51486516 ATTTAAATCAAAT
1 ATTTAAAT-AAAT
51486529 ATTTAAATAAAT
1 ATTTAAATAAAT
51486541 A-TTAAATA
1 ATTTAAATA
51486549 TAGCGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 5 0.25
13 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTAAATAAAT
Found at i:51488591 original size:5 final size:5
Alignment explanation
Indices: 51488581--51488606 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51488571 TGAGCATTCG
51488581 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
51488607 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:51489266 original size:16 final size:17
Alignment explanation
Indices: 51489237--51489268 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
51489227 AAGTTTAGGG
51489237 GGAAAATAAAAAGTTTT
1 GGAAAATAAAAAGTTTT
51489254 GGAAAAT-AAAAGTTT
1 GGAAAATAAAAAGTTT
51489269 GAGGAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (17 bp):
GGAAAATAAAAAGTTTT
Found at i:51489274 original size:17 final size:16
Alignment explanation
Indices: 51489237--51489281 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
51489227 AAGTTTAGGG
*
51489237 GGAAAATAAAAAGTTTT
1 GGAAAAT-AAAAGTTTA
51489254 GGAAAATAAAAGTTTGA
1 GGAAAATAAAAGTTT-A
51489271 GGAAAAGTAAA
1 GGAAAA-TAAA
51489282 TAGGAGGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 13 0.52
18 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (16 bp):
GGAAAATAAAAGTTTA
Found at i:51489646 original size:9 final size:9
Alignment explanation
Indices: 51489632--51489668 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
51489622 TATAGTTTGA
51489632 TATTCGAAT
1 TATTCGAAT
51489641 TATTCGAAT
1 TATTCGAAT
51489650 TATTCGAGA-
1 TATTCGA-AT
51489659 TATTCGAAT
1 TATTCGAAT
51489668 T
1 T
51489669 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 1 0.04
9 24 0.92
10 1 0.04
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:51494063 original size:16 final size:16
Alignment explanation
Indices: 51494041--51494109 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
51494031 TTTGGTTCGC
51494041 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
51494057 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
51494073 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
51494090 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
51494106 TGTA
1 TGTA
51494110 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:51494087 original size:33 final size:32
Alignment explanation
Indices: 51494041--51494109 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
51494031 TTTGGTTCGC
51494041 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
51494073 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
51494106 TGTA
1 TGTA
51494110 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:51494174 original size:44 final size:45
Alignment explanation
Indices: 51494090--51494180 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
51494080 GGATTAGAGG
* * *
51494090 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
51494135 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
51494179 TG
1 TG
51494181 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:51494366 original size:18 final size:17
Alignment explanation
Indices: 51494345--51494379 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51494335 TTATTATTAA
*
51494345 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
51494363 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
51494380 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:51494479 original size:120 final size:121
Alignment explanation
Indices: 51494328--51495314 Score: 1774
Period size: 121 Copynumber: 8.2 Consensus size: 121
51494318 ATCATATTTA
*
51494328 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAA-T
*
51494391 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
51494448 AACACAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATA
51494513 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
51494569 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATA
51494634 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
51494690 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATA
****
51494755 ATATAAGAATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
51494811 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAA-T
51494874 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
51494931 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAA-T
51494994 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
51495051 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATA
51495116 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
51495172 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAA-T
51495235 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
51495292 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
51495315 AACTTGAAAA
Statistics
Matches: 843, Mismatches: 18, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
119 2 0.00
120 369 0.44
121 470 0.56
122 2 0.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATA
ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:51494899 original size:38 final size:38
Alignment explanation
Indices: 51494844--51495020 Score: 103
Period size: 38 Copynumber: 4.5 Consensus size: 38
51494834 TTTAATTAAA
*
51494844 ATATATAATTTAATGAAATTCTTAATAATTAATATTCTT
1 ATAT-TAATTTACTGAAATTCTTAATAATTAATATTCTT
* * ***
51494883 ATATTAATTTACTGAAA-TCATAAT-ATATGATACTGTAAA
1 ATATTAATTTACTGAAATTCTTAATAAT-TAATA-T-TCTT
* * * **
51494922 ATATAAATTAACAT-AATTATTATTAAATATATTTTAATTAAAC-T
1 ATATTAATTTAC-TGAA--ATTCTT-AATA-A--TTAA-TATTCTT
*
51494966 ATA-TAATTTAATGAAATTCTTAATAATTAATATTCTT
1 ATATTAATTTACTGAAATTCTTAATAATTAATATTCTT
51495003 ATATTAATTTACTGAAAT
1 ATATTAATTTACTGAAAT
51495021 CATAATATAT
Statistics
Matches: 100, Mismatches: 22, Indels: 33
0.65 0.14 0.21
Matches are distributed among these distances:
36 5 0.05
37 18 0.18
38 26 0.26
39 18 0.18
40 5 0.05
41 6 0.06
42 3 0.03
43 10 0.10
44 3 0.03
45 1 0.01
46 2 0.02
47 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATTAATTTACTGAAATTCTTAATAATTAATATTCTT
Found at i:51495120 original size:241 final size:241
Alignment explanation
Indices: 51494328--51495314 Score: 1770
Period size: 241 Copynumber: 4.1 Consensus size: 241
51494318 ATCATATTTA
*
51494328 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
51494393 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACACAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
51494458 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATAATATTCTTAT
51494523 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
196 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
51494569 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-T-AATT
51494633 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
* ****
51494698 TATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATAAGA
129 TATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATAATATTCTT
51494763 ATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
194 ATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
51494811 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
51494876 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
51494941 TTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAA-T-AATTAATATTCTTA
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAA-TAATATTCTTA
51495004 TATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
195 TATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
51495051 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-T-AATT
51495115 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
51495180 TATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-T-AATTAATATTCT
129 TATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAA-TAATATTCT
51495243 TATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
193 TATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
51495292 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
51495315 AACTTGAAAA
Statistics
Matches: 723, Mismatches: 17, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
239 1 0.00
240 114 0.16
241 374 0.52
242 233 0.32
243 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (241 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATAATATTCTTAT
ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:51498377 original size:33 final size:33
Alignment explanation
Indices: 51498338--51498413 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
51498328 ATTATAAAGC
*
51498338 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
51498371 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
51498404 ATGTATAATT
1 ATGTATAATT
51498414 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:51498511 original size:37 final size:37
Alignment explanation
Indices: 51498456--51498537 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
51498446 GTATAAATAT
* * *
51498456 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
51498493 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
51498530 ATTGATTA
1 ATTGATTA
51498538 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:51508696 original size:19 final size:19
Alignment explanation
Indices: 51508661--51508715 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
51508651 CTTTACTTTA
* *
51508661 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
51508679 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
51508698 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
51508716 ATAACATAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:51508809 original size:20 final size:21
Alignment explanation
Indices: 51508784--51508824 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
51508774 TTGGCACCAT
* *
51508784 TTAATTTATTTAT-TTTATAA
1 TTAATTAATTAATATTTATAA
51508804 TTAATTAATTAATATTTATAA
1 TTAATTAATTAATATTTATAA
51508825 ATATCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAATTAATTAATATTTATAA
Found at i:51514980 original size:22 final size:22
Alignment explanation
Indices: 51514955--51515029 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
51514945 AGAGCATCGT
* *
51514955 AGTGCTAAATAGATAGCACAAA
1 AGTGCTAAATAGAGAGCACAGA
* * * *
51514977 AGTGCTGATTAGAGAGTACCGA
1 AGTGCTAAATAGAGAGCACAGA
* *
51514999 AGTACTGAATAGAGAGCACAGA
1 AGTGCTAAATAGAGAGCACAGA
51515021 AGTGCTAAA
1 AGTGCTAAA
51515030 CCCCTACAAG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (22 bp):
AGTGCTAAATAGAGAGCACAGA
Found at i:51515978 original size:29 final size:29
Alignment explanation
Indices: 51515945--51516001 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
51515935 CAAAAAATCA
*
51515945 TTAACCAACCT-TTGACCGAATTAGATCGG
1 TTAACCAA-CTATTAACCGAATTAGATCGG
*
51515974 TTAACCGACTGATTAACCGAATTAGATC
1 TTAACCAACT-ATTAACCGAATTAGATC
51516002 AGTTTAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 7 0.29
30 15 0.62
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (29 bp):
TTAACCAACTATTAACCGAATTAGATCGG
Found at i:51519289 original size:17 final size:17
Alignment explanation
Indices: 51519258--51519298 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
51519248 TCTTTTTTTC
51519258 TTTATTT-TGATTTATA
1 TTTATTTATGATTTATA
*
51519274 TTTATTTATTATTTATA
1 TTTATTTATGATTTATA
51519291 TTT-TTTAT
1 TTTATTTAT
51519299 ACTTTAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTATTTATGATTTATA
Found at i:51520370 original size:20 final size:19
Alignment explanation
Indices: 51520314--51520371 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
51520304 AGTAATAAAT
*
51520314 AATAAA-AAAAAGTAAT-A
1 AATAAATAAAAAATAATAA
*
51520331 AATAAAGTAAAGAA-AATAA
1 AATAAA-TAAAAAATAATAA
51520350 AATAAATAAATAAATAATAA
1 AATAAATAAA-AAATAATAA
51520370 AA
1 AA
51520372 ATTGGCTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 6 0.18
18 7 0.21
19 13 0.39
20 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (19 bp):
AATAAATAAAAAATAATAA
Found at i:51520373 original size:13 final size:13
Alignment explanation
Indices: 51520307--51520373 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 13
51520297 CCAAATAAGT
51520307 AATAAATAATAAA
1 AATAAATAATAAA
51520320 AA-AAAGTAAT--A
1 AATAAA-TAATAAA
51520331 AATAAAGTAA-AGAA
1 AATAAA-TAATA-AA
*
51520345 AATAAAATAA-ATA
1 AAT-AAATAATAAA
51520358 AATAAATAATAAA
1 AATAAATAATAAA
51520371 AAT
1 AAT
51520374 TGGCTTACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
11 3 0.07
12 16 0.36
13 15 0.33
14 8 0.18
15 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:51526835 original size:15 final size:14
Alignment explanation
Indices: 51526814--51526849 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
51526804 ATAATCCTTA
*
51526814 ATAATTATCTTAAT
1 ATAATTATCCTAAT
51526828 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
51526843 ATAATTA
1 ATAATTA
51526850 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:51564576 original size:22 final size:22
Alignment explanation
Indices: 51564551--51564597 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
51564541 ATATGGTACG
51564551 TGTCTTAGCTCAACACCTCACA
1 TGTCTTAGCTCAACACCTCACA
*
51564573 TGTCTTAGTTCAACACCTCACA
1 TGTCTTAGCTCAACACCTCACA
51564595 TGT
1 TGT
51564598 TAGGTAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (22 bp):
TGTCTTAGCTCAACACCTCACA
Found at i:51571369 original size:13 final size:13
Alignment explanation
Indices: 51571353--51571415 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
51571343 TTTAAACTAA
51571353 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
51571366 ACTTCTC-AAAGC
1 ACTTTTCAAAAGC
*
51571378 ACTTTTCTACAA-C
1 ACTTTTC-AAAAGC
* *
51571391 ATTTTTCAAAAAC
1 ACTTTTCAAAAGC
51571404 ACTTTTCAAAAG
1 ACTTTTCAAAAG
51571416 TAATGAAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
12 14 0.35
13 24 0.60
14 2 0.05
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:51572021 original size:24 final size:23
Alignment explanation
Indices: 51571990--51572038 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
51571980 TCTTTGAAGG
*
51571990 TATTTATATAATG-AAATAAATAA
1 TATTTATAT-ATGTAAATAAAAAA
51572013 TATTGTATATATGTAAATAAAAAA
1 TATT-TATATATGTAAATAAAAAA
51572037 TA
1 TA
51572039 AAAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (23 bp):
TATTTATATATGTAAATAAAAAA
Found at i:51573113 original size:15 final size:15
Alignment explanation
Indices: 51573093--51573123 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51573083 ATTTTGATTA
*
51573093 TTATTTTAAAATAAT
1 TTATTTTAAAAAAAT
51573108 TTATTTTAAAAAAAT
1 TTATTTTAAAAAAAT
51573123 T
1 T
51573124 ACTTAGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATTTTAAAAAAAT
Found at i:51573460 original size:14 final size:16
Alignment explanation
Indices: 51573437--51573479 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
51573427 TTAAAAAATA
*
51573437 AACTGCTAAATTTT-T
1 AACTGTTAAATTTTAT
51573452 -ACTGTTAAATTTTAT
1 AACTGTTAAATTTTAT
*
51573467 AAGTGTTAAATTT
1 AACTGTTAAATTT
51573480 ATATTAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 1 0.04
16 11 0.46
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (16 bp):
AACTGTTAAATTTTAT
Found at i:51575248 original size:9 final size:9
Alignment explanation
Indices: 51575234--51575333 Score: 94
Period size: 9 Copynumber: 11.1 Consensus size: 9
51575224 CCTGGCATTA
51575234 GTGGGATTT
1 GTGGGATTT
*
51575243 GTGGGACTT
1 GTGGGATTT
*
51575252 GTGGGATCT
1 GTGGGATTT
*
51575261 GTGGGATTA
1 GTGGGATTT
*
51575270 GTGGAATTT
1 GTGGGATTT
51575279 GTGGGATTT
1 GTGGGATTT
*
51575288 GTGGGATCT
1 GTGGGATTT
* *
51575297 GGGGGATCT
1 GTGGGATTT
*
51575306 GTGGAATTCT
1 GTGGGATT-T
51575316 -TGGGATTT
1 GTGGGATTT
* *
51575324 CTGGAATTT
1 GTGGGATTT
51575333 G
1 G
51575334 AGGAAATGGT
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
8 1 0.01
9 71 0.97
10 1 0.01
ACGTcount: A:0.15, C:0.06, G:0.41, T:0.38
Consensus pattern (9 bp):
GTGGGATTT
Found at i:51575320 original size:36 final size:36
Alignment explanation
Indices: 51575230--51575323 Score: 129
Period size: 36 Copynumber: 2.6 Consensus size: 36
51575220 CTGTCCTGGC
* * *
51575230 ATTAGTGGGATTTGTGGGACTTGTGGGATCTGTGGG
1 ATTAGTGGAATTTGTGGGATTTGTGGGATCTGGGGG
51575266 ATTAGTGGAATTTGTGGGATTTGTGGGATCTGGGGG
1 ATTAGTGGAATTTGTGGGATTTGTGGGATCTGGGGG
51575302 ATCT-GTGGAATTCT-TGGGATTT
1 AT-TAGTGGAATT-TGTGGGATTT
51575324 CTGGAATTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 51 0.96
37 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.40, T:0.38
Consensus pattern (36 bp):
ATTAGTGGAATTTGTGGGATTTGTGGGATCTGGGGG
Found at i:51576501 original size:25 final size:25
Alignment explanation
Indices: 51576473--51576522 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
51576463 ATATAAAAAA
51576473 AAGATAAAATTACCATTAAAGACAT
1 AAGATAAAATTACCATTAAAGACAT
51576498 AAGATAAAATTACCATTAAAGACAT
1 AAGATAAAATTACCATTAAAGACAT
51576523 CTACTTGAAC
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:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (25 bp):
AAGATAAAATTACCATTAAAGACAT
Found at i:51577974 original size:25 final size:23
Alignment explanation
Indices: 51577925--51577975 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
51577915 TATATTTTTA
* *
51577925 TATTTTTCTTATGTTCATAAGTG
1 TATTTTTCTTATATTCATAAATG
*
51577948 TATTTTTTTTATATTCATATTAATG
1 TATTTTTCTTATATTCATA--AATG
51577973 TAT
1 TAT
51577976 ATATTATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
25 6 0.26
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (23 bp):
TATTTTTCTTATATTCATAAATG
Found at i:51578168 original size:15 final size:15
Alignment explanation
Indices: 51578115--51578177 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
51578105 TTAATTTCGC
*
51578115 TTATTGATTTATTTA
1 TTATTGATGTATTTA
* * *
51578130 -TATTAATG-ATATG
1 TTATTGATGTATTTA
*
51578143 TCATTGATGTATTTA
1 TTATTGATGTATTTA
*
51578158 TTATTGTTGTATTTA
1 TTATTGATGTATTTA
51578173 TTATT
1 TTATT
51578178 ATAGCATTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
13 3 0.08
14 12 0.33
15 21 0.58
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (15 bp):
TTATTGATGTATTTA
Found at i:51578569 original size:98 final size:98
Alignment explanation
Indices: 51578451--51578647 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
51578441 TTAAAAATAA
* * *
51578451 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
51578516 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
51578549 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
51578614 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
51578647 T
1 T
51578648 TTTATTGTAC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:51579206 original size:29 final size:27
Alignment explanation
Indices: 51579174--51579249 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 27
51579164 ACTTTAAATA
51579174 TATAGTTATATATTTTATTATCTTA-TGTT
1 TATA-TTATATATTTTATTAT-TTACTG-T
*
51579203 TATATTTATCTATTTTTAATTATTTACTGT
1 TATA-TTATATA-TTTT-ATTATTTACTGT
*
51579233 TATATTATAAATTTTAT
1 TATATTATATATTTTAT
51579250 ATATGAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 15 0.38
30 12 0.30
31 7 0.17
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
TATATTATATATTTTATTATTTACTGT
Found at i:51580547 original size:17 final size:17
Alignment explanation
Indices: 51580514--51580548 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51580504 TAGGAACCTT
* *
51580514 AACCTAAACTTAGTTTG
1 AACCTAAACTCAATTTG
51580531 AACCTAAACTCAATTTG
1 AACCTAAACTCAATTTG
51580548 A
1 A
51580549 CTACCTTGCA
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:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (17 bp):
AACCTAAACTCAATTTG
Found at i:51588559 original size:41 final size:41
Alignment explanation
Indices: 51588501--51588681 Score: 119
Period size: 41 Copynumber: 4.5 Consensus size: 41
51588491 ATTGAAATTA
*
51588501 TATATTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
1 TATATTTTA-TAGTATTATATTTAATAATAATTATGTTAAAT
* * *
51588542 TATATTTTATAGTATTATATATT-ATGAT-TTTA-G-GAAAT
1 TATATTTTATAGTATTATAT-TTAATAATAATTATGTTAAAT
* * * * * * * *
51588580 TCATA--TAAGAATATT-TA-ATATTAAGAATTTTATTAAAT
1 T-ATATTTTATAGTATTATATTTAATAATAATTATGTTAAAT
* *
51588618 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
1 TATAT-TTTATAGT--ATTATATTTAATAATAATTATGTTAAAT
51588662 TATATTTTATAGTATTATAT
1 TATATTTTATAGTATTATAT
51588682 ATTATGATTT
Statistics
Matches: 100, Mismatches: 26, Indels: 28
0.65 0.17 0.18
Matches are distributed among these distances:
34 1 0.01
35 2 0.02
36 4 0.04
37 10 0.10
38 10 0.10
39 4 0.04
40 8 0.08
41 27 0.27
42 5 0.05
43 8 0.08
44 21 0.21
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (41 bp):
TATATTTTATAGTATTATATTTAATAATAATTATGTTAAAT
Found at i:51588623 original size:37 final size:37
Alignment explanation
Indices: 51588576--51588743 Score: 88
Period size: 38 Copynumber: 4.3 Consensus size: 37
51588566 TGATTTTAGG
51588576 AAATTCATATAAGAATATTTAATATTAAGAATTTTATT
1 AAATT-ATATAAGAATATTTAATATTAAGAATTTTATT
**** * * *
51588614 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTT
1 AAATTATATAAGAATATT---TAATA-TTAAGAAT--TT-TATT
*** * **
51588658 AAATTATAT-TTTATAGTATTATATATTATG-ATTTTAGA
1 AAATTATATAAGAATA-T-TTA-ATATTAAGAATTTTATT
51588696 AAATTCATATAAGAATATTTAATATTAAGAATTTTATT
1 AAATT-ATATAAGAATATTTAATATTAAGAATTTTATT
*
51588734 AAATCATATA
1 AAATTATATA
51588744 TTTTAATTAA
Statistics
Matches: 96, Mismatches: 21, Indels: 27
0.67 0.15 0.19
Matches are distributed among these distances:
37 21 0.22
38 24 0.25
39 7 0.07
40 7 0.07
41 9 0.09
42 4 0.04
43 10 0.10
44 13 0.14
45 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (37 bp):
AAATTATATAAGAATATTTAATATTAAGAATTTTATT
Found at i:51588648 original size:120 final size:120
Alignment explanation
Indices: 51588495--51588900 Score: 690
Period size: 120 Copynumber: 3.4 Consensus size: 120
51588485 TAAGTAATTG
*
51588495 AAATTATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
*
51588559 TATATTATGATTTTAGGAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
* *
51588614 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
51588679 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
* * *
51588734 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATC
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATT
* * * *
51588798 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
51588854 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
51588901 ATATGATTAA
Statistics
Matches: 272, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
119 16 0.06
120 254 0.93
121 2 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
Found at i:51588874 original size:18 final size:17
Alignment explanation
Indices: 51588846--51588880 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51588836 ATTATTAAGA
*
51588846 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51588863 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51588881 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51589100 original size:44 final size:45
Alignment explanation
Indices: 51589037--51589133 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
51589027 CTATTACACC
*
51589037 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTATAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTATAT
* * * *
51589081 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTATAT
51589126 TCCATTAC
1 TCCATTAC
51589134 GTCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTATAT
Found at i:51589134 original size:16 final size:16
Alignment explanation
Indices: 51589113--51589161 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
51589103 TTGATTTGCT
51589113 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
51589129 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
*
51589145 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
51589161 A
1 A
51589162 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:51590391 original size:31 final size:31
Alignment explanation
Indices: 51590318--51590384 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
51590308 ACAATTTGGC
51590318 CACTAAACTATTTAAAAATTTTCATTTAAGT
1 CACTAAACTATTTAAAAATTTTCATTTAAGT
* *
51590349 CACTAAACTATTTAAAAGTTTTTATTTAAGT
1 CACTAAACTATTTAAAAATTTTCATTTAAGT
51590380 CACTA
1 CACTA
51590385 GGCTATTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (31 bp):
CACTAAACTATTTAAAAATTTTCATTTAAGT
Found at i:51592354 original size:19 final size:19
Alignment explanation
Indices: 51592332--51592379 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
51592322 ATGGTGTTTT
51592332 ATTAGTGGAACTGTGTCTG
1 ATTAGTGGAACTGTGTCTG
* *
51592351 ATTAGTGAAACTGTGTGTG
1 ATTAGTGGAACTGTGTCTG
51592370 ATTAGTGGAA
1 ATTAGTGGAA
51592380 TCGTATGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.35
Consensus pattern (19 bp):
ATTAGTGGAACTGTGTCTG
Found at i:51599711 original size:25 final size:25
Alignment explanation
Indices: 51599683--51599734 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
51599673 TATGTGTGGT
*
51599683 GAATAGAAATGGCTATAAATGATTG
1 GAATAGAAATGGATATAAATGATTG
51599708 GAATAGAAATGGATATAAATGATTG
1 GAATAGAAATGGATATAAATGATTG
51599733 GA
1 GA
51599735 TTAATACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.25, T:0.27
Consensus pattern (25 bp):
GAATAGAAATGGATATAAATGATTG
Found at i:51600624 original size:17 final size:17
Alignment explanation
Indices: 51600582--51600714 Score: 135
Period size: 17 Copynumber: 7.9 Consensus size: 17
51600572 TGACAATGTA
51600582 CGAGCTGTGTTTATATG
1 CGAGCTGTGTTTATATG
** * *
51600599 TTAGTTGTGCTTATATG
1 CGAGCTGTGTTTATATG
51600616 CGAGCTGTGTTTATATG
1 CGAGCTGTGTTTATATG
* *
51600633 TGAGCTATGTTTATATG
1 CGAGCTGTGTTTATATG
* *
51600650 CGAGTTGTGTTTGTATG
1 CGAGCTGTGTTTATATG
*
51600667 CGAGCTGCG-TTATATG
1 CGAGCTGTGTTTATATG
* * *
51600683 C-AGGTTGTATTTATATA
1 CGA-GCTGTGTTTATATG
51600700 CGAGCTGTGTTTATA
1 CGAGCTGTGTTTATA
51600715 AGTGAATTGT
Statistics
Matches: 90, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
15 1 0.01
16 10 0.11
17 78 0.87
18 1 0.01
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.44
Consensus pattern (17 bp):
CGAGCTGTGTTTATATG
Found at i:51602679 original size:38 final size:38
Alignment explanation
Indices: 51602636--51602780 Score: 200
Period size: 38 Copynumber: 3.8 Consensus size: 38
51602626 TGAAATACCA
51602636 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
* * *
51602674 TATATACTGAATGCTGCTCAGTCGAGCAAAATCTACTG
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
** * * *
51602712 AATATACTGAACATTTCTCAATCGAGCAAAATTTATTG
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
* *
51602750 AATATACTGAATGTCGCTCAATTGAGCAAAA
1 AATATACTGAATGTTGCTCAATCGAGCAAAA
51602781 GAATTCACTG
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (38 bp):
AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
Found at i:51602762 original size:76 final size:76
Alignment explanation
Indices: 51602636--51602816 Score: 204
Period size: 76 Copynumber: 2.3 Consensus size: 76
51602626 TGAAATACCA
** * *
51602636 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTGTATATACTGAATG-CTGCTCAGTCGAG
1 AATATACTGAACATTGCTCAATCGAGCAAAATCTACTGAATATACTGAATGTC-GCTCAATCGAG
51602700 CAAAATCTACTG
65 CAAAATCTACTG
* * * *
51602712 AATATACTGAACATTTCTCAATCGAGCAAAATTTATTGAATATACTGAATGTCGCTCAATTGAGC
1 AATATACTGAACATTGCTCAATCGAGCAAAATCTACTGAATATACTGAATGTCGCTCAATCGAGC
51602777 AAAAGAAT-TCACTG
66 --AA-AATCT-ACTG
* * *
51602791 ATTATACTGAGCATTGCTCAAGCGAG
1 AATATACTGAACATTGCTCAATCGAG
51602817 TGTTATCCAC
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
76 55 0.62
77 1 0.01
78 3 0.03
79 29 0.33
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (76 bp):
AATATACTGAACATTGCTCAATCGAGCAAAATCTACTGAATATACTGAATGTCGCTCAATCGAGC
AAAATCTACTG
Found at i:51605094 original size:9 final size:9
Alignment explanation
Indices: 51605077--51605114 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
51605067 GACTAAGATT
51605077 TTCGAGTAA
1 TTCGAGTAA
*
51605086 TTCGGGTAA
1 TTCGAGTAA
*
51605095 TTCGGGTAA
1 TTCGAGTAA
51605104 TTCGAGTAA
1 TTCGAGTAA
51605113 TT
1 TT
51605115 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (9 bp):
TTCGAGTAA
Found at i:51606760 original size:7 final size:7
Alignment explanation
Indices: 51606748--51606777 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
51606738 GTAGTCTTTG
51606748 AAAATTT
1 AAAATTT
51606755 AAAATTT
1 AAAATTT
51606762 AAAATTT
1 AAAATTT
51606769 AAAATTT
1 AAAATTT
51606776 AA
1 AA
51606778 TTATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:51607663 original size:7 final size:7
Alignment explanation
Indices: 51607653--51607678 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51607643 AAAAACATAA
51607653 TTTTATT
1 TTTTATT
51607660 TTTTATT
1 TTTTATT
51607667 TTTTATT
1 TTTTATT
51607674 TTTTA
1 TTTTA
51607679 AATTTCCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:51610729 original size:141 final size:140
Alignment explanation
Indices: 51610554--51610835 Score: 555
Period size: 140 Copynumber: 2.0 Consensus size: 140
51610544 ATTTTAGAGT
51610554 AACTAATGATTTAGTTTACCATTAACTATTTTATTATTATTACATAATGTTACACTCAAGATGTG
1 AACTAATGATTTAGTTTACCATTAACTATTTTATTATTATTACATAATGTTACACTCAAGATGTG
51610619 GGTTAAAAAAATATTTATTTAACAAATTTATACAAATTGATATAAAAATCAAATTTGACTTTGGT
66 GGTT-AAAAAATATTTATTTAACAAATTTATACAAATTGATATAAAAATCAAATTTGACTTTGGT
51610684 TGGGCGGTGAG
130 TGGGCGGTGAG
51610695 AACTAATGATTTAGTTTACCATTAACTATTTTATTATTATTACATAATGTTACACTCAAGATGTG
1 AACTAATGATTTAGTTTACCATTAACTATTTTATTATTATTACATAATGTTACACTCAAGATGTG
51610760 GGTTAAAAAATATTTATTTAACAAATTTATACAAATTGATATAAAAATCAAATTTGACTTTGGTT
66 GGTTAAAAAATATTTATTTAACAAATTTATACAAATTGATATAAAAATCAAATTTGACTTTGGTT
51610825 GGGCGGTGAG
131 GGGCGGTGAG
51610835 A
1 A
51610836 TTAGCAGTGA
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
140 72 0.51
141 69 0.49
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.39
Consensus pattern (140 bp):
AACTAATGATTTAGTTTACCATTAACTATTTTATTATTATTACATAATGTTACACTCAAGATGTG
GGTTAAAAAATATTTATTTAACAAATTTATACAAATTGATATAAAAATCAAATTTGACTTTGGTT
GGGCGGTGAG
Found at i:51612513 original size:19 final size:20
Alignment explanation
Indices: 51612492--51612563 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
51612482 TTCCTATAAA
51612492 ATATTAAAAATCATAAAAA-
1 ATATTAAAAATCATAAAAAC
* *
51612511 ATATAAAAAATCAGAAAAAC
1 ATATTAAAAATCATAAAAAC
* *
51612531 ATTATCAAAATAT-ATAAAAAT
1 A-TATTAAAA-ATCATAAAAAC
51612552 ATATTTAAAAAT
1 ATA-TTAAAAAT
51612564 ATATGAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 17 0.40
20 5 0.12
21 19 0.44
22 2 0.05
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (20 bp):
ATATTAAAAATCATAAAAAC
Found at i:51612552 original size:10 final size:10
Alignment explanation
Indices: 51612489--51612688 Score: 91
Period size: 10 Copynumber: 20.3 Consensus size: 10
51612479 CTTTTCCTAT
51612489 AAAATAT-TA
1 AAAATATATA
51612498 AAAATCATA-A
1 AAAAT-ATATA
51612508 AAAATATA-A
1 AAAATATATA
*
51612517 AAAATCAGA-A
1 AAAAT-ATATA
*
51612527 AAACAT-TATC
1 AAA-ATATATA
51612537 AAAATATATA
1 AAAATATATA
51612547 AAAATATATTTA
1 AAAATATA--TA
*
51612559 AAAATATATG
1 AAAATATATA
*
51612569 AAAAT-TGGTA
1 AAAATAT-ATA
*
51612579 TAAACT-TATA
1 -AAAATATATA
*
51612589 AACATATA-A
1 AAAATATATA
* *
51612598 TAAAT-TATG
1 AAAATATATA
*
51612607 AAATTA-ATA
1 AAAATATATA
*
51612616 AAACATA-ATT
1 AAA-ATATATA
*
51612626 AAAATATTTA
1 AAAATATATA
* *
51612636 AAATTCTATA
1 AAAATATATA
*
51612646 AAAATGTATTA
1 AAAATATA-TA
*
51612657 AAATTATATA
1 AAAATATATA
*
51612667 AAAATATAAA
1 AAAATATATA
51612677 AAAATAT-TA
1 AAAATATATA
51612686 AAA
1 AAA
51612689 TTGGTATAAG
Statistics
Matches: 144, Mismatches: 31, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
8 2 0.01
9 40 0.28
10 77 0.53
11 15 0.10
12 10 0.07
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAATATATA
Found at i:51612680 original size:21 final size:21
Alignment explanation
Indices: 51612635--51612688 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
51612625 TAAAATATTT
* * **
51612635 AAAATTCTATAAAAATGTATT
1 AAAATTATATAAAAATATAAA
51612656 AAAATTATATAAAAATATAAA
1 AAAATTATATAAAAATATAAA
51612677 AAAA-TAT-TAAAA
1 AAAATTATATAAAA
51612689 TTGGTATAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 5 0.17
20 3 0.10
21 21 0.72
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTATATAAAAATATAAA
Found at i:51613183 original size:9 final size:9
Alignment explanation
Indices: 51613121--51613299 Score: 62
Period size: 9 Copynumber: 19.0 Consensus size: 9
51613111 CCAATTCAAG
*
51613121 TTTTTATGAT
1 TTTTTAT-AA
*
51613131 TTTTTACTTA
1 TTTTTA-TAA
51613141 TTTTTATAA
1 TTTTTATAA
* *
51613150 GTTTATACCAA
1 -TTTTTA-TAA
* *
51613161 TTTTAATATT
1 TTTTTATA-A
51613171 TTTTTATAA
1 TTTTTATAA
* *
51613180 TTTTAAGAA
1 TTTTTATAA
* *
51613189 TTCTAATAA
1 TTTTTATAA
51613198 TTTTTA-AA
1 TTTTTATAA
51613206 -TTTTA-AA
1 TTTTTATAA
51613213 TATTTTAATTAA
1 T-TTTT-A-TAA
*
51613225 GTTTTATTAA
1 TTTTTA-TAA
51613235 -TTTTATAA
1 TTTTTATAA
*
51613243 TTTATTA-GA
1 TTT-TTATAA
51613252 TTTTTATAA
1 TTTTTATAA
* *
51613261 TATTTATATG
1 TTTTTATA-A
*
51613271 TTTTTGTAA
1 TTTTTATAA
51613280 TTTTTTTATAA
1 --TTTTTATAA
*
51613291 TTTTAATAA
1 TTTTTATAA
51613300 GTTTACGTCA
Statistics
Matches: 127, Mismatches: 27, Indels: 31
0.69 0.15 0.17
Matches are distributed among these distances:
7 7 0.06
8 8 0.06
9 52 0.41
10 43 0.34
11 15 0.12
12 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:51613190 original size:28 final size:26
Alignment explanation
Indices: 51613140--51613266 Score: 96
Period size: 27 Copynumber: 4.6 Consensus size: 26
51613130 TTTTTTACTT
*
51613140 ATTTTTATAAGTTTATACCAATTTTAATA
1 ATTTTTATAA-TTT-TA-AAATTTTAATA
* *
51613169 TTTTTTTATAATTTTAAGAATTCTAATA
1 -ATTTTTATAATTTTAA-AATTTTAATA
51613197 ATTTTTA-AATTTTAAATATTTTAATTA
1 ATTTTTATAATTTTAAA-ATTTTAA-TA
* * *
51613224 AGTTTTATTAATTTTATAA-TTTATTA
1 ATTTTTA-TAATTTTAAAATTTTAATA
51613250 GATTTTTATAATATTTA
1 -ATTTTTATAAT-TTTA
51613267 TATGTTTTTG
Statistics
Matches: 81, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.01
26 20 0.25
27 28 0.35
28 12 0.15
29 11 0.14
30 9 0.11
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTTATAATTTTAAAATTTTAATA
Found at i:51613230 original size:46 final size:47
Alignment explanation
Indices: 51613159--51613265 Score: 105
Period size: 46 Copynumber: 2.3 Consensus size: 47
51613149 AGTTTATACC
*
51613159 AATTTT-AATATTTTTTTATAATTTTAAGAATTCTAATAATTT-TTA-
1 AATTTTAAATATTTTATTATAATTTTAAGAATT-TAATAATTTATTAG
* ** *
51613204 AATTTTAAATATTTTAATTA-AGTTTTATTAATTTTATAATTTATTAG
1 AATTTTAAATATTTT-ATTATAATTTTAAGAATTTAATAATTTATTAG
*
51613251 ATTTTTATAATATTT
1 AATTTTA-AATATTT
51613266 ATATGTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
45 14 0.27
46 21 0.41
47 9 0.18
48 7 0.14
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (47 bp):
AATTTTAAATATTTTATTATAATTTTAAGAATTTAATAATTTATTAG
Found at i:51613261 original size:26 final size:26
Alignment explanation
Indices: 51613171--51613304 Score: 94
Period size: 27 Copynumber: 4.8 Consensus size: 26
51613161 TTTTAATATT
* *
51613171 TTTTTATAATTTTAAGAATTCTAATAA
1 TTTTTATAATTTTAATAATT-TATTAA
*
51613198 TTTTTA-AATTTTAAATATTTTAATTAA
1 TTTTTATAATTTT-AATAATTT-ATTAA
*
51613225 GTTTTATTAATTTT-ATAATTTATTAGA
1 TTTTTA-TAATTTTAATAATTTATTA-A
* *
51613252 TTTTTATAATATTT-ATATGTTTTTGTAA
1 TTTTTATAAT-TTTAATA-ATTTAT-TAA
51613280 TTTTTTTATAATTTTAATAAGTTTA
1 --TTTTTATAATTTTAATAA-TTTA
51613305 CGTCAATTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
26 15 0.18
27 38 0.45
28 5 0.06
29 11 0.13
30 16 0.19
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTATAATTTTAATAATTTATTAA
Found at i:51616040 original size:12 final size:12
Alignment explanation
Indices: 51616019--51616054 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
51616009 TGGCCTAATA
51616019 TATATATATATC
1 TATATATATATC
*
51616031 TATATCTATATC
1 TATATATATATC
51616043 TATATATATATC
1 TATATATATATC
51616055 AACCCCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATATATATC
Found at i:51616151 original size:21 final size:21
Alignment explanation
Indices: 51616127--51616169 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
51616117 ATCTCTTTCA
51616127 AATTTCT-CTCAATTTCTTATT
1 AATTTCTACTCAATTT-TTATT
51616148 AATTTCTCACTCAATTTTTATT
1 AATTTCT-ACTCAATTTTTATT
51616170 CCTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTCTACTCAATTTTTATT
Found at i:51616182 original size:23 final size:23
Alignment explanation
Indices: 51616134--51616178 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
51616124 TCAAATTTCT
*
51616134 CTCAATTTCTTATTAATTTCTCA
1 CTCAATTTCTTATTAATCTCTCA
**
51616157 CTCAATTT-TTATTCCTCTCTCA
1 CTCAATTTCTTATTAATCTCTCA
51616179 ACTCTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (23 bp):
CTCAATTTCTTATTAATCTCTCA
Found at i:51616354 original size:5 final size:5
Alignment explanation
Indices: 51616344--51616369 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51616334 AATTTATACT
51616344 ATTTA ATTTA ATTTA ATTTA ATTTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA A
51616370 ATATTTCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTA
Found at i:51617375 original size:12 final size:12
Alignment explanation
Indices: 51617358--51617382 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51617348 GCAGCTTTTT
51617358 TTTCTTTTCTTA
1 TTTCTTTTCTTA
51617370 TTTCTTTTCTTA
1 TTTCTTTTCTTA
51617382 T
1 T
51617383 CTTTCATCGT
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTTCTTA
Found at i:51618204 original size:6 final size:6
Alignment explanation
Indices: 51618193--51618274 Score: 53
Period size: 6 Copynumber: 12.8 Consensus size: 6
51618183 CACGCTCAGA
* *
51618193 AAAAAG AAAAAG AAAAAT AAGAAA- AGAAAAG -AAAAG AATAATG AAAAAG
1 AAAAAG AAAAAG AAAAAG AA-AAAG A-AAAAG AAAAAG AA-AAAG AAAAAG
51618242 AATAAGAGGG AAAATA- AAAAAG AAAAAG AAAAA
1 AA-AA-A--G AAAA-AG AAAAAG AAAAAG AAAAA
51618275 TAAGAGAAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
5 6 0.10
6 38 0.61
7 11 0.18
8 1 0.02
9 3 0.05
10 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:51618208 original size:5 final size:5
Alignment explanation
Indices: 51618194--51618290 Score: 51
Period size: 5 Copynumber: 19.4 Consensus size: 5
51618184 ACGCTCAGAA
*
51618194 AAAAG AAAAAG AAAA- ATAAG AAAAG AAAAG AAAAG AATAATG AAAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AA-G -AAAAG
** * * * *
51618242 AATAAG -AGGG AAAAT AAAA- AAGA- AAAAG AAAA- ATAAG AGAAG AAAAG
1 AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
51618289 AA
1 AA
51618291 TAATGAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
4 13 0.18
5 42 0.59
6 11 0.15
7 3 0.04
8 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:51618208 original size:13 final size:13
Alignment explanation
Indices: 51618190--51618274 Score: 61
Period size: 13 Copynumber: 6.5 Consensus size: 13
51618180 AGGCACGCTC
51618190 AGAAAAAAGAAAA
1 AGAAAAAAGAAAA
51618203 AGAAAAATA-AGAAA
1 AGAAAAA-AGA-AAA
51618217 AG--AAAAG-AAA
1 AGAAAAAAGAAAA
* *
51618227 AGAATAATGAAAA
1 AGAAAAAAGAAAA
* *
51618240 AGAATAAGAGGGAAA
1 AGAA-AA-AAGAAAA
*
51618255 ATAAAAAAGAAAA
1 AGAAAAAAGAAAA
51618268 AGAAAAA
1 AGAAAAA
51618275 TAAGAGAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
10 5 0.09
11 1 0.02
12 6 0.11
13 26 0.47
14 9 0.16
15 8 0.15
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (13 bp):
AGAAAAAAGAAAA
Found at i:51618216 original size:9 final size:10
Alignment explanation
Indices: 51618194--51618290 Score: 51
Period size: 9 Copynumber: 9.7 Consensus size: 10
51618184 ACGCTCAGAA
51618194 AAAAGAAAAAG
1 AAAAG-AAAAG
*
51618205 AAAA-ATAAG
1 AAAAGAAAAG
51618214 AAAAGAAAAG
1 AAAAGAAAAG
51618224 AAAAGAATAATG
1 AAAAGAA-AA-G
51618236 AAAAAGAATAAG
1 -AAAAGAA-AAG
** *
51618248 -AGGGAAAAT
1 AAAAGAAAAG
*
51618257 AAAA-AAGA-
1 AAAAGAAAAG
51618265 AAAAGAAAA-
1 AAAAGAAAAG
* *
51618274 ATAAGAGAAG
1 AAAAGAAAAG
51618284 AAAAGAA
1 AAAAGAA
51618291 TAATGAAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
8 4 0.06
9 23 0.35
10 21 0.32
11 6 0.09
12 2 0.03
13 10 0.15
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:51618254 original size:28 final size:30
Alignment explanation
Indices: 51618190--51618300 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 30
51618180 AGGCACGCTC
* * *
51618190 AGAA-AAAAGAA-AAAGAAAAATAAGAAAAG
1 AGAAGAAAAGAATAATGAAAAAGAA-ATAAG
*
51618219 AAAAGAAAAGAATAATGAAAAAG-AATAAG
1 AGAAGAAAAGAATAATGAAAAAGAAATAAG
* * * *
51618248 AG-GGAAAATAAAAAAGAAAAAGAAAAATAAG
1 AGAAGAAAAGAATAATGAAAAAG--AAATAAG
51618279 AGAAGAAAAGAATAATGAAAAA
1 AGAAGAAAAGAATAATGAAAAA
51618301 TAAGATTCCA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
28 16 0.25
29 8 0.13
30 8 0.13
31 16 0.25
32 15 0.24
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (30 bp):
AGAAGAAAAGAATAATGAAAAAGAAATAAG
Found at i:51623824 original size:20 final size:19
Alignment explanation
Indices: 51623762--51623818 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
51623752 TTTACATCTC
*
51623762 AAAAAATTATAAAAAAAATT
1 AAAAAA-TATAAAAAAACTT
*
51623782 AAAGAATATATAAAAAACTT
1 AAAAAATATA-AAAAAACTT
51623802 AAAAAATATAAAAAAAC
1 AAAAAATATAAAAAAAC
51623819 CCTAAATCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAAATATAAAAAAACTT
Found at i:51624335 original size:38 final size:38
Alignment explanation
Indices: 51624279--51624418 Score: 219
Period size: 38 Copynumber: 3.6 Consensus size: 38
51624269 AATAAATTTA
*
51624279 TTTTTTTATTTTTAAATTTTAAAACATTTTTAAAATAC-
1 TTTTTTTATTTTTTAATTTTAAAA-ATTTTTAAAATACT
*
51624317 TTTTTTTATTTTTTAATTTTAAAATTTTTTAAAATACT
1 TTTTTTTATTTTTTAATTTTAAAAATTTTTAAAATACT
51624355 TTTTTTTATTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTTTTATTTTTTAATTTTAAAA-ATTTTTAAAATAC-T
*
51624395 TTTTTTTATTTTTTATTTTTAAAA
1 TTTTTTTATTTTTTAATTTTAAAA
51624419 TAAATTTTTG
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
37 12 0.13
38 47 0.49
39 12 0.13
40 24 0.25
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (38 bp):
TTTTTTTATTTTTTAATTTTAAAAATTTTTAAAATACT
Found at i:51625826 original size:19 final size:20
Alignment explanation
Indices: 51625780--51625827 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
51625770 TAAATGAAAA
*
51625780 AATAAAAAAATTATAATTTG
1 AATAAATAAATTATAATTTG
* *
51625800 AAT-TATAAATTAT-ATTTT
1 AATAAATAAATTATAATTTG
51625818 AATAAATAAA
1 AATAAATAAA
51625828 ATAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATAAATAAATTATAATTTG
Found at i:51627046 original size:22 final size:23
Alignment explanation
Indices: 51627003--51627051 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
51626993 AGCCTTGGTT
* *
51627003 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
51627026 ATTAAAACTA-ATTGTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
51627048 ATTA
1 ATTA
51627052 TATCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAAAACTATATTGTTATTAAA
Found at i:51627060 original size:22 final size:21
Alignment explanation
Indices: 51627000--51627057 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
51626990 CCGAGCCTTG
51627000 GTTATTAAAATTATAT---TT
1 GTTATTAAAATTATATCAATT
* *
51627018 -TTATTAAAATTAAAACTAATT
1 GTTATTAAAATTATATC-AATT
51627039 GTTATTAAAATTATATCAA
1 GTTATTAAAATTATATCAA
51627058 ATTATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
GTTATTAAAATTATATCAATT
Found at i:51627130 original size:19 final size:19
Alignment explanation
Indices: 51627106--51627186 Score: 57
Period size: 18 Copynumber: 4.5 Consensus size: 19
51627096 ATCTAACATT
51627106 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
51627125 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
* *
51627141 TTATTAGTAAAATTATCAAA
1 TTGTTAGTAAAATTAT-TAA
* *
51627161 TT-ATA-TCAAATTATTAA
1 TTGTTAGTAAAATTATTAA
51627178 TTGTTAGTA
1 TTGTTAGTA
51627187 CCAGTCAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 16
0.64 0.13 0.23
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 5 0.11
18 11 0.24
19 10 0.22
20 7 0.16
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:51627243 original size:112 final size:112
Alignment explanation
Indices: 51627046--51627285 Score: 383
Period size: 112 Copynumber: 2.1 Consensus size: 112
51627036 ATTGTTATTA
* * *
51627046 AAATTATATCAAATTATATTTTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
*
51627111 AGTAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
66 AATAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
*
51627158 AAATTATATCAAATTAT-TAATTGTTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGT
1 AAATTATATCAAATTATAT-ATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGT
* * *
51627222 TAATCAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATC
65 TAATAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
*
51627270 AAATTATATCAGATTA
1 AAATTATATCAAATTA
51627286 GGGTTAGGGT
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 1 0.01
112 117 0.99
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (112 bp):
AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
AATAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
Found at i:51627294 original size:6 final size:6
Alignment explanation
Indices: 51627283--51627308 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51627273 TTATATCAGA
51627283 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
51627309 TTTGTTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:51627369 original size:21 final size:21
Alignment explanation
Indices: 51627344--51627391 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
51627334 TTTTAAGTTA
51627344 AGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTT
51627365 AGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTT
51627386 AGGGTT
1 AGGGTT
51627392 AGGGCTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (21 bp):
AGGGTTTTTAAGTTAAGGGTT
Found at i:51627385 original size:15 final size:15
Alignment explanation
Indices: 51627333--51627364 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51627323 GATTTTGATA
51627333 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
51627348 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
51627363 TT
1 TT
51627365 AGGGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:51627392 original size:89 final size:91
Alignment explanation
Indices: 51627291--51627498 Score: 276
Period size: 89 Copynumber: 2.3 Consensus size: 91
51627281 GATTAGGGTT
***
51627291 AGGGTTAGGGTTAGGGTTTTTGTTAGCATTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTAAG
1 AGGGTTAGGGTTAGGGTTAGGGTTAGCATTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTAAG
51627356 TT-A-AGGGTTAGGGTTTTTAAGTTA
66 TTAAGAGGGTTAGGGTTTTTAAGTTA
* **** *
51627380 AGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGATTTTGGTATTTTTAAGTTAAGGGTTTTTAAG
1 AGGGTTAGGGTTAGGGTTAGGGTTAGCATTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTAAG
51627445 TTAAGGGTTAGGGTTAGGGTTTTTAAGTTA
66 TTAA--G--AGGGTTAGGGTTTTTAAGTTA
*
51627475 AGGGCTAGGGTTAGGGTTAGGGTT
1 AGGGTTAGGGTTAGGGTTAGGGTT
51627499 TTTAAGTTAA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
89 58 0.57
90 1 0.01
95 43 0.42
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (91 bp):
AGGGTTAGGGTTAGGGTTAGGGTTAGCATTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTAAG
TTAAGAGGGTTAGGGTTTTTAAGTTA
Found at i:51627393 original size:95 final size:93
Alignment explanation
Indices: 51627285--51627501 Score: 307
Period size: 95 Copynumber: 2.3 Consensus size: 93
51627275 ATATCAGATT
51627285 AGGGTTAGGGTTAGGGTTAGGGTTTTTGTTAGCATTAGGATTTTGATATTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTAGGGTTAGGGTTTTT-TT-G--TTAGGATTTTGATATTTTTAAGTTAAGGGTT
51627350 TTTAAGTT-A-AGGGTTAGGGTTTTTAAGTTA
62 TTTAAGTTAAGAGGGTTAGGGTTTTTAAGTTA
* *
51627380 AGGGTTAGGGTTAGGGCTAGGG--TTTTTGTTAGGATTTTGGTATTTTTAAGTTAAGGGTTTTTA
1 AGGGTTAGGGTTAGGGTTAGGGTTTTTTTGTTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTA
51627443 AGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTA
66 AGTTAA--G--AGGGTTAGGGTTTTTAAGTTA
*
51627475 AGGGCTAGGGTTAGGGTTAGGGTTTTT
1 AGGGTTAGGGTTAGGGTTAGGGTTTTT
51627502 AAGTTAAGAA
Statistics
Matches: 110, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
89 38 0.35
90 1 0.01
91 1 0.01
92 2 0.02
93 3 0.03
95 62 0.56
97 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (93 bp):
AGGGTTAGGGTTAGGGTTAGGGTTTTTTTGTTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTA
AGTTAAGAGGGTTAGGGTTTTTAAGTTA
Found at i:51627406 original size:33 final size:33
Alignment explanation
Indices: 51627333--51627534 Score: 147
Period size: 33 Copynumber: 6.2 Consensus size: 33
51627323 GATTTTGATA
*
51627333 TTTTTAAGTTAAGGGTTTTTA-AGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGG---TTAGGGTT-AGGGTTAGGG
*
51627369 TTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGG
* * * *
51627402 TTTTT--GTT-AGGATTTTGGTATTTTTA-AGTTAAGGG
1 TTTTTAAGTTAAGG-GTTAGG----GTTAGGGTT-AGGG
51627437 TTTTTAAGTT-A-----AGGGTTAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGG
*
51627464 TTTTTAAGTTAAGGGCTAGGGTTAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGG
** *
51627497 TTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGG
51627530 TTTTT
1 TTTTT
51627535 GTTAGGGTTT
Statistics
Matches: 136, Mismatches: 14, Indels: 35
0.74 0.08 0.19
Matches are distributed among these distances:
27 17 0.12
28 4 0.03
30 3 0.02
31 9 0.07
33 67 0.49
34 5 0.04
35 12 0.09
36 15 0.11
37 4 0.03
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.43
Consensus pattern (33 bp):
TTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGG
Found at i:51627437 original size:68 final size:67
Alignment explanation
Indices: 51627365--51627591 Score: 242
Period size: 68 Copynumber: 3.5 Consensus size: 67
51627355 GTTAAGGGTT
51627365 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGATTTTGGTATTTTTAAG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGG-TTTTGGTATTTTTAAG
51627430 TTA
65 TTA
* * ***
51627433 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGG-T----TTTTAAGTTAAGG----GCTAGGGTTAG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTT-TGTT-AGGTTTTGGTATTTTTA-
*
51627489 GGTT-
63 AGTTA
** *
51627493 AGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTAGTATTTTTAAG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTA-GGTTTTGGTATTTTTAAG
51627558 TTA
65 TTA
51627561 AGGGTTTTTAAGTTAAGGGTT-GAGGTTAGGG
1 AGGGTTTTTAAGTTAAGGGTTAG-GGTTAGGG
51627592 TTTTAAGTTA
Statistics
Matches: 127, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
60 35 0.28
61 4 0.03
63 5 0.04
64 8 0.06
65 7 0.06
67 5 0.04
68 63 0.50
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.42
Consensus pattern (67 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGTTTTGGTATTTTTAAGT
TA
Found at i:51627442 original size:15 final size:15
Alignment explanation
Indices: 51627422--51627478 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
51627412 GATTTTGGTA
51627422 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
51627437 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
*
51627452 ---TTAGGGTT-AGGG
1 TTTTTA-AGTTAAGGG
51627464 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
51627479 CTAGGGTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
12 7 0.20
13 3 0.09
14 3 0.09
15 22 0.63
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:51627463 original size:27 final size:27
Alignment explanation
Indices: 51627433--51627492 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
51627423 TTTTAAGTTA
*
51627433 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGCTAGGGTT
51627460 AGGGTTTTTAAGTTAAGGGCTAGGGTT
1 AGGGTTTTTAAGTTAAGGGCTAGGGTT
51627487 AGGGTT
1 AGGGTT
51627493 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.02, G:0.38, T:0.38
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGCTAGGGTT
Found at i:51627496 original size:128 final size:126
Alignment explanation
Indices: 51627359--51627627 Score: 441
Period size: 128 Copynumber: 2.1 Consensus size: 126
51627349 TTTTAAGTTA
** *
51627359 AGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGATTTTGGTATT
1 AGGGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGGTTTTTGTTAGGATTTTAGTATT
51627424 TTTAAGTTAAGGGTTTTTAAGTTAAGGGTT-AGGGTTAGGGTTTTTAAGTTAAGGGCTAGGGTT
66 TTTAAGTTAAGGGTTTTTAAGTTAAGGGTTGA-GGTTAGGG-TTTTAAGTTAA-GGCTAGGGTT
*
51627487 AGGGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTAGTATT
1 AGGGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGGTTTTTGTTAGGATTTTAGTATT
*
51627552 TTTAAGTTAAGGGTTTTTAAGTTAAGGGTTGAGGTTAGGGTTTTAAGTTAAGGTTAGGGTT
66 TTTAAGTTAAGGGTTTTTAAGTTAAGGGTTGAGGTTAGGGTTTTAAGTTAAGGCTAGGGTT
* *
51627613 AGGGCTAGGATTTTT
1 AGGGTTAGGGTTTTT
51627628 GTTAGGGTTT
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
126 22 0.17
127 11 0.08
128 99 0.74
129 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.42
Consensus pattern (126 bp):
AGGGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGGTTTTTGTTAGGATTTTAGTATT
TTTAAGTTAAGGGTTTTTAAGTTAAGGGTTGAGGTTAGGGTTTTAAGTTAAGGCTAGGGTT
Found at i:51627515 original size:27 final size:27
Alignment explanation
Indices: 51627433--51627523 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 27
51627423 TTTTAAGTTA
*
51627433 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGAGTTAGGGTT
51627460 AGGGTTTTTAAGTTAAGGGCTAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAA--G--A--GTTAGGGTT
*
51627493 AGGGTTTTTAAGTTAAGAATTAGGGTT
1 AGGGTTTTTAAGTTAAGAGTTAGGGTT
51627520 AGGG
1 AGGG
51627524 CTAGGGTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
27 28 0.50
29 2 0.04
31 1 0.02
33 25 0.45
ACGTcount: A:0.24, C:0.01, G:0.37, T:0.37
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGAGTTAGGGTT
Found at i:51627570 original size:15 final size:15
Alignment explanation
Indices: 51627550--51627581 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51627540 GGTTTTAGTA
51627550 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
51627565 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
51627580 TT
1 TT
51627582 GAGGTTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:51627599 original size:26 final size:26
Alignment explanation
Indices: 51627561--51627616 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
51627551 TTTTAAGTTA
51627561 AGGGTTTTTAAGTTAAGGGTT-GAGGTT
1 AGGGTTTTTAAGTTAA-GGTTAG-GGTT
51627588 AGGG-TTTTAAGTTAAGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGTTAGGGTT
51627613 AGGG
1 AGGG
51627617 CTAGGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 12 0.43
26 12 0.43
27 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (26 bp):
AGGGTTTTTAAGTTAAGGTTAGGGTT
Found at i:51627613 original size:93 final size:94
Alignment explanation
Indices: 51627481--51627659 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 94
51627471 GTTAAGGGCT
*
51627481 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTT
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGATTTTTGTTAGGGTTTT
51627546 AGTATTTTTAAGTTAAGGGTTTTTAAGTTA
66 AGTATTTTTAAGTT-AGGGTTTTTAAGTTA
*
51627576 AGGGTT-GAGGTTAGGG-TTTTAAGTTAAG-GTTAGGGTTAGGGCTAGGATTTTTGTTAGGGTTT
1 AGGGTTAG-GGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGATTTTTGTTAGGGTTT
* *
51627638 TGGTGTTTTTAAGTTAGGGTTT
65 TAGTATTTTTAAGTTAGGGTTT
51627660 AGGGTTAGGG
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
92 7 0.09
93 45 0.57
94 13 0.16
95 14 0.18
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (94 bp):
AGGGTTAGGGTTAGGGTTTTTAAGTTAAGAATTAGGGTTAGGGCTAGGATTTTTGTTAGGGTTTT
AGTATTTTTAAGTTAGGGTTTTTAAGTTA
Found at i:51627709 original size:12 final size:12
Alignment explanation
Indices: 51627694--51627747 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
51627684 AGGGTTTGTC
51627694 AATTAAATTATA
1 AATTAAATTATA
*
51627706 AATTTAATTATA
1 AATTAAATTATA
51627718 AATTATAAATT-TA
1 AA-T-TAAATTATA
*
51627731 ATTATAAATTATA
1 AAT-TAAATTATA
51627744 AATT
1 AATT
51627748 TATAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 22 0.63
13 8 0.23
14 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:51627752 original size:8 final size:7
Alignment explanation
Indices: 51627697--51627760 Score: 82
Period size: 7 Copynumber: 9.4 Consensus size: 7
51627687 GTTTGTCAAT
51627697 TAAATTA
1 TAAATTA
51627704 TAAATT-
1 TAAATTA
51627710 T-AATTA
1 TAAATTA
51627716 TAAATTA
1 TAAATTA
51627723 TAAATT-
1 TAAATTA
51627729 T-AATTA
1 TAAATTA
51627735 TAAATTA
1 TAAATTA
51627742 TAAATTTA
1 TAAA-TTA
51627750 TAAATTTA
1 TAAA-TTA
51627758 TAA
1 TAA
51627761 TAAATTAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
5 8 0.15
6 4 0.08
7 26 0.50
8 14 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:51627763 original size:26 final size:26
Alignment explanation
Indices: 51627711--51627767 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
51627701 TTATAAATTT
*
51627711 AATTATAAATTATAAATTTAATTATA
1 AATTATAAATTATAAATTTAATAATA
51627737 AATTATAAATTTATAAATTT-ATAATA
1 AATTATAAA-TTATAAATTTAATAATA
51627763 AATTA
1 AATTA
51627768 GTTTAGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATTATAAATTATAAATTTAATAATA
Found at i:51627766 original size:19 final size:19
Alignment explanation
Indices: 51627697--51627749 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
51627687 GTTTGTCAAT
51627697 TAAATTATAAATTTAATTA
1 TAAATTATAAATTTAATTA
51627716 TAAATTATAAATTTAATTA
1 TAAATTATAAATTTAATTA
51627735 TAAATTATAAATTTA
1 TAAATTATAAATTTA
51627750 TAAATTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATTATAAATTTAATTA
Found at i:51628938 original size:7 final size:7
Alignment explanation
Indices: 51628928--51628960 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
51628918 TTATATACAT
51628928 AATACTA
1 AATACTA
51628935 AATACTA
1 AATACTA
51628942 AATACTA
1 AATACTA
51628949 AATACTA
1 AATACTA
51628956 AATAC
1 AATAC
51628961 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:51630158 original size:51 final size:50
Alignment explanation
Indices: 51630097--51630196 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
51630087 AAATAATTAA
51630097 AAATAGGGATTTAAGAGAAATTT-AAGAGAAAATTGAGAGCAAGTTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-G-AAATTGAGAGCAAGTTGAGATT
* * *
51630148 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGAAATTGAGAGCAAGTTGAGA
51630197 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.91
52 1 0.02
53 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGAAATTGAGAGCAAGTTGAGATT
Found at i:51630170 original size:11 final size:11
Alignment explanation
Indices: 51630158--51630218 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
51630148 AAATATGGAT
51630158 TTGAGA-GAAA
1 TTGAGAGGAAA
51630168 TTTG-GAAGGAAA
1 -TTGAGA-GGAAA
* *
51630180 TTGAGAGCAAT
1 TTGAGAGGAAA
51630191 TTGAGAGGAAA
1 TTGAGAGGAAA
51630202 TTGAGAGGAAA
1 TTGAGAGGAAA
51630213 TTGAGA
1 TTGAGA
51630219 AAGGATTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
10 2 0.05
11 35 0.81
12 6 0.14
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:51630183 original size:22 final size:22
Alignment explanation
Indices: 51630158--51630218 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
51630148 AAATATGGAT
51630158 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
51630180 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
51630202 TTGAGAGGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
51630219 AAGGATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:51630193 original size:33 final size:33
Alignment explanation
Indices: 51630156--51630218 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
51630146 TTAAATATGG
51630156 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAG-AGGAAATTGAGAGCA
51630189 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
51630219 AAGGATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAGGAAATTGAGAGCA
Found at i:51631047 original size:28 final size:28
Alignment explanation
Indices: 51631005--51631059 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
51630995 TTATCATCTG
*
51631005 CGTTAATCTATAGCCATCAAATTTATCA
1 CGTTAATCTACAGCCATCAAATTTATCA
51631033 CGTTAATCTACAGCCATCAAATTTATC
1 CGTTAATCTACAGCCATCAAATTTATC
51631060 CATACATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (28 bp):
CGTTAATCTACAGCCATCAAATTTATCA
Found at i:51633206 original size:14 final size:16
Alignment explanation
Indices: 51633183--51633214 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
51633173 AGATTCACAT
51633183 ACCAAGATATAA-TCA
1 ACCAAGATATAATTCA
51633198 ACCAA-ATATAATTCA
1 ACCAAGATATAATTCA
51633213 AC
1 AC
51633215 ATATCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (16 bp):
ACCAAGATATAATTCA
Found at i:51639305 original size:95 final size:95
Alignment explanation
Indices: 51639125--51639419 Score: 308
Period size: 95 Copynumber: 3.1 Consensus size: 95
51639115 CCCGAACATT
* * *
51639125 TAAGGTATCCAGTAAATCGAGACGTTAATCGTTACACGATGCTATTTACACAAGCTGTGAAGAAT
1 TAAGATATCCAGTAAATCGAGACATTAATCGTTACACGATGCTACTTACACAAGCTGTGAAGAAT
* * * * * *
51639190 CTGCAACACATACAGAATCTTATCCATTGG
66 CCGCAATATATGCAGGATCTTATCCATCGG
* * * * *
51639220 CAAGATATCCAATAAATCGAGACATTAA-CTGTTACACAATGCTACTTACACGAGCTATGAAGAA
1 TAAGATATCCAGTAAATCGAGACATTAATC-GTTACACGATGCTACTTACACAAGCTGTGAAGAA
* * *
51639284 TCCACAATATATGCAGGATCTTAGCCATCGA
65 TCCGCAATATATGCAGGATCTTATCCATCGG
* * * * * * * *
51639315 TAAGGTATCTAGTAAATCGGGACATTAATCGATA-ACGATGTTGCTCACACTAGCTGTGCAA-AA
1 TAAGATATCCAGTAAATCGAGACATTAATCGTTACACGATGCTACTTACACAAGCTGTG-AAGAA
* *
51639378 TCCGCAATATATGCATGATCTTATCCATCAG
65 TCCGCAATATATGCAGGATCTTATCCATCGG
51639409 TAAGATATCCA
1 TAAGATATCCA
51639420 CCACCGGTAC
Statistics
Matches: 161, Mismatches: 36, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
94 56 0.35
95 104 0.65
96 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (95 bp):
TAAGATATCCAGTAAATCGAGACATTAATCGTTACACGATGCTACTTACACAAGCTGTGAAGAAT
CCGCAATATATGCAGGATCTTATCCATCGG
Found at i:51639952 original size:21 final size:19
Alignment explanation
Indices: 51639928--51639970 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
51639918 GACCATTTAA
51639928 TAAAATTTTACATTATTATCT
1 TAAAATTTTACATT-TTAT-T
* *
51639949 TAAACTTTTATATTTTATT
1 TAAAATTTTACATTTTATT
51639968 TAA
1 TAA
51639971 TTAAGTCCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAAATTTTACATTTTATT
Found at i:51641597 original size:36 final size:36
Alignment explanation
Indices: 51641538--51641639 Score: 114
Period size: 36 Copynumber: 2.7 Consensus size: 36
51641528 CGACGATAGG
* * *
51641538 TGTGCCCTGCACTAGCCGGATAAACCAAAAATGTTT
1 TGTGCCCAGCACTAGTCGAATAAACCAAAAATGTTT
* *
51641574 TGTGCCCAGCGCTAGTCGAATAAACCAACAATGTTAAAT
1 TGTGCCCAGCACTAGTCGAATAAACCAAAAATGTT---T
*
51641613 GTGTGCCCAACACTAGTCGAATAAACC
1 -TGTGCCCAGCACTAGTCGAATAAACC
51641640 GACAAAGATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 30 0.55
39 1 0.02
40 24 0.44
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (36 bp):
TGTGCCCAGCACTAGTCGAATAAACCAAAAATGTTT
Found at i:51641673 original size:36 final size:35
Alignment explanation
Indices: 51641625--51641751 Score: 96
Period size: 36 Copynumber: 3.6 Consensus size: 35
51641615 GTGCCCAACA
51641625 CTAGTCGAATAAACCGACAAAGATTTGCACCTAGCG
1 CTAGTCGAATAAACCGACAAAGATTTGC-CCTAGCG
* * * *
51641661 CTAGTCGGATAAACCGATAGTAGATGTGCCCT-GCAG
1 CTAGTCGAATAAACCGACA-AAGATTTGCCCTAGC-G
* * ** *
51641697 -TAATCGAAAAAATTGACAAAGATTTGCGCCCAGCG
1 CTAGTCGAATAAACCGACAAAGATTTGC-CCTAGCG
* * *
51641732 TTAGTCGGATAAACTGACAA
1 CTAGTCGAATAAACCGACAA
51641752 TCACATACAT
Statistics
Matches: 69, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
34 7 0.10
35 17 0.25
36 38 0.55
37 7 0.10
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (35 bp):
CTAGTCGAATAAACCGACAAAGATTTGCCCTAGCG
Found at i:51655126 original size:15 final size:15
Alignment explanation
Indices: 51655108--51655142 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
51655098 TTTTTTCTAA
51655108 TAATTTTTTTAAATT
1 TAATTTTTTTAAATT
51655123 TAA-TTTTTTAAATT
1 TAATTTTTTTAAATT
51655137 TAATTT
1 TAATTT
51655143 ATTATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTAAATT
Found at i:51655151 original size:14 final size:14
Alignment explanation
Indices: 51655116--51655151 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
51655106 AATAATTTTT
*
51655116 TTAAATTTAATTTT
1 TTAAATTTAATTTA
51655130 TTAAATTTAATTTA
1 TTAAATTTAATTTA
*
51655144 TTATATTT
1 TTAAATTT
51655152 TATATGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAAATTTAATTTA
Found at i:51662550 original size:18 final size:18
Alignment explanation
Indices: 51662527--51662562 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
51662517 TAAGTCCAAA
51662527 CCAAGCTTCAAAGTTGTC
1 CCAAGCTTCAAAGTTGTC
51662545 CCAAGCTTCAAAGTTGTC
1 CCAAGCTTCAAAGTTGTC
51662563 ATGCCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
CCAAGCTTCAAAGTTGTC
Found at i:51664316 original size:21 final size:21
Alignment explanation
Indices: 51664269--51664316 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
51664259 GTTTAATCAC
*
51664269 AACTAAACTGAGCTACAAATG
1 AACTAAACAGAGCTACAAATG
* *
51664290 ATCTAAACAGAGTTA-AAATG
1 AACTAAACAGAGCTACAAATG
51664310 AGACTAA
1 A-ACTAA
51664317 GAAAAATCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (21 bp):
AACTAAACAGAGCTACAAATG
Found at i:51664700 original size:39 final size:39
Alignment explanation
Indices: 51664646--51664721 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
51664636 AAAAAGAAAG
* *
51664646 AAAAAAATTTATAGGTGTCGCTAGTCACAGGCTTCCCTT
1 AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCCTT
*
51664685 AAAAAAATTTATAGGTGTTGCCAGTCACAAGCTTCCC
1 AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCC
51664722 CTTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (39 bp):
AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCCTT
Found at i:51664773 original size:13 final size:13
Alignment explanation
Indices: 51664752--51664785 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
51664742 TTGAGAGAAT
*
51664752 TTAATATTTTAAA
1 TTAAGATTTTAAA
51664765 TTAAGA-TTTAAA
1 TTAAGATTTTAAA
51664777 TTAAGATTT
1 TTAAGATTT
51664786 GACAGATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
TTAAGATTTTAAA
Found at i:51664776 original size:12 final size:12
Alignment explanation
Indices: 51664759--51664785 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51664749 AATTTAATAT
51664759 TTTAAATTAAGA
1 TTTAAATTAAGA
51664771 TTTAAATTAAGA
1 TTTAAATTAAGA
51664783 TTT
1 TTT
51664786 GACAGATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
TTTAAATTAAGA
Found at i:51664910 original size:25 final size:26
Alignment explanation
Indices: 51664874--51664927 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
51664864 TATTTATTTA
51664874 TTTTTCTATTTCAACT-GTTTCTTTT
1 TTTTTCTATTTCAACTAGTTTCTTTT
* * *
51664899 TTTTTCTGTTTCACCTATTTTCTTTT
1 TTTTTCTATTTCAACTAGTTTCTTTT
51664925 TTT
1 TTT
51664928 ATTTCCACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.09, C:0.17, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTTTCTATTTCAACTAGTTTCTTTT
Found at i:51665270 original size:3 final size:3
Alignment explanation
Indices: 51665262--51665294 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
51665252 ATAAAAAATT
51665262 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51665295 CCTGGTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:51671570 original size:16 final size:18
Alignment explanation
Indices: 51671535--51671572 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51671525 ATCCTTATTT
*
51671535 AAATAAAATATAGTAGTA
1 AAATAAAATATAGAAGTA
51671553 AAATAAAATA-A-AAGTA
1 AAATAAAATATAGAAGTA
51671569 AAAT
1 AAAT
51671573 CCCTAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAGAAGTA
Done.