Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 175 of 175
Found at i:52965970 original size:30 final size:30
Alignment explanation
Indices: 52965934--52965996 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
52965924 ACTTATTTTA
*
52965934 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAAATTTATTATTATTTTAAAGACAT
* * *
52965964 TTGTTAAATTTGTTATTATTTTAGAGGCAT
1 TTGTTAAATTTATTATTATTTTAAAGACAT
52965994 TTG
1 TTG
52965997 CTAGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAAATTTATTATTATTTTAAAGACAT
Found at i:52966329 original size:5 final size:6
Alignment explanation
Indices: 52966314--52966339 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52966304 AGTGATCTCT
52966314 TTTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
52966340 CACTGCTTTG
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:52967215 original size:10 final size:10
Alignment explanation
Indices: 52967202--52967230 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
52967192 AATATTTTTT
52967202 TAATTTTTAA
1 TAATTTTTAA
52967212 TAA-TTTTAA
1 TAATTTTTAA
52967221 TAATTTTTAA
1 TAATTTTTAA
52967231 ATTTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:52967279 original size:46 final size:47
Alignment explanation
Indices: 52967169--52967279 Score: 104
Period size: 47 Copynumber: 2.4 Consensus size: 47
52967159 TTAATTACTT
* * * * *
52967169 TTTTAAATTTAAAAATA-TTCCAAAATATTTTTTTAATTTTTAATAA
1 TTTTAAATTTAAAAAAATTTCAAAAATAGTTATATAATTTTTAATAA
** *
52967215 TTTTAATAATTT--TTAAATTTCAAAAATAGTTATATATTTTTTAA-AA
1 TTTT-A-AATTTAAAAAAATTTCAAAAATAGTTATATAATTTTTAATAA
52967261 TTTTAAATTTAAAAAAATT
1 TTTTAAATTTAAAAAAATT
52967280 AATTAATTGC
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
44 5 0.10
45 1 0.02
46 17 0.34
47 22 0.44
48 5 0.10
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (47 bp):
TTTTAAATTTAAAAAAATTTCAAAAATAGTTATATAATTTTTAATAA
Found at i:52977539 original size:16 final size:17
Alignment explanation
Indices: 52977520--52977558 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
52977510 GTTTTTTAAA
52977520 TTAATTGATTAAAATT-
1 TTAATTGATTAAAATTG
* *
52977536 TTAATTTATTAATATTG
1 TTAATTGATTAAAATTG
52977553 TTAATT
1 TTAATT
52977559 ATCTTTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTAATTGATTAAAATTG
Found at i:52987690 original size:2 final size:2
Alignment explanation
Indices: 52987683--52987729 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
52987673 GCTCTGTCCC
*
52987683 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT -T
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
52987724 CT CT CT
1 CT CT CT
52987730 TTTGCTTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:52989822 original size:31 final size:31
Alignment explanation
Indices: 52989787--52989845 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
52989777 GAAACTTTTT
* * *
52989787 ACTAGGTCTATTTTGGTACATGAACTTGACA
1 ACTAGATCCATTTTGGTACATAAACTTGACA
* *
52989818 ACTAGATCCATTTTTGTCCATAAACTTG
1 ACTAGATCCATTTTGGTACATAAACTTG
52989846 GATTTCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (31 bp):
ACTAGATCCATTTTGGTACATAAACTTGACA
Found at i:53006008 original size:42 final size:42
Alignment explanation
Indices: 53005938--53006085 Score: 172
Period size: 42 Copynumber: 3.5 Consensus size: 42
53005928 CAATGGCTGC
* * * *
53005938 ACAGAAGCACATAAGTGCT-AACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
* * * *
53005979 ACGGAAGCTCATAGGAGCTGAACGGAAACCCGTAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
* *
53006021 ACAGAAGCTCAAAAGAGCTAAACGGAAACCCATTAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
* * *
53006063 ACAGAAACTCATATGAGTTAAAC
1 ACAGAAGCTCATAAGAGCTAAAC
53006086 AGAAGCTCAC
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 15 0.17
42 74 0.83
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
Found at i:53006063 original size:21 final size:21
Alignment explanation
Indices: 53005961--53006085 Score: 81
Period size: 21 Copynumber: 6.0 Consensus size: 21
53005951 AGTGCTAACA
*
53005961 GAAACCCATAAGGGTTGAACG
1 GAAACCCATAAGGGTTAAACG
* * * *
53005982 GAAGCTCAT-AGGAGCTGAACG
1 GAAACCCATAAGG-GTTAAACG
* *
53006003 GAAACCCGTAAGGGTTAAACA
1 GAAACCCATAAGGGTTAAACG
* * * * *
53006024 GAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACG
* *
53006045 GAAACCCATTAGGGTTAAACA
1 GAAACCCATAAGGGTTAAACG
* * *
53006066 GAAACTCATATGAGTTAAAC
1 GAAACCCATAAGGGTTAAAC
53006086 AGAAGCTCAC
Statistics
Matches: 75, Mismatches: 27, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 3 0.04
21 69 0.92
22 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
GAAACCCATAAGGGTTAAACG
Found at i:53006086 original size:21 final size:21
Alignment explanation
Indices: 53006016--53006094 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
53006006 ACCCGTAAGG
* * *
53006016 GTTAAACAGAAGCTCAAAAGA
1 GTTAAACAGAAACTCATATGA
* * * *
53006037 GCTAAACGGAAACCCAT-TAGG
1 GTTAAACAGAAACTCATAT-GA
53006058 GTTAAACAGAAACTCATATGA
1 GTTAAACAGAAACTCATATGA
*
53006079 GTTAAACAGAAGCTCA
1 GTTAAACAGAAACTCA
53006095 CGAGAGCTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 43 0.98
22 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.18
Consensus pattern (21 bp):
GTTAAACAGAAACTCATATGA
Found at i:53006105 original size:21 final size:20
Alignment explanation
Indices: 53006018--53006111 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 20
53006008 CCGTAAGGGT
* *
53006018 TAAACAGAAGCTCAAAAGAGC
1 TAAACAGAAACTC-ATAGAGC
* * * *
53006039 TAAACGGAAACCCATTAGGGT
1 TAAACAGAAACTCA-TAGAGC
*
53006060 TAAACAGAAACTCATATGAGT
1 TAAACAGAAACTCATA-GAGC
* *
53006081 TAAACAGAAGCTCACGAGAGC
1 TAAACAGAAACTCA-TAGAGC
*
53006102 TAAACGGAAA
1 TAAACAGAAA
53006112 GTAAACACAA
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
20 3 0.05
21 52 0.93
22 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (20 bp):
TAAACAGAAACTCATAGAGC
Found at i:53008330 original size:20 final size:20
Alignment explanation
Indices: 53008293--53008331 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53008283 TCTAATTGTC
*
53008293 TATAATATTTTTATTTTTCT
1 TATAATATTTGTATTTTTCT
53008313 TATAATATTTAGTATTTTT
1 TATAATATTT-GTATTTTT
53008332 TTAATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TATAATATTTGTATTTTTCT
Found at i:53020103 original size:3 final size:3
Alignment explanation
Indices: 53020089--53020123 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
53020079 ATCTAATTTT
* *
53020089 TAA TAG TAA TAA TAA TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
53020124 CAATTAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:53024271 original size:19 final size:19
Alignment explanation
Indices: 53024247--53024284 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
53024237 ATTTAAAGGA
53024247 TAGTTATTTGATACATAGG
1 TAGTTATTTGATACATAGG
53024266 TAGTTATTTGATACATAGG
1 TAGTTATTTGATACATAGG
53024285 CGGTGAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (19 bp):
TAGTTATTTGATACATAGG
Found at i:53037296 original size:16 final size:16
Alignment explanation
Indices: 53037275--53037342 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
53037265 TTTGGTTCGC
53037275 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
53037291 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
53037306 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
53037323 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
53037339 TGTA
1 TGTA
53037343 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:53037316 original size:32 final size:32
Alignment explanation
Indices: 53037275--53037342 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
53037265 TTTGGTTCGC
53037275 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
53037307 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
53037339 TGTA
1 TGTA
53037343 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:53037679 original size:157 final size:157
Alignment explanation
Indices: 53037472--53037781 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
53037462 CCCTTAGCAT
*
53037472 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
53037537 TAATGAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
53037602 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
53037629 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
53037694 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
53037759 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
53037782 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:53048206 original size:19 final size:18
Alignment explanation
Indices: 53048182--53048228 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
53048172 TGTGGAGCAT
*
53048182 ATTTGAAGCATATGATCAA
1 ATTTGAAACA-ATGATCAA
*
53048201 ATTTGAAACACTGATCAA
1 ATTTGAAACAATGATCAA
53048219 ATTTGAAACA
1 ATTTGAAACA
53048229 CGTATATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (18 bp):
ATTTGAAACAATGATCAA
Found at i:53048217 original size:18 final size:18
Alignment explanation
Indices: 53048194--53048229 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53048184 TTGAAGCATA
53048194 TGATCAAATTTGAAACAC
1 TGATCAAATTTGAAACAC
53048212 TGATCAAATTTGAAACAC
1 TGATCAAATTTGAAACAC
53048230 GTATATACCT
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:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (18 bp):
TGATCAAATTTGAAACAC
Found at i:53052880 original size:24 final size:24
Alignment explanation
Indices: 53052853--53052901 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
53052843 TATGATAGAT
53052853 TCTGCTCTGCATATAATGTGTTAG
1 TCTGCTCTGCATATAATGTGTTAG
53052877 TCTGCTCTGCATATAATGTGTTAG
1 TCTGCTCTGCATATAATGTGTTAG
53052901 T
1 T
53052902 TCAGATCGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (24 bp):
TCTGCTCTGCATATAATGTGTTAG
Found at i:53063710 original size:19 final size:22
Alignment explanation
Indices: 53063680--53063728 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
53063670 GGGGAACAAT
53063680 AGAAAAACATT-GAG-AAGAAG
1 AGAAAAACATTAGAGAAAGAAG
53063700 AGAAAAA-ATTGAGAGAAAGAAG
1 AGAAAAACATT-AGAGAAAGAAG
53063722 AGAAAAA
1 AGAAAAA
53063729 GAGAATACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.12
20 7 0.27
21 3 0.12
22 13 0.50
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.08
Consensus pattern (22 bp):
AGAAAAACATTAGAGAAAGAAG
Found at i:53065346 original size:3 final size:3
Alignment explanation
Indices: 53065338--53065372 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
53065328 ATCACATGTT
53065338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53065373 TGGATGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53069711 original size:3 final size:3
Alignment explanation
Indices: 53069703--53069746 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
53069693 ATCACATGTT
53069703 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53069747 TGGATGTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:53069828 original size:72 final size:72
Alignment explanation
Indices: 53069747--53069930 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
53069737 TATTATTATT
53069747 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
53069812 TTTTAAG
66 TTTTAAG
53069819 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
53069884 TTTTAAG
66 TTTTAAG
*
53069891 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
53069931 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:53071225 original size:31 final size:31
Alignment explanation
Indices: 53071190--53071251 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
53071180 TATTAGTATA
* *
53071190 TAATTTAATTC-TCATATTTTACATATTTTGT
1 TAATTTAATCCGTAATA-TTTACATATTTTGT
*
53071221 TAATTTAATCCGTAATATTTATATATTTTGT
1 TAATTTAATCCGTAATATTTACATATTTTGT
53071252 CAACATTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (31 bp):
TAATTTAATCCGTAATATTTACATATTTTGT
Found at i:53074520 original size:32 final size:31
Alignment explanation
Indices: 53074475--53074570 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
53074465 CTTAGATAAT
53074475 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
53074506 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
53074538 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
53074569 TT
1 TT
53074571 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:53077661 original size:32 final size:32
Alignment explanation
Indices: 53077620--53077681 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
53077610 CTGTTAAAAT
*
53077620 TTGTTACTAACCTTCTCATTCATACCAACCGA
1 TTGTTACTAACCGTCTCATTCATACCAACCGA
53077652 TTGTTACTAACCGTCTCATTCATACCAACC
1 TTGTTACTAACCGTCTCATTCATACCAACC
53077682 CAACCGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.32, G:0.06, T:0.34
Consensus pattern (32 bp):
TTGTTACTAACCGTCTCATTCATACCAACCGA
Found at i:53087162 original size:25 final size:25
Alignment explanation
Indices: 53087096--53087161 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
53087086 GCCCATTTTT
* *
53087096 AATAAACATTAAAAAATTATTTTAA
1 AATAAAAAATAAAAAATTATTTTAA
53087121 AATAAAAAATAAAAAATTATTTTAA
1 AATAAAAAATAAAAAATTATTTTAA
*
53087146 AATTTAAAAATAAAAA
1 AA-TAAAAAATAAAAA
53087162 TAAAAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 25 0.68
26 12 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAAAAAATAAAAAATTATTTTAA
Found at i:53088322 original size:2 final size:2
Alignment explanation
Indices: 53088315--53088339 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53088305 CTGAGGTATT
53088315 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
53088340 TTTGGGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:53091771 original size:24 final size:24
Alignment explanation
Indices: 53091744--53091789 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
53091734 CTTCATATGT
53091744 ATATATATATGCATGTATTTCAAC
1 ATATATATATGCATGTATTTCAAC
*
53091768 ATATATATATGTATGTATTTCA
1 ATATATATATGCATGTATTTCA
53091790 TTATATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (24 bp):
ATATATATATGCATGTATTTCAAC
Found at i:53091795 original size:24 final size:24
Alignment explanation
Indices: 53091743--53091795 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
53091733 GCTTCATATG
53091743 TATATATATATGCATGTATTTCAA
1 TATATATATATGCATGTATTTCAA
* * *
53091767 CATATATATATGTATGTATTTCAT
1 TATATATATATGCATGTATTTCAA
53091791 TATAT
1 TATAT
53091796 CATTGAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (24 bp):
TATATATATATGCATGTATTTCAA
Found at i:53094141 original size:13 final size:13
Alignment explanation
Indices: 53094123--53094149 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53094113 AGGTCTAGCA
53094123 GCTTGAATCGGGT
1 GCTTGAATCGGGT
53094136 GCTTGAATCGGGT
1 GCTTGAATCGGGT
53094149 G
1 G
53094150 TTTAGACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.41, T:0.30
Consensus pattern (13 bp):
GCTTGAATCGGGT
Found at i:53111300 original size:78 final size:76
Alignment explanation
Indices: 53111218--53111382 Score: 169
Period size: 78 Copynumber: 2.1 Consensus size: 76
53111208 ATTTATTAAA
53111218 TTTTT-TATA-TAATCATCTTA-ATA-TTA-TTTTAACATTTACATTAAAATAATATTATATATA
1 TTTTTATATATTAAT-ATCTTATATATTTATTTTTAACATTTACATT--AA-AATATT-TATATA
53111278 CCATATAAGTTTTTATTT
61 -CATAT-AGTTTTTATTT
* * * *
53111296 TTTTTATTTATTAATTTTTTATATATCTTTATTTTTTACATTTACATTAAAATATTTATATACAT
1 TTTTTATATATTAATATCTTATATA--TTTATTTTTAACATTTACATTAAAATATTTATATACAT
53111361 ATAGTTTTTATTT
64 ATAGTTTTTATTT
*
53111374 TTTTAATAT
1 TTTTTATAT
53111383 GCTATAAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
78 23 0.31
79 12 0.16
80 13 0.18
81 6 0.08
82 2 0.03
83 3 0.04
84 15 0.20
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (76 bp):
TTTTTATATATTAATATCTTATATATTTATTTTTAACATTTACATTAAAATATTTATATACATAT
AGTTTTTATTT
Found at i:53111329 original size:17 final size:17
Alignment explanation
Indices: 53111289--53111333 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
53111279 CATATAAGTT
* *
53111289 TTTATTTTTTTTATTTA
1 TTTATTTTTTATATATA
* *
53111306 TTAATTTTTTATATATC
1 TTTATTTTTTATATATA
53111323 TTTATTTTTTA
1 TTTATTTTTTA
53111334 CATTTACATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTATATATA
Found at i:53111340 original size:84 final size:88
Alignment explanation
Indices: 53111188--53111378 Score: 249
Period size: 94 Copynumber: 2.2 Consensus size: 88
53111178 TTAATATTAA
*
53111188 ATAAATTTTTATTTTTTTATATTTATTAAATTTTTTATATAATCATCTTAATATTATTTTAACAT
1 ATAAGTTTTTATTTTTTTATATTTATTAAATTTTTTATATAATCATCTT-ATATTATTTTAACAT
53111253 TTACATTAAAATAATATTATATATACCAT
65 TTACATT--AA-AATATT-TATATA-CAT
53111282 ATAAGTTTTTATTTTTTT-TATTTATT-AA-TTTTT-TAT-AT-ATCTT-TATT-TTTT-ACATT
1 ATAAGTTTTTATTTTTTTATATTTATTAAATTTTTTATATAATCATCTTATATTATTTTAACATT
53111338 TACATTAAAATATTTATATACAT
66 TACATTAAAATATTTATATACAT
53111361 AT-AGTTTTTATTTTTTTA
1 ATAAGTTTTTATTTTTTTA
53111379 ATATGCTATA
Statistics
Matches: 95, Mismatches: 1, Indels: 17
0.84 0.01 0.15
Matches are distributed among these distances:
78 15 0.16
79 5 0.05
80 6 0.06
81 6 0.06
82 2 0.02
84 11 0.12
85 4 0.04
86 4 0.04
88 5 0.05
89 2 0.02
90 3 0.03
91 5 0.05
92 2 0.02
93 8 0.08
94 17 0.18
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (88 bp):
ATAAGTTTTTATTTTTTTATATTTATTAAATTTTTTATATAATCATCTTATATTATTTTAACATT
TACATTAAAATATTTATATACAT
Found at i:53116946 original size:86 final size:86
Alignment explanation
Indices: 53116856--53117036 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
53116846 AATATAATTG
53116856 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
53116921 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
53116942 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
53117007 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
53117028 TAATT-TTAT
1 TAATTATTAT
53117037 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:53117172 original size:51 final size:51
Alignment explanation
Indices: 53117111--53117213 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
53117101 AAATTAAAAG
53117111 ATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACA
*
53117162 ATTATACATACACCAGCAATGTTTTTTAGGGACAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
53117213 A
1 A
53117214 GTAATTTTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
Found at i:53117222 original size:33 final size:34
Alignment explanation
Indices: 53117159--53117269 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 34
53117149 CATTAAACCA
* * *
53117159 ACAATTATACATACACCAGCAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
53117193 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
53117225 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
53117258 TCAATTATACAT
1 ACAATTATACAT
53117270 GCTTTATAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
32 10 0.15
33 50 0.75
34 7 0.10
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:53120493 original size:120 final size:120
Alignment explanation
Indices: 53120292--53121636 Score: 2417
Period size: 120 Copynumber: 11.2 Consensus size: 120
53120282 TTTTCAAGTT
53120292 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
53120357 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
53120412 ATACATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
53120477 TAATATAAGAACATTAATTATTAAGAA-TTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
53120531 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATCATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
53120596 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
53120651 ATACATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
53120716 TAATATAAGAACATTAATTATTAAGAAATTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
53120771 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
53120836 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
53120891 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
**
53120956 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
53121011 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
**
53121076 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
53121131 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
53121196 TAATATAAGAATATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAA-TTTTTTTAAATTATATAGTTTAATTAAA
* *
53121252 ATATATTTAATAATAATTATGTTCATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* ** *
53121317 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
53121373 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
** *
53121438 TAATATAAGAATATT-ATCTAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT-T-ATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
53121494 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
53121559 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
53121614 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
53121637 TAAATATGAT
Statistics
Matches: 1194, Mismatches: 25, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
119 116 0.10
120 741 0.62
121 327 0.27
122 10 0.01
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
Found at i:53121398 original size:30 final size:30
Alignment explanation
Indices: 53121364--53121520 Score: 78
Period size: 30 Copynumber: 5.2 Consensus size: 30
53121354 ATTATATATT
53121364 TTAATTAAAATATATTTAATAATAATTATG
1 TTAATTAAAATATATTTAATAATAATTATG
*
53121394 TTAATT--TATAT-TTTACAGTATCATATATTATG
1 TTAATTAAAATATATTTA-A-TA--ATA-ATTATG
* * * * *
53121426 ATTTCAGTAAATTA-ATATAAGAAT-ATTAT-
1 --TTAATTAAAATATATTTAATAATAATTATG
* * * * *
53121455 CTAATTAAGAATTTCATTAAATTAT-A-TATT
1 TTAATTAA-AATAT-ATTTAATAATAATTATG
53121485 TTAATTAAAATATATTTAATAATAATTATG
1 TTAATTAAAATATATTTAATAATAATTATG
53121515 TTAATT
1 TTAATT
53121521 TATATTTTAC
Statistics
Matches: 90, Mismatches: 21, Indels: 32
0.63 0.15 0.22
Matches are distributed among these distances:
27 9 0.10
28 15 0.17
29 10 0.11
30 34 0.38
31 3 0.03
32 8 0.09
34 5 0.06
35 1 0.01
36 5 0.06
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (30 bp):
TTAATTAAAATATATTTAATAATAATTATG
Found at i:53121613 original size:18 final size:17
Alignment explanation
Indices: 53121585--53121619 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53121575 ATTATTAAGA
*
53121585 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
53121602 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
53121620 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:53121833 original size:44 final size:45
Alignment explanation
Indices: 53121784--53121874 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
53121774 ACCTCTATTC
* * *
53121784 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
53121828 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
53121873 CA
1 CA
53121875 CCTCTAATCC
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:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:53121876 original size:16 final size:16
Alignment explanation
Indices: 53121855--53121923 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
53121845 GATTAGCTAT
53121855 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
53121871 TACACCTCTAATCCTAA
1 TACACCTCTAATCC-AA
53121888 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
53121904 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
53121920 TACA
1 TACA
53121924 GCGAACCAAA
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:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:53121897 original size:33 final size:32
Alignment explanation
Indices: 53121855--53121923 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
53121845 GATTAGCTAT
53121855 TACACCTCTAATCCAATACACCTCTAATCCTAA
1 TACACCTCTAATCCAATACACCTCTAATCC-AA
*
53121888 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
53121920 TACA
1 TACA
53121924 GCGAACCAAA
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:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:53123000 original size:31 final size:29
Alignment explanation
Indices: 53122936--53123004 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
53122926 ACGATAACGT
* *
53122936 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
53122965 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
53122996 AAGTGACTA
1 AAGTGACTA
53123005 TTTTGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:53125115 original size:147 final size:147
Alignment explanation
Indices: 53124861--53125131 Score: 434
Period size: 147 Copynumber: 1.8 Consensus size: 147
53124851 AGGATGTTCT
* *
53124861 TGCATTTAAAAAGGCACGTGAACAGGCACAGCAAGGGAACGATAAGAAGCAGGCAGAGGCAGGTA
1 TGCATTTAAAAAGGCACGTAAACAGGCACAGCAAGGGAACGATAAGAAGCAGGCAGAGGCAGATA
* * * *
53124926 CAATGACGGAAGAGAAAAAGAAGCAGGATCAGGAATTAGAGGAGCAAGAACGACAAGAAGTGTTC
66 CAATGACGAAAGAGAAAAAGAAGCAGAATCAGAAATTAGAGGAGCAAGAACGAAAAGAAGTGTTC
53124991 TTCACCAAGAATGCTCG
131 TTCACCAAGAATGCTCG
* * * * *
53125008 TGCATTTACAAAGGCATGTAAACAGGCACAGCAATGGAAGGCTAAGAAGCAGGCAGAGGCAGATA
1 TGCATTTAAAAAGGCACGTAAACAGGCACAGCAAGGGAACGATAAGAAGCAGGCAGAGGCAGATA
*
53125073 CCATGACGAAAGAGAAAAAGAAGCAGAATCAGAAATTAGAGGAGCAAGAACGAAAAGAA
66 CAATGACGAAAGAGAAAAAGAAGCAGAATCAGAAATTAGAGGAGCAAGAACGAAAAGAA
53125132 ATGGAGAAGA
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
147 112 1.00
ACGTcount: A:0.44, C:0.15, G:0.29, T:0.11
Consensus pattern (147 bp):
TGCATTTAAAAAGGCACGTAAACAGGCACAGCAAGGGAACGATAAGAAGCAGGCAGAGGCAGATA
CAATGACGAAAGAGAAAAAGAAGCAGAATCAGAAATTAGAGGAGCAAGAACGAAAAGAAGTGTTC
TTCACCAAGAATGCTCG
Found at i:53126773 original size:6 final size:6
Alignment explanation
Indices: 53126762--53126815 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
53126752 TCAATTTAAT
* * * *
53126762 AGAGAG AGAGAG AGAGAG AGAGGG AGAGGG AGAGAA AGAGAG GGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
*
53126810 GGAGAG
1 AGAGAG
53126816 CTGAGCTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (6 bp):
AGAGAG
Found at i:53126781 original size:14 final size:14
Alignment explanation
Indices: 53126762--53126815 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
53126752 TCAATTTAAT
53126762 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGAG
*
53126776 AGAGAGAGGGAGAG
1 AGAGAGAGAGAGAG
* *
53126790 GGAGAGAAAGAGAG
1 AGAGAGAGAGAGAG
* *
53126804 GGAGAGGGAGAG
1 AGAGAGAGAGAG
53126816 CTGAGCTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (14 bp):
AGAGAGAGAGAGAG
Found at i:53126794 original size:20 final size:20
Alignment explanation
Indices: 53126765--53126815 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
53126755 ATTTAATAGA
* *
53126765 GAGAGAGAGAGAGAGAGAGG
1 GAGAGGGAGAGAAAGAGAGG
53126785 GAGAGGGAGAGAAAGAGAGG
1 GAGAGGGAGAGAAAGAGAGG
53126805 GAGAGGGAGAG
1 GAGAGGGAGAG
53126816 CTGAGCTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (20 bp):
GAGAGGGAGAGAAAGAGAGG
Found at i:53134750 original size:21 final size:21
Alignment explanation
Indices: 53134717--53134763 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
53134707 ACCTTCGTTG
* * *
53134717 TTTTCCTTTTCTTTCTTTCGC
1 TTTTTCTTGTCTTTCTTGCGC
*
53134738 TTTTTCTTGTCTTTCTTGCTC
1 TTTTTCTTGTCTTTCTTGCGC
53134759 TTTTT
1 TTTTT
53134764 TAGTTGAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTTCTTGTCTTTCTTGCGC
Found at i:53136056 original size:34 final size:34
Alignment explanation
Indices: 53135975--53136089 Score: 135
Period size: 34 Copynumber: 3.4 Consensus size: 34
53135965 TTTTAAAAAA
* ** *
53135975 AAATTAGGGTTTAAAGTTTTTAAAAT-AATTAATT
1 AAATTAGGGTTT-AGGGGTTTAAAATAAATAAATT
* *
53136009 AAACTAGGTTTTAGGGGTTTAAAATAAATAAATT
1 AAATTAGGGTTTAGGGGTTTAAAATAAATAAATT
*
53136043 AAATTAGGGTTTAGGGGTTTAAAATAAATAAATG
1 AAATTAGGGTTTAGGGGTTTAAAATAAATAAATT
53136077 AAATT-GGGATTTA
1 AAATTAGGG-TTTA
53136090 ATTTTTTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
33 13 0.19
34 57 0.81
ACGTcount: A:0.43, C:0.01, G:0.18, T:0.37
Consensus pattern (34 bp):
AAATTAGGGTTTAGGGGTTTAAAATAAATAAATT
Found at i:53136415 original size:126 final size:126
Alignment explanation
Indices: 53136190--53136580 Score: 492
Period size: 126 Copynumber: 3.1 Consensus size: 126
53136180 TGATTTTGTT
* * * * * *
53136190 TTTTTCTACAGTAATTTCAGAAAAATTAATTTTAAGAAGACGATTCTGAAAAGATAATGTC-AAA
1 TTTTTCTACAGTAGTTCCTGAAAAA-TAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAA
* * *
53136254 AACGCTTCAAGCAGGGTGCATTGTCAGCAAAATTACTAAAAAAAGCTCCAACATG-G-ATGCTC
65 AACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAAGCTCC--CATGTGAACGCTC
* *
53136316 TTTTTCTACAGCAGTTCCTGAAAAATAATTTTGAGATGACGATTCTGAAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAA
* * * * *
53136381 ACGCTTCAAGAAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCATGTGAACGGTT
66 ACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGAACGCTC
* *
53136442 TTTTTCTAAAGTAGTTCCT-AAAAA-CATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAA
* * * *
53136505 ACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTG-AAAAAGTTCCTACGT-AGACGCTA
66 ACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGA-ACGCTC
53136565 TTTTT-TACAGTAGTTC
1 TTTTTCTACAGTAGTTC
53136581 TTGCTTGGCC
Statistics
Matches: 232, Mismatches: 29, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
122 11 0.05
123 21 0.09
124 75 0.32
125 37 0.16
126 88 0.38
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAA
ACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGAACGCTC
Found at i:53136520 original size:124 final size:125
Alignment explanation
Indices: 53136209--53136546 Score: 477
Period size: 124 Copynumber: 2.7 Consensus size: 125
53136199 AGTAATTTCA
* * * *
53136209 GAAAAATTAATTTTAAGAAGACGATTCTGAAAAGATAATGTC-AAAAACGCTTCAAGCAGGGTGC
1 GAAAAA-TAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAAACGCTTCAAGCAGGATGC
* * *
53136273 ATTGTCAGCAAAATTACTAAAAAAAGCTCCAACATGGATGCTCTTTTTCTACAGCAGTTCCT
65 ATTGTCAGCAAAATTACTGAAAAAAGCTCC-ACATGGACGCTCTTTTTCTAAAGCAGTTCCT
* *
53136335 GAAAAATAATTTTGAGATGACGATTCTGAAAAAATAGTGTCAAAAAACGCTTCAAGAAGGATGCA
1 GAAAAATAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAAACGCTTCAAGCAGGATGCA
* * * * *
53136400 CTATCAGCAAAATTACTGAAAAAAGCTCC-CATGTGAACGGTTTTTTTCTAAAGTAGTTCCT
66 TTGTCAGCAAAATTACTGAAAAAAGCTCCACATG-G-ACGCTCTTTTTCTAAAGCAGTTCCT
*
53136461 -AAAAA-CATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAAACGCTTCAAGCAGGATGCA
1 GAAAAATAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAAACGCTTCAAGCAGGATGCA
53136524 TTGTCAGCAAAATTACTGAAAAA
66 TTGTCAGCAAAATTACTGAAAAA
53136547 GTTCCTACGT
Statistics
Matches: 190, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
124 80 0.42
125 37 0.19
126 73 0.38
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (125 bp):
GAAAAATAATTTTGAGATGACGATTCTGAAAAAATAATGTCAAAAAACGCTTCAAGCAGGATGCA
TTGTCAGCAAAATTACTGAAAAAAGCTCCACATGGACGCTCTTTTTCTAAAGCAGTTCCT
Found at i:53140556 original size:46 final size:46
Alignment explanation
Indices: 53140490--53140993 Score: 393
Period size: 46 Copynumber: 10.6 Consensus size: 46
53140480 TTTGAGTACT
* * *
53140490 TCTGATC-AGTGACAAAGTGATAAGTGGTGGCTTTATCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
53140535 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTATCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
53140581 TCTGATCAAGAGACAAAGTGATATGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
53140627 TCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* ** * * *
53140673 TCTGATCAAGTGACAAAGTGATCTGATCAAGTGACAAAG-TGATAAGTGGTAGC-TTTA
1 TCTGATCAAGAGACAAA--G---TGAT-AAGTG--GTAGCT--TTA--GCTA-CACTTA
* ** * * * * * *
53140730 GCT-A-CACTTA-TCTGATCA-AGTGACAAAGTGATAAG-TGGTAGCCTTAGCTACACTTA
1 TCTGATCA-AGAGAC--A-AAGTG--A-TAAGTGGT-AGCT-TTAG-C-T----ACACTTA
* * * *
53140786 TCTAATCAAGTGACAAAATGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
53140832 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
53140878 TCTGATCAAGTA-ACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAG-AGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
53140924 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACGCTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
53140969 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
53140994 ATCATACGTA
Statistics
Matches: 377, Mismatches: 46, Indels: 74
0.76 0.09 0.15
Matches are distributed among these distances:
43 12 0.03
44 5 0.01
45 25 0.07
46 262 0.69
47 1 0.00
48 1 0.00
50 2 0.01
51 5 0.01
52 14 0.04
53 10 0.03
54 9 0.02
55 7 0.02
56 9 0.02
57 10 0.03
58 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:53140696 original size:21 final size:21
Alignment explanation
Indices: 53140672--53140715 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
53140662 AGCTACACTT
53140672 ATCTGATCAAGTGACAAAGTG
1 ATCTGATCAAGTGACAAAGTG
53140693 ATCTGATCAAGTGACAAAGTG
1 ATCTGATCAAGTGACAAAGTG
53140714 AT
1 AT
53140716 AAGTGGTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (21 bp):
ATCTGATCAAGTGACAAAGTG
Found at i:53140734 original size:67 final size:67
Alignment explanation
Indices: 53140626--53140761 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
53140616 AGCTACACTT
53140626 ATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTGACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTGACAAAG
53140691 TG
66 TG
* * *
53140693 ATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTGACAAAG
53140758 TG
66 TG
53140760 AT
1 AT
53140762 AAGTGGTAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (67 bp):
ATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTGACAAAG
TG
Found at i:53140778 original size:113 final size:113
Alignment explanation
Indices: 53140580--53140807 Score: 386
Period size: 113 Copynumber: 2.0 Consensus size: 113
53140570 ATCTACACTT
*
53140580 ATCTGATCAAGAGACAAAGTGATATGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAG
* *
53140645 TGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
66 TGATAAGTGATACCTTTAGCTACACTTATCTAATCAAGTGACAAAATG
* *
53140693 ATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAG
*
53140758 TGATAAGTGGTAGCC-TTAGCTACACTTATCTAATCAAGTGACAAAATG
66 TGATAAGTGATA-CCTTTAGCTACACTTATCTAATCAAGTGACAAAATG
53140806 AT
1 AT
53140808 AAGTGGTAGC
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 106 0.98
114 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (113 bp):
ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAG
TGATAAGTGATACCTTTAGCTACACTTATCTAATCAAGTGACAAAATG
Found at i:53140823 original size:159 final size:159
Alignment explanation
Indices: 53140534--53140853 Score: 534
Period size: 159 Copynumber: 2.0 Consensus size: 159
53140524 ATCTACACTT
*
53140534 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTATCTACACTTATCTGATCAAGAGACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAG
* * * *
53140599 TGATATGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAG
66 TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATGATAAGTGATACCTTTAG
*
53140664 CTACACTTATCTGATCAAGTGACAAAGTG
131 CTACACTTATCTGATCAAGAGACAAAGTG
* *
53140693 ATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAG
* *
53140758 TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGTGACAAAATGATAAGTGGTAGCC-TTA
66 TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATGATAAGTGATA-CCTTTA
53140822 GCTACACTTATCTGATCAAGAGACAAAGTG
130 GCTACACTTATCTGATCAAGAGACAAAGTG
53140852 AT
1 AT
53140854 AAGTGGTAGC
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
159 148 0.99
160 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (159 bp):
ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAG
TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATGATAAGTGATACCTTTAG
CTACACTTATCTGATCAAGAGACAAAGTG
Found at i:53140849 original size:205 final size:204
Alignment explanation
Indices: 53140490--53140899 Score: 694
Period size: 205 Copynumber: 2.0 Consensus size: 204
53140480 TTTGAGTACT
* *
53140490 TCTGATCAGTGACAAAGTGATAAGTGGTGGCTTTATCTACACTTATCTGATCAAGAGACAAAGTG
1 TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
* * * * * *
53140555 ATAAGTGGTAGCTTTATCTACACTTATCTGATCAAGAGACAAAGTGATATGTGGTAGCTTTAGCT
66 ATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATGATAAGTGGTAGCCTTAGCT
*
53140620 ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTG
131 ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTA
53140685 ACAAAGTGA
196 ACAAAGTGA
*
53140694 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
*
53140759 GATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGTGACAAAATGATAAGTGGTAGCCTTAGC
65 GATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATGATAAGTGGTAGCCTTAGC
* *
53140824 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGT
130 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGT
53140889 AACAAAGTGA
195 AACAAAGTGA
53140899 T
1 T
53140900 AAGTGGTAGC
Statistics
Matches: 192, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
204 7 0.04
205 185 0.96
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (204 bp):
TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
ATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATGATAAGTGGTAGCCTTAGCT
ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTA
ACAAAGTGA
Found at i:53140940 original size:251 final size:250
Alignment explanation
Indices: 53140490--53140945 Score: 788
Period size: 251 Copynumber: 1.8 Consensus size: 250
53140480 TTTGAGTACT
* * * * *
53140490 TCTGATCAGTGACAAAGTGATAAGTGGTGGCTTTATCTACACTTATCTGATCAAGAGACAAAGTG
1 TCTGATCAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATG
* * *
53140555 ATAAGTGGTAGCTTTATCTACACTTATCTGATCAAGAGACAAAGTGATATGTGGTAGCTTTAGCT
66 ATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCT
53140620 ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTG
131 ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTG
53140685 ACAAAGTGATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
196 ACAAAGTGATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
53140740 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGTGACAAAAT
1 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAAT
53140805 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGC
65 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGC
* *
53140870 TACACTTATCTGATCAAGTA-ACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
130 TACACTTATCTGATCAAG-AGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAG
53140934 TGACAAAGTGAT
194 TGACAAAGTGAT
53140946 AAGTGGTAGC
Statistics
Matches: 193, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
250 7 0.04
251 185 0.96
252 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (250 bp):
TCTGATCAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGAGACAAAATG
ATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCT
ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATACCTTTAGCTACACTTATCTGATCAAGTG
ACAAAGTGATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:53140946 original size:138 final size:137
Alignment explanation
Indices: 53140693--53140993 Score: 516
Period size: 138 Copynumber: 2.2 Consensus size: 137
53140683 TGACAAAGTG
* *
53140693 ATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTAACAAAG
53140758 TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGTGACAAAATGATAAGTGGTAGCCTTAG
66 TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGTGACAAAATGATAAGTGGTAGCC-TAG
53140823 CTACACTT
130 CTACACTT
53140831 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTAACAAAG
1 ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTAACAAAG
* * *
53140896 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGC
66 TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGTGACAAAATGATAAGTGGTAGCCTAGC
*
53140961 TACGCTT
131 TACACTT
*
53140968 ATCTGATC-AGGGAC-AAGTGATAAGTG
1 ATCTGATCAAGAGACAAAGTGATAAGTG
53140994 ATCATACGTA
Statistics
Matches: 156, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
135 12 0.08
136 5 0.03
137 18 0.12
138 121 0.78
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (137 bp):
ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTAACAAAG
TGATAAGTGGTAGCCTTAGCTACACTTATCTAATCAAGTGACAAAATGATAAGTGGTAGCCTAGC
TACACTT
Found at i:53143473 original size:51 final size:51
Alignment explanation
Indices: 53143397--53143516 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
53143387 ACTTCTGATT
* * *
53143397 AGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAATGATAGCTTTAGCTACACTTATCTAATCAATGACA
* * *
53143448 AGTGACAAGTGATAAGTGATAGCTTTAGCTACGCTTGTCTAATCAATGACA
1 AGTGACAAGTGATAAATGATAGCTTTAGCTACACTTATCTAATCAATGACA
*
53143499 AGCGACAAGTGATAAATG
1 AGTGACAAGTGATAAATG
53143517 TGATCCGTGT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAATGATAGCTTTAGCTACACTTATCTAATCAATGACA
Found at i:53147200 original size:13 final size:14
Alignment explanation
Indices: 53147171--53147203 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
53147161 TAATACCAAA
53147171 TAAATTTAGAAATT
1 TAAATTTAGAAATT
*
53147185 TAAATTTA-ATATT
1 TAAATTTAGAAATT
53147198 TAAATT
1 TAAATT
53147204 ATTAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAATTTAGAAATT
Found at i:53151930 original size:68 final size:69
Alignment explanation
Indices: 53151851--53151993 Score: 279
Period size: 69 Copynumber: 2.1 Consensus size: 69
53151841 GAGGAAATTT
53151851 TAATTTATTTGATATTTATGAAATTAAT-AATAATAAGTAATTATAAAAATCATATTAATGCGAA
1 TAATTTATTTGATATTTATGAAATTAATAAATAATAAGTAATTATAAAAATCATATTAATGCGAA
53151915 ATAA
66 ATAA
53151919 TAATTTATTTGATATTTATGAAATTAATAAATAATAAGTAATTATAAAAATCATATTAATGCGAA
1 TAATTTATTTGATATTTATGAAATTAATAAATAATAAGTAATTATAAAAATCATATTAATGCGAA
53151984 ATAA
66 ATAA
53151988 TAATTT
1 TAATTT
53151994 TATTAAAAAG
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 28 0.38
69 46 0.62
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (69 bp):
TAATTTATTTGATATTTATGAAATTAATAAATAATAAGTAATTATAAAAATCATATTAATGCGAA
ATAA
Found at i:53154027 original size:12 final size:12
Alignment explanation
Indices: 53154010--53154036 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
53154000 AGTTTTCTAC
53154010 AGAACTAGCAAG
1 AGAACTAGCAAG
53154022 AGAACTAGCAAG
1 AGAACTAGCAAG
53154034 AGA
1 AGA
53154037 GGTGGCAGCA
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:0.52, C:0.15, G:0.26, T:0.07
Consensus pattern (12 bp):
AGAACTAGCAAG
Found at i:53170797 original size:1 final size:1
Alignment explanation
Indices: 53170791--53170818 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
53170781 CAGAAAATGC
53170791 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
53170819 GCTTCAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:53182141 original size:77 final size:77
Alignment explanation
Indices: 53182031--53182241 Score: 350
Period size: 77 Copynumber: 2.7 Consensus size: 77
53182021 AAAGAACTAT
* * * *
53182031 TATCGTGGCCCAAAACCAATTTATCTGATATGCATGGCCCGAAGCCAAATCGGTATAAATCGCAC
1 TATCATGGCCCGAAGCCAATTTATCTGATATGCATGGCCCGAAGCCAAATTGGTATAAATCGCAC
53182096 CCGAAGTGCTAA
66 CCGAAGTGCTAA
* * * *
53182108 TATCATGGTCCGAAGCCAATTTATCCGATATGCATGTCCCGAAGCCAAATTGATATAAATCGCAC
1 TATCATGGCCCGAAGCCAATTTATCTGATATGCATGGCCCGAAGCCAAATTGGTATAAATCGCAC
53182173 CCGAAGTGCTAA
66 CCGAAGTGCTAA
53182185 TATCATGGCCCGAAGCCAATTTATCTGATATGCATGGCCCGAAGCCAAATTGGTATA
1 TATCATGGCCCGAAGCCAATTTATCTGATATGCATGGCCCGAAGCCAAATTGGTATA
53182242 TCAAATTATA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 122 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (77 bp):
TATCATGGCCCGAAGCCAATTTATCTGATATGCATGGCCCGAAGCCAAATTGGTATAAATCGCAC
CCGAAGTGCTAA
Found at i:53191722 original size:15 final size:15
Alignment explanation
Indices: 53191699--53191732 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
53191689 TTTTAGTATA
* *
53191699 ATTTTTTATAAATTT
1 ATTTATTATAAAATT
53191714 ATTTATTATAAAATT
1 ATTTATTATAAAATT
53191729 ATTT
1 ATTT
53191733 TTTACCGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTATTATAAAATT
Found at i:53191733 original size:28 final size:29
Alignment explanation
Indices: 53191673--53191733 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
53191663 AAAAACTTTA
* *
53191673 ATTTTATCAATTTTATTTTTAGTATAATT
1 ATTTTATCAAATTTATTTTTAGTAAAATT
53191702 -TTTTAT-AAATTTATTTATTA-TAAAATT
1 ATTTTATCAAATTTATTT-TTAGTAAAATT
53191729 ATTTT
1 ATTTT
53191734 TTACCGGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTTTATCAAATTTATTTTTAGTAAAATT
Found at i:53194796 original size:132 final size:132
Alignment explanation
Indices: 53194559--53194821 Score: 472
Period size: 132 Copynumber: 2.0 Consensus size: 132
53194549 TCTTTGTGTA
* *
53194559 ATGTACAACGTGAATGTGAAGTGCGTTTGTTTAATGAAGAAAAAGAAACGAGCAGCGGAATTAGC
1 ATGTACAACGTGAATGTGAAGTGCGTTTGTTTAATCAAGAAAAAGAAAAGAGCAGCGGAATTAGC
* * *
53194624 GCCATCATCATCATGCAGTGCAAACTTGTCCATCTCTGCTTTGTTCTGCTCCTCTTCATTTCAAT
66 ACCATCATCATCATGCAATGCAAACTTGTCCATCTCTGCTTTGTTCTGCTCCTCTTCAATTCAAT
53194689 TT
131 TT
53194691 ATGTACAACGTGAATGTGAAGTGCGTTTGTTTAATCAAGAAAAAGAAAAGAGCAGCGGAATTAGC
1 ATGTACAACGTGAATGTGAAGTGCGTTTGTTTAATCAAGAAAAAGAAAAGAGCAGCGGAATTAGC
*
53194756 ACCATCATCATCATGCAATGCAAACTTGTCCATCTCTGCTTTGTTCTGCTCTTCTTCAATTCAAT
66 ACCATCATCATCATGCAATGCAAACTTGTCCATCTCTGCTTTGTTCTGCTCCTCTTCAATTCAAT
53194821 T
131 T
53194822 AAATTCGGTA
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (132 bp):
ATGTACAACGTGAATGTGAAGTGCGTTTGTTTAATCAAGAAAAAGAAAAGAGCAGCGGAATTAGC
ACCATCATCATCATGCAATGCAAACTTGTCCATCTCTGCTTTGTTCTGCTCCTCTTCAATTCAAT
TT
Found at i:53204569 original size:14 final size:14
Alignment explanation
Indices: 53204550--53204578 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53204540 TAGCCTAATT
53204550 CATCTAACAACCAA
1 CATCTAACAACCAA
53204564 CATCTAACAACCAA
1 CATCTAACAACCAA
53204578 C
1 C
53204579 CCATATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (14 bp):
CATCTAACAACCAA
Found at i:53215719 original size:21 final size:21
Alignment explanation
Indices: 53215695--53215734 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
53215685 GAATTTTAGC
53215695 TGACCGGTTCTGTTGTTTTGG
1 TGACCGGTTCTGTTGTTTTGG
53215716 TGACCGGTTCTGTTGTTTT
1 TGACCGGTTCTGTTGTTTT
53215735 ATGAGTCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.15, G:0.30, T:0.50
Consensus pattern (21 bp):
TGACCGGTTCTGTTGTTTTGG
Found at i:53215809 original size:31 final size:32
Alignment explanation
Indices: 53215774--53215840 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 32
53215764 TTATTCCCGC
53215774 TTGGG-ATATCCCAATTCTAGGG-TATCCC-GTG
1 TTGGGTATATCCC-ATTC-AGGGATATCCCGGTG
53215805 TTGGGTATATCCCATTCAGGGATATCCCGGTG
1 TTGGGTATATCCCATTCAGGGATATCCCGGTG
53215837 TTGG
1 TTGG
53215841 TTAAGGGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.12
31 15 0.45
32 14 0.42
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (32 bp):
TTGGGTATATCCCATTCAGGGATATCCCGGTG
Found at i:53216751 original size:18 final size:18
Alignment explanation
Indices: 53216728--53216765 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
53216718 ATATGTTTCT
53216728 AAGAACTAAAAAAATATA
1 AAGAACTAAAAAAATATA
53216746 AAGAACTAAAAAAATATA
1 AAGAACTAAAAAAATATA
53216764 AA
1 AA
53216766 TTCAAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAGAACTAAAAAAATATA
Found at i:53219719 original size:22 final size:22
Alignment explanation
Indices: 53219691--53219735 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
53219681 AACTTGTTCT
53219691 AAAGATGAAAACCACAATACCC
1 AAAGATGAAAACCACAATACCC
53219713 AAAGATGAAAACCACAATACCC
1 AAAGATGAAAACCACAATACCC
53219735 A
1 A
53219736 CAGAAATAAG
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:0.56, C:0.27, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAGATGAAAACCACAATACCC
Found at i:53224681 original size:19 final size:19
Alignment explanation
Indices: 53224647--53224683 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53224637 GAGGTTTCAA
*
53224647 TTTGGGTTTTTATTTGAGT
1 TTTGGGTTTTGATTTGAGT
*
53224666 TTTGGGTTTTGGTTTGAG
1 TTTGGGTTTTGATTTGAG
53224684 GTTTCAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.59
Consensus pattern (19 bp):
TTTGGGTTTTGATTTGAGT
Found at i:53226417 original size:35 final size:35
Alignment explanation
Indices: 53226371--53226508 Score: 145
Period size: 35 Copynumber: 3.9 Consensus size: 35
53226361 TCTTAGACAC
** *
53226371 AGCCTTCAAGGCATACTTTGTCTTCTTCGGCACTT
1 AGCCTTCAAGGCATACTTCATCTTCTTCGACACTT
* * * *
53226406 AGCCTTTAAGGCAAACTTCATCTTC-TCAAATACTT
1 AGCCTTCAAGGCATACTTCATCTTCTTC-GACACTT
* * *
53226441 GGCCTTCAAGGCATGCTTCGTCTTCTAT-GACACTT
1 AGCCTTCAAGGCATACTTCATCTTCT-TCGACACTT
*
53226476 AGCCTTCAAGGCATACTTCATCTTCTTAGACAC
1 AGCCTTCAAGGCATACTTCATCTTCTTCGACAC
53226509 AGGCTTCAAG
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
34 3 0.04
35 78 0.95
37 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.34
Consensus pattern (35 bp):
AGCCTTCAAGGCATACTTCATCTTCTTCGACACTT
Found at i:53229450 original size:14 final size:14
Alignment explanation
Indices: 53229431--53229457 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53229421 TTCATTTTTC
53229431 AGGGGAGAGGCAAA
1 AGGGGAGAGGCAAA
53229445 AGGGGAGAGGCAA
1 AGGGGAGAGGCAA
53229458 GTTTCACATT
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:0.41, C:0.07, G:0.52, T:0.00
Consensus pattern (14 bp):
AGGGGAGAGGCAAA
Found at i:53233354 original size:24 final size:24
Alignment explanation
Indices: 53233327--53233400 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
53233317 GTAAGTGTTT
53233327 TTTCATTCTTTTCAAATATTTTCC
1 TTTCATTCTTTTCAAATATTTTCC
* * *
53233351 TTTC-TCCTTTCTTAACTACTGTTT--
1 TTTCATTCTTT-TCAAATA-T-TTTCC
53233375 TTTCATTCTTTTCAAATATTTTCC
1 TTTCATTCTTTTCAAATATTTTCC
53233399 TT
1 TT
53233401 CTGTCCTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
22 3 0.08
23 6 0.16
24 20 0.53
25 6 0.16
26 3 0.08
ACGTcount: A:0.18, C:0.22, G:0.01, T:0.59
Consensus pattern (24 bp):
TTTCATTCTTTTCAAATATTTTCC
Found at i:53234216 original size:19 final size:20
Alignment explanation
Indices: 53234192--53234230 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
53234182 CAATTGTTTT
53234192 AAAA-TTAA-ATAAGTTTAAA
1 AAAATTTAATATAA-TTTAAA
53234211 AAAATTTAATATAATTTAAA
1 AAAATTTAATATAATTTAAA
53234231 TTTTTAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAATTTAATATAATTTAAA
Found at i:53238553 original size:19 final size:19
Alignment explanation
Indices: 53238529--53238567 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
53238519 AAATAAGCAC
53238529 TGAATTTATTTTACAACGT
1 TGAATTTATTTTACAACGT
53238548 TGAATTTATTTTACAACGT
1 TGAATTTATTTTACAACGT
53238567 T
1 T
53238568 TTATTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (19 bp):
TGAATTTATTTTACAACGT
Found at i:53238616 original size:31 final size:30
Alignment explanation
Indices: 53238547--53238617 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
53238537 TTTTACAACG
* *
53238547 TTGAATTTATTTTACAACGTTTTATTAATC
1 TTGAATTTATTTTACAACGTTTTAGTAAGC
*
53238577 TCTAAATTTATTTTACAACGTTTTAGTAAGC
1 T-TGAATTTATTTTACAACGTTTTAGTAAGC
53238608 ATTGAATTTA
1 -TTGAATTTA
53238618 ATTCATTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.49
Consensus pattern (30 bp):
TTGAATTTATTTTACAACGTTTTAGTAAGC
Found at i:53238842 original size:31 final size:30
Alignment explanation
Indices: 53238804--53238896 Score: 107
Period size: 31 Copynumber: 3.1 Consensus size: 30
53238794 ATTCCAGCCA
*
53238804 GGGATATCCTACTCCACGGATATCCCGGCTT
1 GGGATATCCTATTCCA-GGATATCCCGGCTT
* * *
53238835 GGGATATCCTATTCGAGGGTCATCCCGGCCT
1 GGGATATCCTATTCCAGGAT-ATCCCGGCTT
* *
53238866 GGGAT-TACTATTCTAGGATATCCCGGCTT
1 GGGATATCCTATTCCAGGATATCCCGGCTT
53238895 GG
1 GG
53238897 AATCTAGTGG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.21
30 14 0.26
31 28 0.53
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (30 bp):
GGGATATCCTATTCCAGGATATCCCGGCTT
Found at i:53242346 original size:94 final size:94
Alignment explanation
Indices: 53242185--53242374 Score: 353
Period size: 94 Copynumber: 2.0 Consensus size: 94
53242175 GTTGGCTGAC
53242185 TCCGTATTTCTGGACCTACCGCAACCTTGGCTAGCCATTCCTTCAGCTTGAAACATGTTACAAGA
1 TCCGTATTTCTGGACCTACCGCAACCTTGGCTAGCCATTCCTTCAGCTTGAAACATGTTACAAGA
53242250 TGGAACTCTGTGTTCCTTCTCACCGTGCA
66 TGGAACTCTGTGTTCCTTCTCACCGTGCA
** *
53242279 TCCGTATTTCTGGACCTATTGCAACCTTGGCTAGCCATTCCTTCAGCTTGAAACATGTTACGAGA
1 TCCGTATTTCTGGACCTACCGCAACCTTGGCTAGCCATTCCTTCAGCTTGAAACATGTTACAAGA
53242344 TGGAACTCTGTGTTCCTTCTCACCGTGCA
66 TGGAACTCTGTGTTCCTTCTCACCGTGCA
53242373 TC
1 TC
53242375 GAACAAGTGC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (94 bp):
TCCGTATTTCTGGACCTACCGCAACCTTGGCTAGCCATTCCTTCAGCTTGAAACATGTTACAAGA
TGGAACTCTGTGTTCCTTCTCACCGTGCA
Found at i:53245061 original size:15 final size:16
Alignment explanation
Indices: 53245028--53245072 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
53245018 GCGGTATTTT
*
53245028 TTTTTTGTTTATCATG
1 TTTTTTGTTTTTCATG
*
53245044 TTTTTTGTTTTTGA-G
1 TTTTTTGTTTTTCATG
*
53245059 TTTTCTGTTTTTCA
1 TTTTTTGTTTTTCA
53245073 GCAGAAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.71
Consensus pattern (16 bp):
TTTTTTGTTTTTCATG
Found at i:53245264 original size:21 final size:21
Alignment explanation
Indices: 53245240--53245311 Score: 144
Period size: 21 Copynumber: 3.4 Consensus size: 21
53245230 ATATCCCGTC
53245240 CCGGTTCAGCTGTTTCAGTGT
1 CCGGTTCAGCTGTTTCAGTGT
53245261 CCGGTTCAGCTGTTTCAGTGT
1 CCGGTTCAGCTGTTTCAGTGT
53245282 CCGGTTCAGCTGTTTCAGTGT
1 CCGGTTCAGCTGTTTCAGTGT
53245303 CCGGTTCAG
1 CCGGTTCAG
53245312 ATTTTTTGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.10, C:0.25, G:0.29, T:0.36
Consensus pattern (21 bp):
CCGGTTCAGCTGTTTCAGTGT
Done.