Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 170 of 316
Found at i:54448102 original size:27 final size:27
Alignment explanation
Indices: 54448068--54448183 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
54448058 CCCTCAGTTG
*
54448068 TAAAATTA-CCAAAGTATCCTCGGTTTA
1 TAAAATTACCCAAA-TATCCTCGATTTA
* *
54448095 TAAAATTACCCAAATATCCTTGATTTG
1 TAAAATTACCCAAATATCCTCGATTTA
* * * *
54448122 TAAAATTATCGAAATACCCTC-AGTTTG
1 TAAAATTACCCAAATATCCTCGA-TTTA
* * ** *
54448149 CAAAAATACTGAAATACCCTCGATTTA
1 TAAAATTACCCAAATATCCTCGATTTA
*
54448176 CAAAATTA
1 TAAAATTA
54448184 GTGTTTTACC
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.01
27 66 0.90
28 6 0.08
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TAAAATTACCCAAATATCCTCGATTTA
Found at i:54448193 original size:27 final size:27
Alignment explanation
Indices: 54448163--54448518 Score: 400
Period size: 27 Copynumber: 13.2 Consensus size: 27
54448153 AATACTGAAA
*
54448163 TACCCTCGATTTACAAAATTAGTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
54448190 TACCCTCGATTGA-AAGAATTACCGTTT
1 TACCCTCGATTTACAA-AATTACTGTTT
* * *
54448217 TACCCTCGATTGACAGAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* *
54448244 TAACCTCGATTGA-AAGAATTACTGTTT
1 TACCCTCGATTTACAA-AATTACTGTTT
* *
54448271 TAACATCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* *
54448298 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
*
54448325 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
54448352 TACCCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
54448379 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
54448406 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
54448433 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
54448460 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
54448487 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
54448514 TACCC
1 TACCC
54448519 CTAGGGTGTT
Statistics
Matches: 287, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.02
27 276 0.96
28 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:54448221 original size:81 final size:81
Alignment explanation
Indices: 54448163--54448518 Score: 452
Period size: 81 Copynumber: 4.4 Consensus size: 81
54448153 AATACTGAAA
* * *
54448163 TACCCTCGATTTACAAAATTAGTGTTTTACCCTCGATTGA-AAGAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAA-AATTACCGTTTTACCCTCGAT
*
54448227 TGACAGAATTATCATTT
65 TGACAGAATTATGATTT
* * * * * *
54448244 TAACCTCGATTGA-AAGAATTACTGTTTTAACATCGATTTACAAAATTATCGTTTTACCCTCGAT
1 TACCCTCGATTTACAA-AATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGAT
* *
54448308 TTATAGAATTATCG-TTT
65 TGACAGAATTAT-GATTT
* * *
54448325 TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
54448390 GACAGAATTACT-ATTT
66 GACAGAATTA-TGATTT
*
54448406 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
* *
54448471 TACAGAATTACCG-TTT
66 GACAGAATTA-TGATTT
* *
54448487 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTATTTTACCC
54448519 CTAGGGTGTT
Statistics
Matches: 241, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 234 0.97
82 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
GACAGAATTATGATTT
Found at i:54449033 original size:31 final size:31
Alignment explanation
Indices: 54448998--54449070 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
54448988 TTGCATTCAC
* * *
54448998 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTGATACTG
*
54449029 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATACTG
54449060 ATTCTGATTCT
1 ATTCTGATTCT
54449071 TATTGTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATACTG
Found at i:54449037 original size:6 final size:6
Alignment explanation
Indices: 54448998--54449091 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
54448988 TTGCATTCAC
* * *
54448998 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
54449047 -TCACCTG ATTCTG ATTCTG ATTCTT ATTGTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
54449092 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:54457188 original size:19 final size:18
Alignment explanation
Indices: 54457155--54457190 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
54457145 AACTTGGCAC
*
54457155 CATAATCATTTAATTCAA
1 CATAATCAATTAATTCAA
54457173 CATAATTCAATTAATTCA
1 CATAA-TCAATTAATTCA
54457191 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (18 bp):
CATAATCAATTAATTCAA
Found at i:54464499 original size:80 final size:82
Alignment explanation
Indices: 54464354--54464539 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 82
54464344 GCTACTCGTT
* *
54464354 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
54464418 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
* * **
54464434 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
54464497 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
*
54464515 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54464540 CATCATTCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.03
80 78 0.86
81 10 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTTAGCA
Found at i:54464500 original size:40 final size:40
Alignment explanation
Indices: 54464354--54464483 Score: 217
Period size: 40 Copynumber: 3.2 Consensus size: 40
54464344 GCTACTCGTT
* * *
54464354 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
54464394 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
54464434 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
54464474 CAAATGCCTT
1 CAAATGCCTT
54464484 TGGATCTTAG
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 84 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54467015 original size:39 final size:40
Alignment explanation
Indices: 54466910--54467131 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
54466900 AATGATGTCT
* * * *
54466910 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * *
54466950 GGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
54466990 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
54467029 GGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
54467069 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
54467109 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
54467132 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
39 33 0.21
40 115 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:54467149 original size:80 final size:79
Alignment explanation
Indices: 54466981--54467154 Score: 210
Period size: 80 Copynumber: 2.2 Consensus size: 79
54466971 TGTGCGAGAT
* * *
54466981 ACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 ACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** *
54467046 CAATTGTGCGAGTT
66 CAATTGAACGAGTG
* *
54467060 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
*
54467124 GGCATTTGAACGAG-G
64 GGCAATTGAACGAGTG
*
54467139 AGCTATATCC-GGTTAA
1 A-CTAAATCCGGGTTAA
54467155 ATTCTGAAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 22 0.27
80 58 0.71
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CAATTGAACGAGTG
Found at i:54478217 original size:49 final size:49
Alignment explanation
Indices: 54478148--54478416 Score: 422
Period size: 49 Copynumber: 5.6 Consensus size: 49
54478138 GAAATGATAG
54478148 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
54478197 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT-TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
54478245 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
54478292 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * **
54478341 CAGGGCCGAGTGGCCAACATGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
54478388 TAAGGCCTAATGGCCGATGTGATGAATGT
1 TAAGGCCTAATGGCCGATGTGATGAATGT
54478417 AACACCCCGG
Statistics
Matches: 199, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
46 5 0.03
47 72 0.36
48 40 0.20
49 82 0.41
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:54478309 original size:47 final size:47
Alignment explanation
Indices: 54478148--54478416 Score: 412
Period size: 47 Copynumber: 5.6 Consensus size: 47
54478138 GAAATGATAG
54478148 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
54478197 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGA
*
54478245 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
54478292 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * **
54478341 CAGGGCCGAGTGGCCAACATGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
54478388 TAAGGCCTAATGGCCGATGTGATGAATGT
1 TAAGGCCTAATGGCCGATGTGATGAATGT
54478417 AACACCCCGG
Statistics
Matches: 199, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 78 0.39
48 46 0.23
49 75 0.38
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:54478396 original size:96 final size:95
Alignment explanation
Indices: 54478167--54478416 Score: 410
Period size: 96 Copynumber: 2.6 Consensus size: 95
54478157 ATGGCCGATG
54478167 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * **
54478232 GTATATATTGTGATAGGGCCTAATGGCCGATG
64 GTATATATTGTGACAGGGCCGAATGGCCAACA
*
54478264 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGT
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
54478329 ATATATATGTGACAGGGCCGAGTGGCCAACA
66 ATATAT-TGTGACAGGGCCGAATGGCCAACA
54478360 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
54478417 AACACCCCGG
Statistics
Matches: 145, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
95 53 0.37
96 75 0.52
97 17 0.12
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (95 bp):
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATTGTGACAGGGCCGAATGGCCAACA
Found at i:54479862 original size:39 final size:40
Alignment explanation
Indices: 54479756--54479957 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 40
54479746 CGGAATTTAA
** *
54479756 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54479796 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
54479836 CCGGAT-TAGTAACTCGCACAAATGCCTTCGAG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54479874 CCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
54479913 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
54479953 CCGGA
1 CCGGA
54479958 CATCATTCAA
Statistics
Matches: 136, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 32 0.24
39 35 0.26
40 57 0.42
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54483682 original size:43 final size:43
Alignment explanation
Indices: 54483634--54483822 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
54483624 TTGGTTTTCA
54483634 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
54483677 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
54483720 ACACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
54483763 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
54483806 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
54483823 TTGAAATGCA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:54483839 original size:29 final size:29
Alignment explanation
Indices: 54483804--54483877 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
54483794 GTTGTGAGAT
* *
54483804 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
54483833 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54483862 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54483878 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54484460 original size:40 final size:40
Alignment explanation
Indices: 54484186--54484446 Score: 280
Period size: 40 Copynumber: 6.5 Consensus size: 40
54484176 TCGAATGATG
* *
54484186 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * * *
54484226 TCCGGACTAAGAT-TCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
54484266 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
54484306 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
54484346 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * * *
54484386 TCCGTGCTAA-ACCCTAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCC-GAAGAGCATTCGTGCTAGTGATATA
*
54484426 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
54484447 TAATCATGAT
Statistics
Matches: 185, Mismatches: 30, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 160 0.86
41 22 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:54488045 original size:49 final size:49
Alignment explanation
Indices: 54487921--54488361 Score: 630
Period size: 49 Copynumber: 9.1 Consensus size: 49
54487911 GAAATGATAG
54487921 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA--TG-T--GA
54487975 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
54488024 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
54488071 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
54488120 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
54488167 TAAGGCCTAATGGCC-ATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
54488215 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
54488262 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
54488311 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
54488358 TAAG
1 TAAG
54488362 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 26, Indels: 21
0.88 0.06 0.05
Matches are distributed among these distances:
46 19 0.05
47 120 0.34
48 23 0.06
49 145 0.41
51 1 0.00
52 2 0.01
54 44 0.12
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:54488111 original size:96 final size:96
Alignment explanation
Indices: 54487924--54488361 Score: 671
Period size: 96 Copynumber: 4.5 Consensus size: 96
54487914 ATGATAGTAA
54487924 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGATAAGGCCTAATGGC
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA--TG-T--GATAAGGCCTAATGGC
*
54487989 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
59 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
54488027 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
54488092 ATGAATGTGAAAGTGTATATATATGTGATAG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
54488123 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
54488187 ATGAATGTGGAAGTGTATATATATGTGACAG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
* * * *
54488218 GGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
54488283 ATGAATGTGGAAGTGTATATATATGTGACAG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
* * * * * *
54488314 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54488362 TCCCGAAGGG
Statistics
Matches: 325, Mismatches: 9, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
95 89 0.27
96 194 0.60
98 1 0.00
99 2 0.01
101 6 0.02
103 33 0.10
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:54488256 original size:191 final size:192
Alignment explanation
Indices: 54487924--54488361 Score: 671
Period size: 191 Copynumber: 2.2 Consensus size: 192
54487914 ATGATAGTAA
54487924 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGATAAGGCCTAATGGC
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA--TG-T--GATAAGGCCTAATGGC
* * * *
54487989 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
59 CGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTG
54488054 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
124 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
*
54488119 ATAG
189 ACAG
54488123 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
54488187 ATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGT
66 ATGAATGTGAAAGTGTATATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGT
*
54488252 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAG
131 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAG
* * * * * *
54488314 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54488362 TCCCGAAGGG
Statistics
Matches: 224, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
191 165 0.74
192 17 0.08
194 1 0.00
195 2 0.01
197 6 0.03
199 33 0.15
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (192 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAG
Found at i:54493449 original size:27 final size:26
Alignment explanation
Indices: 54493402--54493452 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
54493392 CGAGGCTGCC
*
54493402 AGATATTGTGACGAAGTCACCAGAAA
1 AGATATTGTGACGAAGCCACCAGAAA
* *
54493428 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
54493453 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAA
Found at i:54493728 original size:16 final size:18
Alignment explanation
Indices: 54493707--54493740 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
54493697 TACCAAAGTG
54493707 GGCCCG-TT-GGCCCATT
1 GGCCCGTTTCGGCCCATT
54493723 GGCCCGTTTCGGCCCATT
1 GGCCCGTTTCGGCCCATT
54493741 AAGCCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.06, C:0.38, G:0.29, T:0.26
Consensus pattern (18 bp):
GGCCCGTTTCGGCCCATT
Found at i:54495182 original size:37 final size:37
Alignment explanation
Indices: 54495132--54495202 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
54495122 AAGAAGGAAT
54495132 AAATTTGAACGAGAGGAGAAAGTATGAACACCTAAAC
1 AAATTTGAACGAGAGGAGAAAGTATGAACACCTAAAC
54495169 AAATTTGAACGAGAGGAGAAAGTATGAACACCTA
1 AAATTTGAACGAGAGGAGAAAGTATGAACACCTA
54495203 CCATTGTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.17
Consensus pattern (37 bp):
AAATTTGAACGAGAGGAGAAAGTATGAACACCTAAAC
Found at i:54497035 original size:14 final size:15
Alignment explanation
Indices: 54497018--54497046 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54497008 GCATGAAAAT
54497018 TTCACACA-AATAAA
1 TTCACACATAATAAA
54497032 TTCACACATAATAAA
1 TTCACACATAATAAA
54497047 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:54504263 original size:40 final size:40
Alignment explanation
Indices: 54504218--54504402 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
54504208 CTTGCACAAG
* * * *
54504218 GCCTTCAGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54504258 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
54504298 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
54504338 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
54504379 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54504403 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 90 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54504314 original size:80 final size:80
Alignment explanation
Indices: 54504182--54504402 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 80
54504172 CTCAAGAAAT
* * * * * * *
54504182 CTTCGGGATTTAGCCGGATATAA-CTACTTGCAC-AAGGCCTTCAGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-
*
54504245 C-ACTAGCATAAATGC
65 CAACTAGCACAAATGC
* *
54504260 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
* *
54504324 CAACTCGCACGAATGC
65 CAACTAGCACAAATGC
* * * *
54504340 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
54504403 CATTCGAATA
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 12 0.10
79 20 0.17
80 56 0.46
81 33 0.27
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:54511082 original size:63 final size:62
Alignment explanation
Indices: 54510983--54511106 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 62
54510973 ACCGTGGCTC
54510983 TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGTCGGAGTCGAACACGAGGTGA
1 TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGT-GGAGTCGAACACGAGGTGA
*
54511046 TGATACCAATAAAATTGTAACACCCCGTACCCGAGACCGTTGTGGAGTCGAACACGAGGTG
1 TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGTGGAGTCGAACACGAGGTG
54511107 CTAACCGACT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 18 0.30
63 42 0.70
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.19
Consensus pattern (62 bp):
TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGTGGAGTCGAACACGAGGTGA
Found at i:54512492 original size:40 final size:40
Alignment explanation
Indices: 54512446--54512630 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
54512436 CTTGCACAAG
* * *
54512446 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54512486 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
54512526 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
54512566 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
54512607 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54512631 CATTCGAATA
Statistics
Matches: 121, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 29 0.24
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54512627 original size:81 final size:80
Alignment explanation
Indices: 54512410--54512630 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 80
54512400 CTCAAGAAAT
* * * * * *
54512410 CTTCGGGATTTAG-CCGGATATAA-CTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGG
1 CTTCGGGACTTAGCCCGGATATAATC-CCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
54512472 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
* *
54512488 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTCGGGACTTAGCCCGGATATAATCCCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
* *
54512552 CAACTCGCACGAATGC
66 C-ACTAGCACAAATGC
* * * *
54512568 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAGCCCGGATATAATC-CCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
54512631 CATTCGAATA
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 12 0.10
79 20 0.16
80 57 0.47
81 33 0.27
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATCCCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:54519297 original size:63 final size:62
Alignment explanation
Indices: 54519198--54519321 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 62
54519188 ACCGTGGCTC
54519198 TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGTCGGAGTCGAACACGAGGTGA
1 TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGT-GGAGTCGAACACGAGGTGA
*
54519261 TGATACCAATAAAATTGTAACACCCCGTACCCGAGACCGTTGTGGAGTCGAACACGAGGTG
1 TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGTGGAGTCGAACACGAGGTG
54519322 CTAACCGACT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 18 0.30
63 42 0.70
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.19
Consensus pattern (62 bp):
TGATACCAATAAAATTATAACACCCCGTACCCGAGACCGTTGTGGAGTCGAACACGAGGTGA
Found at i:54520701 original size:40 final size:40
Alignment explanation
Indices: 54520656--54520840 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
54520646 CTTGCACAAG
* * *
54520656 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54520696 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54520736 GCCTTCGGGTCTTAGCCCGAATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
54520776 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
54520817 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54520841 CATTCGAATA
Statistics
Matches: 119, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 89 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54520751 original size:80 final size:81
Alignment explanation
Indices: 54520621--54520840 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 81
54520611 CTCAAGAAAT
* * * *
54520621 CTTCGGAT-TTAG-CCGGATATAA-CTA-CTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTG
1 CTTCGGATCTTAGCCCGGATATAATC-ACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATA
*
54520681 GTC-ACTAGCATAAATGC
65 G-CAACTAGCACAAATGC
* * *
54520698 CTTCGGGA-CTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGAATATA
1 CTTC-GGATCTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATA
* *
54520761 GCAACTCGCACGAATGC
65 GCAACTAGCACAAATGC
* * * *
54520778 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
54520841 CATTCGAATA
Statistics
Matches: 119, Mismatches: 15, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
77 4 0.03
78 7 0.06
79 20 0.17
80 56 0.47
81 32 0.27
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
CAACTAGCACAAATGC
Found at i:54533740 original size:40 final size:40
Alignment explanation
Indices: 54533646--54533830 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
54533636 TATTCGAATG
* *
54533646 ATATCCGGGCTAAGTTCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTA-GTGACT
* * * *
54533687 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
54533727 ATATCCGGGCTAAGA-CCTGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
* * *
54533767 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
54533807 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
54533831 CTTGTGCAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
39 3 0.03
40 83 0.70
41 32 0.27
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:54543119 original size:42 final size:42
Alignment explanation
Indices: 54543059--54543213 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
54543049 CTATAGTTTA
* * *
54543059 CGTGTAAAACCATATCTGGGATATGGCATCGTTATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
* * * * *
54543101 CGTGTAAGACCATGTCTGGGACATAGTATCGATATGTGA-AT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
* * **
54543142 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATAT
* *
54543185 CATGTAAGACCATATTTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
54543214 TGGTATGATT
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 20 0.22
42 51 0.57
43 19 0.21
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
Found at i:54543756 original size:14 final size:15
Alignment explanation
Indices: 54543728--54543756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54543718 GTATTTGATT
54543728 CATTTTGTAAATGGC
1 CATTTTGTAAATGGC
54543743 CATTTTGT-AATGGC
1 CATTTTGTAAATGGC
54543757 TAATATTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (15 bp):
CATTTTGTAAATGGC
Found at i:54552996 original size:30 final size:28
Alignment explanation
Indices: 54552938--54553005 Score: 66
Period size: 30 Copynumber: 2.3 Consensus size: 28
54552928 ATTTTTTATG
*
54552938 TTTTTACTTTTATCTTTTTAAGACTATTT
1 TTTTTA-TTTTATCTCTTTAAGACTATTT
54552967 TTTTTATTTTATTCCTCTTTAA-ACGTATTT
1 TTTTTATTTTA-T-CTCTTTAAGAC-TATTT
* *
54552997 CTCTTATTT
1 TTTTTATTT
54553006 AGGTTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 5 0.15
29 9 0.27
30 19 0.58
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTTATTTTATCTCTTTAAGACTATTT
Found at i:54560624 original size:27 final size:27
Alignment explanation
Indices: 54560593--54560851 Score: 190
Period size: 27 Copynumber: 9.6 Consensus size: 27
54560583 TTAGTTTACC
* *
54560593 AAATTACTAAAATACCCTCGACTTCTA
1 AAATTACCAAAATACCCTCGATTTCTA
*
54560620 AAATTACCAAAGTACCCTCGATTTAC-A
1 AAATTACCAAAATACCCTCGATTT-CTA
* *****
54560647 GAATTACTGTTTTACCCTCGATTTAC-A
1 AAATTACCAAAATACCCTCGATTT-CTA
** * * **
54560674 AAATTACTGAAATACCCTTGGTTTAAA
1 AAATTACCAAAATACCCTCGATTTCTA
**
54560701 AAATTACCAAAATACCCTCGATCAGC-A
1 AAATTACCAAAATACCCTCGAT-TTCTA
* *
54560728 AAATTACCAAAATA-CCTCTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTCTA
* *
54560755 AAATTACCAAAATACCC-CTATCTTATA
1 AAATTACCAAAATACCCTCGAT-TTCTA
* *
54560782 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTCTA
* *
54560809 AAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTCTA
54560836 AAA-TACCAAAATACCC
1 AAATTACCAAAATACCC
54560852 CTGTAGGGTA
Statistics
Matches: 189, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
26 18 0.10
27 165 0.87
28 6 0.03
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTCTA
Found at i:54560813 original size:81 final size:80
Alignment explanation
Indices: 54560700--54560853 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 80
54560690 CTTGGTTTAA
54560700 AAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACCTCTAG-TTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACC-CTAGATTTGTAAAA-TACCA
54560764 AAATACCCCTATCTTAT
64 AAATACCCCTATCTTAT
** ** * *
54560781 AAAATTACCAAAATACCC-CTGATTTGTGAAATTATCAAAATACCCTCGATTTGTAAAATACCAA
1 AAAATTACCAAAATACCCTC-GATCAGCAAAATTACCAAAATACCCTAGATTTGTAAAATACCAA
54560845 AATACCCCT
65 AATACCCCT
54560854 GTAGGGTAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
80 19 0.29
81 46 0.71
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACCCTAGATTTGTAAAATACCAAA
ATACCCCTATCTTAT
Found at i:54560869 original size:27 final size:27
Alignment explanation
Indices: 54560727--54560897 Score: 91
Period size: 27 Copynumber: 6.4 Consensus size: 27
54560717 CTCGATCAGC
* **
54560727 AAAATTACCAAAATACCTCTAGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGT
* ****
54560754 AAAATTACCAAAATACCCCTATCTTAT
1 AAAATTACCAAAATACCCCTGTAGGGT
**
54560781 AAAATTACCAAAATACCCCTG-ATTTGT
1 AAAATTACCAAAATACCCCTGTA-GGGT
* * **
54560808 GAAATTATCAAAATA-CCCTCG-ATTTGT
1 AAAATTACCAAAATACCCCT-GTA-GGGT
54560835 AAAA-TACCAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
* * * * * *
54560861 AGAATTACCGAGATATCCTTGTGGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
54560888 AAAATTACCA
1 AAAATTACCA
54560898 TTTTTCCCTT
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.17
27 98 0.83
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAGGGT
Found at i:54561451 original size:27 final size:27
Alignment explanation
Indices: 54561421--54561528 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
54561411 ATTCTGTTAA
* *
54561421 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
54561448 GTGGCTATGCCACAAATATCTGTTT-TG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
54561475 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
54561502 GTGACTCTGTCACAATATTTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
54561528 G
1 G
54561529 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 46 0.65
28 10 0.14
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:54561516 original size:54 final size:53
Alignment explanation
Indices: 54561421--54561524 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 53
54561411 ATTCTGTTAA
* * * *
54561421 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTTTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTTTG
* * *
54561475 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATTTGTT
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTT
54561525 CTGGCAGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 9 0.21
54 34 0.79
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTTTG
Found at i:54561656 original size:6 final size:6
Alignment explanation
Indices: 54561647--54561777 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
54561637 TTGCATTTAC
* * * *
54561647 ATTCTG ATTCTA ATTTTG -TTACTTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
54561697 ATTCTG ATTCTG ATTCTG ATTCTA ATTTTG ATTCT- ATCACTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG
* * *
54561746 GTTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
54561778 AATGTTTCTT
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 7 0.07
6 74 0.79
7 8 0.09
8 5 0.05
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:54561678 original size:25 final size:25
Alignment explanation
Indices: 54561650--54561714 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
54561640 CATTTACATT
* * *
54561650 CTGATTCTAATTTTGTTACTTGATA
1 CTGATTCTAATTCTGTTACCTAATA
* *
54561675 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTAATTCTGTTACCTAATA
*
54561700 CTGATTCTGATTCTG
1 CTGATTCTAATTCTG
54561715 ATTCTAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (25 bp):
CTGATTCTAATTCTGTTACCTAATA
Found at i:54561825 original size:31 final size:32
Alignment explanation
Indices: 54561790--54561854 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
54561780 TGTTTCTTAT
54561790 TCTG-TAATGGGCTAAGGCAC-ATCTGGTACTG
1 TCTGTTAATGGGCTAAGGCACAAT-TGGTACTG
*
54561821 TCTGTTATAATGGGCTAAGGCCCAATTGGTACTG
1 TCTG-T-TAATGGGCTAAGGCACAATTGGTACTG
54561855 AAACTGTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 4 0.14
34 23 0.79
35 2 0.07
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAGGCACAATTGGTACTG
Found at i:54568983 original size:6 final size:6
Alignment explanation
Indices: 54568968--54569105 Score: 124
Period size: 6 Copynumber: 22.8 Consensus size: 6
54568958 AACCAAAATG
* * *
54568968 AGAATT AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGA-ATC
* *
54569016 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
54569065 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
54569106 TAGGTGATAG
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
5 7 0.06
6 94 0.87
7 5 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:54569002 original size:30 final size:30
Alignment explanation
Indices: 54568968--54569130 Score: 220
Period size: 30 Copynumber: 5.4 Consensus size: 30
54568958 AACCAAAATG
* * *
54568968 AGAATTAGAATCAGAATCAATAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
54568998 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
54569028 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
54569059 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
54569089 AGAATCAGAATCAGAATTAGGTGATAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
54569120 AGCATCAGAAT
1 AGAATCAGAAT
54569131 GTGAATGCAA
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.01
30 70 0.59
31 48 0.40
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:54569118 original size:55 final size:58
Alignment explanation
Indices: 54568992--54569130 Score: 206
Period size: 61 Copynumber: 2.3 Consensus size: 58
54568982 AATCAATAAC
*
54568992 AGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
1 AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
54569050 GACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAT
1 ---AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTA-G-G-T
*
54569114 AGAATCAGCATCAGAAT
1 AGAATCAGAATCAGAAT
54569131 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
61 70 0.96
62 1 0.01
63 1 0.01
64 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.22
Consensus pattern (58 bp):
AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
Found at i:54569284 original size:27 final size:26
Alignment explanation
Indices: 54569248--54569313 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
54569238 AGCATGGCTG
*
54569248 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
54569274 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
54569301 CCAGAATCAGATA
1 CCAGAA-CAGATA
54569314 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:54569318 original size:27 final size:27
Alignment explanation
Indices: 54569248--54569321 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
54569238 AGCATGGCTG
* *
54569248 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
54569274 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
54569301 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
54569322 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:54569328 original size:27 final size:27
Alignment explanation
Indices: 54569272--54569329 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
54569262 GTGACAGAGT
* * *
54569272 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
54569299 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
54569326 CACC
1 CACC
54569330 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:54569711 original size:27 final size:26
Alignment explanation
Indices: 54569635--54569714 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
54569625 ATCGGTCAAT
* * *
54569635 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
54569662 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
54569688 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
54569715 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:54569943 original size:27 final size:27
Alignment explanation
Indices: 54569913--54570108 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
54569903 GGGGCAAAAT
* * *
54569913 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54569940 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54569967 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54569994 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54570021 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
54570048 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54570075 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54570102 AGTAATT
1 GGTAATT
54570109 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:54570106 original size:54 final size:54
Alignment explanation
Indices: 54569913--54570108 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
54569903 GGGGCAAAAT
* * * *
54569913 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
54569967 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * * *
54570021 GGTAATTCTATCCTATAAGGGTATTTTAGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
54570075 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
54570109 TCACAATCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:54570150 original size:27 final size:27
Alignment explanation
Indices: 54570113--54570333 Score: 252
Period size: 27 Copynumber: 8.2 Consensus size: 27
54570103 GTAATTTCAC
* *
54570113 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
** * *
54570140 AATTTAGGGTAAAA-TGATAATTTTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
*
54570167 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * **
54570194 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTGTA
54570221 AATCGAGGGTAAAAC-GATAATTCTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
54570248 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
**
54570275 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
*
54570302 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
54570329 AATCG
1 AATCG
54570334 GGAGTACTTT
Statistics
Matches: 165, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.02
27 158 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:54570189 original size:54 final size:54
Alignment explanation
Indices: 54570118--54570330 Score: 279
Period size: 54 Copynumber: 3.9 Consensus size: 54
54570108 TTCACAATCA
** * *
54570118 AGGGTAAAACGGTAATTCTGTAAATTTAGGGTAAAA-TGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAACTG
* * * *
54570172 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACAGTAATT-T-TACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA-AACT-G
*
54570226 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
* *
54570280 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA
54570331 TCGGGAGTAC
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.01
53 4 0.03
54 127 0.91
55 5 0.04
56 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
Found at i:54570350 original size:81 final size:81
Alignment explanation
Indices: 54570113--54570333 Score: 295
Period size: 81 Copynumber: 2.7 Consensus size: 81
54570103 GTAATTTCAC
** *
54570113 AATCAAGGGTAAAACGGTAATTCTGTAAATTTAGGGTAAAATGATAATTTTGTAAA-CTGAGGGT
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATC-GAGGGT
*
54570177 AAACCAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* * ** *
54570194 AATCAAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTA
54570259 AAACAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* *
54570275 AA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAT-AGTAATTCTGTAAATCG
1 AATC-AAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGA-TAATTCTGTAAATCG
54570334 GGAGTACTTT
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 118 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (81 bp):
AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:54574002 original size:39 final size:40
Alignment explanation
Indices: 54573957--54574128 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
54573947 GCTCCTCGTT
* * *
54573957 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
54573997 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
54574036 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
54574076 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
54574116 CAAATGCCTTCGG
1 CAAATGCCTTCGG
54574129 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:54574057 original size:40 final size:39
Alignment explanation
Indices: 54573959--54574181 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
54573949 TCCTCGTTCA
* * * *
54573959 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
54573998 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
54574037 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
54574077 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
54574117 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
54574158 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54574182 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:54574141 original size:80 final size:79
Alignment explanation
Indices: 54573957--54574181 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
54573947 GCTCCTCGTT
* * * * *
54573957 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
54574021 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
54574036 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
54574101 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
54574116 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
54574180 GA
63 GA
54574182 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:54574190 original size:41 final size:41
Alignment explanation
Indices: 54574113--54574190 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54574103 TTTGTATCTC
* * *
54574113 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
54574154 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54574191 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:54580445 original size:22 final size:23
Alignment explanation
Indices: 54580419--54580475 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
54580409 CAGCACGTAT
*
54580419 GAGCTTATTGTTT-AGCTCGA-TA
1 GAGCTTACTGTTTCAGCTC-ATTA
*
54580441 GAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACTGTTTCAGCTCATTA
54580464 GAGCTTACTGTT
1 GAGCTTACTGTT
54580476 CACCAACTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCATTA
Found at i:54582432 original size:18 final size:17
Alignment explanation
Indices: 54582404--54582437 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54582394 GGCTTTAACC
54582404 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
54582421 CATTATCAGAATCAGAA
1 CATTA-CAGAATAAGAA
54582438 TCAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:54582434 original size:6 final size:6
Alignment explanation
Indices: 54582425--54582501 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
54582415 AAGAAACATT
* *
54582425 ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
54582474 ATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
54582502 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
5 3 0.05
6 42 0.72
7 11 0.19
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:54582461 original size:31 final size:31
Alignment explanation
Indices: 54582425--54582501 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
54582415 AAGAAACATT
*
54582425 ATCAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
54582456 ATCAGAATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
54582487 ATCAAAAATCAGAAT
1 ATC-AGAATCAGAAT
54582502 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.76
32 10 0.24
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:54582668 original size:27 final size:26
Alignment explanation
Indices: 54582638--54582739 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
54582628 GCTCAGTTAT
* *
54582638 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
54582665 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
54582691 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
54582719 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
54582740 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 53 0.80
28 7 0.11
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:54582905 original size:22 final size:22
Alignment explanation
Indices: 54582871--54582935 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
54582861 GCAAATACGT
*
54582871 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
54582893 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
54582915 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
54582936 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:54583493 original size:81 final size:80
Alignment explanation
Indices: 54583360--54583877 Score: 603
Period size: 81 Copynumber: 6.4 Consensus size: 80
54583350 TGGGCAAAAT
* * * * *
54583360 GGTAATTTTACCCCACA-AGGTATCTCGG-AATTCCACCCTACAGGGGTATTTCGATAATTCTAT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA-
54583423 CCTACAGGGGTATTTC
65 CCTACAGGGGTATTTC
* *
54583439 GGTAATTCTACCCCACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
*
54583504 CTTATAGGGGTATTTC
66 C-TACAGGGGTATTTC
* * * *
54583520 GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA-
*
54583585 CCTACAGGGGTATTGC
65 CCTACAGGGGTATTTC
* * *
54583601 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTCCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
*
54583666 CATACAGGGGTATTTT
66 C-TACAGGGGTATTTC
* * * *
54583682 AGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA-
* *
54583747 CCTACAAGGGTATTTT
65 CCTACAGGGGTATTTC
* * * ** * *
54583763 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTACAAAGGTATTTTGGTAATT-TCA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCT-A
** *
54583827 CAAATCAGGGGTATTTT
65 CCTA-CAGGGGTATTTC
* ** *
54583844 GGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GGTAATTCTACCCTA-CAGGGGTATTTCGGTAATT
54583878 TTATTAATCG
Statistics
Matches: 386, Mismatches: 44, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
79 16 0.04
80 18 0.05
81 348 0.90
82 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
CTACAGGGGTATTTC
Found at i:54583824 original size:27 final size:27
Alignment explanation
Indices: 54583360--54583823 Score: 617
Period size: 27 Copynumber: 17.3 Consensus size: 27
54583350 TGGGCAAAAT
* * * *
54583360 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54583386 GG-AATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54583412 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54583439 GGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
54583466 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54583493 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54583520 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54583547 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54583574 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54583601 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54583628 GGTAATTCTACCATACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
54583655 GATAATTCTACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54583682 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54583709 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
54583736 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54583763 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
54583790 AGTAATTTTACCCTACAAAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
54583817 GGTAATT
1 GGTAATT
54583824 TCACAAATCA
Statistics
Matches: 391, Mismatches: 45, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
25 11 0.03
26 10 0.03
27 370 0.95
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:54583849 original size:54 final size:54
Alignment explanation
Indices: 54583359--54583906 Score: 381
Period size: 54 Copynumber: 10.2 Consensus size: 54
54583349 ATGGGCAAAA
* * * * **
54583359 TGGTAATTTTACCCCACAA-GGTATCTCGG-AATTCCACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
* * * * * * ***
54583411 CGATAATTCTATCCTACAGGGGTATTTCGGTAATTCTACCCCACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
* * * * ** *
54583465 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
* * * ** * ** *
54583519 CGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTC
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
* * * ** * **
54583573 CGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
* * * * ** * *
54583627 CGGTAATTCTACCATACAGGGGTATTCCGATAATTCTACCATACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
* * * * * ** *
54583681 TAGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
* * * ** *
54583735 CGATAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
** *
54583789 CAGTAATTTTACCCTACAAAGGTATTTTGGTAATT-TCACAA-ATCAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCT-ACAATA-CAGGGGTATTT
** * * *
54583843 TGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTATTAAT-C-GAGGGTATTT
1 TGGTAATTTTACCCTA-CAAGGGTATTTTGGTAATTCTA-CAATACAG-GGGTATTT
54583897 TGGTAATTTT
1 TGGTAATTTT
54583907 GTAAACCAAG
Statistics
Matches: 436, Mismatches: 51, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
52 13 0.03
53 14 0.03
54 406 0.93
55 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (54 bp):
TGGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACAATACAGGGGTATTT
Found at i:54583913 original size:54 final size:54
Alignment explanation
Indices: 54583809--54584149 Score: 211
Period size: 54 Copynumber: 6.3 Consensus size: 54
54583799 ACCCTACAAA
* * * *
54583809 GGTATTTTGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTATAAACCAAG
* *
54583863 GGTATTTTGGTAATTTTATTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAAG
** * *** ***
54583917 GGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATTGAG
1 GGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAAG
**** * * * *** * **
54583971 GGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATCTTA-CAAG
1 GGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTAT-AAACCAAG
* * * ** ** ***
54584025 AGTA-TTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAATTGAG
1 GGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAAG
* * * * * * *
54584078 GGTATTTCGATAATTTTACAAATCGAGGATATTTAGGTAATTTTATAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAAG
* * *
54584132 GATACTTTGGTAACTTTA
1 GGTATTTTGGTAATTTTA
54584150 CAAGTTTAAA
Statistics
Matches: 219, Mismatches: 64, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
52 1 0.00
53 30 0.14
54 186 0.85
55 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAAG
Found at i:54583947 original size:81 final size:81
Alignment explanation
Indices: 54583809--54583974 Score: 181
Period size: 81 Copynumber: 2.0 Consensus size: 81
54583799 ACCCTACAAA
* * ** ***
54583809 GGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTCACAAACCAAGGGTATTTCAGTAATTTTACAAACCAGGGGTAAAATGGT
*
54583874 AATTTTATTAATCGAG
66 AATTTTATAAATCGAG
*** ** *
54583890 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATC-GAGGGTAAAATGG
1 GGTATTTTGGTAATTTCACAAACCAAGGGTATTTCAGTAATTTTACAAACCAG-GGGTAAAATGG
*
54583954 TAATTTTATAAATTGAG
65 TAATTTTATAAATCGAG
54583971 GGTA
1 GGTA
54583975 AAACGATAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 68 0.99
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTCACAAACCAAGGGTATTTCAGTAATTTTACAAACCAGGGGTAAAATGGT
AATTTTATAAATCGAG
Found at i:54584064 original size:27 final size:26
Alignment explanation
Indices: 54583809--54584152 Score: 156
Period size: 27 Copynumber: 12.8 Consensus size: 26
54583799 ACCCTACAAA
* *
54583809 GGTATTTTGGTAATTTCACAAATC-AGG
1 GGTA-TTTAGTAATTTTACAAATCGA-G
* *
54583836 GGTATTTTGGTAATTTTACAAA-CCAGG
1 GGTA-TTTAGTAATTTTACAAATCGA-G
* **
54583863 GGTATTTTGGTAATTTTATTAATCGAG
1 GGTA-TTTAGTAATTTTACAAATCGAG
* ** * *
54583890 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTA-TTTAGTAATTTTACAAATCGAG
**
54583917 GGTATTTCAGTAATTTTGTAAATCGAG
1 GGTATTT-AGTAATTTTACAAATCGAG
** * * *
54583944 GGTAAAATGGTAATTTTATAAATTGAG
1 GGT-ATTTAGTAATTTTACAAATCGAG
** * **
54583971 GGTA-AAACGATAATTCTGTAAATCGAG
1 GGTATTTA-G-TAATTTTACAAATCGAG
** * * ** *
54583998 GGTAAAATGGTAATTCTATCTTA-CAAG
1 GGT-ATTTAGTAATTTTA-CAAATCGAG
*
54584025 AGTATTTAGTAATTTTACAAATCGAG
1 GGTATTTAGTAATTTTACAAATCGAG
* *
54584051 GGTATTTCAGTAATTTTGCAAATTGAG
1 GGTATTT-AGTAATTTTACAAATCGAG
*
54584078 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTAG-TAATTTTACAAATCGAG
* *
54584105 GATATTTAGGTAATTTTATAAATCGAG
1 GGTATTTA-GTAATTTTACAAATCGAG
* * *
54584132 GATACTTTGGTAACTTTACAA
1 GGTA-TTTAGTAATTTTACAA
54584153 GTTTAAACAT
Statistics
Matches: 255, Mismatches: 48, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.01
26 26 0.10
27 214 0.84
28 11 0.04
29 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.38
Consensus pattern (26 bp):
GGTATTTAGTAATTTTACAAATCGAG
Found at i:54585064 original size:22 final size:23
Alignment explanation
Indices: 54585038--54585094 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
54585028 CAGCACGTAT
*
54585038 GAGCTTATTGTTT-AGCTCGA-TA
1 GAGCTTACTGTTTCAGCTC-ATTA
*
54585060 GAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACTGTTTCAGCTCATTA
54585083 GAGCTTACTGTT
1 GAGCTTACTGTT
54585095 CACCAACTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCATTA
Found at i:54587052 original size:18 final size:17
Alignment explanation
Indices: 54587024--54587057 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54587014 GGCTTTAACC
54587024 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
54587041 CATTATCAGAATCAGAA
1 CATTA-CAGAATAAGAA
54587058 TCAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:54587054 original size:6 final size:6
Alignment explanation
Indices: 54587045--54587121 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
54587035 AAGAAACATT
* *
54587045 ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
54587094 ATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
54587122 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
5 3 0.05
6 42 0.72
7 11 0.19
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:54587081 original size:31 final size:31
Alignment explanation
Indices: 54587045--54587121 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
54587035 AAGAAACATT
*
54587045 ATCAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
54587076 ATCAGAATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
54587107 ATCAAAAATCAGAAT
1 ATC-AGAATCAGAAT
54587122 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.76
32 10 0.24
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:54587288 original size:27 final size:26
Alignment explanation
Indices: 54587258--54587359 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
54587248 GCTCAGTTAT
* *
54587258 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
54587285 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
54587311 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
54587339 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
54587360 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 53 0.80
28 7 0.11
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:54587525 original size:22 final size:22
Alignment explanation
Indices: 54587491--54587555 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
54587481 GCAAATACGT
*
54587491 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
54587513 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
54587535 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
54587556 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:54588113 original size:81 final size:80
Alignment explanation
Indices: 54588008--54588497 Score: 624
Period size: 81 Copynumber: 6.0 Consensus size: 80
54587998 GGTGTCTCGA
* * *
54588008 AATTCCACCCTACAGGGGTATTTCGATAATTCTATCCTACAGGGGTATTTCGGTAATTCTACCCC
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCT
54588073 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCGGT
54588089 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACC-TACAGGGGTATTTCGGTAATTCTACCCT
* *
54588154 ACAGGGGTATTGCGAT
65 ACAGGGGTATTTCGGT
* * *
54588170 AATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCT
54588235 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCGGT
* * ** *
54588251 AATTCTACCCTACAGGGGTATTCCGATAATTCTACCATACAGGGGTATTTTAGTAATTCTACCTT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACC-TACAGGGGTATTTCGGTAATTCTACCCT
54588316 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCGGT
* * * *
54588332 AATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCT
* *
54588397 ACAAGGGTATTTCAGT
65 ACAGGGGTATTTCGGT
* ** * ** * * *
54588413 AATTTTACCCTACAAAGGTATTTTGGTAATT-TCACAAATCAGGGGTATTTTGGTAATTTTA-CA
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCT-ACCTA-CAGGGGTATTTCGGTAATTCTACCC
* *
54588476 AACCAGGGGTATTTTGGT
64 TA-CAGGGGTATTTCGGT
54588494 AATT
1 AATT
54588498 TTATTAATCG
Statistics
Matches: 364, Mismatches: 38, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
80 9 0.02
81 351 0.96
82 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (80 bp):
AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTACAGGGGTATTTCGGTAATTCTACCCTA
CAGGGGTATTTCGGT
Found at i:54588444 original size:27 final size:27
Alignment explanation
Indices: 54588008--54588443 Score: 638
Period size: 27 Copynumber: 16.1 Consensus size: 27
54587998 GGTGTCTCGA
* *
54588008 AATTCCACCCTACAGGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
54588035 AATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
54588062 AATTCTACCCCACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
54588089 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
54588116 AATTCTACCTTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
54588143 AATTCTACCCTACAGGGGTATTGCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
54588170 AATTCTACCCTACAGGGGTATTCCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
54588197 AATTCTACCCTACAGGGGTATTGCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
54588224 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
54588251 AATTCTACCCTACAGGGGTATTCCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
* **
54588278 AATTCTACCATACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
54588305 AATTCTACCTTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
54588332 AATTCTACCTTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
54588359 AATTCTACCCTACAAGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
54588386 AATTCTACCCTACAAGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* ** *
54588413 AATTTTACCCTACAAAGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
54588440 AATT
1 AATT
54588444 TCACAAATCA
Statistics
Matches: 374, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 374 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:54588459 original size:27 final size:27
Alignment explanation
Indices: 54588429--54588981 Score: 319
Period size: 27 Copynumber: 20.6 Consensus size: 27
54588419 ACCCTACAAA
*
54588429 GGTATTTTGGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
*
54588456 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
**
54588483 GGTATTTTGGTAATTTTATTAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
** * *
54588510 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAGG
** **
54588537 GGTATTTCAGTAATTTTGTAAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
*** * *
54588564 GGTAAAATGGTAATTTTATAAAT-TGAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
**** * * **
54588591 GGTAAAACGATAATTCTGTAAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
*** * ** *
54588618 GGTAAAATGGTAATTCTATCTTA-CAAG
1 GGTATTTTGGTAATTTTA-CAAATCAGG
* *
54588645 AGTA-TTTAGTAATTTTACAAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
** * *
54588671 GGTATTTCAGTAATTTTGCAAAT-TGAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
* *
54588698 GGTATTTCGATAATTTTACAAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
* * *
54588725 GATATTTAGGTAATTTTATAAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
* * * *
54588752 GATACTTTGGTAACTTTACAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
*** ** *
54588779 GGTATTTCAATAATTTTAC-GTTGA-G
1 GGTATTTTGGTAATTTTACAAATCAGG
** *
54588804 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
54588831 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATC-AGG
* *
54588858 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
54588885 GGTATTTTGGTAATTTTACAAAAT-AGG
1 GGTATTTTGGTAATTTTAC-AAATCAGG
* *
54588912 GGTATTTTGGTAATTTTATAAA-CTAAG
1 GGTATTTTGGTAATTTTACAAATC-AGG
* *
54588939 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
54588966 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
54588982 GGTAAACTAA
Statistics
Matches: 426, Mismatches: 79, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
25 20 0.05
26 22 0.05
27 378 0.89
28 6 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAGG
Found at i:54588471 original size:54 final size:54
Alignment explanation
Indices: 54588008--54588497 Score: 581
Period size: 54 Copynumber: 9.1 Consensus size: 54
54587998 GGTGTCTCGA
* * * * *
54588008 AATTCCACCCTACAGGGGTATTTCGATAATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
** *
54588062 AATTCTACCCCACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
* ** *
54588116 AATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGAT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
* * ** *
54588170 AATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTGCGAT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
* ** *
54588224 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGAT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
** * *
54588278 AATTCTACCATACAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTCGGT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
* * *
54588332 AATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
* * * * **
54588386 AATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTACAAAGGTATTTTGGT
1 AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
* * * **
54588440 AATT-T-CACAAATCAGGGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGT
1 AATTCTAC-CATA-CAGGGGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTTGGT
54588494 AATT
1 AATT
54588498 TTATTAATCG
Statistics
Matches: 395, Mismatches: 38, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
52 1 0.00
53 5 0.01
54 389 0.98
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (54 bp):
AATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGT
Found at i:54588498 original size:54 final size:54
Alignment explanation
Indices: 54588429--54588981 Score: 363
Period size: 54 Copynumber: 10.3 Consensus size: 54
54588419 ACCCTACAAA
*
54588429 GGTATTTTGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACCAGG
** ** *
54588483 GGTATTTTGGTAATTTTATTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAGG
** ** *** * **
54588537 GGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAG-G
**** * * ** *** * ** *
54588591 GGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATCTTA-CAAG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-CAAACCAGG
* * ** * **
54588645 AGTA-TTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAG-G
* * * * * *
54588698 GGTATTTCGATAATTTTACAAATCGAGGATATTTAGGTAATTTTATAAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAG-G
* * * * *** ****
54588752 GATACTTTGGTAACTTTACAAGTCGAGGGTATTTCAATAATTTTAC-GTTGA-G
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAGG
** * *
54588804 GGTATTTCAGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACCAGG
* * **
54588858 GGTATTTTGATAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTACAAAATAGG
1 GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACCAGG
* * *
54588912 GGTATTTTGGTAATTTTATAAA-CTAAGGGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTACAAACCAGG
54588966 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
54588982 GGTAAACTAA
Statistics
Matches: 387, Mismatches: 100, Indels: 24
0.76 0.20 0.05
Matches are distributed among these distances:
51 1 0.00
52 37 0.10
53 32 0.08
54 314 0.81
55 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAGG
Found at i:54588514 original size:81 final size:81
Alignment explanation
Indices: 54588429--54588981 Score: 358
Period size: 81 Copynumber: 6.9 Consensus size: 81
54588419 ACCCTACAAA
*
54588429 GGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
*
54588494 AATTTTATTAATCGAG
66 AATTTTATAAATCGAG
** * * ** ** * ***
54588510 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATC-GAGGGTAAAATGG
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGG
*
54588574 TAATTTTATAAATTGAG
65 TAATTTTATAAATCGAG
**** * * ** *** * ** * * *
54588591 GGTAAAACGATAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATCTTA-CAAGAGTA-TTTA
1 GGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTG
*
54588653 GTAATTTTACAAATCGAG
64 GTAATTTTATAAATCGAG
** * * * * * * *
54588671 GGTATTTCAGTAATTTTGCAAAT-TGAGGGTATTTCGATAATTTTACAAATC-GAGGATATTTAG
1 GGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTG
54588734 GTAATTTTATAAATCGAG
64 GTAATTTTATAAATCGAG
* * * * *** **** **
54588752 GATACTTTGGTAACTTTACAAGTC-GAGGGTATTTCAATAATTTTAC-GTTGA-GGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* *
54588814 TAATTTCACAAATC-AGG
65 TAATTTTATAAATCGA-G
*
54588831 GGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* *
54588895 TAATTTTACAAAATAG-G
65 TAATTTTA-TAAATCGAG
* * *
54588912 GGTATTTTGGTAATTTTATAAA-CTAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
54588976 TAATTT
65 TAATTT
54588982 GGTAAACTAA
Statistics
Matches: 359, Mismatches: 96, Indels: 34
0.73 0.20 0.07
Matches are distributed among these distances:
78 2 0.01
79 59 0.16
80 56 0.16
81 237 0.66
82 5 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
AATTTTATAAATCGAG
Found at i:54591124 original size:18 final size:18
Alignment explanation
Indices: 54591101--54591136 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54591091 TGTGCAAATC
*
54591101 ACTGTGTGTTTTGTCATT
1 ACTGTGGGTTTTGTCATT
54591119 ACTGTGGGTTTTGTCATT
1 ACTGTGGGTTTTGTCATT
54591137 CTTTTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.25, T:0.53
Consensus pattern (18 bp):
ACTGTGGGTTTTGTCATT
Found at i:54601234 original size:22 final size:22
Alignment explanation
Indices: 54601209--54601268 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 22
54601199 TCAGCTTGTA
54601209 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* * *
54601231 AGAGCTTACCGTTTTAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
54601254 AGAGCTTACTGTTCA
1 AGAGCTTACTGTTCA
54601269 TTAGCTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:54608108 original size:29 final size:29
Alignment explanation
Indices: 54608047--54608149 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
54608037 ATAAGGTGAT
* * * *
54608047 TTGGGCCTAACGGGCCCTATAAAGGAGAT
1 TTGGGCCTAATGGGCCATATAAATGAGAA
* *
54608076 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATAAATGAGAA
* *
54608105 TTGGGCTTGATGGGCCATATAAATGAG-A
1 TTGGGCCTAATGGGCCATATAAATGAGAA
54608133 TTGGGCC-AAGTGGGCCA
1 TTGGGCCTAA-TGGGCCA
54608150 CACGCATGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.02
28 14 0.23
29 46 0.75
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATAAATGAGAA
Found at i:54614507 original size:29 final size:29
Alignment explanation
Indices: 54614455--54614554 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 29
54614445 GCATGAACAT
* * **
54614455 AAGGTGATTTGGGCCTAACGGGCCATATA
1 AAGGAGATTTGGGCCTGATAGGCCATATA
*
54614484 AAGGAGATTTGGGCCTGATAGGCCATATG
1 AAGGAGATTTGGGCCTGATAGGCCATATA
* * * * * *
54614513 AATGTGAATTGGGCTTGGTAAGCCATATA
1 AAGGAGATTTGGGCCTGATAGGCCATATA
*
54614542 AATGAGA-TTGGGC
1 AAGGAGATTTGGGC
54614555 TAAGTGGGCC
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 6 0.10
29 52 0.90
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (29 bp):
AAGGAGATTTGGGCCTGATAGGCCATATA
Found at i:54614565 original size:28 final size:28
Alignment explanation
Indices: 54614475--54614568 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 28
54614465 GGGCCTAACG
* *
54614475 GGCCATATAAAGGAGATTTGGGCCTGA-TA
1 GGCCATATAAATGAGA-TTGGG-CTAAGTA
* * **
54614504 GGCCATATGAATGTGAATTGGGCTTGGTA
1 GGCCATATAAATGAG-ATTGGGCTAAGTA
* *
54614533 AGCCATATAAATGAGATTGGGCTAAGTG
1 GGCCATATAAATGAGATTGGGCTAAGTA
54614561 GGCCATAT
1 GGCCATAT
54614569 GCATGTATGT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
28 19 0.37
29 31 0.61
30 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.27
Consensus pattern (28 bp):
GGCCATATAAATGAGATTGGGCTAAGTA
Found at i:54618086 original size:14 final size:14
Alignment explanation
Indices: 54618069--54618142 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
54618059 ATCTCTAGTC
54618069 ATAAACCCTAAACT
1 ATAAACCCTAAACT
*
54618083 ATAAACCTTAAACT
1 ATAAACCCTAAACT
* ***
54618097 CTAAATATTAAACCT
1 ATAAACCCTAAA-CT
* *
54618112 -TGAATCCTAAACT
1 ATAAACCCTAAACT
54618125 ATAAAACCCTAAACT
1 AT-AAACCCTAAACT
54618140 ATA
1 ATA
54618143 GACACTGAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 2 0.04
14 32 0.67
15 14 0.29
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.27
Consensus pattern (14 bp):
ATAAACCCTAAACT
Found at i:54618094 original size:21 final size:21
Alignment explanation
Indices: 54618070--54618138 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
54618060 TCTCTAGTCA
54618070 TAAACCCTAAACTATAAACCT
1 TAAACCCTAAACTATAAACCT
*
54618091 TAAACTCTAAA-TATTAAACCT
1 TAAACCCTAAACTA-TAAACCT
* * *
54618112 TGAATCCTAAACTATAAAACCC
1 TAAACCCTAAACTAT-AAACCT
54618134 TAAAC
1 TAAAC
54618139 TATAGACACT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.05
21 26 0.68
22 10 0.26
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACTATAAACCT
Found at i:54618621 original size:3 final size:3
Alignment explanation
Indices: 54618613--54618641 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
54618603 ATTAATAGTA
54618613 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
54618642 AGAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:54619018 original size:75 final size:73
Alignment explanation
Indices: 54618883--54619043 Score: 168
Period size: 74 Copynumber: 2.2 Consensus size: 73
54618873 TTTTCACTAG
*
54618883 AAAACGCCAC-AAACATCTATTAATAGATTGCAAAACAGCGTCGTTATTACCCTATTATTAGTGG
1 AAAACGCCACAAAACATCTA-TAAGAGATTGCAAAACAGCGTCGTTATTACCCTATTATTAGTGG
*
54618947 TGCTTTTTAT
65 CGC-TTTTAT
* ** * * *
54618957 CAAAACGCCACAAAACATCTA-AAGATATTTTAAAACATCGTCGTTTTATAGCCT-TTAATTAGT
1 -AAAACGCCACAAAACATCTATAAGAGATTGCAAAACAGCGTCGTTAT-TACCCTATT-ATTAGT
54619020 GGCGCTTTTAT
63 GGCGCTTTTAT
*
54619031 -AAACTCCACAAAA
1 AAAACGCCACAAAA
54619044 GGTGTGAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
72 12 0.16
74 28 0.38
75 25 0.34
76 9 0.12
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (73 bp):
AAAACGCCACAAAACATCTATAAGAGATTGCAAAACAGCGTCGTTATTACCCTATTATTAGTGGC
GCTTTTAT
Found at i:54619786 original size:21 final size:21
Alignment explanation
Indices: 54619762--54619806 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
54619752 TGATGAGATC
*
54619762 TTGAGAAAAGGGTTTTCGAGT
1 TTGAGAAAAGGGTTTTCCAGT
54619783 TTGAGAAAAGGGTTTTCCAGT
1 TTGAGAAAAGGGTTTTCCAGT
54619804 TTG
1 TTG
54619807 TTCATGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.07, G:0.31, T:0.36
Consensus pattern (21 bp):
TTGAGAAAAGGGTTTTCCAGT
Found at i:54620355 original size:39 final size:38
Alignment explanation
Indices: 54620294--54620371 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 38
54620284 AATAACTTAA
* *
54620294 ATGTTATAATACATGATTTATCTCAATTACATCCATAT
1 ATGTTATAATACATAATATATCTCAATTACATCCATAT
54620332 ATGTTATATATACATAATATATCTCAATTACATCCATAT
1 ATGTTATA-ATACATAATATATCTCAATTACATCCATAT
54620371 A
1 A
54620372 AATATATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 8 0.22
39 29 0.78
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (38 bp):
ATGTTATAATACATAATATATCTCAATTACATCCATAT
Found at i:54622876 original size:19 final size:19
Alignment explanation
Indices: 54622852--54622905 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
54622842 CAATCTTATT
54622852 TTAATTAATATAAT-TTAGA
1 TTAATTAATATAATATTA-A
* * *
54622871 TTAATTTATTTAAATATTAT
1 TTAATTAATAT-AATATTAA
54622891 TTAATTAATATAATA
1 TTAATTAATATAATA
54622906 ATATAATTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 13 0.46
20 12 0.43
21 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAATTAATATAATATTAA
Found at i:54622886 original size:25 final size:25
Alignment explanation
Indices: 54622858--54622934 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
54622848 TATTTTAATT
54622858 AATATAATTTAGATTAATTTATTTA
1 AATATAATTTAGATTAATTTATTTA
* * *
54622883 AATATTATTTA-ATTAATATA-AT-
1 AATATAATTTAGATTAATTTATTTA
*
54622905 AATATAATTTGGATTAATTTATTTA
1 AATATAATTTAGATTAATTTATTTA
54622930 AATAT
1 AATAT
54622935 TATTAAATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 9 0.21
23 9 0.21
24 9 0.21
25 15 0.36
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
AATATAATTTAGATTAATTTATTTA
Found at i:54622911 original size:47 final size:46
Alignment explanation
Indices: 54622857--54622965 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 46
54622847 TTATTTTAAT
*
54622857 TAATATAATTTAGATTAATTTATTTAAATATTATTTAATTAATATAA
1 TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATAT-A
*
54622904 TAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATA
1 TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATA
*
54622950 -AATATTATTTA-ATTAA
1 TAATATAATTTAGATTAA
54622966 AATAATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
44 5 0.09
45 9 0.16
46 1 0.02
47 43 0.74
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (46 bp):
TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATA
Found at i:54622964 original size:20 final size:20
Alignment explanation
Indices: 54622851--54622970 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 20
54622841 TCAATCTTAT
54622851 TTTAATTAATAT-AAT-TTA
1 TTTAATTAATATAAATATTA
* * *
54622869 GATTAATTTATTTAAATATTA
1 -TTTAATTAATATAAATATTA
*
54622890 TTTAATTAATATAATAATATAA
1 TTTAATTAATAT-A-AATATTA
*
54622912 TTTGGATTAATTTATTTAAATATTA
1 TTT-AATTAA--TA--TAAATATTA
*
54622937 TTAAATTAATATAAATATTA
1 TTTAATTAATATAAATATTA
*
54622957 TTTAATTAAAATAA
1 TTTAATTAATATAA
54622971 TTTTTTTTCC
Statistics
Matches: 79, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.11
20 33 0.42
21 4 0.05
22 11 0.14
23 5 0.06
24 5 0.06
25 10 0.13
26 1 0.01
27 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTAATTAATATAAATATTA
Found at i:54623265 original size:9 final size:9
Alignment explanation
Indices: 54623246--54623310 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
54623236 TATATATTTG
*
54623246 AACTTACAT
1 AACTCACAT
*
54623255 AACTCATAT
1 AACTCACAT
54623264 AACTCACAT
1 AACTCACAT
*
54623273 AACTTACAT
1 AACTCACAT
54623282 AACTCACAT
1 AACTCACAT
*
54623291 AACTTACAT
1 AACTCACAT
*
54623300 AACTTACAT
1 AACTCACAT
54623309 AA
1 AA
54623311 TACATAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (9 bp):
AACTCACAT
Found at i:54623272 original size:18 final size:18
Alignment explanation
Indices: 54623246--54623348 Score: 95
Period size: 18 Copynumber: 5.8 Consensus size: 18
54623236 TATATATTTG
* * *
54623246 AACTTACATAACTCATAT
1 AACTCACATAACTTACAT
54623264 AACTCACATAACTTACAT
1 AACTCACATAACTTACAT
54623282 AACTCACATAACTTACAT
1 AACTCACATAACTTACAT
*
54623300 AACTTACATAA--TACAT
1 AACTCACATAACTTACAT
* * * *
54623316 AAAT-ATATATCATATCAT
1 AACTCACATAACTTA-CAT
*
54623334 AACTTACATAACTTA
1 AACTCACATAACTTA
54623349 ATTAGAGTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
15 4 0.06
16 8 0.11
17 2 0.03
18 49 0.70
19 7 0.10
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (18 bp):
AACTCACATAACTTACAT
Found at i:54623277 original size:27 final size:27
Alignment explanation
Indices: 54623246--54623317 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
54623236 TATATATTTG
*
54623246 AACTTACATAACTCATATAACTCACAT
1 AACTTACATAACTCACATAACTCACAT
*
54623273 AACTTACATAACTCACATAACTTACAT
1 AACTTACATAACTCACATAACTCACAT
54623300 AACTTACATAA-T-ACATAA
1 AACTTACATAACTCACATAA
54623318 ATATATATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 6 0.14
26 1 0.02
27 36 0.84
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (27 bp):
AACTTACATAACTCACATAACTCACAT
Found at i:54625549 original size:84 final size:84
Alignment explanation
Indices: 54625445--54625670 Score: 362
Period size: 84 Copynumber: 2.7 Consensus size: 84
54625435 TTCGGGCTTT
* * ** * *
54625445 GAGCCTAGTAGGTGTAATGCCGGTGAAATGATATCAAACTTAAAGGTCTAGCAAGTTTTAAGCTG
1 GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
54625510 GTGAATATTATCGAGCTCC
66 GTGAATATTATCGAGCTCC
*
54625529 GAGCTTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
1 GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
*
54625594 GTGAATATTATCGGGCTCC
66 GTGAATATTATCGAGCTCC
* *
54625613 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAGGCTT
1 GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
54625671 ATTACCGGTG
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 131 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (84 bp):
GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
GTGAATATTATCGAGCTCC
Found at i:54625598 original size:43 final size:44
Alignment explanation
Indices: 54625543--54625681 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 44
54625533 TTAGAAGGCG
* *
54625543 TAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
1 TAATACCGGTGAAATGATATCGGACTTAAAGGTCTAGCAGGCTT
* * *** * *
54625587 TAA-ACTGGTG-AAT-ATTATCGGGCTCCGA-GCCTAGCAGGC-G
1 TAATACCGGTGAAATGA-TATCGGACTTAAAGGTCTAGCAGGCTT
*
54625627 TAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAGGC-T
1 TAATACCGGTGAAATGATATCGGACTTAAAGGTCTAGCAGGCTT
*
54625670 TATTACCGGTGA
1 TAATACCGGTGA
54625682 TGAAATCAGG
Statistics
Matches: 71, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
40 3 0.04
41 15 0.21
42 24 0.34
43 26 0.37
44 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
TAATACCGGTGAAATGATATCGGACTTAAAGGTCTAGCAGGCTT
Found at i:54625638 original size:41 final size:41
Alignment explanation
Indices: 54625509--54625639 Score: 104
Period size: 41 Copynumber: 3.1 Consensus size: 41
54625499 GTTTTAAGCT
* * *
54625509 GGTGAATATTATCGAGCTCCGAGCTTAGAAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
* *** * * * * *
54625550 GGTGAA-ATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA-ACT
1 GGTGAATAT--TATCGGGCTCCGA-GCCTAGCAGGC-GTAATGCC
54625593 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
54625634 GGTGAA
1 GGTGAA
54625640 ATGATATCGG
Statistics
Matches: 63, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
40 5 0.08
41 22 0.35
42 17 0.27
43 14 0.22
44 5 0.08
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (41 bp):
GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
Found at i:54625648 original size:42 final size:42
Alignment explanation
Indices: 54625518--54625649 Score: 108
Period size: 42 Copynumber: 3.1 Consensus size: 42
54625508 TGGTGAATAT
* * *
54625518 TATCGAGCTCCGAGCTTAGAAGGCGTAATGCCGGTGAAATGA
1 TATCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGA
* *** * * * * *
54625560 TATCGGACTTAAAGGTCTAGCAAGCTTTAA-ACTGGTG-AAT-A
1 TATCGGGCTCCGA-GCCTAGCAGGC-GTAATGCCGGTGAAATGA
54625601 TTATCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGA
1 -TATCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGA
54625644 TATCGG
1 TATCGG
54625650 ACTTAAAGGT
Statistics
Matches: 63, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
40 3 0.05
41 15 0.24
42 29 0.46
43 13 0.21
44 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (42 bp):
TATCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGA
Found at i:54632471 original size:13 final size:14
Alignment explanation
Indices: 54632455--54632483 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54632445 TTACAAATAT
54632455 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
54632468 TTATAATGGTTTAA
1 TTATAATGGTTTAA
54632482 TT
1 TT
54632484 TGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:54647561 original size:39 final size:40
Alignment explanation
Indices: 54647466--54647727 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
54647456 TTGAATGATG
*
54647466 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
54647504 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
54647545 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
54647584 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
54647623 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
54647662 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
54647701 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
54647728 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54655576 original size:39 final size:40
Alignment explanation
Indices: 54655481--54655742 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
54655471 TTGAATGATG
*
54655481 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
54655519 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
54655560 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
54655599 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
54655638 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
54655677 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
54655716 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
54655743 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54661106 original size:36 final size:35
Alignment explanation
Indices: 54661055--54661126 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 35
54661045 TTAAAGCAGA
54661055 CCAAACAAACAAACCTTAACTAAATGTACATATAT
1 CCAAACAAACAAACCTTAACTAAATGTACATATAT
54661090 CCAAACCAAACAAACCTTAACTAAATGTACATATAT
1 CCAAA-CAAACAAACCTTAACTAAATGTACATATAT
54661126 C
1 C
54661127 ATTCTTGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 5 0.14
36 31 0.86
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (35 bp):
CCAAACAAACAAACCTTAACTAAATGTACATATAT
Found at i:54661548 original size:44 final size:43
Alignment explanation
Indices: 54661416--54661564 Score: 133
Period size: 44 Copynumber: 3.5 Consensus size: 43
54661406 ATCTCAAACG
* * * * *
54661416 TGGTCTTACATGTAATTACATATCGATGCCATTGTCCCAGACA
1 TGGTCTTACACGAAATCACAAATCGATGCCAATGTCCCAGACA
* *** * *
54661459 -GTGTCTTACAC-AAA-CTCGTGTACGATGCCGATGTCCTAGACA
1 TG-GTCTTACACGAAATCACAAAT-CGATGCCAATGTCCCAGACA
*
54661501 TGGTCTTACACGTAAATCACAAATCGATGCCAATGTCCCAGATA
1 TGGTCTTACACG-AAATCACAAATCGATGCCAATGTCCCAGACA
*
54661545 TGGTCTTACTCGAAATCACA
1 TGGTCTTACACGAAATCACA
54661565 TATGGAAATC
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
41 3 0.04
42 29 0.35
43 17 0.20
44 31 0.37
45 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACACGAAATCACAAATCGATGCCAATGTCCCAGACA
Found at i:54664916 original size:46 final size:44
Alignment explanation
Indices: 54664750--54664967 Score: 125
Period size: 46 Copynumber: 4.7 Consensus size: 44
54664740 ATTATGAGCT
* * *
54664750 AGTGTATGACATGTCTGGGACATGCATCAGCCACATTACGAGTTAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAG---C--TACGAGTTAAGCC
* * * * ** *
54664799 AGTGTAAGACCATGTCCAAGACATGGCATC-GATAGTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCTA-CGAG-TTA-AGCC
** * *
54664847 AGTGTAAGACACATCTCGAACATGCATCAGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAG-CTACGAG-T-TAAGCC
* * *
54664893 AGTGTAAGACATGTCTAGGACATGCATCTGCTATGAGTTAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGTTAAGCC
*
54664937 AGTGTAAGACCATGTCCAGGACATGGCATCA
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCA
54664968 ATATCCTATC
Statistics
Matches: 130, Mismatches: 28, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
44 14 0.11
45 18 0.14
46 48 0.37
47 11 0.08
48 14 0.11
49 8 0.06
50 12 0.09
51 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGTTAAGCC
Found at i:54666694 original size:48 final size:48
Alignment explanation
Indices: 54666636--54666866 Score: 311
Period size: 48 Copynumber: 4.8 Consensus size: 48
54666626 GACAATGCCA
* * *
54666636 ATGCGATGTCCCAAACATGGTCTTACACTAGCACACATATCAGCGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCCG
* * * *
54666684 ATGCCGTGTCCCAGACATGGTCTTACACCAGCTCACATATCCACGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCCG
* * * * **
54666732 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCAATGCTA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCCG
* *
54666780 ATGCCATGTCCCAAACATGGTCTTACACT-GGTCACATATCAACGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCCG
*
54666827 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
54666867 ACATTTCATG
Statistics
Matches: 159, Mismatches: 23, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
47 42 0.26
48 117 0.74
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAACGCCG
Found at i:54671762 original size:24 final size:24
Alignment explanation
Indices: 54671724--54671772 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
54671714 AGAGTTATGG
* *
54671724 TGGCAATGGATTATGAGCGTTGCA
1 TGGCAACGGACTATGAGCGTTGCA
54671748 TGGCAACGGACTATGAGCGTTGCA
1 TGGCAACGGACTATGAGCGTTGCA
54671772 T
1 T
54671773 TAGATTTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (24 bp):
TGGCAACGGACTATGAGCGTTGCA
Found at i:54677504 original size:28 final size:28
Alignment explanation
Indices: 54677428--54677514 Score: 129
Period size: 28 Copynumber: 3.1 Consensus size: 28
54677418 GTGAGCATGA
*
54677428 ATATAATGTGATTTGGGCCTAAAGGGCT
1 ATATAATGTGATTTGGGCCTAAAGGGCC
54677456 ATATAAATGTGATTTGGGCCTAAAGGGCC
1 ATAT-AATGTGATTTGGGCCTAAAGGGCC
* * *
54677485 ATATAATGTGATCTGCGCCTAATGGGCC
1 ATATAATGTGATTTGGGCCTAAAGGGCC
54677513 AT
1 AT
54677515 GTGAATATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 27 0.50
29 27 0.50
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAAAGGGCC
Found at i:54683631 original size:15 final size:15
Alignment explanation
Indices: 54683611--54683658 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
54683601 ATTATTCAAG
54683611 TATGTGAATTTGGTT
1 TATGTGAATTTGGTT
54683626 TATGTGAATTTGG-T
1 TATGTGAATTTGGTT
***
54683640 TATACAAATTTGGTT
1 TATGTGAATTTGGTT
54683655 TATG
1 TATG
54683659 GATTTTCGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (15 bp):
TATGTGAATTTGGTT
Found at i:54696886 original size:15 final size:15
Alignment explanation
Indices: 54696863--54696911 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
54696853 ATTATTCAAG
54696863 TATGCGAATTTGGTT
1 TATGCGAATTTGGTT
* *
54696878 TATGTGAATTTGGTC
1 TATGCGAATTTGGTT
*
54696893 TGTGCGAATTTGGTT
1 TATGCGAATTTGGTT
54696908 TATG
1 TATG
54696912 GATTTTTGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (15 bp):
TATGCGAATTTGGTT
Found at i:54704421 original size:20 final size:20
Alignment explanation
Indices: 54704396--54704437 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
54704386 CCGCAAAGCG
54704396 TAGCATATTACTAATTTAAA
1 TAGCATATTACTAATTTAAA
54704416 TAGCATATTACTAATTTAAA
1 TAGCATATTACTAATTTAAA
54704436 TA
1 TA
54704438 ATAAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
TAGCATATTACTAATTTAAA
Found at i:54712689 original size:13 final size:13
Alignment explanation
Indices: 54712671--54712697 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54712661 AAAGCTACGC
54712671 TTATAAAATTGTT
1 TTATAAAATTGTT
54712684 TTATAAAATTGTT
1 TTATAAAATTGTT
54712697 T
1 T
54712698 ATCTTATGCG
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTATAAAATTGTT
Found at i:54729982 original size:39 final size:39
Alignment explanation
Indices: 54729938--54730110 Score: 204
Period size: 39 Copynumber: 4.4 Consensus size: 39
54729928 ATTATATTAT
*
54729938 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACAATTC
* ** *
54729977 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACAATTC
* * *
54730016 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATAATTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACAATTC
* ** * *
54730055 CAGCACATAGCCTGC-GGACCCTAAGTCCGGATATAATTC
1 CAGCACAAAGCCTGCGGGACTTTAA-CCCGGATACAATTC
*
54730094 CAGCACATAGCCTGCGG
1 CAGCACAAAGCCTGCGG
54730111 ACCCTAAGTC
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 6 0.05
39 113 0.94
40 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (39 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATACAATTC
Done.