Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 158 of 204
Found at i:47840933 original size:18 final size:18
Alignment explanation
Indices: 47840882--47840933 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
47840872 TTCTAAGAAA
47840882 CACTTTT-AGGACAAAAAG
1 CACTTTTGA-GACAAAAAG
*
47840900 CACTTTTGGGACAAAAAG
1 CACTTTTGAGACAAAAAG
* *
47840918 TACTTTTGAGATAAAA
1 CACTTTTGAGACAAAA
47840934 GCATTCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.27
Consensus pattern (18 bp):
CACTTTTGAGACAAAAAG
Found at i:47843178 original size:58 final size:60
Alignment explanation
Indices: 47843088--47843211 Score: 207
Period size: 58 Copynumber: 2.1 Consensus size: 60
47843078 CACAACTTTA
*
47843088 ATTAACTTGTAACCCAGTTTATAATCGACCTAATTAGG-TCATA-ATGGAAACTATAAAT
1 ATTAACTTGTAACCCAGTTTATAATCGACCTAATTAGGTTAATACATGGAAACTATAAAT
47843146 ATTAACTTGTAACCCAGTTTATAATCGACCTAATTAGGTTATAATACATGGAAACTATAAAT
1 ATTAACTTGTAACCCAGTTTATAATCGACCTAATTAGG-T-TAATACATGGAAACTATAAAT
47843208 ATTA
1 ATTA
47843212 GCTCAAAACA
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
58 38 0.62
61 4 0.07
62 19 0.31
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (60 bp):
ATTAACTTGTAACCCAGTTTATAATCGACCTAATTAGGTTAATACATGGAAACTATAAAT
Found at i:47848103 original size:41 final size:42
Alignment explanation
Indices: 47847996--47848105 Score: 118
Period size: 41 Copynumber: 2.7 Consensus size: 42
47847986 CAAGCTTTAT
* * * * *
47847996 GCCTAGCAGGCGTCATGCCAATGTATT-AATTTAGGCTTTGT
1 GCCTAGCAGGCTTTATGCCGATGTATTGAATTTAGGCCTTGA
* * *
47848037 GCCTAGTAGGCTTTGA-GCTGGTGTATTGAA-TTAGGCCTTGA
1 GCCTAGCAGGCTTT-ATGCCGATGTATTGAATTTAGGCCTTGA
47848078 GCCTAGCAGGCTTTATGCCGATGTATTG
1 GCCTAGCAGGCTTTATGCCGATGTATTG
47848106 TATCAAGTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
40 1 0.02
41 51 0.93
42 3 0.05
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (42 bp):
GCCTAGCAGGCTTTATGCCGATGTATTGAATTTAGGCCTTGA
Found at i:47852257 original size:21 final size:22
Alignment explanation
Indices: 47852224--47852265 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
47852214 AATTTTAAAA
*
47852224 TTTTTGATAGTCATATAATATT
1 TTTTTCATAGTCATATAATATT
47852246 TTTTTCAT-GTCATATAATAT
1 TTTTTCATAGTCATATAATAT
47852266 AAATGTGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (22 bp):
TTTTTCATAGTCATATAATATT
Found at i:47852323 original size:44 final size:44
Alignment explanation
Indices: 47852269--47852360 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
47852259 ATAATATAAA
* *
47852269 TGTGTGCCGCATATAATATTAGGTGTTCCATTTAATACATAGCT
1 TGTGTGCCGCACATAATATTAAGTGTTCCATTTAATACATAGCT
* *
47852313 TGTGTGCCGCACATAATATTAAGTGTTTCATTTAATGCATAGCT
1 TGTGTGCCGCACATAATATTAAGTGTTCCATTTAATACATAGCT
47852357 TGTG
1 TGTG
47852361 AGGTTTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (44 bp):
TGTGTGCCGCACATAATATTAAGTGTTCCATTTAATACATAGCT
Found at i:47863805 original size:6 final size:6
Alignment explanation
Indices: 47863796--47863822 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
47863786 TTATTTTTAG
47863796 TTTGGT TTTGGT TTTGGT TTTGGT TTT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTT
47863823 TTAGCTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (6 bp):
TTTGGT
Found at i:47870341 original size:25 final size:27
Alignment explanation
Indices: 47870286--47870342 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
47870276 CACATTTAAA
* * *
47870286 AAATATATATCAATTTATTTTTATATT
1 AAATAAATATCAATTTATTTGTATATG
*
47870313 AAATAAATAT-AA-TTATTTGTGTATG
1 AAATAAATATCAATTTATTTGTATATG
47870338 AAATA
1 AAATA
47870343 TATAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 15 0.58
26 2 0.08
27 9 0.35
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (27 bp):
AAATAAATATCAATTTATTTGTATATG
Found at i:47872861 original size:28 final size:26
Alignment explanation
Indices: 47872786--47872864 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
47872776 CTGGACATTT
* *
47872786 TTAATTCAAGTATTAATGTG-CTGTAA
1 TTAATACAAATATTAATGTGTCT-TAA
*
47872812 TTAATACATATATTAA-GTTGTCTTAA
1 TTAATACAAATATTAATG-TGTCTTAA
*
47872838 TTTAATACAAATTTTTAATGTGTCTTA
1 -TTAATACAAA-TATTAATGTGTCTTA
47872865 GGCCAGCCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
26 18 0.42
27 11 0.26
28 12 0.28
29 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (26 bp):
TTAATACAAATATTAATGTGTCTTAA
Found at i:47882399 original size:39 final size:39
Alignment explanation
Indices: 47882356--47882430 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
47882346 AATGATATTT
*
47882356 AAATTTATTAATATTATGATATATGAAATATATAAACTC
1 AAATTGATTAATATTATGATATATGAAATATATAAACTC
* *
47882395 AAATTGGTTAATATTATGATATATGGAATATATAAA
1 AAATTGATTAATATTATGATATATGAAATATATAAA
47882431 TTTTGATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (39 bp):
AAATTGATTAATATTATGATATATGAAATATATAAACTC
Found at i:47892601 original size:21 final size:21
Alignment explanation
Indices: 47892553--47892596 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
47892543 ATGTACACCA
*
47892553 ATAAATACAAACAATCCATAG
1 ATAAATACAAACAATACATAG
47892574 ATAAATACAAACAA-ACATA-
1 ATAAATACAAACAATACATAG
47892593 ATAA
1 ATAA
47892597 CAATAGCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 14 0.64
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.18
Consensus pattern (21 bp):
ATAAATACAAACAATACATAG
Found at i:47892815 original size:12 final size:12
Alignment explanation
Indices: 47892800--47892843 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
47892790 ATAACATCTA
47892800 TAATAATAGTAG
1 TAATAATAGTAG
47892812 TAATAATAGTAG
1 TAATAATAGTAG
*
47892824 TAATAATAATAG
1 TAATAATAGTAG
*
47892836 GAATAATA
1 TAATAATA
47892844 ATAAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.32
Consensus pattern (12 bp):
TAATAATAGTAG
Found at i:47892817 original size:15 final size:15
Alignment explanation
Indices: 47892799--47892847 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
47892789 AATAACATCT
* *
47892799 ATAATAATAGTAGTA
1 ATAATAGTAGTAATA
47892814 ATAATAGTAGTAATA
1 ATAATAGTAGTAATA
* *
47892829 ATAATAGGAATAATA
1 ATAATAGTAGTAATA
47892844 ATAA
1 ATAA
47892848 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (15 bp):
ATAATAGTAGTAATA
Found at i:47892875 original size:17 final size:18
Alignment explanation
Indices: 47892855--47892888 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47892845 TAAAATTTAA
47892855 AAAACACAAAAA-AAAAC
1 AAAACACAAAAAGAAAAC
*
47892872 AAAATACAAAAAGAAAA
1 AAAACACAAAAAGAAAA
47892889 AACCGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (18 bp):
AAAACACAAAAAGAAAAC
Found at i:47893475 original size:1 final size:1
Alignment explanation
Indices: 47893430--47893456 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
47893420 GAAACACCAG
47893430 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
47893457 GAAGAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:47894937 original size:52 final size:52
Alignment explanation
Indices: 47894839--47894939 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
47894829 TATAAATTAC
*
47894839 AATATTGTCATAAGTTAAACATAATTTATTTTTCAATTAATATATGTAATCT
1 AATATTGTCATAAGTTAAACATAATTTATTTTTCAATCAATATATGTAATCT
*
47894891 AATATTGTCATATGTTAAACATAATTTATTTTTCAATCAATATATGTAA
1 AATATTGTCATAAGTTAAACATAATTTATTTTTCAATCAATATATGTAA
47894940 GCTTTGTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (52 bp):
AATATTGTCATAAGTTAAACATAATTTATTTTTCAATCAATATATGTAATCT
Found at i:47902705 original size:62 final size:62
Alignment explanation
Indices: 47902608--47902732 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
47902598 GAGTAGTTTT
47902608 TGATGATGTACCAGAGGCTCTCGAAAAGTGGCATGCACTGAGTATAAAGGTATTATTACGAA
1 TGATGATGTACCAGAGGCTCTCGAAAAGTGGCATGCACTGAGTATAAAGGTATTATTACGAA
47902670 TGATGATGTACCAGAGGCTCTCGAAAAGTGGCATGCACTGAGTATAAAGGTATTATTACGAA
1 TGATGATGTACCAGAGGCTCTCGAAAAGTGGCATGCACTGAGTATAAAGGTATTATTACGAA
47902732 T
1 T
47902733 TTCCTTTACT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (62 bp):
TGATGATGTACCAGAGGCTCTCGAAAAGTGGCATGCACTGAGTATAAAGGTATTATTACGAA
Found at i:47903242 original size:22 final size:22
Alignment explanation
Indices: 47903214--47903257 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47903204 CTTTTTACTT
47903214 TGTTTTGCTTTATGCTTATCAC
1 TGTTTTGCTTTATGCTTATCAC
47903236 TGTTTTGCTTTATGCTTATCAC
1 TGTTTTGCTTTATGCTTATCAC
47903258 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.55
Consensus pattern (22 bp):
TGTTTTGCTTTATGCTTATCAC
Found at i:47903330 original size:12 final size:12
Alignment explanation
Indices: 47903313--47903339 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47903303 GCAGATATAA
47903313 AAGAGAAACACG
1 AAGAGAAACACG
47903325 AAGAGAAACACG
1 AAGAGAAACACG
47903337 AAG
1 AAG
47903340 TTATGTCGAA
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:0.59, C:0.15, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAGAAACACG
Found at i:47908730 original size:5 final size:5
Alignment explanation
Indices: 47908720--47908765 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
47908710 TCTTTATTTT
47908720 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-ATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
47908766 TGCTTAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:47910589 original size:737 final size:737
Alignment explanation
Indices: 47909172--47910644 Score: 2545
Period size: 737 Copynumber: 2.0 Consensus size: 737
47909162 TACGGCTCAG
* * * *
47909172 TTTATAAAAACAATGTCCCGATACTTTATTTTTTAAAACCACTTGAACTTAATAAATCATTTATA
1 TTTATAAAAACAAGGTCCCGATACCTTATTTTCTAAAACCACTTGAACTTAATAAATCACTTATA
47909237 TAACATAAATTATCAAATCAAAAATCTTTTTAAAAATCACTTTTGACTCGTAAATATTAAATAAT
66 TAACATAAATTATCAAATCAAAAATCTTTTTAAAAATCACTTTTGACTCGTAAATATTAAATAAT
47909302 AATATTTACGAACTTACTCGTCAGATTTAGTGGCCCCGAAACCACTGTTTCTGACACCACTAAAA
131 AATATTTACGAACTTACTCGTCAGATTTAGTGGCCCCGAAACCACTGTTTCTGACACCACTAAAA
* *
47909367 AAACGGGATGTTACAACTCTTCTCCCTTACAAAAATTTCATCCTCGAAATTTCTTACTTGGTACA
196 AAACGGGATGTTACAACTCTTCCCCCTTACAAAAATTTCATCATCGAAATTTCTTACTTGGTACA
* *
47909432 AGCTATTAAGTCAAGTGTTCCTTCCACCTTTTTAATTGAAGTCCATAAAAATCAATCATAACTCA
261 AGCTATTAAGTCAAGTGTTCCTTCCACCTTTTCAATCGAAGTCCATAAAAATCAATCATAACTCA
**
47909497 TATCATTTCCGAACTCATATCAGTACTCATTTTAGAACTTGATACTAGACCTGAACTTAACTAAG
326 TATCATTTCCGAACTCATATCAAAACTCATTTTAGAACTTGATACTAGACCTGAACTTAACTAAG
47909562 TAGCTCTGATGTTCTCCTGTCATCACTTTATCACTAGTAGTATAACTACCGAGAAATTCCCAGTA
391 TAGCTCTGATGTTCTCCTGTCATCACTTTATCACTAGTAGTATAACTACCGAGAAATTCCCAGTA
* *
47909627 ATCATCTGTTGAAACATAATCGAGAAACTCAGATTATCAAACTCTGACTGATGTTTCTGAAGTGG
456 ATCATCTGTCGAAACATAATCGAGAAACTCAGATTATCAAACTCTAACTGATGTTTCTGAAGTGG
* *
47909692 TTGCATCTGTAACTTTCAACTGATATTTGTTCCCCTTTTTCCAGGAAAGCGTCAAGCAATATCAT
521 TTGCATCTGTAACTTTCAACTGATATTTGTTCCCCTTTTTCCAGGAAAGCATCAAACAATATCAT
47909757 TTTACACAACTGCGATAACTTCAACAATCGGGACAACTTTAACCCATAATAACATTTCCCGATTA
586 TTTACACAACTGCGATAACTTCAACAATCGGGACAACTTTAACCCATAATAACATTTCCCGATTA
* * * *
47909822 GAACTGACCTGATAGATATATTTTTGTATCAAGTCTTCTAGAATCTGAATTTCTCATTCTGACTC
651 GAACTGACCTGATAGATATATTTCTGTATCAAGTATTCTAGAATATGAATTTCTCATTCTAAC-C
47909887 -TCCGTCTATTTACCCATAAATA
715 ATCCGTCTATTTACCCATAAATA
* *
47909909 TTTATAAAAACAAGGTCTCGATACCTTATTTTCTAAAATCACTTGAACTTAATAAATCACTTATA
1 TTTATAAAAACAAGGTCCCGATACCTTATTTTCTAAAACCACTTGAACTTAATAAATCACTTATA
* *
47909974 TAACATAAATTATCAAATCAAAAATCTTTTTTAAAATCAGTTTTGACTCGTAAATATTAAATAAT
66 TAACATAAATTATCAAATCAAAAATCTTTTTAAAAATCACTTTTGACTCGTAAATATTAAATAAT
* * *
47910039 AATATTTATGAACTTACTCGTCAGATTTGGTGGCCCCGAAACCACTGTTTCTGATACCACTAAAA
131 AATATTTACGAACTTACTCGTCAGATTTAGTGGCCCCGAAACCACTGTTTCTGACACCACTAAAA
**
47910104 AAACGGGATGTTACAACTCTTCCCCCTTACAAAAATTTTGTCATCGAAATTTCTTACTTGGTACA
196 AAACGGGATGTTACAACTCTTCCCCCTTACAAAAATTTCATCATCGAAATTTCTTACTTGGTACA
* *
47910169 AGCTATTAAGTCAATTGTTCCTTCCACCTTTTCAATCGAAGTCTATAAAAATCAATCATAACTCA
261 AGCTATTAAGTCAAGTGTTCCTTCCACCTTTTCAATCGAAGTCCATAAAAATCAATCATAACTCA
47910234 TATCATTTCCGAACTCATATCAAAACTCATTTTAGAACTTGATACTAGACCTGAACTTAACTAAG
326 TATCATTTCCGAACTCATATCAAAACTCATTTTAGAACTTGATACTAGACCTGAACTTAACTAAG
*
47910299 TAGCTCTGATGTTCTCCTGTCATCACTTTATCACTAGTAGTATAACTATCGAGAAATTCCCAGTA
391 TAGCTCTGATGTTCTCCTGTCATCACTTTATCACTAGTAGTATAACTACCGAGAAATTCCCAGTA
* * * *
47910364 ATCGTCTGTCGAAATATAATTGAGAAACTCGGATTATCAAACTCTAACTGATGTTTCTGACA-TG
456 ATCATCTGTCGAAACATAATCGAGAAACTCAGATTATCAAACTCTAACTGATGTTTCTGA-AGTG
47910428 GTTGCATCTGTAACTTTCAACTGATATTTGTTCCCCTTTTTCCAGGAAAGCATCAAACAATATCA
520 GTTGCATCTGTAACTTTCAACTGATATTTGTTCCCCTTTTTCCAGGAAAGCATCAAACAATATCA
* * ** * *
47910493 TTTTACACAACTGCGATAACTTTAACAATTGGGATGACTTTAACCTATAATAACATTTTCCGATT
585 TTTTACACAACTGCGATAACTTCAACAATCGGGACAACTTTAACCCATAATAACATTTCCCGATT
47910558 AGAACTGACCTGATAGATATATTTCTGTATCAAGTATTCTAGAATATGAATTTCTCATTCTAACC
650 AGAACTGACCTGATAGATATATTTCTGTATCAAGTATTCTAGAATATGAATTTCTCATTCTAACC
*
47910623 ATCCGTCTATTTACCTATAAAT
715 ATCCGTCTATTTACCCATAAAT
47910645 GCACAAAATT
Statistics
Matches: 693, Mismatches: 41, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
736 1 0.00
737 691 1.00
738 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (737 bp):
TTTATAAAAACAAGGTCCCGATACCTTATTTTCTAAAACCACTTGAACTTAATAAATCACTTATA
TAACATAAATTATCAAATCAAAAATCTTTTTAAAAATCACTTTTGACTCGTAAATATTAAATAAT
AATATTTACGAACTTACTCGTCAGATTTAGTGGCCCCGAAACCACTGTTTCTGACACCACTAAAA
AAACGGGATGTTACAACTCTTCCCCCTTACAAAAATTTCATCATCGAAATTTCTTACTTGGTACA
AGCTATTAAGTCAAGTGTTCCTTCCACCTTTTCAATCGAAGTCCATAAAAATCAATCATAACTCA
TATCATTTCCGAACTCATATCAAAACTCATTTTAGAACTTGATACTAGACCTGAACTTAACTAAG
TAGCTCTGATGTTCTCCTGTCATCACTTTATCACTAGTAGTATAACTACCGAGAAATTCCCAGTA
ATCATCTGTCGAAACATAATCGAGAAACTCAGATTATCAAACTCTAACTGATGTTTCTGAAGTGG
TTGCATCTGTAACTTTCAACTGATATTTGTTCCCCTTTTTCCAGGAAAGCATCAAACAATATCAT
TTTACACAACTGCGATAACTTCAACAATCGGGACAACTTTAACCCATAATAACATTTCCCGATTA
GAACTGACCTGATAGATATATTTCTGTATCAAGTATTCTAGAATATGAATTTCTCATTCTAACCA
TCCGTCTATTTACCCATAAATA
Found at i:47913372 original size:30 final size:29
Alignment explanation
Indices: 47913307--47913380 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
47913297 TATAAAGGCT
* **
47913307 TATTCTTATAAATTTTAAAAAAATTGGTC
1 TATTTTTATAAATTTTAAAAAAATTGACC
47913336 TATTTTTATAATATTTTAAAAAAAATTGACC
1 TATTTTTATAA-ATTTT-AAAAAAATTGACC
*
47913367 T-TTTTTAAAAATTT
1 TATTTTTATAAATTT
47913381 AGTCTGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 14 0.36
30 13 0.33
31 12 0.31
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (29 bp):
TATTTTTATAAATTTTAAAAAAATTGACC
Found at i:47916062 original size:17 final size:18
Alignment explanation
Indices: 47916036--47916069 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47916026 CCCATTTACC
47916036 AATTTGTGAAA-ATGTTA
1 AATTTGTGAAAGATGTTA
*
47916053 AATTTTTGAAAGATGTT
1 AATTTGTGAAAGATGTT
47916070 GTTGTTGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (18 bp):
AATTTGTGAAAGATGTTA
Found at i:47919318 original size:15 final size:15
Alignment explanation
Indices: 47919275--47919318 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
47919265 CTGTTTTGTT
47919275 TCTTTCATTTACCTG
1 TCTTTCATTTACCTG
* *
47919290 TC-TT-GTTTAACTG
1 TCTTTCATTTACCTG
47919303 TCTTTCATTTACCTG
1 TCTTTCATTTACCTG
47919318 T
1 T
47919319 TCTTAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.14, C:0.23, G:0.09, T:0.55
Consensus pattern (15 bp):
TCTTTCATTTACCTG
Found at i:47920811 original size:31 final size:31
Alignment explanation
Indices: 47920769--47920833 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
47920759 GTGGTTAAAG
*
47920769 TTGTTTCAATCAATCTTATATTGAAATGACT
1 TTGTTTAAATCAATCTTATATTGAAATGACT
47920800 TTGTTTAAATCAATCTTATATTGAAATGACT
1 TTGTTTAAATCAATCTTATATTGAAATGACT
47920831 TTG
1 TTG
47920834 ACATCCATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (31 bp):
TTGTTTAAATCAATCTTATATTGAAATGACT
Found at i:47921263 original size:23 final size:24
Alignment explanation
Indices: 47921226--47921287 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
47921216 GTTAAAAAAG
*
47921226 TTTAATATGGTTTACAATATATTT
1 TTTAATATGATTTACAATATATTT
47921250 TTTAA-ATGATTTACAATATATTT
1 TTTAATATGATTTACAATATATTT
47921273 AAGTTTAATATGATT
1 ---TTTAATATGATT
47921288 GATTTACAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 17 0.52
24 5 0.15
26 5 0.15
27 6 0.18
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (24 bp):
TTTAATATGATTTACAATATATTT
Found at i:47922399 original size:40 final size:40
Alignment explanation
Indices: 47922344--47922442 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
47922334 GCGTTTGGAT
*
47922344 AAAAAATGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTA
1 AAAAAATGCCGCTAAAAATCAAGCATTAGCGGCACTTTTA
* * ** * *
47922384 AAAAAATGCCACTAAAGATTGAGTATTAGCGGCACTTTTT
1 AAAAAATGCCGCTAAAAATCAAGCATTAGCGGCACTTTTA
*
47922424 AAAAAACGCCGCTAAAAAT
1 AAAAAATGCCGCTAAAAAT
47922443 TTACTTTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.23
Consensus pattern (40 bp):
AAAAAATGCCGCTAAAAATCAAGCATTAGCGGCACTTTTA
Found at i:47922466 original size:26 final size:27
Alignment explanation
Indices: 47922424--47922483 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
47922414 GGCACTTTTT
*
47922424 AAAAAACGCCGCTAAAAATTTACTT-TA
1 AAAAAACGCCACT-AAAATTTACTTATA
**
47922451 AAAAAACGCCAC-AAAATTTTTTTATA
1 AAAAAACGCCACTAAAATTTACTTATA
47922477 AAAAAAC
1 AAAAAAC
47922484 ATTTTTATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 9 0.31
26 9 0.31
27 11 0.38
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (27 bp):
AAAAAACGCCACTAAAATTTACTTATA
Found at i:47926540 original size:42 final size:42
Alignment explanation
Indices: 47926489--47926764 Score: 176
Period size: 43 Copynumber: 6.5 Consensus size: 42
47926479 TTAAAGATTA
* * * *
47926489 TGTTTTTAGCGGCGTTTTTGCTAGAAGCGCCACTAAAGGT-T
1 TGTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCT
*
47926530 TGTTCTTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCAT
1 TGTT-TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTC-T
* * *
47926574 GGTTTATAGCGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCT
1 TGTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCT
* * * ** * * ** *
47926616 TGGTCTTTAGTGGCATTTGTGGGAGAAGCGTCGCTAAAGACCA
1 T-GTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCT
* ** *** * *
47926659 AGACCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAAGTCGT
1 TG-TTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTC-T
* * * *** * *
47926703 GGTCTTTAGCGGTGTTTGTGGGGAAAGCACCGCTAAACGTCT
1 TGTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCT
*
47926745 TGTTCTTTAGCGGCATTTGT
1 TGTT-TTTAGCGGCGTTTGT
47926765 TTCTAAAAAC
Statistics
Matches: 188, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
41 4 0.02
42 36 0.19
43 143 0.76
44 5 0.03
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (42 bp):
TGTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCT
Found at i:47926670 original size:86 final size:85
Alignment explanation
Indices: 47926493--47926739 Score: 226
Period size: 86 Copynumber: 2.9 Consensus size: 85
47926483 AGATTATGTT
* * * * * *
47926493 TTTAGCGGCGTTTTTGCTAGAAGCGCCACTAAAGGT-TTGTTCTTTAGCGGCATTTGTGATAAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAAA
** * **
47926557 GCGCCGCTAAAGGTCATGGT
66 GCGCCGCTAAAGACCAAGCC
* * * *
47926577 TTATAGCGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCTTGGTCTTTAGTGGCATTTGTGGGAGA
1 TT-TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAA
*
47926642 AGCGTCGCTAAAGACCAAGACC
65 AGCGCCGCTAAAGACCAAG-CC
*** * * * ** * *
47926664 TTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAAGTCGTGGTCTTTAGCGGTGTTTGTGGGGAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAAA
*
47926729 GCACCGCTAAA
66 GCGCCGCTAAA
47926740 CGTCTTGTTC
Statistics
Matches: 130, Mismatches: 30, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
84 2 0.02
85 29 0.22
86 97 0.75
87 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAAA
GCGCCGCTAAAGACCAAGCC
Found at i:47927426 original size:72 final size:72
Alignment explanation
Indices: 47927304--47927474 Score: 249
Period size: 72 Copynumber: 2.4 Consensus size: 72
47927294 AACAACAATG
* * * *
47927304 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTTTGTTCTATTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
47927368 ATTTAT-
66 ATTTATA
* * *
47927374 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
47927439 TATTTATA
65 TATTTATA
47927447 CTAAAT-TAGTTTTATCAATAGTTGTTTA
1 CTAAATCTAGTTTTATCAATAGTTGTTTA
47927475 AATATGATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.26
72 63 0.72
73 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:47929524 original size:13 final size:13
Alignment explanation
Indices: 47929506--47929530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47929496 ATACTCAAAT
47929506 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
47929519 TTCTCAAAAGCA
1 TTCTCAAAAGCA
47929531 ATAAAGATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:47933405 original size:5 final size:5
Alignment explanation
Indices: 47933395--47933420 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47933385 TGAGAAAAGG
47933395 GTGCA GTGCA GTGCA GTGCA GTGCA G
1 GTGCA GTGCA GTGCA GTGCA GTGCA G
47933421 GTTTCTCACT
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:0.19, C:0.19, G:0.42, T:0.19
Consensus pattern (5 bp):
GTGCA
Found at i:47938088 original size:972 final size:972
Alignment explanation
Indices: 47935932--47938118 Score: 3910
Period size: 972 Copynumber: 2.2 Consensus size: 972
47935922 CAACAAAAAA
* * **
47935932 TCCACTACAGATGGACACGTGCCAGCGTGACAAGTTATCTGAGAAATAATCGTAACCAATCCTTC
1 TCCACTACAGGTGGACATGTGCCAGCGTGACAAGCCATCTGAGAAATAATCGTAACCAATCCTTC
47935997 GGCTCTACTCGAACGCCTTGGTGACTGTTTCTCCCATATTCTTACTCTCCGTTTGACCCTCTATC
66 GGCTCTACTCGAACGCCTTGGTGACTGTTTCTCCCATATTCTTACTCTCCGTTTGACCCTCTATC
*
47936062 TTAGCAAGGGACTTGGACTACACGCGTCTTCTTGAAAGACCTAAACCTCCCGCTTTTAGAGACAA
131 TTAGCAAGGGACTTGGACTGCACGCGTCTTCTTGAAAGACCTAAACCTCCCGCTTTTAGAGACAA
*
47936127 TCTACCTGCTTGGAAAACATCCTTGCTAGCCACAAGCTTTGAACATACCCGTTGTTGGAAAAATT
196 TCTACCTGCTTGGCAAACATCCTTGCTAGCCACAAGCTTTGAACATACCCGTTGTTGGAAAAATT
47936192 GCATTTTACGGAACTTTGAGGCATATTCTCAATAGGTAAAGGTACAGAGTTGAATCATAAAATTA
261 GCATTTTACGGAACTTTGAGGCATATTCTCAATAGGTAAAGGTACAGAGTTGAATCATAAAATTA
47936257 TGGTTTCATATTCTACTCCATGAGACCTTTACAACGGTATATTATATGCTCAAAATGGTTGAGCG
326 TGGTTTCATATTCTACTCCATGAGACCTTTACAACGGTATATTATATGCTCAAAATGGTTGAGCG
*
47936322 ATGAATGAGAAATTGATGCTTAAAGTAAGCTAGTTGAAAATATTTGTTGAGGAAAAGAAAAGCTT
391 ATGAATGAAAAATTGATGCTTAAAGTAAGCTAGTTGAAAATATTTGTTGAGGAAAAGAAAAGCTT
47936387 AGATCCCACATTGGTTAAATACCAAGTGTGAGATGTGTTTATATATGGGAACCCTCTTGAAAAAT
456 AGATCCCACATTGGTTAAATACCAAGTGTGAGATGTGTTTATATATGGGAACCCTCTTGAAAAAT
47936452 AATTGAATGACTAAGTTTGGAACCTTACCTCTTGCATAGGGGGTGCAAGTCCAAATCTATCGGGG
521 AATTGAATGACTAAGTTTGGAACCTTACCTCTTGCATAGGGGGTGCAAGTCCAAATCTATCGGGG
* * * *
47936517 TTGGGGTGTACTTGTACGTCGTGGGCAACGCGAAATGTTCAGAATGTTCAAACTAGTCATGCCCA
586 TTGGGGTGCACTTGTACGACATGGGCAACGCGAAATGTTCAGAATCTTCAAACTAGTCATGCCCA
* * * *
47936582 AAAAAACAAAAAAGTAGGCTCCTTATTTTTTTTTCGATATTCCGGTGATAAAAAAAATCATCTTT
651 AAAAAACAAAAAAGTAGGCTCCTTATTTTTTTTTCAATATTCCGATGATAAAAAAAAGCATCCTT
*
47936647 TGTTCGTTAAATATGAACTGTGAAATAAACATGAAAGCTACCAACAAAAAAATAATTACATTAAA
716 TGTTCGTTAAATATGAACAGTGAAATAAACATGAAAGCTACCAACAAAAAAATAATTACATTAAA
47936712 CATAAATTAAATTTAGACTCGAATCAAATTCTTAAACTCGAAATCCAACACCAATCAGGTTTTAA
781 CATAAATTAAATTTAGACTCGAATCAAATTCTTAAACTCGAAATCCAACACCAATCAGGTTTTAA
47936777 GTAACGCAAGTTATTTATTTCTGCAACAATAACCATTGAATAGCATTAATAACACTCGATTTGAT
846 GTAACGCAAGTTATTTATTTCTGCAACAATAACCATTGAATAGCATTAATAACACTCGATTTGAT
*
47936842 TAATATGTACTTATTAAAAGGTTAGATAATCAGACAAAAAATAAACCGTAAATTATTATACT
911 CAATATGTACTTATTAAAAGGTTAGATAATCAGACAAAAAATAAACCGTAAATTATTATACT
*
47936904 TCCATTACAGGTGGACATGTGCCAGCGTGACAAGCCATCTGAGAAATAATCGTAACCAATCCTTC
1 TCCACTACAGGTGGACATGTGCCAGCGTGACAAGCCATCTGAGAAATAATCGTAACCAATCCTTC
47936969 GGCTCTACTCGAACGCCTTGGTGACTGTTTCTCCCATATTCTTACTCTCCGTTTGACCCTCTATC
66 GGCTCTACTCGAACGCCTTGGTGACTGTTTCTCCCATATTCTTACTCTCCGTTTGACCCTCTATC
47937034 TTAGCAAGGGACTTGGACTGCACGCGTCTTCTTGAAAGACCTAAACCTCCCGCTTTTAGAGACAA
131 TTAGCAAGGGACTTGGACTGCACGCGTCTTCTTGAAAGACCTAAACCTCCCGCTTTTAGAGACAA
* *
47937099 TCTACCTGCTTGGCAAACATCCATGCTAGCCACAAGCTTTGAACATACCTGTTGTTGGAAAAATT
196 TCTACCTGCTTGGCAAACATCCTTGCTAGCCACAAGCTTTGAACATACCCGTTGTTGGAAAAATT
47937164 GCATTTTACGGAACTTTGAGGCATATTCTCAATAGGTAAAGGTACAGAGTTGAATCATAAAATTA
261 GCATTTTACGGAACTTTGAGGCATATTCTCAATAGGTAAAGGTACAGAGTTGAATCATAAAATTA
* *
47937229 TGGTTTCATATTCTACTCCATGAGACCTTTACAACGGTATATTATATGTTCAAAATGGTTTAGCG
326 TGGTTTCATATTCTACTCCATGAGACCTTTACAACGGTATATTATATGCTCAAAATGGTTGAGCG
47937294 ATGAATGAAAAATTGATGCTTAAAGTAAGCTAGTTGAAAATATTTGTTGAGGAAAAGAAAAGCTT
391 ATGAATGAAAAATTGATGCTTAAAGTAAGCTAGTTGAAAATATTTGTTGAGGAAAAGAAAAGCTT
47937359 AGATCCCACATTGGTTAAATACCAAGTGTGAGATGTGTTTATATATGGGAACCCTCTTGAAAAAT
456 AGATCCCACATTGGTTAAATACCAAGTGTGAGATGTGTTTATATATGGGAACCCTCTTGAAAAAT
47937424 AATTGAATGACTAAGTTTGGAACCTTACCTCTTGCATAGGAGGGTGCAAGTCCAAATC-ATCGGG
521 AATTGAATGACTAAGTTTGGAACCTTACCTCTTGCATAGG-GGGTGCAAGTCCAAATCTATCGGG
** *
47937488 GTTGGGGTGCACTTGTACGACATGGGCAACGCGAGTTGTTTAGAATCTTCAAACTAGTCATGCCC
585 GTTGGGGTGCACTTGTACGACATGGGCAACGCGAAATGTTCAGAATCTTCAAACTAGTCATGCCC
* * * * * *
47937553 AAAAATACGAAAAAGTAGGCTCCTTA-TTTTTTTTCAATATTTCGATGCTAGAAAAAAGCGTCCT
650 AAAAAAACAAAAAAGTAGGCTCCTTATTTTTTTTTCAATATTCCGATGATAAAAAAAAGCATCCT
*
47937617 TTGTTCGTTGAATATGAACAGTGAAATAAACATGAAAGCTACCAACAAAAAAATAATTACATTAA
715 TTGTTCGTTAAATATGAACAGTGAAATAAACATGAAAGCTACCAACAAAAAAATAATTACATTAA
* * * * *
47937682 ACATCAATTAAATTTAGATTCGAATTAAATTTTTAAACTTGAAATCCAACACCAATCAGGTTTTA
780 ACATAAATTAAATTTAGACTCGAATCAAATTCTTAAACTCGAAATCCAACACCAATCAGGTTTTA
*
47937747 AGTAACGCAAGTTATTTATTTCTGCAATAATAACCATTGAATAGCATTAATAACACTCGATTTGA
845 AGTAACGCAAGTTATTTATTTCTGCAACAATAACCATTGAATAGCATTAATAACACTCGATTTGA
*
47937812 TCAATATGTATTTATTAAAAGGTTAGATAATCAGACAAAAAATAAACCGTAAATTATTATACT
910 TCAATATGTACTTATTAAAAGGTTAGATAATCAGACAAAAAATAAACCGTAAATTATTATACT
* * *
47937875 TCCAGTACAGGTGGACATGTGCCAGCGTAACAAGCCATCTGAGAAATAATCGTAAACAATCCTTC
1 TCCACTACAGGTGGACATGTGCCAGCGTGACAAGCCATCTGAGAAATAATCGTAACCAATCCTTC
* *
47937940 GGCTCTACTCGAACGCCTTGGTGACTGTCTCTCCGATATTCTTACTCTCCGTTTGACCCTCTATC
66 GGCTCTACTCGAACGCCTTGGTGACTGTTTCTCCCATATTCTTACTCTCCGTTTGACCCTCTATC
* * *
47938005 TCAGCAAAGGACTTGGACTGCACGCGTCTTCTTGAAAGACCTAAACCTCCCGCTTCTAGAGACAA
131 TTAGCAAGGGACTTGGACTGCACGCGTCTTCTTGAAAGACCTAAACCTCCCGCTTTTAGAGACAA
*
47938070 TCCACCTGCTTAGGCAAACATCCTTGCTAGCCACAAGCTTTGAACATAC
196 TCTACCTGCTT-GGCAAACATCCTTGCTAGCCACAAGCTTTGAACATAC
47938119 TTGTAAGTCC
Statistics
Matches: 1164, Mismatches: 49, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
971 475 0.41
972 672 0.58
973 17 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (972 bp):
TCCACTACAGGTGGACATGTGCCAGCGTGACAAGCCATCTGAGAAATAATCGTAACCAATCCTTC
GGCTCTACTCGAACGCCTTGGTGACTGTTTCTCCCATATTCTTACTCTCCGTTTGACCCTCTATC
TTAGCAAGGGACTTGGACTGCACGCGTCTTCTTGAAAGACCTAAACCTCCCGCTTTTAGAGACAA
TCTACCTGCTTGGCAAACATCCTTGCTAGCCACAAGCTTTGAACATACCCGTTGTTGGAAAAATT
GCATTTTACGGAACTTTGAGGCATATTCTCAATAGGTAAAGGTACAGAGTTGAATCATAAAATTA
TGGTTTCATATTCTACTCCATGAGACCTTTACAACGGTATATTATATGCTCAAAATGGTTGAGCG
ATGAATGAAAAATTGATGCTTAAAGTAAGCTAGTTGAAAATATTTGTTGAGGAAAAGAAAAGCTT
AGATCCCACATTGGTTAAATACCAAGTGTGAGATGTGTTTATATATGGGAACCCTCTTGAAAAAT
AATTGAATGACTAAGTTTGGAACCTTACCTCTTGCATAGGGGGTGCAAGTCCAAATCTATCGGGG
TTGGGGTGCACTTGTACGACATGGGCAACGCGAAATGTTCAGAATCTTCAAACTAGTCATGCCCA
AAAAAACAAAAAAGTAGGCTCCTTATTTTTTTTTCAATATTCCGATGATAAAAAAAAGCATCCTT
TGTTCGTTAAATATGAACAGTGAAATAAACATGAAAGCTACCAACAAAAAAATAATTACATTAAA
CATAAATTAAATTTAGACTCGAATCAAATTCTTAAACTCGAAATCCAACACCAATCAGGTTTTAA
GTAACGCAAGTTATTTATTTCTGCAACAATAACCATTGAATAGCATTAATAACACTCGATTTGAT
CAATATGTACTTATTAAAAGGTTAGATAATCAGACAAAAAATAAACCGTAAATTATTATACT
Found at i:47946805 original size:3 final size:3
Alignment explanation
Indices: 47946797--47946823 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47946787 AAACATTAAA
47946797 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
47946824 CAGATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47949864 original size:15 final size:16
Alignment explanation
Indices: 47949844--47949887 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
47949834 CAAATAATTT
47949844 AAAATTATAAAA-ATA
1 AAAATTATAAAATATA
47949859 AAAATTA-AAAATATA
1 AAAATTATAAAATATA
47949874 AAAAGTTCATAAAA
1 AAAA-TT-ATAAAA
47949888 GTTCAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.16
15 14 0.56
16 2 0.08
17 1 0.04
18 4 0.16
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATTATAAAATATA
Found at i:47951745 original size:16 final size:17
Alignment explanation
Indices: 47951713--47951745 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47951703 GTTCATCATG
47951713 ATAAAATAAAAAAATAT
1 ATAAAATAAAAAAATAT
*
47951730 ATAAAA-AAATAAATAT
1 ATAAAATAAAAAAATAT
47951746 GAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAATAAAAAAATAT
Found at i:47951763 original size:12 final size:13
Alignment explanation
Indices: 47951741--47951769 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47951731 TAAAAAAATA
47951741 AATATGAAATAAT
1 AATATGAAATAAT
47951754 AATA-GAAATAAT
1 AATATGAAATAAT
47951766 AATA
1 AATA
47951770 AATTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
AATATGAAATAAT
Found at i:47958485 original size:25 final size:28
Alignment explanation
Indices: 47958456--47958507 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
47958446 TATATTAGTA
47958456 AAGGTTAATATA-GTA-AAT-TAACAAT
1 AAGGTTAATATATGTATAATATAACAAT
47958481 AAGGTTAATATATGTATAATATAACAA
1 AAGGTTAATATATGTATAATATAACAA
47958508 ATTAAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 3 0.12
27 3 0.12
28 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (28 bp):
AAGGTTAATATATGTATAATATAACAAT
Found at i:47960446 original size:41 final size:41
Alignment explanation
Indices: 47960401--47960504 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
47960391 GACTTTAAGT
**
47960401 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCAATAAAC
*
47960442 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCAATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCAATAAAC
* *
47960483 CTAACAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTACGTGCCGGTGA
47960505 ATATGTTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCAATAAAC
Found at i:47962220 original size:41 final size:41
Alignment explanation
Indices: 47962158--47962333 Score: 253
Period size: 41 Copynumber: 4.3 Consensus size: 41
47962148 AATTTAACAT
* * *
47962158 ATTCAGATCACCGGCACTTAGCCTGTTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * * *
47962199 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
47962240 ATTCAGATCACCGGCACTTAACCTGCTAGGCTTATAGCATG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
47962281 ATTCAGATCACCGGCACTTAGCCTTCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
47962322 ATTTAGATCACC
1 ATTCAGATCACC
47962334 AATTCCAAAC
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:47962558 original size:41 final size:41
Alignment explanation
Indices: 47962501--47962595 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
47962491 TTCGCTCCTT
47962501 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
*
47962542 TGATTCAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
47962583 TGATTCAGATCAC
1 TGATTCAGATCAC
47962596 AAATTTCAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:47967642 original size:31 final size:31
Alignment explanation
Indices: 47967604--47967669 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
47967594 TTAAGAGTAT
* *
47967604 AAAATTCACAATTAGCATCGGATAATCATCC
1 AAAATTCACAATTAACATCGAATAATCATCC
* * *
47967635 AAAATTCACGATTAACATTGAATAATCATTC
1 AAAATTCACAATTAACATCGAATAATCATCC
47967666 AAAA
1 AAAA
47967670 GCGCATTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (31 bp):
AAAATTCACAATTAACATCGAATAATCATCC
Found at i:47967798 original size:18 final size:19
Alignment explanation
Indices: 47967757--47967799 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
47967747 GTATATTAAC
47967757 ATATATGTTATTAAAAACT
1 ATATATGTTATTAAAAACT
* *
47967776 A-ATATTTTATTATAAA-T
1 ATATATGTTATTAAAAACT
47967793 ATATATG
1 ATATATG
47967800 AAAAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATATATGTTATTAAAAACT
Found at i:47968142 original size:31 final size:31
Alignment explanation
Indices: 47968100--47968160 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
47968090 GAATAATATT
* *
47968100 CGTTTCGTTTTCTTTTAAAGTGGTGACGATA
1 CGTTTCATTTTCTCTTAAAGTGGTGACGATA
*
47968131 CGTTTCATTTTCTCTTAAAGTGGTGGCGAT
1 CGTTTCATTTTCTCTTAAAGTGGTGACGAT
47968161 GATAATAGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (31 bp):
CGTTTCATTTTCTCTTAAAGTGGTGACGATA
Found at i:47969892 original size:22 final size:23
Alignment explanation
Indices: 47969851--47969896 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47969841 AAAATGTCAA
47969851 TAAATAAAAAAAATATTAAATAT
1 TAAATAAAAAAAATATTAAATAT
* *
47969874 TAAATTAAAATAATA-TAAATAT
1 TAAATAAAAAAAATATTAAATAT
47969896 T
1 T
47969897 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAAAAAAATATTAAATAT
Found at i:47970570 original size:48 final size:48
Alignment explanation
Indices: 47970488--47970581 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
47970478 TTTCTTGGCT
* *
47970488 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
47970536 TAAAAACGCCTAAGTCAG-CTCAA-TTCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
47970582 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 5 0.12
48 37 0.88
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:47973080 original size:48 final size:48
Alignment explanation
Indices: 47972998--47973091 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
47972988 TTTCTTGGCT
* *
47972998 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
47973046 TAAAAACGCCTAAGTCAG-CTCAA-TTCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
47973092 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 5 0.12
48 37 0.88
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:47974560 original size:27 final size:27
Alignment explanation
Indices: 47974521--47974579 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
47974511 GCCTGATCAG
47974521 GCCAATCACATTGGAGGCACCAAAGGT
1 GCCAATCACATTGGAGGCACCAAAGGT
* * * *
47974548 GCCAATGAGATTGGCGGCACCAATGGT
1 GCCAATCACATTGGAGGCACCAAAGGT
47974575 GCCAA
1 GCCAA
47974580 AGGACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (27 bp):
GCCAATCACATTGGAGGCACCAAAGGT
Found at i:47974824 original size:27 final size:27
Alignment explanation
Indices: 47974788--47974865 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
47974778 ATTTTAGTCT
47974788 TTTGGCACCATTGGTGCCGCCAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCTC
* *
47974815 TTTGGCACCATTGGTGTCGTCAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCTC
* * *
47974842 ATTGGCACCTTTGGTGCCTCCAAT
1 TTTGGCACCATTGGTGCCGCCAAT
47974866 GTGATTGGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.15, C:0.29, G:0.22, T:0.33
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCGCCAATCTC
Found at i:47974872 original size:27 final size:27
Alignment explanation
Indices: 47974789--47974874 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
47974779 TTTTAGTCTT
* *
47974789 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCTCCAATCTCA
*
47974816 TTGGCACCATTGGTGTCGT-CAATCTCA
1 TTGGCACCATTGGTG-CCTCCAATCTCA
* * *
47974843 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCTCCAATCTCA
47974870 TTGGC
1 TTGGC
47974875 CTGATCAGGC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 47 0.94
28 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCTCCAATCTCA
Found at i:47974918 original size:18 final size:18
Alignment explanation
Indices: 47974895--47974930 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47974885 TGTGTCAGGT
*
47974895 TTTTTTTTCTATTTTTTG
1 TTTTTTTTCTATATTTTG
*
47974913 TTTTTTTTGTATATTTTG
1 TTTTTTTTCTATATTTTG
47974931 GTAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCTATATTTTG
Found at i:47974947 original size:29 final size:29
Alignment explanation
Indices: 47974923--47974985 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
47974913 TTTTTTTTGT
47974923 ATATTTTGGTAAATAAAAAAATTTTTATA
1 ATATTTTGGTAAATAAAAAAATTTTTATA
47974952 ATATTTTGGTAAATAAAAAAA---TTATA
1 ATATTTTGGTAAATAAAAAAATTTTTATA
47974978 ATATTTTG
1 ATATTTTG
47974986 ATTATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 13 0.38
29 21 0.62
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAAAATTTTTATA
Found at i:47979366 original size:43 final size:43
Alignment explanation
Indices: 47979318--47979406 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
47979308 AACACTATCA
*
47979318 TTAAAGTCAATTTTCATTTCAGTTACATGTCGTTAATTCAATG
1 TTAAAGTCAATTTTCATTTCAGTTACATGTCATTAATTCAATG
47979361 TTAAAGTCAATTTTCATTTCAGTTACATGTCATTAATTCAATG
1 TTAAAGTCAATTTTCATTTCAGTTACATGTCATTAATTCAATG
47979404 TTA
1 TTA
47979407 TTGTACATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.45
Consensus pattern (43 bp):
TTAAAGTCAATTTTCATTTCAGTTACATGTCATTAATTCAATG
Found at i:47979522 original size:20 final size:22
Alignment explanation
Indices: 47979497--47979555 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
47979487 TTTACTAAAA
*
47979497 AAAAACTTGAGTTTATA-A-GG
1 AAAAACTTGAATTTATACATGG
*
47979517 AAAAACTT-AATTTTTACATGG
1 AAAAACTTGAATTTATACATGG
47979538 AAAAACTTG-ATTT-TACAT
1 AAAAACTTGAATTTATACAT
47979556 TAAAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.18
20 14 0.41
21 14 0.41
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (22 bp):
AAAAACTTGAATTTATACATGG
Found at i:47979532 original size:21 final size:21
Alignment explanation
Indices: 47979508--47979551 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47979498 AAAACTTGAG
*
47979508 TTTATAAGGAAAAACTTAATT
1 TTTACAAGGAAAAACTTAATT
* *
47979529 TTTACATGGAAAAACTTGATT
1 TTTACAAGGAAAAACTTAATT
47979550 TT
1 TT
47979552 ACATTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (21 bp):
TTTACAAGGAAAAACTTAATT
Found at i:47979561 original size:20 final size:21
Alignment explanation
Indices: 47979517--47979562 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
47979507 GTTTATAAGG
*
47979517 AAAAACTTAATTTTTACATGG
1 AAAAACTTAATTTTTACATGA
* *
47979538 AAAAACTTGA-TTTTACATTA
1 AAAAACTTAATTTTTACATGA
47979558 AAAAA
1 AAAAA
47979563 TTTATTTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAAACTTAATTTTTACATGA
Found at i:47979569 original size:19 final size:20
Alignment explanation
Indices: 47979496--47979569 Score: 51
Period size: 21 Copynumber: 3.6 Consensus size: 20
47979486 ATTTACTAAA
* * *
47979496 AAAAAACTTGAGTTTATAAGG
1 AAAAAA-TTGATTTTACATGG
* *
47979517 AAAAACTTAATTTTTACATGG
1 AAAAAATTGA-TTTTACATGG
* *
47979538 AAAAACTTGATTTTACAT-T
1 AAAAAATTGATTTTACATGG
*
47979557 AAAAAATTTATTT
1 AAAAAATTGATTT
47979570 ACCTTTAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 11 0.26
20 11 0.26
21 21 0.49
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (20 bp):
AAAAAATTGATTTTACATGG
Found at i:47979722 original size:18 final size:18
Alignment explanation
Indices: 47979701--47979736 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47979691 TTTACAAGAA
*
47979701 AAAATAATTTTATTTTTT
1 AAAATAATTTAATTTTTT
*
47979719 AAAATTATTTAATTTTTT
1 AAAATAATTTAATTTTTT
47979737 TATTTTCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AAAATAATTTAATTTTTT
Found at i:47979971 original size:22 final size:22
Alignment explanation
Indices: 47979920--47979973 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
47979910 TTTTCCAAAA
*
47979920 ACATGAAAAATTATAGGCTTTT
1 ACATGAAAAAATATAGGCTTTT
** *
47979942 ACCGGAAAAAATACTA-GTTTTT
1 ACATGAAAAAATA-TAGGCTTTT
47979964 ACATGAAAAA
1 ACATGAAAAA
47979974 GCCTGAGCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (22 bp):
ACATGAAAAAATATAGGCTTTT
Found at i:47980211 original size:31 final size:30
Alignment explanation
Indices: 47980175--47980252 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 30
47980165 CACAGATAAT
*
47980175 TAAAATGAAAATATTTTTTAACGATAATACC
1 TAAAATGAAAATATTTTTTAACG-GAATACC
* * * **
47980206 TAAAATAAAAATAAATTTTTACCGGAATATT
1 TAAAATGAAAAT-ATTTTTTAACGGAATACC
47980237 TAAAATGAAAAT-TTTT
1 TAAAATGAAAATATTTT
47980253 AGTTTTTGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 3 0.08
31 26 0.68
32 9 0.24
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (30 bp):
TAAAATGAAAATATTTTTTAACGGAATACC
Found at i:47987312 original size:13 final size:14
Alignment explanation
Indices: 47987289--47987317 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47987279 AATATTTGAG
47987289 TAAAAATATAAGTT
1 TAAAAATATAAGTT
47987303 TAAAAA-ATAAGTT
1 TAAAAATATAAGTT
47987316 TA
1 TA
47987318 GGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
TAAAAATATAAGTT
Found at i:47996976 original size:31 final size:27
Alignment explanation
Indices: 47996934--47997017 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 27
47996924 AATCTCAAAA
47996934 TAATACATGAACTTTGATTTAGTGTGCAATT
1 TAATACATGAACTTTGATTT-G-GTG-AA-T
*
47996965 TAATACTTGAACTTTGATTTGGTGAAT
1 TAATACATGAACTTTGATTTGGTGAAT
47996992 TATATACATGTAACTTTGATTATGGT
1 TA-ATACATG-AACTTTGATT-TGGT
47997018 TCAAATGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
27 3 0.06
28 8 0.17
29 13 0.27
30 5 0.10
31 19 0.40
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (27 bp):
TAATACATGAACTTTGATTTGGTGAAT
Found at i:47997405 original size:14 final size:14
Alignment explanation
Indices: 47997386--47997425 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
47997376 TTGATTGCCA
47997386 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
47997400 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
47997414 GGAAAATGTTTT
1 GTAAAATGTTTT
47997426 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:47997434 original size:20 final size:20
Alignment explanation
Indices: 47997409--47997448 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47997399 CGTAAAATGA
*
47997409 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
47997429 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
47997449 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:47997438 original size:34 final size:35
Alignment explanation
Indices: 47997394--47997460 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
47997384 CAGTAAAATG
*
47997394 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
47997428 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
47997461 TTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:48002641 original size:26 final size:27
Alignment explanation
Indices: 48002612--48002679 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
48002602 AAAAATAAAA
*
48002612 ATTTACCAAAATATAAT-CCTTTTTTT
1 ATTTACCAAAATATAATAACTTTTTTT
* * *
48002638 ATTTACTAAAATATTATAATTTTTTTT
1 ATTTACCAAAATATAATAACTTTTTTT
48002665 ATTTACCAAAATATA
1 ATTTACCAAAATATA
48002680 CCAAAAAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTACCAAAATATAATAACTTTTTTT
Found at i:48003237 original size:19 final size:17
Alignment explanation
Indices: 48003213--48003273 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 17
48003203 TCTGATTAAG
48003213 TAATAACTCCATTTTAATT
1 TAATAACT--ATTTTAATT
* *
48003232 TAATAAGCTATTCTCATT
1 TAATAA-CTATTTTAATT
*
48003250 TAATAACTATATTTTAAAT
1 TAATAAC--TATTTTAATT
48003269 TAATA
1 TAATA
48003274 GAAATACTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 13 0.38
19 18 0.53
20 2 0.06
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (17 bp):
TAATAACTATTTTAATT
Found at i:48003800 original size:27 final size:26
Alignment explanation
Indices: 48003764--48003821 Score: 107
Period size: 27 Copynumber: 2.2 Consensus size: 26
48003754 TTTTAGTCCT
48003764 TTGGCACATTGGTGCCGCCAATGGCA
1 TTGGCACATTGGTGCCGCCAATGGCA
48003790 TTGGCACCATTGGTGCCGCCAATGGCA
1 TTGGCA-CATTGGTGCCGCCAATGGCA
48003817 TTGGC
1 TTGGC
48003822 CTGATCAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.24
Consensus pattern (26 bp):
TTGGCACATTGGTGCCGCCAATGGCA
Found at i:48003930 original size:28 final size:27
Alignment explanation
Indices: 48003871--48003940 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
48003861 TTTTTTTTGG
***
48003871 TATATTTTGGTAAATAAAAAAATTTAT
1 TATATTTTGGTAAATAAAAAAAGGGAT
* *
48003898 AATATTTTAGTAAATAAAAAAAAGGGAT
1 TATATTTTGGTAAAT-AAAAAAAGGGAT
48003926 TATATTTTGGTAAAT
1 TATATTTTGGTAAAT
48003941 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (27 bp):
TATATTTTGGTAAATAAAAAAAGGGAT
Found at i:48006136 original size:26 final size:25
Alignment explanation
Indices: 48006073--48006139 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
48006063 TTCAAATATG
*
48006073 ATTAAACTTAATCACTTTAATATTAA
1 ATTAAACTTAAT-ATTTTAATATTAA
* *
48006099 ATTTAA-TCTAATATTTATAATATTAT
1 ATTAAACT-TAATATTT-TAATATTAA
48006125 ATTAAACTTAATATT
1 ATTAAACTTAATATT
48006140 AAATCTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 4 0.12
26 29 0.85
27 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTAAACTTAATATTTTAATATTAA
Found at i:48007369 original size:17 final size:18
Alignment explanation
Indices: 48007347--48007380 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
48007337 AAAACTCAAA
48007347 AAAATAAACC-TTATTTT
1 AAAATAAACCTTTATTTT
48007364 AAAATAAACCTTTATTT
1 AAAATAAACCTTTATTT
48007381 AAAGTCAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAAACCTTTATTTT
Found at i:48014346 original size:16 final size:16
Alignment explanation
Indices: 48014325--48014357 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48014315 ATATTTTATA
*
48014325 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
48014341 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
48014357 T
1 T
48014358 TTTTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:48030264 original size:62 final size:59
Alignment explanation
Indices: 48030195--48030311 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
48030185 AATGATTATC
* * *
48030195 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTAT-AT-T-GATAAATATTATATTAATTTAATAAGAT
* *
48030257 TTAATATTAAATTTAATCTAATTTTTATATTGATTAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATATTGATAAATATTATATTAATTTAATA
48030312 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATATTGATAAATATTATATTAATTTAATAAGAT
Found at i:48030301 original size:15 final size:15
Alignment explanation
Indices: 48030281--48030324 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48030271 AATCTAATTT
48030281 TTATATTGATTAATA
1 TTATATTGATTAATA
*
48030296 TTATATTAATTTAATA
1 TTATATTGA-TTAATA
* *
48030312 TTAAAGTGATTAA
1 TTATATTGATTAA
48030325 GTTTAATCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TTATATTGATTAATA
Found at i:48034883 original size:71 final size:71
Alignment explanation
Indices: 48034758--48034926 Score: 223
Period size: 71 Copynumber: 2.4 Consensus size: 71
48034748 TTTGATGCAA
* * * ** ***
48034758 CTCACTCAAGCTGTCGAGAATCTACAACTTATGTTGGATCTTAGTCATTGCTAAATAATGATTCA
1 CTCACTCAAGCTGTTGAGAATCTGCAACTTATGTTGGATCTCAACCACCACTAAATAATGATTCA
*
48034823 ATGCTT-
66 AT-ATTG
* *
48034829 CTCATTCAAGCTGTTGAGAATCTGCAACTTATGTTGGATCTCAACCACCACTAAATAATGATTCG
1 CTCACTCAAGCTGTTGAGAATCTGCAACTTATGTTGGATCTCAACCACCACTAAATAATGATTCA
48034894 ATATTG
66 ATATTG
48034900 CTCACTCAAGCTGTTGAGAATCTGCAA
1 CTCACTCAAGCTGTTGAGAATCTGCAA
48034927 GATTACTCAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
70 2 0.02
71 83 0.98
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (71 bp):
CTCACTCAAGCTGTTGAGAATCTGCAACTTATGTTGGATCTCAACCACCACTAAATAATGATTCA
ATATTG
Found at i:48036931 original size:9 final size:9
Alignment explanation
Indices: 48036917--48036960 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
48036907 CTATTTCCCC
48036917 AAAAAATTGA
1 AAAAAATT-A
48036927 AAAAAATTA
1 AAAAAATTA
*
48036936 AAAAAAGATA
1 AAAAAA-TTA
*
48036946 AAAAAAATA
1 AAAAAATTA
48036955 AAAAAA
1 AAAAAA
48036961 AATTGTGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (9 bp):
AAAAAATTA
Found at i:48036932 original size:10 final size:10
Alignment explanation
Indices: 48036917--48036964 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
48036907 CTATTTCCCC
*
48036917 AAAAAATTGA
1 AAAAAATTAA
48036927 AAAAAATTAA
1 AAAAAATTAA
48036937 AAAAAGA-TAA
1 AAAAA-ATTAA
*
48036947 AAAAAATAAA
1 AAAAAATTAA
48036957 AAAAAATT
1 AAAAAATT
48036965 GTGGGTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 1 0.03
10 31 0.94
11 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:48036961 original size:9 final size:9
Alignment explanation
Indices: 48036926--48036961 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
48036916 CAAAAAATTG
*
48036926 AAAAAAATT
1 AAAAAAAAT
48036935 AAAAAAAGAT
1 AAAAAAA-AT
48036945 AAAAAAAAT
1 AAAAAAAAT
48036954 AAAAAAAA
1 AAAAAAAA
48036962 ATTGTGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:48037972 original size:21 final size:22
Alignment explanation
Indices: 48037942--48037986 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
48037932 AAGTAAATTG
48037942 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
48037964 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
48037985 TT
1 TT
48037987 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:48038851 original size:35 final size:34
Alignment explanation
Indices: 48038807--48038911 Score: 133
Period size: 35 Copynumber: 3.1 Consensus size: 34
48038797 TTCACTTGTC
* * *
48038807 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA-GTATTA
* *
48038842 TTTTGTTGCAGGGAATCTCTCCTGTTCA-TATCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAGTATTA
48038875 -TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA-GTATTA
48038909 TTT
1 TTT
48038912 CTTTTGGACC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 26 0.43
33 3 0.05
34 4 0.07
35 27 0.45
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (34 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCAGTATTA
Found at i:48038888 original size:32 final size:33
Alignment explanation
Indices: 48038807--48038902 Score: 122
Period size: 32 Copynumber: 2.9 Consensus size: 33
48038797 TTCACTTGTC
* * * *
48038807 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--TATCA
*
48038842 TTTTGTTGCAGGGAATCTCTCCTGTTCATATCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCATATCA
48038875 -TTTCTTGCAGGGAATCTCTCCTGTTCAT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAT
48038903 GTATTATTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 27 0.49
33 3 0.05
35 25 0.45
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (33 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCATATCA
Found at i:48041741 original size:21 final size:22
Alignment explanation
Indices: 48041711--48041755 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
48041701 GAGCAAATTG
48041711 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
48041733 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
48041754 TT
1 TT
48041756 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:48048506 original size:20 final size:22
Alignment explanation
Indices: 48048476--48048519 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
48048466 AGAAAAAGAG
48048476 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
48048497 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
48048518 AA
1 AA
48048520 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Found at i:48051361 original size:32 final size:33
Alignment explanation
Indices: 48051310--48051483 Score: 208
Period size: 35 Copynumber: 5.2 Consensus size: 33
48051300 CAGGTCCAAA
*
48051310 AAGAAATAATACATGAACAGGAGAGATTCCCTGC
1 AAGAAATAAT-CGTGAACAGGAGAGATTCCCTGC
*
48051344 AAGAAATGAT-GTGAACAGGAGAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
*
48051376 AACAAAATAATGCGTGAACAGGAGAGATTCCCTGC
1 AA-GAAATAAT-CGTGAACAGGAGAGATTCCCTGC
* * *
48051411 AAGAAATGAT-GTGAACAAGAAAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
* * *
48051443 AACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAGA-AATAAT-CGTGAACAGGAGAGATTCCCTGC
48051478 AAGAAA
1 AAGAAA
48051484 AGACAAGTGA
Statistics
Matches: 121, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
32 46 0.38
33 11 0.09
34 17 0.14
35 47 0.39
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (33 bp):
AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
Found at i:48051421 original size:67 final size:67
Alignment explanation
Indices: 48051313--48051483 Score: 279
Period size: 67 Copynumber: 2.6 Consensus size: 67
48051303 GTCCAAAAAG
* * * *
48051313 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAAGAAAGATTCCCTGCAA
48051378 CA
66 CA
48051380 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAAGAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAAGAAAGATTCCCTGCAA
48051445 CA
66 CA
* * *
48051447 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAA
48051484 AGACAAGTGA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 97 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (67 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAAGAAAGATTCCCTGCAA
CA
Found at i:48053457 original size:17 final size:17
Alignment explanation
Indices: 48053401--48053459 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
48053391 TTTCTTGATC
48053401 AAAATTAAATTTTTCAA-
1 AAAATTAAA-TTTTCAAT
48053418 AAATATTCAAGATTTTC--T
1 AAA-ATT-AA-ATTTTCAAT
48053436 AAAATTAAATTTTCAAT
1 AAAATTAAATTTTCAAT
48053453 AAAATTA
1 AAAATTA
48053460 TTTAATCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
15 6 0.17
16 2 0.06
17 14 0.39
18 6 0.17
19 7 0.19
20 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAATTAAATTTTCAAT
Found at i:48055773 original size:47 final size:47
Alignment explanation
Indices: 48055719--48055812 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
48055709 AACGCTAGAC
*
48055719 CACCTCCACATGCATTAATCAAATCCTAAATTATCTTTTAGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATCTTTTAGAAGGGG
* *
48055766 CACCTCCATATGCATTAATCAAGCCCTAAATTATCTTTTAGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATCTTTTAGAAGGGG
48055813 AATCGAAGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (47 bp):
CACCTCCACATGCATTAATCAAACCCTAAATTATCTTTTAGAAGGGG
Found at i:48061021 original size:37 final size:37
Alignment explanation
Indices: 48060971--48061043 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
48060961 CAAAGCCCCT
48060971 TTACTCCTGGTGCATCCATCCCATGGTGTTAAAACCA
1 TTACTCCTGGTGCATCCATCCCATGGTGTTAAAACCA
48061008 TTACTCCTGGTGCATCCATCCCATGGTGTTAAAACC
1 TTACTCCTGGTGCATCCATCCCATGGTGTTAAAACC
48061044 GCCAAAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (37 bp):
TTACTCCTGGTGCATCCATCCCATGGTGTTAAAACCA
Found at i:48064267 original size:31 final size:31
Alignment explanation
Indices: 48064232--48064314 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
48064222 ATTAAATTAT
**
48064232 CCCGGGTTGCCCGACAACGATAATTCACCAC
1 CCCGGGTTGCCCGACAACGATAACCCACCAC
* * *
48064263 CCCGGGTTGCTCGACAATGATAACCCGCCAC
1 CCCGGGTTGCCCGACAACGATAACCCACCAC
*
48064294 CCTGGGTTGCCCGACAACGAT
1 CCCGGGTTGCCCGACAACGAT
48064315 GGCTTACTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.23, C:0.37, G:0.23, T:0.17
Consensus pattern (31 bp):
CCCGGGTTGCCCGACAACGATAACCCACCAC
Found at i:48064549 original size:35 final size:35
Alignment explanation
Indices: 48064466--48064629 Score: 193
Period size: 35 Copynumber: 4.6 Consensus size: 35
48064456 TAACACAATG
* *
48064466 ACATGCTTAACATGCGAATCAAAATTAGAAATAATG
1 ACATGCTTAACATGCGAATCAAAATCAG-AATAATA
* * *
48064502 GCATGCTTAACATGCGAGTCAAAATCAGATTAATA
1 ACATGCTTAACATGCGAATCAAAATCAGAATAATA
** *
48064537 ACATGCTTAACATGCGAGCCAAAATCAGATTAATA
1 ACATGCTTAACATGCGAATCAAAATCAGAATAATA
* * *
48064572 GCATGCTTAACACGCGAATCAAAATATCAGAATATTA
1 ACATGCTTAACATGCGAATC-AAA-ATCAGAATAATA
*
48064609 ACATGTTTAACATGCGAATCA
1 ACATGCTTAACATGCGAATCA
48064630 GAACATCAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
35 54 0.49
36 29 0.26
37 27 0.25
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (35 bp):
ACATGCTTAACATGCGAATCAAAATCAGAATAATA
Found at i:48067835 original size:30 final size:30
Alignment explanation
Indices: 48067809--48067867 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48067799 TAATTATTTT
*
48067809 TTATTTGTTGTTATTATACTA-TATTATTAC
1 TTATTTGTTATTATT-TACTATTATTATTAC
*
48067839 TTGTTTGTTATTATTTACTATTATTATTA
1 TTATTTGTTATTATTTACTATTATTATTA
48067868 ATATTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.63
Consensus pattern (30 bp):
TTATTTGTTATTATTTACTATTATTATTAC
Found at i:48068021 original size:31 final size:32
Alignment explanation
Indices: 48067983--48068044 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 32
48067973 CCAAAACAGG
*
48067983 CTTTTAGCGGCGCTTT-TTAGCGCCGCAAATA
1 CTTTTAGCGGCGCTTTATAAGCGCCGCAAATA
48068014 CTTTTAGCGGCGCTTTGATAAGCGCCGCAAA
1 CTTTTAGCGGCGCTTT-ATAAGCGCCGCAAA
48068045 AGATGCCGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 16 0.57
33 12 0.43
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (32 bp):
CTTTTAGCGGCGCTTTATAAGCGCCGCAAATA
Found at i:48068186 original size:43 final size:42
Alignment explanation
Indices: 48068139--48068303 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 42
48068129 CTATCACAAA
*
48068139 CGCCGCTGA-AGACTAAGAG-CTTTAGCGGCGTTTTTAATATAAC
1 CGCCGCT-ATAGA-TAAGAGTCTTTAGCGGCGTTTTT-ATATAAG
** * **
48068182 CGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTCTGGATAAG
1 CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTT-TATATAAG
* *
48068225 CGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTTATATAAG
1 CGCCGCTATAGATAAGAGTCTTTAGCGGCG-TTTTTATATAAG
* * *
48068268 CGCCGCTATAGATCATG-GCCTTTAGCGGCGCTTTTA
1 CGCCGCTATAGAT-AAGAGTCTTTAGCGGCGTTTTTA
48068304 CCAAAAACAC
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
42 9 0.09
43 87 0.85
44 6 0.06
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (42 bp):
CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTATATAAG
Found at i:48068322 original size:86 final size:85
Alignment explanation
Indices: 48068158--48068322 Score: 192
Period size: 86 Copynumber: 1.9 Consensus size: 85
48068148 AGACTAAGAG
* * *
48068158 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTCTGGATA
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGTTTTC-GCAAA
* * *
48068223 AGCGCCGCTATAGATCAGGGT
65 AACACCGCAATAGATCAGGGT
* *
48068244 CTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATCAT-G-GCCTTTAGCGGCGCTTTTAC-C
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT--TGGTGCCTTTAGCGGCG-TTTT-CGC
48068306 AAAAACACCGCAATAGA
62 AAAAACACCGCAATAGA
48068323 CCCTGATCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
86 60 0.90
87 5 0.07
88 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (85 bp):
CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGTTTTCGCAAAA
ACACCGCAATAGATCAGGGT
Found at i:48068337 original size:43 final size:43
Alignment explanation
Indices: 48068290--48068452 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
48068280 TCATGGCCTT
*
48068290 TAGCGGCGCTTTTACCAAAAACACCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAA-AGACCCTGATCTA
* *
48068333 TAGCGGCGCTTAT-CCAGAAAACGCCGCTAAATACCCTTTG-TCTATA
1 TAGCGGCGCTTTTACCA-AAAACGCCGCTAAAGACCC--TGATC--TA
** *
48068379 TAGCGGCGC-TTCGCGCAAAAACGCCGCTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTAC-CAAAAACGCCGCTAAAGACCCTGATCTA
48068422 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
48068453 TTTGGCAGAT
Statistics
Matches: 101, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.03
43 53 0.52
44 8 0.08
45 5 0.05
46 30 0.30
47 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (43 bp):
TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:48068843 original size:42 final size:42
Alignment explanation
Indices: 48068771--48068858 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
48068761 GCTTCCCTCG
* **
48068771 CTGCAGCCTTTGCTTCTCTCGCTTTAGCCTCTGCTTCTCTTA
1 CTGCAGCCTTTGCTTCTCTCACTGCAGCCTCTGCTTCTCTTA
* *
48068813 CTGCAGCCTGTT-CTTCTCTCACTGCCGCCTCTGCTTCTCTTG
1 CTGCAGCCT-TTGCTTCTCTCACTGCAGCCTCTGCTTCTCTTA
48068855 CTGC
1 CTGC
48068859 CGTATCTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.06, C:0.39, G:0.16, T:0.40
Consensus pattern (42 bp):
CTGCAGCCTTTGCTTCTCTCACTGCAGCCTCTGCTTCTCTTA
Found at i:48068860 original size:21 final size:21
Alignment explanation
Indices: 48068760--48068858 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 21
48068750 AACGCTGCTT
* *
48068760 TGCTTCCCTCGCTGCAGCCTT
1 TGCTTCTCTCGCTGCAGCCTC
**
48068781 TGCTTCTCTCGCTTTAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
** *
48068802 TGCTTCTCTTACTGCAGCCTG
1 TGCTTCTCTCGCTGCAGCCTC
* * *
48068823 TTCTTCTCTCACTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
*
48068844 TGCTTCTCTTGCTGC
1 TGCTTCTCTCGCTGC
48068859 CGTATCTGCT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.05, C:0.39, G:0.16, T:0.39
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:48068924 original size:66 final size:66
Alignment explanation
Indices: 48068840--48068986 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
48068830 CTCACTGCCG
* * *
48068840 CCTCTGCTTCTCTTGCTGCCGTATCTGCTCTAAGCTGCT-GCTAGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTAGAGTTCTTCATATCTTT-GTT
48068903 GAA
64 GAA
* * * * *
48068906 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTGA
48068971 A
66 A
*
48068972 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
48068987 ATGTTGCCTC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 65 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTGA
A
Found at i:48069002 original size:66 final size:66
Alignment explanation
Indices: 48068883--48069009 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
48068873 GCTGCTGCTA
* * *
48068883 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCT
1 GAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCT
48068948 G
66 G
* * *
48068949 GAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
48069010 GTAATTTGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 50 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (66 bp):
GAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCT
G
Found at i:48074434 original size:16 final size:16
Alignment explanation
Indices: 48074413--48074446 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48074403 ATAGTTAAGC
48074413 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
48074429 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
48074445 TA
1 TA
48074447 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:48074478 original size:25 final size:25
Alignment explanation
Indices: 48074427--48074482 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
48074417 TAAGTTATGT
* *
48074427 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
48074452 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
48074477 ATTATG
1 ATTATG
48074483 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:48074496 original size:9 final size:9
Alignment explanation
Indices: 48074484--48074681 Score: 60
Period size: 9 Copynumber: 22.7 Consensus size: 9
48074474 AAAATTATGC
48074484 TATGTAAGT
1 TATGTAAGT
48074493 TATGTAAGT
1 TATGTAAGT
* **
48074502 CACATAAGT
1 TATGTAAGT
48074511 TATGTAAG-
1 TATGTAAGT
* * *
48074519 -AAGTTATT
1 TATGTAAGT
48074527 TATGTAAGT
1 TATGTAAGT
*
48074536 TAT-TTA-T
1 TATGTAAGT
* *
48074543 TATGAAAAT
1 TATGTAAGT
*
48074552 TAAGTAAGT
1 TATGTAAGT
*
48074561 TATGTAATT
1 TATGTAAGT
*
48074570 TACG-AA-T
1 TATGTAAGT
* **
48074577 AAT-TAAAAA
1 TATGT-AAGT
48074586 TATGTAAGT
1 TATGTAAGT
48074595 TATGTAAG-
1 TATGTAAGT
48074603 T-TGTAAGT
1 TATGTAAGT
*
48074611 TATGTATA-A
1 TATGTA-AGT
48074620 TAT-TAA-T
1 TATGTAAGT
**
48074627 TAACTAAGT
1 TATGTAAGT
* *
48074636 TATGTCATT
1 TATGTAAGT
*
48074645 TATGTATCATAT
1 TATGTA--A-GT
48074657 TAATGTAAGT
1 T-ATGTAAGT
*
48074667 TATGTAATT
1 TATGTAAGT
48074676 TATGTA
1 TATGTA
48074682 TATTAACTAA
Statistics
Matches: 134, Mismatches: 38, Indels: 34
0.65 0.18 0.17
Matches are distributed among these distances:
7 19 0.14
8 14 0.10
9 88 0.66
10 4 0.03
11 2 0.01
12 2 0.01
13 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:48074564 original size:34 final size:34
Alignment explanation
Indices: 48074526--48074604 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
48074516 AAGAAGTTAT
*** * *
48074526 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
48074560 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
48074594 TTATGTAAGTT
1 TTATGTAAGTT
48074605 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:48074648 original size:34 final size:34
Alignment explanation
Indices: 48074604--48074868 Score: 204
Period size: 34 Copynumber: 7.7 Consensus size: 34
48074594 TTATGTAAGT
* *
48074604 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* * *
48074638 TGTCATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
48074669 TGTAATTTATG--T-ATATTAACTAATTAATTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
48074700 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
48074734 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
48074772 TATTAATTAAT-TA-AGTTATGTCATCTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-TAAT-TA-AT-TAA-GTT-A
*
48074812 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
48074846 TGTCATTTATGTATAATATTAAT
1 TGTAATTTATGTATAATATTAAT
48074869 GTAAGTTATG
Statistics
Matches: 182, Mismatches: 31, Indels: 36
0.73 0.12 0.14
Matches are distributed among these distances:
28 7 0.04
29 2 0.01
31 33 0.18
33 2 0.01
34 79 0.43
35 5 0.03
36 8 0.04
37 3 0.02
38 9 0.05
39 21 0.12
40 11 0.06
41 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAATTAAGTTA
Found at i:48074760 original size:56 final size:56
Alignment explanation
Indices: 48074699--48075073 Score: 666
Period size: 56 Copynumber: 6.7 Consensus size: 56
48074689 TAATTAATTT
48074699 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
*
48074755 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
48074811 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
*
48074867 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATCATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
*
48074923 ATGTAAGTTATGTA-ATTTATGT-ATT-ATGTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATA-ATAT-TAATTAAT-TAAGTTATGTCATTTATGTATAATATTA
*
48074979 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
48075035 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
48075074 CCTTACAATA
Statistics
Matches: 306, Mismatches: 7, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
55 4 0.01
56 298 0.97
57 4 0.01
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
Found at i:48074913 original size:9 final size:9
Alignment explanation
Indices: 48074843--48074970 Score: 59
Period size: 9 Copynumber: 13.8 Consensus size: 9
48074833 ATTAATTAAG
*
48074843 TTATGTCAT
1 TTATGTAAT
48074852 TTATGTATAAT
1 TTATG--TAAT
*
48074863 ATTAATGTAAG
1 -TT-ATGTAAT
48074874 TTATGT-AT
1 TTATGTAAT
*
48074882 AATAT-TAAT
1 -TTATGTAAT
* *
48074891 TAAT-TAAG
1 TTATGTAAT
*
48074899 TTATGTCAT
1 TTATGTAAT
48074908 TTATGTATCAT
1 TTATGTA--AT
*
48074919 ATTAATGTAAG
1 -TT-ATGTAAT
48074930 TTATGTAAT
1 TTATGTAAT
48074939 TTATGT-A-
1 TTATGTAAT
*
48074946 TTATGTAAG
1 TTATGTAAT
*
48074955 TTATGTCAT
1 TTATGTAAT
48074964 TTATGTA
1 TTATGTA
48074971 TAATATTAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
7 6 0.07
8 12 0.13
9 47 0.52
10 4 0.04
11 9 0.10
12 4 0.04
13 8 0.09
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (9 bp):
TTATGTAAT
Found at i:48074933 original size:22 final size:21
Alignment explanation
Indices: 48074908--48075002 Score: 80
Period size: 22 Copynumber: 4.8 Consensus size: 21
48074898 GTTATGTCAT
48074908 TTATGTATCATATTAATGTAAG
1 TTATGTAT-ATATTAATGTAAG
48074930 TTATGTA-AT-TT-ATGT-A-
1 TTATGTATATATTAATGTAAG
* * *
48074946 TTATGTA-A-GTT-ATGTCAT
1 TTATGTATATATTAATGTAAG
48074964 TTATGTATAATATTAATGTAAG
1 TTATGTAT-ATATTAATGTAAG
48074986 TTATGTATAATATTAAT
1 TTATGTAT-ATATTAAT
48075003 TAATTAAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
16 14 0.22
17 2 0.03
18 11 0.17
19 2 0.03
20 3 0.05
21 2 0.03
22 29 0.46
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (21 bp):
TTATGTATATATTAATGTAAG
Found at i:48074951 original size:16 final size:18
Alignment explanation
Indices: 48074895--48074970 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 18
48074885 ATTAATTAAT
48074895 TAAGTTATGTCATTTATG
1 TAAGTTATGTCATTTATG
* * *
48074913 TATCATATTAATGTAAGTTATG
1 TA--A-GTT-ATGTCATTTATG
*
48074935 TAATTTATGT-A-TTATG
1 TAAGTTATGTCATTTATG
48074951 TAAGTTATGTCATTTATG
1 TAAGTTATGTCATTTATG
48074969 TA
1 TA
48074971 TAATATTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 14 0.30
17 2 0.04
18 13 0.28
19 2 0.04
20 2 0.04
21 2 0.04
22 12 0.26
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (18 bp):
TAAGTTATGTCATTTATG
Found at i:48075197 original size:24 final size:24
Alignment explanation
Indices: 48075165--48075217 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
48075155 AGTATTTTAT
48075165 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
48075189 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
48075213 AATAT
1 AATAT
48075218 TATACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:48076995 original size:33 final size:33
Alignment explanation
Indices: 48076948--48077021 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
48076938 ATATACATAT
*
48076948 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
48076981 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
48077014 ATATCATA
1 AT-TCATA
48077022 GATGGCAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 33 0.87
34 5 0.13
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:48077256 original size:14 final size:15
Alignment explanation
Indices: 48077237--48077275 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
48077227 AATTGGGAAA
48077237 TTGGGGAAAAT-ACT
1 TTGGGGAAAATAACT
48077251 TTGGGGAAGAATAACT
1 TTGGGGAA-AATAACT
*
48077267 TGGGGGAAA
1 TTGGGGAAA
48077276 TTAGGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (15 bp):
TTGGGGAAAATAACT
Found at i:48077320 original size:23 final size:23
Alignment explanation
Indices: 48077270--48077323 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
48077260 AATAACTTGG
* *
48077270 GGGAAATTAGGGGAAAAGAAGTT
1 GGGAAATTAGGGGAAAAGAAATC
*
48077293 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTAGGGGAAAAGAAATC
48077315 GTGGAAATT
1 G-GGAAATT
48077324 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.37, T:0.20
Consensus pattern (23 bp):
GGGAAATTAGGGGAAAAGAAATC
Found at i:48078544 original size:16 final size:16
Alignment explanation
Indices: 48078519--48078549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48078509 AACCCCCTAG
*
48078519 CCCCTTACCCCTAAAT
1 CCCCTAACCCCTAAAT
48078535 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
48078550 GCATAACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:48078994 original size:22 final size:22
Alignment explanation
Indices: 48078951--48078997 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
48078941 TCCCTAAATC
*
48078951 TTAAATATATATATAATCATAA
1 TTAAATATAAATATAATCATAA
*
48078973 TTAAAT-TAAATATAGTCAATAA
1 TTAAATATAAATATAATC-ATAA
48078995 TTA
1 TTA
48078998 TTGTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAATATAAATATAATCATAA
Found at i:48079536 original size:42 final size:42
Alignment explanation
Indices: 48079428--48079629 Score: 255
Period size: 42 Copynumber: 4.8 Consensus size: 42
48079418 ACTGAATACA
* * * **
48079428 GGAGAATTAGCGGCGCATATATAAAAACGCCGCTAAAGAC-C
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
* * * ** *
48079469 CGAGCATTAGCGGCGCATAGGCGAAAACGCCGCTGTAGACAC
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
* *
48079511 AGAGCATTATCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
48079553 GGAGCATTAGCGGCGCTTAGAC-AAAAGCGCCGCTAAAGACTC
1 GGAGCATTAGCGGCGCTTAGACGAAAA-CGCCGCTAAAGACTC
*
48079595 GGAGCATTAGCGGCGCTTATACGAAAACGCCGCTA
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTA
48079630 TATACGAAAA
Statistics
Matches: 140, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
41 36 0.26
42 100 0.71
43 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.27, T:0.15
Consensus pattern (42 bp):
GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
Found at i:48079635 original size:18 final size:18
Alignment explanation
Indices: 48079608--48079649 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
48079598 GCATTAGCGG
48079608 CGCT-TATACGAAAACGC
1 CGCTATATACGAAAACGC
48079625 CGCTATATACGAAAACGC
1 CGCTATATACGAAAACGC
48079643 CGCTATA
1 CGCTATA
48079650 GACCCGAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (18 bp):
CGCTATATACGAAAACGC
Found at i:48079674 original size:23 final size:24
Alignment explanation
Indices: 48079643--48079716 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 24
48079633 ACGAAAACGC
48079643 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
* * *
48079667 CGCT-TAGA--C-A--A-AAACGC
1 CGCTATAGACCCGAGCATTAGCGG
48079684 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
48079708 CGCT-TAGAC
1 CGCTATAGAC
48079717 AAAAACATCG
Statistics
Matches: 37, Mismatches: 6, Indels: 15
0.64 0.10 0.26
Matches are distributed among these distances:
17 7 0.19
18 5 0.14
20 2 0.05
21 2 0.05
23 10 0.27
24 11 0.30
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (24 bp):
CGCTATAGACCCGAGCATTAGCGG
Found at i:48079681 original size:59 final size:61
Alignment explanation
Indices: 48079575--48079690 Score: 182
Period size: 59 Copynumber: 1.9 Consensus size: 61
48079565 GCGCTTAGAC
* * *
48079575 AAAAGCGCCGCTAAAGACTCGGAGCATTAGCGGCGCTTATACGAAAACGCCGCTATATACG
1 AAAAGCGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATATACG
*
48079636 AAAA-CGCCGCTATAGAC-CCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATA
1 AAAAGCGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATA
48079691 GACCCGAGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 35 0.69
60 12 0.24
61 4 0.08
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.16
Consensus pattern (61 bp):
AAAAGCGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATATACG
Found at i:48079693 original size:41 final size:41
Alignment explanation
Indices: 48079636--48079722 Score: 174
Period size: 41 Copynumber: 2.1 Consensus size: 41
48079626 GCTATATACG
48079636 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACA
1 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACA
48079677 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACA
1 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACA
48079718 AAAAC
1 AAAAC
48079723 ATCGCTAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.14
Consensus pattern (41 bp):
AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACA
Found at i:48079903 original size:40 final size:39
Alignment explanation
Indices: 48079771--48079906 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
48079761 TTCGTCTTAG
* * * * *
48079771 ATTTTTTGTGGCGCTTTATATAAAACGCCGTTAATTC-CT
1 ATTTTTAGCGGCGCTTTA-GTAAAACGCCGCTAATGCTCT
** *
48079810 ATTTTTAGCGGCGCTTCCGTATAAACGCCGCTGATGCTCT
1 ATTTTTAGCGGCGCTTTAGTA-AAACGCCGCTAATGCTCT
** * *
48079850 ACCTTTAGCGGCGCTTTGGCTAAATCGCCGCTAATGCTCT
1 ATTTTTAGCGGCGCTTTAG-TAAAACGCCGCTAATGCTCT
* *
48079890 ATTTTTTGTGGCGCTTT
1 ATTTTTAGCGGCGCTTT
48079907 TGTTCCAAAC
Statistics
Matches: 76, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
38 2 0.03
39 26 0.34
40 46 0.61
41 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (39 bp):
ATTTTTAGCGGCGCTTTAGTAAAACGCCGCTAATGCTCT
Done.