Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 254 of 373
Found at i:86270719 original size:40 final size:40
Alignment explanation
Indices: 86270658--86270904 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
86270648 CGGAATTTAG
* * * *
86270658 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
86270698 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
86270738 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
86270778 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
86270818 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
86270858 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
86270898 CCGGATA
1 CCGGATA
86270905 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:86273271 original size:88 final size:88
Alignment explanation
Indices: 86273163--86273369 Score: 351
Period size: 88 Copynumber: 2.4 Consensus size: 88
86273153 TTAAGCCACC
*
86273163 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCACCCTAAGCAGT
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCACCCTAAGCAAT
86273228 AGGGGAACAGATCAAAGACAGTG
66 AGGGGAACAGATCAAAGACAGTG
* * *
86273251 AGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCTGAAAATTACAGATTTTATCACCCTAAGCAAT
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCACCCTAAGCAAT
*
86273316 AGGGGAACAGATCGAAGACAGTG
66 AGGGGAACAGATCAAAGACAGTG
* *
86273339 AGCCTTAACCCCCTAAGCAGTAGGGGAACAG
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAG
86273370 ATCGAAGACA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 111 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCACCCTAAGCAAT
AGGGGAACAGATCAAAGACAGTG
Found at i:86273397 original size:88 final size:87
Alignment explanation
Indices: 86273305--86273764 Score: 523
Period size: 88 Copynumber: 5.2 Consensus size: 87
86273295 GATTTTATCA
* * * * * * *
86273305 CCCTAAGCAATAGGGGAACAGATCGAAGACAGT-GAGCCTTAACCCCCTAAGCAGTAGGGGAACA
1 CCCTAAGCAGTAGGGTAACAGATCGAA-A-ATTAAAGTCTTATCACCCTAAGCAGTAGGGGAACA
86273369 GATCGAAGACAGTGAGCCTTAACC
64 GATCGAAGACAGTGAGCCTTAACC
* ** * * *
86273393 CCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGATTTTATCACCCTAAGCAGTAGGGGAGCAG
1 CCCTAAGCAGTAGGGTAACAGATCGAAAATTAAAG-TCTTATCACCCTAAGCAGTAGGGGAACAG
*
86273458 ATCGAAGACAGTGAGCCTTAGCC
65 ATCGAAGACAGTGAGCCTTAACC
* * * * *
86273481 CCCTAAGCAGTAGGGTAACA-AGCTGAAAATTACAGATCTTATCACCCTAAGCAGTAGAGTAGCA
1 CCCTAAGCAGTAGGGTAACAGATC-GAAAATTAAAG-TCTTATCACCCTAAGCAGTAGGGGAACA
*
86273545 GATCGAAGAGAGTGAGCCTTAACC
64 GATCGAAGACAGTGAGCCTTAACC
* * * *
86273569 CCTTAAGCAGTAGGGTAACAG-GCTAAAAATTACAAATCTTATCACCCTAAGCAGTAGGGGAACA
1 CCCTAAGCAGTAGGGTAACAGATC-GAAAATTA-AAGTCTTATCACCCTAAGCAGTAGGGGAACA
*
86273633 GATCGAAGACAGTGAGCTTTAACC
64 GATCGAAGACAGTGAGCCTTAACC
* * * * *
86273657 TCCTAAGTAGTAGGGTAACGGCT-GAAAATTACAAATCTTATCACCCTAAGCAGTAGGGGAACAG
1 CCCTAAGCAGTAGGGTAACAGATCGAAAATTA-AAGTCTTATCACCCTAAGCAGTAGGGGAACAG
*
86273721 ATCGAAGACAGTGAGCTTTAACC
65 ATCGAAGACAGTGAGCCTTAACC
* *
86273744 TCCTAAGTAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGTAACAG
86273765 GCTGAAGGTC
Statistics
Matches: 328, Mismatches: 38, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
86 2 0.01
87 86 0.26
88 239 0.73
89 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAAATTAAAGTCTTATCACCCTAAGCAGTAGGGGAACAGA
TCGAAGACAGTGAGCCTTAACC
Found at i:86273410 original size:132 final size:131
Alignment explanation
Indices: 86273217--86273764 Score: 563
Period size: 132 Copynumber: 4.2 Consensus size: 131
86273207 GATCTTATCA
* *
86273217 CCCTAAGCAGTAGGGGAACAGATCAAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAA
1 CCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAAC-A
* *
86273282 GCTGAAAATTACAGATTTTATCACCCTAAGCAATAGGGGAACAGATCGAAGACAGTGAGCCTTAA
65 GCTGAAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAA
86273347 CC
130 CC
86273349 CCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA-
* * * * *
86273414 GTTAAAAATTACAGATTTTATCACCCTAAGCAGTAGGGGAGCAGATCGAAGACAGTGAGCCTTAG
65 GCTGAAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAA
86273479 CC
130 CC
* * * * * * * * *
86273481 CCCTAAGCAGTAGGGTAACA-AGCTGAA-A-ATTACAGATCTTATCACCCTAAGCAGTAGAGTAG
1 CCCTAAGCAGTAGGGGAACAGATC-GAAGACAGT-GAG-CCTTAACCCCCTAAGCAGTAGGGTAA
* * * * * * * * * * *
86273543 CAGATCGAAGAGAGT-GAG-CCTTAAC-CCCTTAAGCAGTAGGGTAACAG-GCTAA-AAATTACA
63 CAGCT-GAA-A-ATTACAGATCTTATCACCC-TAAGCAGTAGGGGAACAGATCGAAGACAGT--G
** * *
86273603 AATCTTATCA
122 AGCCTTAACC
* * * *
86273613 CCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCTTTAACCTCCTAAGTAGTAGGGTAACGG
1 CCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAG
* *
86273678 CTGAAAATTACAAATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCTTTAAC
66 CTGAAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAAC
86273743 C
131 C
* * *
86273744 TCCTAAGTAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGGAACAG
86273765 GCTGAAGGTC
Statistics
Matches: 331, Mismatches: 67, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
129 2 0.01
130 7 0.02
131 62 0.19
132 245 0.74
133 11 0.03
134 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (131 bp):
CCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAG
CTGAAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAAC
C
Found at i:86273487 original size:176 final size:175
Alignment explanation
Indices: 86273305--86273767 Score: 608
Period size: 176 Copynumber: 2.6 Consensus size: 175
86273295 GATTTTATCA
* * * * * * *
86273305 CCCTAAGCAATAGGGGAACAGATCGAAGACAGT-GAGCCTTAACCCCCTAAGCAGTAGGGGAACA
1 CCCTAAGCAGTAGGGTAACAGATCGAA-A-ATTAAAGTCTTATCACCCTAAGCAGTAGGGGAACA
* * *
86273369 GATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGATTTTA
64 GATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTA
* *
86273434 TCACCCTAAGCAGTAGGGGAGCAGATCGAAGACAGTGAGCCTTAGCC
129 TCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACC
* * * * *
86273481 CCCTAAGCAGTAGGGTAACA-AGCTGAAAATTACAGATCTTATCACCCTAAGCAGTAGAGTAGCA
1 CCCTAAGCAGTAGGGTAACAGATC-GAAAATTAAAG-TCTTATCACCCTAAGCAGTAGGGGAACA
* *
86273545 GATCGAAGAGAGTGAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTA
64 GATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTA
*
86273610 TCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCTTTAACC
129 TCACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACC
* * * * *
86273657 TCCTAAGTAGTAGGGTAACGGCT-GAAAATTACAAATCTTATCACCCTAAGCAGTAGGGGAACAG
1 CCCTAAGCAGTAGGGTAACAGATCGAAAATTA-AAGTCTTATCACCCTAAGCAGTAGGGGAACAG
* * *
86273721 ATCGAAGACAGTGAGCTTTAACCTCCTAAGTAGTAGGGTAACAGGCT
65 ATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT
86273768 GAAGGTCAAA
Statistics
Matches: 248, Mismatches: 34, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
174 2 0.01
175 81 0.33
176 165 0.67
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (175 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAAATTAAAGTCTTATCACCCTAAGCAGTAGGGGAACAGA
TCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATC
ACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACC
Found at i:86273756 original size:44 final size:43
Alignment explanation
Indices: 86273217--86273764 Score: 312
Period size: 44 Copynumber: 12.5 Consensus size: 43
86273207 GATCTTATCA
* * *
86273217 CCCTAAGCAGTAGGGGAACAGATCAAAGACAGTGAGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTAA-C
* * * * * *
86273261 CCCTAAGTAGTAGGGTAACA-AGCTGAA-A-ATTACAGATTTTATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAGACAGT-GAG-CTTTAAC
* * *
86273304 ACCCTAAGCAATAGGGGAACAGATCGAAGACAGTGAGCCTTAACC
1 -CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTAA-C
* *
86273349 CCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTAA-C
* * * * * * *
86273393 CCCTAAGCAGTAGGGTAACAGGT-TAA-AAATTACAGATTTTATC
1 CCCTAAGCAGTAGGGTAACAGATCGAAGACAGT-GAG-CTTTAAC
* * * *
86273436 ACCCTAAGCAGTAGGGGAGCAGATCGAAGACAGTGAGCCTTAGCC
1 -CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTA-AC
* * * * *
86273481 CCCTAAGCAGTAGGGTAACA-AGCTGAA-A-ATTACAGATCTTATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAGACAGT-GAGCT-TTAAC
* * * *
86273524 ACCCTAAGCAGTAGAGTAGCAGATCGAAGAGAGTGAGCCTTAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTAAC
* * * * * ** *
86273568 CCCTTAAGCAGTAGGGTAACAG-GCTAA-AAATTACAAATCTTATC
1 CCC-TAAGCAGTAGGGTAACAGATCGAAGACAGT-GAGCT-TTAAC
*
86273612 ACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCTTTAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTAAC
* * * * * ** *
86273656 CTCCTAAGTAGTAGGGTAACGGCT-GAA-A-ATTACAAATCTTATC
1 C-CCTAAGCAGTAGGGTAACAGATCGAAGACAGT-GAGCT-TTAAC
*
86273699 ACCCTAAGCAGTAGGGGAACAGATCGAAGACAGTGAGCTTTAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTAAC
*
86273743 CTCCTAAGTAGTAGGGTAACAG
1 C-CCTAAGCAGTAGGGTAACAG
86273765 GCTGAAGGTC
Statistics
Matches: 375, Mismatches: 94, Indels: 70
0.70 0.17 0.13
Matches are distributed among these distances:
41 2 0.01
42 13 0.03
43 51 0.14
44 270 0.72
45 27 0.07
46 12 0.03
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAGACAGTGAGCTTTAAC
Found at i:86273889 original size:45 final size:45
Alignment explanation
Indices: 86273828--86273953 Score: 193
Period size: 45 Copynumber: 2.8 Consensus size: 45
86273818 AATTACAAGC
86273828 CTTATCTCCCC-GAAGTTGCAGTGGAGCAGACTGAAGATAAG-GAAT
1 CTTAT-TCCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCGAAT
*
86273873 CTTATTCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATTCCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
* *
86273918 CTTATTCCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 CTTATTCCCCTGAAGTTGCAGTGGAGCAGACTGAAG
86273954 CTATGAATTA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
44 6 0.08
45 69 0.92
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (45 bp):
CTTATTCCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
Found at i:86274070 original size:44 final size:41
Alignment explanation
Indices: 86273963--86274071 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
86273953 GCTATGAATT
* *
86273963 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAA
1 AACAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAA
* * * * *
86274004 AACAAACCTTATCTCTCCGAAGTTGCAATATAGCAGGTTGAA
1 AACAAATCTTATCTCTCTGAAGTTGCAATAGAGCA-GATCAA
* *
86274046 GTCACAAGTCTTATCTCTCTGAAGTT
1 --AACAAATCTTATCTCTCTGAAGTT
86274072 ATAGTGGAGC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 30 0.56
42 4 0.07
44 20 0.37
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
AACAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAA
Found at i:86275595 original size:3 final size:3
Alignment explanation
Indices: 86275587--86275632 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
86275577 ATTTTATTCA
* * *
86275587 ATT ATT ATT ATT AAT ATT ATT ATT GTT ATT ATT CTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
86275633 CCACCATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:86275876 original size:3 final size:3
Alignment explanation
Indices: 86275870--86276137 Score: 64
Period size: 3 Copynumber: 89.7 Consensus size: 3
86275860 TTGTTGTGTC
* * * *
86275870 ATT ATT ATT ATT ATT ATT ATA ATT TTT TTT CACAT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -A-TT AT-T ATT ATT ATT
* ** ** * **
86275918 -TAT ATT ATT ACT ATT ATT AAC GCT CTT ATT ATT GCT ATT ATT ATT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
86275963 CCTT -TT ACT ATT ACT ATT ATT ATT ACT ATT ATT ACT ATC CTT TTT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
86276008 ATT CTC ATT TTT ATT AAT ATT ATT ATT A-T AAT CTT ATT -TT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * * * **
86276054 ATT ATC ATT -TT TTT AAA ATT ATT GTT ACT ATT ATT CTT -TT ACC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
86276100 -TA ATAC ATT ATT ATT ACT ATT TTT GTT ATT ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
86276138 ATTTTCTTTT
Statistics
Matches: 181, Mismatches: 71, Indels: 26
0.65 0.26 0.09
Matches are distributed among these distances:
2 12 0.07
3 159 0.88
4 9 0.05
5 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:86276022 original size:36 final size:35
Alignment explanation
Indices: 86275943--86276034 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 35
86275933 ATTAACGCTC
*
86275943 TTATTATTGCTATTATTATTCCTTTTACTATTACTA
1 TTATTATTACTATTATTATTCCTTTTA-TATTACTA
86275979 TTATTATTACTATTATTACTATCCTTTT-TATT-CTCA
1 TTATTATTACTATTATTA-T-TCCTTTTATATTACT-A
* *
86276015 TTTTTATTAATATTATTATT
1 TTATTATTACTATTATTATT
86276035 ATAATCTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
34 1 0.02
35 3 0.06
36 38 0.76
37 1 0.02
38 7 0.14
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.61
Consensus pattern (35 bp):
TTATTATTACTATTATTATTCCTTTTATATTACTA
Found at i:86276265 original size:12 final size:12
Alignment explanation
Indices: 86276250--86276276 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
86276240 TATTCTTATT
86276250 ATTATCATTCTC
1 ATTATCATTCTC
86276262 ATTATCATTCTC
1 ATTATCATTCTC
86276274 ATT
1 ATT
86276277 TTTTTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATCATTCTC
Found at i:86276319 original size:22 final size:23
Alignment explanation
Indices: 86276294--86276351 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
86276284 TTGTCATGTT
*
86276294 TTATATTTTT-TTATGTATTTGC
1 TTATATTTTTCTTATGCATTTGC
*
86276316 TTATTTCATTTTTCTTATGCATTTGT
1 TTA--T-ATTTTTCTTATGCATTTGC
86276342 TTATATTTTT
1 TTATATTTTT
86276352 ATATTACTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 3 0.10
23 6 0.20
24 2 0.07
25 6 0.20
26 13 0.43
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (23 bp):
TTATATTTTTCTTATGCATTTGC
Found at i:86283590 original size:22 final size:22
Alignment explanation
Indices: 86283562--86283611 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
86283552 GTTAGTCAAA
86283562 ACATATATAAATAAAAACACTT
1 ACATATATAAATAAAAACACTT
86283584 ACATATATAAATAAAAACACTT
1 ACATATATAAATAAAAACACTT
86283606 AC-TATA
1 ACATATA
86283612 CAAACTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (22 bp):
ACATATATAAATAAAAACACTT
Found at i:86285009 original size:17 final size:19
Alignment explanation
Indices: 86284989--86285030 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
86284979 AATAGCTTAG
*
86284989 AAAAAATTCA-TG-TATTA
1 AAAAAATTCATTGCAATTA
*
86285006 AAAAACTTCATTGCAATTA
1 AAAAAATTCATTGCAATTA
86285025 AAAAAA
1 AAAAAA
86285031 CAAAGATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 9 0.45
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAAATTCATTGCAATTA
Found at i:86285232 original size:17 final size:17
Alignment explanation
Indices: 86285212--86285249 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
86285202 AAAAATTAAA
86285212 TTAT-ATTAAAATATTT
1 TTATGATTAAAATATTT
*
86285228 CTTATGATTAAATTATTT
1 -TTATGATTAAAATATTT
86285246 TTAT
1 TTAT
86285250 TTCCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATGATTAAAATATTT
Found at i:86285260 original size:17 final size:16
Alignment explanation
Indices: 86285240--86285273 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
86285230 TATGATTAAA
86285240 TTATTTTTATTTCCTTT
1 TTATTTTTATTT-CTTT
*
86285257 TTATTTTTGTTTCTTT
1 TTATTTTTATTTCTTT
86285273 T
1 T
86285274 CTTTCTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (16 bp):
TTATTTTTATTTCTTT
Found at i:86285723 original size:19 final size:18
Alignment explanation
Indices: 86285695--86285731 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
86285685 TTAATGTATT
86285695 TTTTAGAATTTTTTTAAAA
1 TTTTAGAA-TTTTTTAAAA
*
86285714 TTTTATAATTTTTTAAAA
1 TTTTAGAATTTTTTAAAA
86285732 AATATAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTAGAATTTTTTAAAA
Found at i:86285732 original size:19 final size:19
Alignment explanation
Indices: 86285695--86285742 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
86285685 TTAATGTATT
*
86285695 TTTTAGAATTTTTTTAAAA
1 TTTTAGAATTTTTTAAAAA
*
86285714 TTTTATAATTTTTTAAAAA
1 TTTTAGAATTTTTTAAAAA
* *
86285733 ATATAGAATT
1 TTTTAGAATT
86285743 AAGAATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTAGAATTTTTTAAAAA
Found at i:86285768 original size:19 final size:17
Alignment explanation
Indices: 86285744--86285780 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
86285734 TATAGAATTA
86285744 AGAATTTTTATAAATATTT
1 AGAATTTTT-TAAAT-TTT
86285763 AGAATTTTTTAAATTTT
1 AGAATTTTTTAAATTTT
86285780 A
1 A
86285781 TTTTGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
AGAATTTTTTAAATTTT
Found at i:86289087 original size:19 final size:20
Alignment explanation
Indices: 86289063--86289101 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
86289053 TCTTATTTTT
86289063 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
86289082 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
86289102 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:86289119 original size:25 final size:23
Alignment explanation
Indices: 86289063--86289127 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
86289053 TCTTATTTTT
*
86289063 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
86289082 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
86289105 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
86289128 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:86290439 original size:21 final size:20
Alignment explanation
Indices: 86290399--86290438 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
86290389 ATCACCAACT
86290399 TATTAATCACAACATAAAAA
1 TATTAATCACAACATAAAAA
86290419 TATTAATCACCAAC-TAAAAA
1 TATTAATCA-CAACATAAAAA
86290439 AAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.25
Consensus pattern (20 bp):
TATTAATCACAACATAAAAA
Found at i:86292051 original size:16 final size:16
Alignment explanation
Indices: 86292023--86292055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
86292013 TCATTATCCA
86292023 ACAAATATTTAAATTT
1 ACAAATATTTAAATTT
86292039 ACAAA-ATTCTAAATTT
1 ACAAATATT-TAAATTT
86292055 A
1 A
86292056 ACACATTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
ACAAATATTTAAATTT
Found at i:86297703 original size:17 final size:18
Alignment explanation
Indices: 86297673--86297718 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
86297663 ATTTAAATTG
86297673 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
86297691 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
86297707 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
86297719 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:86305162 original size:49 final size:49
Alignment explanation
Indices: 86305104--86305207 Score: 190
Period size: 49 Copynumber: 2.1 Consensus size: 49
86305094 TACATCACTT
* *
86305104 ACATCCTTCAAACTCTGAGCCGACACCTCATCATTATTCAAGAAGTAAC
1 ACATACTTCAAACTCTGAGCCAACACCTCATCATTATTCAAGAAGTAAC
86305153 ACATACTTCAAACTCTGAGCCAACACCTCATCATTATTCAAGAAGTAAC
1 ACATACTTCAAACTCTGAGCCAACACCTCATCATTATTCAAGAAGTAAC
86305202 ACATAC
1 ACATAC
86305208 ATAGATGACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.38, C:0.30, G:0.09, T:0.24
Consensus pattern (49 bp):
ACATACTTCAAACTCTGAGCCAACACCTCATCATTATTCAAGAAGTAAC
Found at i:86305667 original size:26 final size:27
Alignment explanation
Indices: 86305607--86305670 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
86305597 TGTCACTAAA
* *
86305607 GCTATTCTCTCAGAGTTCGCCACAAAG
1 GCTATTCTTTCAGAGTTAGCCACAAAG
*
86305634 GCTATTCTTTTAGAGTTAGCCAC-AAG
1 GCTATTCTTTCAGAGTTAGCCACAAAG
86305660 GCTATTCTTTC
1 GCTATTCTTTC
86305671 CTAACGTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (27 bp):
GCTATTCTTTCAGAGTTAGCCACAAAG
Found at i:86315256 original size:18 final size:18
Alignment explanation
Indices: 86315235--86315418 Score: 104
Period size: 18 Copynumber: 10.6 Consensus size: 18
86315225 TAACTAATTA
86315235 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * * *
86315253 TTACCGGATACTTGACTA
1 TTACTGAATAATTGACTG
*
86315271 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
86315289 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
86315307 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
86315325 TTACTG---AA-T---TG
1 TTACTGAATAATTGACTG
*
86315336 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
86315354 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
86315373 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
86315390 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
*
86315408 TTACTGGATAA
1 TTACTGAATAA
86315419 CCGATCAATT
Statistics
Matches: 130, Mismatches: 21, Indels: 30
0.72 0.12 0.17
Matches are distributed among these distances:
11 5 0.04
12 1 0.01
14 1 0.01
15 5 0.04
17 19 0.15
18 84 0.65
19 15 0.12
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:86315309 original size:36 final size:36
Alignment explanation
Indices: 86315223--86315321 Score: 114
Period size: 36 Copynumber: 2.8 Consensus size: 36
86315213 AAAAGTATAA
86315223 AATAACT-AATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGAA-TATTACTGAATAATTGACTGTTACCG
* * * *
86315259 GAT-ACTTGACTATTACTGGAT-ATTAGACTGTTACTG
1 AATAAC-TGAATATTACTGAATAATT-GACTGTTACCG
86315295 AATAACTGAATATTACTGAATAATTGA
1 AATAACTGAATATTACTGAATAATTGA
86315322 TCATTACTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
35 5 0.10
36 40 0.78
37 6 0.12
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACCG
Found at i:86315376 original size:19 final size:19
Alignment explanation
Indices: 86315352--86315498 Score: 99
Period size: 18 Copynumber: 7.7 Consensus size: 19
86315342 AATGAATGAC
*
86315352 TGTTACTGAATAACTTAAT
1 TGTTACTGAATAACTTGAT
*
86315371 TGTTACTGAATATC-TGAT
1 TGTTACTGAATAACTTGAT
86315389 T-TTACTGAATAA-TTGAT
1 TGTTACTGAATAACTTGAT
*
86315406 TGTTACTGGATAACCGATCAATTGAT
1 TGTTACTGAAT-A---A-C--TTGAT
* * *
86315432 CGATACTGAATAAC-TGGT
1 TGTTACTGAATAACTTGAT
* *
86315450 TATTATTGAATAA-TTGAT
1 TGTTACTGAATAACTTGAT
* *
86315468 TGTTACCGAATAAC-TGAC
1 TGTTACTGAATAACTTGAT
86315486 TGTTACTGAATAA
1 TGTTACTGAATAA
86315499 ATAATTGTTT
Statistics
Matches: 98, Mismatches: 18, Indels: 25
0.70 0.13 0.18
Matches are distributed among these distances:
17 15 0.15
18 52 0.53
19 14 0.14
21 1 0.01
22 2 0.02
25 1 0.01
26 13 0.13
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
TGTTACTGAATAACTTGAT
Found at i:86315379 original size:37 final size:35
Alignment explanation
Indices: 86315331--86315413 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 35
86315321 ATCATTACTG
*
86315331 AATTGTCACTGAATGA-ATGACTGTTACTGAATAACTT
1 AATTGTTACTGAAT-ATATGA-TGTTACTGAATAA-TT
* *
86315368 AATTGTTACTGAATATCTGATTTTACTGAATAATT
1 AATTGTTACTGAATATATGATGTTACTGAATAATT
*
86315403 GATTGTTACTG
1 AATTGTTACTG
86315414 GATAACCGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 12 0.29
36 13 0.32
37 16 0.39
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (35 bp):
AATTGTTACTGAATATATGATGTTACTGAATAATT
Found at i:86315395 original size:17 final size:18
Alignment explanation
Indices: 86315352--86315413 Score: 74
Period size: 17 Copynumber: 3.4 Consensus size: 18
86315342 AATGAATGAC
* *
86315352 TGTTACTGAATAACTTAAT
1 TGTTACTGAATATC-TGAT
86315371 TGTTACTGAATATCTGAT
1 TGTTACTGAATATCTGAT
86315389 T-TTACTGAATAAT-TGAT
1 TGTTACTGAAT-ATCTGAT
86315406 TGTTACTG
1 TGTTACTG
86315414 GATAACCGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 14 0.36
18 12 0.31
19 13 0.33
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (18 bp):
TGTTACTGAATATCTGAT
Found at i:86315410 original size:54 final size:55
Alignment explanation
Indices: 86315338--86315498 Score: 148
Period size: 54 Copynumber: 2.8 Consensus size: 55
86315328 CTGAATTGTC
* *
86315338 ACTGAATGAA-TGACTGTTACTGAATAACTTAATTGTTACTGAATATCTGATT-TT
1 ACTGAAT-AATTGATTGTTACTGAATAACTTAATTGTTACTGAATAACTGATTATT
* * *
86315392 ACTGAATAATTGATTGTTACTGGATAACCGATCAATTGATCGATACTGAATAACTGGTTATT
1 ACTGAATAATTGATTGTTACTGAATAA-C--TTAATTG-T---TACTGAATAACTGATTATT
* * * *
86315454 ATTGAATAATTGATTGTTACCGAATAAC-TGACTGTTACTGAATAA
1 ACTGAATAATTGATTGTTACTGAATAACTTAATTGTTACTGAATAA
86315499 ATAATTGTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
53 2 0.02
54 32 0.37
55 1 0.01
57 7 0.08
58 4 0.05
61 15 0.17
62 26 0.30
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (55 bp):
ACTGAATAATTGATTGTTACTGAATAACTTAATTGTTACTGAATAACTGATTATT
Found at i:86315507 original size:18 final size:18
Alignment explanation
Indices: 86315332--86315507 Score: 93
Period size: 18 Copynumber: 9.3 Consensus size: 18
86315322 TCATTACTGA
* *
86315332 ATTGTCACTGAATGAATG
1 ATTGTTACTGAATAAATG
* * *
86315350 ACTGTTACTGAATAACTTA
1 ATTGTTACTGAATAA-ATG
**
86315369 ATTGTTACTGAATATCTG
1 ATTGTTACTGAATAAATG
*
86315387 ATT-TTACTGAATAATTG
1 ATTGTTACTGAATAAATG
* *
86315404 ATTGTTACTGGATAACCGATCA
1 ATTGTTACTGAATAA---AT-G
*
86315426 ATTGATCGATACTGAATAACTG
1 ATTG-T---TACTGAATAAATG
* * * *
86315448 GTTATTATTGAATAATTG
1 ATTGTTACTGAATAAATG
* *
86315466 ATTGTTACCGAATAACTG
1 ATTGTTACTGAATAAATG
* *
86315484 ACTGTTACTGAATAAATA
1 ATTGTTACTGAATAAATG
86315502 ATTGTT
1 ATTGTT
86315508 TTGATTGTTA
Statistics
Matches: 117, Mismatches: 31, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
17 15 0.13
18 69 0.59
19 14 0.12
21 2 0.02
22 6 0.05
23 2 0.02
26 9 0.08
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (18 bp):
ATTGTTACTGAATAAATG
Found at i:86319383 original size:27 final size:27
Alignment explanation
Indices: 86319353--86319530 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
86319343 ATATCGAGTC
* * * *
86319353 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
86319380 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
86319407 CGCACACTTAGTGCTTCATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
86319435 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
86319462 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
86319489 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86319516 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86319531 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:86319492 original size:82 final size:81
Alignment explanation
Indices: 86319374--86319529 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
86319364 TGCTATATAA
**
86319374 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTTCATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
86319439 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
86319456 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
86319520 CACTTAGTGC
65 CACTTAGTGC
86319530 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:86325002 original size:43 final size:45
Alignment explanation
Indices: 86324952--86325112 Score: 166
Period size: 45 Copynumber: 3.6 Consensus size: 45
86324942 CGACATTTTT
* *
86324952 CCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCATTGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATAGT-ATCTCATCGGCATTATAG
* * *
86324995 CTTGCTAGGATTGAAGGCCCGAATAGTATCTCATCGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATAGTATCTCATCGGCATTATAG
* ** * *
86325040 CCTACTAGGCTTAAAGGCCCGAATAGTATCTCACCGGCATCATAG
1 CCTGCTAGGCTCGAAGGCCCGAATAGTATCTCATCGGCATTATAG
* * **
86325085 CCTGTTAGGCTCAAAGGCCTAAATAGTA
1 CCTGCTAGGCTCGAAGGCCCGAATAGTA
86325113 CCGTACGATA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
43 12 0.12
44 5 0.05
45 81 0.82
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (45 bp):
CCTGCTAGGCTCGAAGGCCCGAATAGTATCTCATCGGCATTATAG
Found at i:86326387 original size:28 final size:28
Alignment explanation
Indices: 86326355--86326412 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
86326345 AACATCTAAA
86326355 CAACACCTTCCAAAAGCTATCAAATTAT
1 CAACACCTTCCAAAAGCTATCAAATTAT
86326383 CAACACCTTCCAAAAGCTATCAAATTAT
1 CAACACCTTCCAAAAGCTATCAAATTAT
86326411 CA
1 CA
86326413 CAATGTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.24
Consensus pattern (28 bp):
CAACACCTTCCAAAAGCTATCAAATTAT
Found at i:86337318 original size:23 final size:23
Alignment explanation
Indices: 86337259--86337330 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
86337249 AAATATGATG
*
86337259 TAATAATAATATAAAATAACAT-A
1 TAATAA-AATATAAAATAATATAA
* * *
86337282 TATTAAAGTGTAAAATAATATAA
1 TAATAAAATATAAAATAATATAA
*
86337305 TAATAAAATATAAAATAGTATAA
1 TAATAAAATATAAAATAATATAA
86337328 TAA
1 TAA
86337331 ATATTATGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 12 0.30
23 28 0.70
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATAAAATATAAAATAATATAA
Found at i:86337355 original size:17 final size:17
Alignment explanation
Indices: 86337305--86337355 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
86337295 AATAATATAA
*
86337305 TAATAAAATATAAAATAG
1 TAATAAAATATAATAT-G
*
86337323 T-ATAATAA-ATATTATG
1 TAATAA-AATATAATATG
86337339 TAATAAAATATAATATG
1 TAATAAAATATAATATG
86337356 GATATAGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.15
17 20 0.74
18 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TAATAAAATATAATATG
Found at i:86338510 original size:44 final size:44
Alignment explanation
Indices: 86338446--86338579 Score: 223
Period size: 44 Copynumber: 3.0 Consensus size: 44
86338436 GGAACAACAG
* * *
86338446 TCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAA
1 TCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAA
*
86338490 TCTGTCATCTTCGATTTGCTCTCTGACAATACAGAGATGCCAAA
1 TCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAA
*
86338534 TCTGTCATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAA
1 TCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAA
86338578 TC
1 TC
86338580 ACCTTAGATT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 84 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAA
Found at i:86338653 original size:88 final size:88
Alignment explanation
Indices: 86338541--86338755 Score: 288
Period size: 88 Copynumber: 2.5 Consensus size: 88
86338531 AAATCTGTCA
* *
86338541 TCTTTGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCACCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCTGACGAATACAGAGATGCCAAATCACCTTAGATTTGCTTCAACGTAAAC
* * * *
86338605 ACGGGAAATCTAGATCAGCTATG
66 ACAGGAAAGCCAAATCAGCTATG
* * * * *
86338628 TCTTCGATCTGCTCCCTGTCGAATACAGAGACGTCAAATTATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCTGACGAATACAGAGATGCCAAATCACCTTAGATTTGCTTCAACGTAAAC
* *
86338693 ACATGAAAGCCAAATCAGTTATG
66 ACAGGAAAGCCAAATCAGCTATG
* *
86338716 TCTTCAATCTGCTCCCTGCCGAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCCCTGACGAATACAGAGATGCCAAATC
86338756 TGTTTCTTCG
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 17 0.16
88 92 0.84
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCTGACGAATACAGAGATGCCAAATCACCTTAGATTTGCTTCAACGTAAAC
ACAGGAAAGCCAAATCAGCTATG
Found at i:86346863 original size:15 final size:15
Alignment explanation
Indices: 86346821--86346870 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
86346811 ATAATTTTGA
* *
86346821 ATGCAAACG-ATGTG
1 ATGCAAATGCATGAG
86346835 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
86346850 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
86346864 ATGCAAA
1 ATGCAAA
86346871 AAGGACATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:86346869 original size:14 final size:16
Alignment explanation
Indices: 86346834--86346870 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
86346824 CAAACGATGT
86346834 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
86346849 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
86346864 -ATGCAAA
1 GATGCAAA
86346871 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:86350360 original size:32 final size:33
Alignment explanation
Indices: 86350308--86350373 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
86350298 TAAGATATAC
86350308 ATAGCATATATTGAAGATGAATAAGCAAAATAT
1 ATAGCATATATTGAAGATGAATAAGCAAAATAT
86350341 ATAGCATATA-TGAAGATGAATAAGCAAAATAT
1 ATAGCATATATTGAAGATGAATAAGCAAAATAT
86350373 A
1 A
86350374 CGAACATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 23 0.70
33 10 0.30
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (33 bp):
ATAGCATATATTGAAGATGAATAAGCAAAATAT
Found at i:86363081 original size:27 final size:27
Alignment explanation
Indices: 86363051--86363227 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 27
86363041 AAATTGTACA
*
86363051 GCACTAAGTGTGCGATTTGAATATGTT
1 GCACTAAGTGTGCGATTTGAATATGTG
* **
86363078 GCACTAAGTGTGAGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGAATATG-TG
* ** *
86363105 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGAATATGTG
* *
86363132 GCACTAAGTGTGCGAGTCTGACTATGTG
1 GCACTAAGTGTGCGA-TTTGAATATGTG
* *
86363160 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGAATATGTG
* * * *
86363187 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGAATATGTG
*
86363214 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
86363228 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGAATATGTG
Found at i:86363169 original size:82 final size:81
Alignment explanation
Indices: 86363051--86363206 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
86363041 AAATTGTACA
* * *
86363051 GCACTAAGTGTGCGATTTGAATATGTTGCACTAAGTGTGAGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGAGAAATGAATACG-TGGCACTAAGTG
86363115 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
86363132 GCACTAAGTGTGCGAGTCTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTGAATATGTGGCACTAAGTGTGAGAAATGAATACGTGGCACTAAGTG
*
86363197 TGCGAGTTGA
65 TGCGAATTGA
86363207 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGAGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:86363218 original size:82 final size:81
Alignment explanation
Indices: 86363047--86363227 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
86363037 GATTAAATTG
* * *
86363047 TACAGCACTAAGTGTGCGATTTGAATATGTTGCACTAAGTGTGAGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGAGAAATGAATACGATGCACTAA
86363112 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * ** *
86363128 TGCGGCACTAAGTGTGCGAGTCTGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGAATATGTGGCACTAAGTGTGAGAAATGAATACGAT-GCACT
* **
86363192 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
86363210 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
86363228 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGAGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:86366812 original size:30 final size:30
Alignment explanation
Indices: 86366778--86366837 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
86366768 CCAAGAGAGA
86366778 ATGTCGTGTTTTGCACCCATTGCATCAGCT
1 ATGTCGTGTTTTGCACCCATTGCATCAGCT
*
86366808 ATGTCGTGTTTTGCACCCATTGCATTAGCT
1 ATGTCGTGTTTTGCACCCATTGCATCAGCT
86366838 CTTCATGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (30 bp):
ATGTCGTGTTTTGCACCCATTGCATCAGCT
Found at i:86367457 original size:19 final size:18
Alignment explanation
Indices: 86367421--86367466 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
86367411 AAATGTACTA
*
86367421 ATTAATTTTTTGGACCAC
1 ATTAATTTTTTAGACCAC
86367439 ATTAATTTCTTTAGACCAC
1 ATTAATTT-TTTAGACCAC
86367458 ATTAATTTT
1 ATTAATTTT
86367467 AGATATTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTAATTTTTTAGACCAC
Found at i:86375954 original size:14 final size:14
Alignment explanation
Indices: 86375930--86375965 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
86375920 TTAAAATATT
86375930 ATAAATAAATAATAA
1 ATAAAT-AATAATAA
86375945 ATAAATAATAATAA
1 ATAAATAATAATAA
*
86375959 AGAAATA
1 ATAAATA
86375966 CAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
ATAAATAATAATAA
Found at i:86375965 original size:11 final size:11
Alignment explanation
Indices: 86375930--86375959 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
86375920 TTAAAATATT
86375930 ATAAATAAATA
1 ATAAATAAATA
86375941 ATAAATAAATA
1 ATAAATAAATA
86375952 AT-AATAAA
1 ATAAATAAA
86375960 GAAATACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:86376012 original size:23 final size:24
Alignment explanation
Indices: 86375943--86376031 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 24
86375933 AATAAATAAT
* *
86375943 AAATAAATAATAATAAA-GAAATAC
1 AAAT-AATAATAAAAAATGAAAAAC
* *
86375967 AAATAA-AAAAAAAGGACAAGAAAAAC
1 AAATAATAATAAAA--A-ATGAAAAAC
86375993 AGAA-AATAA-AAAAAATGAAAAAC
1 A-AATAATAATAAAAAATGAAAAAC
86376016 AAATAATAATAAAAAA
1 AAATAATAATAAAAAA
86376032 ATCAGAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
22 7 0.13
23 16 0.30
24 12 0.23
25 1 0.02
26 13 0.25
27 4 0.08
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.12
Consensus pattern (24 bp):
AAATAATAATAAAAAATGAAAAAC
Found at i:86383199 original size:27 final size:27
Alignment explanation
Indices: 86383169--86383246 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
86383159 GACTAATCGA
* *
86383169 GCCTTTCTCTGAGGCGCAAATGGTTGT
1 GCCTATCTCAGAGGCGCAAATGGTTGT
*
86383196 GCCTATCTCAGAGGCGCAAATGATTGT
1 GCCTATCTCAGAGGCGCAAATGGTTGT
86383223 GCCTATCTCAGAGGCGCAAATGGT
1 GCCTATCTCAGAGGCGCAAATGGT
86383247 GGGGCCCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (27 bp):
GCCTATCTCAGAGGCGCAAATGGTTGT
Found at i:86389027 original size:70 final size:70
Alignment explanation
Indices: 86388901--86389038 Score: 163
Period size: 70 Copynumber: 2.0 Consensus size: 70
86388891 AAAAAACCAT
* * *
86388901 AAAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAATACAAAGTTAACTATTTAAATTGCA
1 AAAATTGATAAATAAAATGCCAAAAAAGTCATTACATAAATACAAAGTAAACTATTTAAATTACA
86388966 AAAAA
66 AAAAA
* * * * * *
86388971 AAAATTGTTAATTAAAATGCCAAAAGATTCATTACATAAATA-AATA-TAAAGTTATTTATATTA
1 AAAATTGATAAATAAAATGCCAAAAAAGTCATTACATAAATACAA-AGTAAA-CTATTTAAATTA
86389034 CAAAA
64 CAAAA
86389039 CCCCCTAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
69 5 0.09
70 52 0.91
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.30
Consensus pattern (70 bp):
AAAATTGATAAATAAAATGCCAAAAAAGTCATTACATAAATACAAAGTAAACTATTTAAATTACA
AAAAA
Found at i:86389290 original size:38 final size:33
Alignment explanation
Indices: 86389212--86389325 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
86389202 ACTTGAACCG
*
86389212 GGAGGAGTGGAGTACAACGATTGATACGGGTCA
1 GGAGGAGTGGAGTACAACGATTGATACGGGCCA
*
86389245 GGAGGAGTGGAGTACGACGATTGATACGGGCC-
1 GGAGGAGTGGAGTACAACGATTGATACGGGCCA
* * * *
86389277 GGAAGGAGCGGAGTACTGA-GATGGATACGAGCCA
1 GG-AGGAGTGGAGTAC-AACGATTGATACGGGCCA
* *
86389311 GGATGACTGGAGTAC
1 GGAGGAGTGGAGTAC
86389326 TGATGTGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
32 2 0.03
33 64 0.91
34 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.41, T:0.16
Consensus pattern (33 bp):
GGAGGAGTGGAGTACAACGATTGATACGGGCCA
Found at i:86392494 original size:59 final size:60
Alignment explanation
Indices: 86392403--86392520 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 60
86392393 ATACTAAACT
* * * *
86392403 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTAC
*
86392463 AAACACAAAAATTT-TAACATAATCCTAAATTACAAACAAATTATTTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTA
86392521 TAAAAAACAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 40 0.75
60 13 0.25
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTAC
Found at i:86392520 original size:26 final size:26
Alignment explanation
Indices: 86392431--86392520 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 26
86392421 CTTAATCCTA
* * *
86392431 AATTACTAATAAATTAATTTTAAAAT
1 AATTACAAACAAATTATTTTTAAAAT
** *
86392457 AATTACAAACACAAAAATTTTAACATAATCCT
1 AATTACAAACA-AATTATTTTTA-A-AA---T
86392489 AAATTACAAACAAATTATTTTTAAAAT
1 -AATTACAAACAAATTATTTTTAAAAT
86392516 AATTA
1 AATTA
86392521 TAAAAAACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
26 14 0.29
27 8 0.17
28 1 0.02
29 2 0.04
30 2 0.04
31 1 0.02
32 9 0.19
33 11 0.23
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (26 bp):
AATTACAAACAAATTATTTTTAAAAT
Found at i:86392723 original size:17 final size:17
Alignment explanation
Indices: 86392696--86392740 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
86392686 TTTTCCTTTT
86392696 TTCTTTCTTCTTC-TCC
1 TTCTTTCTTCTTCTTCC
86392712 TTCTTCTCTTCTTCTTCC
1 TTCTT-TCTTCTTCTTCC
*
86392730 TTTTTTCTTCT
1 TTCTTTCTTCT
86392741 CTTTTATCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 14 0.54
18 7 0.27
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTTTCTTCTTCTTCC
Found at i:86392738 original size:31 final size:30
Alignment explanation
Indices: 86392691--86392757 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
86392681 CTTTTTTTTC
86392691 CTTTT-TT-CTTTCTTCTTCTCCTTCT-TCT
1 CTTTTCTTCCTTTCTTCTTCT-CTTCTATCT
* *
86392719 CTTCTTCTTCCTTTTTTCTTCTCTTTTATCT
1 CTT-TTCTTCCTTTCTTCTTCTCTTCTATCT
86392750 CTTTTCTT
1 CTTTTCTT
86392758 TCCCCTTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 2 0.06
30 11 0.33
31 17 0.52
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (30 bp):
CTTTTCTTCCTTTCTTCTTCTCTTCTATCT
Found at i:86392984 original size:32 final size:32
Alignment explanation
Indices: 86392888--86392992 Score: 129
Period size: 32 Copynumber: 3.3 Consensus size: 32
86392878 TAAGGGCCAT
86392888 GCATGCAGGCTGCAGGGAGGACTGTTCGGGCA
1 GCATGCAGGCTGCAGGGAGGACTGTTCGGGCA
* * * **
86392920 GCATGCAGGTTGCAAGGAGAACAATTCGGGCA
1 GCATGCAGGCTGCAGGGAGGACTGTTCGGGCA
* * **
86392952 GCAGGCAGGCTGCAGGGAGGATTGTTTAGGCA
1 GCATGCAGGCTGCAGGGAGGACTGTTCGGGCA
86392984 GCATGCAGG
1 GCATGCAGG
86392993 GCAGCTCATT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.41, T:0.16
Consensus pattern (32 bp):
GCATGCAGGCTGCAGGGAGGACTGTTCGGGCA
Found at i:86393081 original size:20 final size:22
Alignment explanation
Indices: 86393050--86393098 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
86393040 CGACAGGCGC
86393050 GACCCGTTTTTA-CCGTATTTT
1 GACCCGTTTTTACCCGTATTTT
86393071 GACCC-TTTTTACCCGTATTTT
1 GACCCGTTTTTACCCGTATTTT
86393092 GACCCGT
1 GACCCGT
86393099 ATATATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (22 bp):
GACCCGTTTTTACCCGTATTTT
Found at i:86393096 original size:12 final size:12
Alignment explanation
Indices: 86393050--86393100 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 12
86393040 CGACAGGCGC
86393050 GACCCGT-TTTT
1 GACCCGTATTTT
86393061 -A-CCGTATTTT
1 GACCCGTATTTT
86393071 GACCC-T-TTTT
1 GACCCGTATTTT
86393081 -ACCCGTATTTT
1 GACCCGTATTTT
86393092 GACCCGTAT
1 GACCCGTAT
86393101 ATATATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
9 8 0.24
10 10 0.29
11 6 0.18
12 10 0.29
ACGTcount: A:0.16, C:0.27, G:0.14, T:0.43
Consensus pattern (12 bp):
GACCCGTATTTT
Found at i:86394473 original size:20 final size:20
Alignment explanation
Indices: 86394450--86394487 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
86394440 ATGATATTTG
86394450 ATAAATTTT-ATAAATTTTCT
1 ATAAATTTTCA-AAATTTTCT
86394470 ATAAATTTTCAAAATTTT
1 ATAAATTTTCAAAATTTT
86394488 ATAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAATTTTCAAAATTTTCT
Found at i:86394502 original size:29 final size:29
Alignment explanation
Indices: 86394452--86394507 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
86394442 GATATTTGAT
*
86394452 AAATTTTATAAATTTTCTATAAATTTTCA
1 AAATTTTATAAATTTTCAATAAATTTTCA
*
86394481 AAATTTTATAATATTTT-AATAATTTTT
1 AAATTTTATAA-ATTTTCAATAAATTTT
86394508 GAGCTAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (29 bp):
AAATTTTATAAATTTTCAATAAATTTTCA
Found at i:86398474 original size:14 final size:14
Alignment explanation
Indices: 86398455--86398489 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
86398445 TGTTTGACTG
*
86398455 AAAATGATTTTTGA
1 AAAATGATTTCTGA
*
86398469 AAAATGATTTCTGG
1 AAAATGATTTCTGA
86398483 AAAATGA
1 AAAATGA
86398490 CTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:86399128 original size:24 final size:24
Alignment explanation
Indices: 86399081--86399129 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
86399071 CCGGCCCACT
* *
86399081 ATAAACCAAAAAATAATAATAATA
1 ATAAACCAAAAAATAAAAAGAATA
86399105 ATAAACCAAAATAA-AAAAAGAATA
1 ATAAACCAAAA-AATAAAAAGAATA
86399129 A
1 A
86399130 AAGGCCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.16
Consensus pattern (24 bp):
ATAAACCAAAAAATAAAAAGAATA
Found at i:86403686 original size:46 final size:45
Alignment explanation
Indices: 86403593--86403801 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 45
86403583 GTGCCAATGC
86403593 CATGTCCCAGACATGGTCTTACACTGG-TACATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTACATCTCG-AGGCCGATG
*
86403638 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TACATCTCGAGGCCGATG
* * * *
86403684 CATGTCCTAGACATGTCTTACACTAGAGCTA-GTCTCAATGCC-AGTG
1 CATGTCCCAGACATGTCTTACACT-G-GCTACATCTCGAGGCCGA-TG
* * * *
86403730 ACATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATA
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-ACAT-CTCGAGGCCGATG
*
86403778 CATGTCCCAGGCATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
86403802 AGCTCACACA
Statistics
Matches: 139, Mismatches: 13, Indels: 23
0.79 0.07 0.13
Matches are distributed among these distances:
44 12 0.09
45 16 0.12
46 62 0.45
47 30 0.22
48 17 0.12
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTACATCTCGAGGCCGATG
Found at i:86408042 original size:49 final size:50
Alignment explanation
Indices: 86407969--86408152 Score: 226
Period size: 49 Copynumber: 3.7 Consensus size: 50
86407959 ATCTATTGTG
* *
86407969 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
86408019 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * * **
86408069 CGATCACGTGTGTAATACTAAGTGCAGACTACTACGTGTATCAAATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
86408119 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
86408153 TGCGTGCCAG
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 42 0.38
50 34 0.30
51 36 0.32
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:86408151 original size:101 final size:100
Alignment explanation
Indices: 86407976--86408157 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 100
86407966 GTGAGGTCAT
* * **
86407976 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACTAAGT
1 GTGTGTAATACTAAGTGCAGACTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACTAAGT
86408041 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
* ** *
86408076 GTGTGTAATACTAAGTGCAGACTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAATACTAAGTGCAGACTACTACGTGTACCAAATAATT-GGTCACATGTGTAGTACTAAG
86408141 TGCAGGCTACTATGCGT
65 TGCAGGCTACTATGCGT
86408158 GCCAGATAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 36 0.49
101 37 0.51
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAATACTAAGTGCAGACTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
Found at i:86414095 original size:46 final size:44
Alignment explanation
Indices: 86413961--86414177 Score: 170
Period size: 46 Copynumber: 4.7 Consensus size: 44
86413951 GTATATCTGT
* * *
86413961 GTCGATGCCATGTCCCAGGCATGGTCTTACACTGGCACATCTCGTA-
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTCTCG-AG
* * * *
86414007 GCCGATGCATGTCCCAAACATGTCTTATACTGGCTTATGTCTCGAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTCTCGAG
* *
86414053 GTCGATGCATGTCCCAGACATGTCTTACACTAGCGCTCGTCTCAAT
1 GTCGATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCTCGAG
* **
86414099 G-CTGGTGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATATG
1 GTC-GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTC-T-CGA-G
* *
86414147 GTCGATGCATTTCCCAGAAATGTCTTACACT
1 GTCGATGCATGTCCCAGACATGTCTTACACT
86414178 ATCTCACACA
Statistics
Matches: 139, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
44 12 0.09
45 16 0.12
46 64 0.46
47 30 0.22
48 16 0.12
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (44 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCGAG
Found at i:86414150 original size:94 final size:91
Alignment explanation
Indices: 86413910--86414178 Score: 260
Period size: 94 Copynumber: 2.9 Consensus size: 91
86413900 TGGGGTCAGG
* **
86413910 TGCTGATGCCATGTCCCAGACATGGCCTTACACAAGCTCTAGTATATCTGTGTCGATGCCATGTC
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-TA-ATCTG-GTCGATG-CATGTC
* *
86413975 CCAGGCATGGTCTTACACT-GGCACATCTCG
62 CCAGACAT-GTCTTACACTAGGCACATCTCA
* * * *
86414005 TAGCCGATG-CATGTCCCAAACAT-GTCTTATACTGGCT-TAT-GTCTCGAGGTCGATGCATGTC
1 T-GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTATAATCT---GGTCGATGCATGTC
* *
86414066 CCAGACATGTCTTACACTAGCGCTCGTCTCAA
62 CCAGACATGTCTTACACTAG-GCACATCTC-A
* * *
86414098 TGCTGGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGTCGATGCATTTCCCA
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ATAATCTGGTCGATGCATGTCCCA
*
86414163 GAAATGTCTTACACTA
65 GACATGTCTTACACTA
86414179 TCTCACACAA
Statistics
Matches: 143, Mismatches: 19, Indels: 25
0.76 0.10 0.13
Matches are distributed among these distances:
90 13 0.09
91 14 0.10
92 20 0.14
93 17 0.12
94 54 0.38
95 15 0.10
96 8 0.06
97 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (91 bp):
TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTATAATCTGGTCGATGCATGTCCCAG
ACATGTCTTACACTAGGCACATCTCA
Found at i:86417388 original size:29 final size:27
Alignment explanation
Indices: 86417340--86417397 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 27
86417330 AGAAACTAAA
* *
86417340 AACAAACATTCAACTAAAAAGAATGAT
1 AACAAACATTCAACTAAAAAAAATCAT
86417367 AACAAATCATTCAACTAAAAAAAAATCAT
1 AACAAA-CATTCAACT-AAAAAAAATCAT
86417396 AA
1 AA
86417398 AACAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.22
28 9 0.33
29 12 0.44
ACGTcount: A:0.62, C:0.16, G:0.03, T:0.19
Consensus pattern (27 bp):
AACAAACATTCAACTAAAAAAAATCAT
Found at i:86418316 original size:23 final size:23
Alignment explanation
Indices: 86418290--86418346 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
86418280 TTTTTGTACA
* *
86418290 TTTTTTATATTGTTCCACTATTG
1 TTTTTAATATTGTTCCACTATCG
* *
86418313 TTTTTAATATTGTTTCACTGTCG
1 TTTTTAATATTGTTCCACTATCG
86418336 TTTTTAATATT
1 TTTTTAATATT
86418347 ATTTGAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTTTAATATTGTTCCACTATCG
Found at i:86421317 original size:9 final size:9
Alignment explanation
Indices: 86421294--86421352 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
86421284 AATGTTTTCC
86421294 AAAAAAAA-
1 AAAAAAAAG
*
86421302 AAGAAAAAG
1 AAAAAAAAG
*
86421311 -AAAAAAAT
1 AAAAAAAAG
** *
86421319 TTAAAAAAT
1 AAAAAAAAG
86421328 AAAAAAAAG
1 AAAAAAAAG
*
86421337 ACAAAAAAG
1 AAAAAAAAG
86421346 AAAAAAA
1 AAAAAAA
86421353 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
8 13 0.32
9 27 0.68
ACGTcount: A:0.85, C:0.02, G:0.07, T:0.07
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:86422927 original size:17 final size:15
Alignment explanation
Indices: 86422890--86422919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86422880 TATAAATAGT
86422890 ACAAAAATATTAAAA
1 ACAAAAATATTAAAA
*
86422905 ACAAAACTATTAAAA
1 ACAAAAATATTAAAA
86422920 TAACAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (15 bp):
ACAAAAATATTAAAA
Found at i:86422978 original size:18 final size:18
Alignment explanation
Indices: 86422957--86422995 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
86422947 AAATTACAAT
86422957 AAAAAT-AAAAATATTGTA
1 AAAAATGAAAAATATT-TA
*
86422975 AAAAATGAAATATATTTA
1 AAAAATGAAAAATATTTA
86422993 AAA
1 AAA
86422996 GCTATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAATGAAAAATATTTA
Found at i:86423069 original size:29 final size:28
Alignment explanation
Indices: 86422998--86423090 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
86422988 ATTTAAAAGC
* * *
86422998 TATAGAAAATTATTAAAATTTCTATAAAA-
1 TATA-AAAAATATTAAAAATAC-ATAAAAT
86423027 TATAAAAAATATTATAAAA-AGCATAAAAT
1 TATAAAAAATATTA-AAAATA-CATAAAAT
*
86423056 TATAAAACAA-ATTAAAAATATATGAAAAT
1 TATAAAA-AATATTAAAAATACAT-AAAAT
86423085 TATAAA
1 TATAAA
86423091 GCTTATATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
28 21 0.39
29 31 0.57
30 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (28 bp):
TATAAAAAATATTAAAAATACATAAAAT
Found at i:86430383 original size:18 final size:19
Alignment explanation
Indices: 86430362--86430397 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
86430352 AAATAAATGG
*
86430362 AAAGAAG-AAAAGGAAAAT
1 AAAGAAGTAAAAAGAAAAT
86430380 AAAGAAGTAAAAAGAAAA
1 AAAGAAGTAAAAAGAAAA
86430398 AAAAAGTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (19 bp):
AAAGAAGTAAAAAGAAAAT
Found at i:86431160 original size:22 final size:20
Alignment explanation
Indices: 86431120--86431171 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
86431110 TTCAAGCTGC
*
86431120 TTTTTATTTTATTTTTTATT
1 TTTTTATTTTATTTTTTATA
86431140 TTTTTATTTTATAGTTTTTATA
1 TTTTTATTTTAT--TTTTTATA
*
86431162 ATTTTATTTT
1 TTTTTATTTT
86431172 TAATAGGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
22 16 0.57
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTATTTTATTTTTTATA
Found at i:86433051 original size:14 final size:14
Alignment explanation
Indices: 86433029--86433058 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86433019 TTTTACTTTG
*
86433029 AACCTTGAACCTCA
1 AACCATGAACCTCA
86433043 AACCATGAACCTCA
1 AACCATGAACCTCA
86433057 AA
1 AA
86433059 TCCAAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.33, G:0.07, T:0.17
Consensus pattern (14 bp):
AACCATGAACCTCA
Found at i:86433787 original size:37 final size:36
Alignment explanation
Indices: 86433725--86433800 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
86433715 GATAGTCACT
86433725 TTAATATTAAATTAATAAAATACTATTAAAATAATTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
* *
86433762 TTAA-ATTAAATTTAATATTAA-ACTATTAAGATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
86433798 TTA
1 TTA
86433801 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:86439839 original size:42 final size:42
Alignment explanation
Indices: 86439792--86439906 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
86439782 GAGATTCCAA
* * *
86439792 ATAAGACCATATCTGGGATATGGCATCGGTATG-TGATTTCGT
1 ATAAGACCATATCAGGGATATGGCATCGATATGAT-ATTTCAT
* *
86439834 ATAAGACCATGTCAGGGACATGGCATCGATATGATATTTCAT
1 ATAAGACCATATCAGGGATATGGCATCGATATGATATTTCAT
* * * *
86439876 GTAAGACCATATCCGAGATATGGCATTGATA
1 ATAAGACCATATCAGGGATATGGCATCGATA
86439907 CGGTACTATG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
ATAAGACCATATCAGGGATATGGCATCGATATGATATTTCAT
Found at i:86446078 original size:9 final size:9
Alignment explanation
Indices: 86446060--86446097 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
86446050 ACATTTCTTA
86446060 TAAGTGTGG
1 TAAGTGTGG
*
86446069 TAAGTATGG
1 TAAGTGTGG
86446078 TAAGTGTTGG
1 TAAGTG-TGG
86446088 TAAGTGTGG
1 TAAGTGTGG
86446097 T
1 T
86446098 GATTGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (9 bp):
TAAGTGTGG
Found at i:86446104 original size:19 final size:19
Alignment explanation
Indices: 86446060--86446097 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
86446050 ACATTTCTTA
86446060 TAAGTG-TGGTAAGTATGG
1 TAAGTGTTGGTAAGTATGG
*
86446078 TAAGTGTTGGTAAGTGTGG
1 TAAGTGTTGGTAAGTATGG
86446097 T
1 T
86446098 GATTGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (19 bp):
TAAGTGTTGGTAAGTATGG
Found at i:86447912 original size:22 final size:21
Alignment explanation
Indices: 86447887--86447940 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
86447877 TGCAGGGCTC
**
86447887 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAA-GG
* *
86447909 ACACGCCCGTCTGACCCTAGG
1 ACACGCCCGTGTGACCCAAGG
86447930 ACACGCCCGTG
1 ACACGCCCGTG
86447941 CTAGAGGCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.19, C:0.39, G:0.30, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCAAGG
Found at i:86452261 original size:19 final size:18
Alignment explanation
Indices: 86452237--86452284 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
86452227 ACGTAAAAAG
86452237 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
86452256 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
86452275 TAAAAATAAA
1 TAAAAATAAA
86452285 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:86453203 original size:16 final size:16
Alignment explanation
Indices: 86453173--86453220 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
86453163 GAAAATTAAT
86453173 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
86453188 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
86453205 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
86453220 A
1 A
86453221 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:86453219 original size:11 final size:11
Alignment explanation
Indices: 86453164--86453234 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
86453154 ATAGCTTAAG
*
86453164 AAAATTAATAT
1 AAAATTAAAAT
86453175 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
86453187 AATAA-T-AATT
1 AA-AATTAAAAT
*
86453197 AAAAAT-AAAT
1 AAAATTAAAAT
86453207 AAAATTAAAAT
1 AAAATTAAAAT
*
86453218 AAACTTAAAAT
1 AAAATTAAAAT
*
86453229 AGAATT
1 AAAATT
86453235 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:86456716 original size:15 final size:15
Alignment explanation
Indices: 86456698--86456739 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
86456688 GCTACTTTTT
86456698 TTTTTATTTTTCTGC
1 TTTTTATTTTTCTGC
*
86456713 TTTTCATTTTTTCTGC
1 TTTTTA-TTTTTCTGC
86456729 TTTCTTATTTT
1 TTT-TTATTTT
86456740 CCTTTGGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTTTATTTTTCTGC
Found at i:86457273 original size:7 final size:7
Alignment explanation
Indices: 86457261--86457298 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
86457251 TTCAATGCGG
86457261 TCCCGTT
1 TCCCGTT
86457268 TCCCGTT
1 TCCCGTT
86457275 TCCCGTT
1 TCCCGTT
86457282 TCCCGTT
1 TCCCGTT
*
86457289 TCCCTTT
1 TCCCGTT
86457296 TCC
1 TCC
86457299 TTCTTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.45, G:0.11, T:0.45
Consensus pattern (7 bp):
TCCCGTT
Found at i:86461507 original size:185 final size:185
Alignment explanation
Indices: 86461192--86461550 Score: 621
Period size: 185 Copynumber: 1.9 Consensus size: 185
86461182 CGAGTTGAAG
*
86461192 GCCAGAATAGTCAAACTAGAAAAATCGCTTCATCAGCATCATAACCGTAACTCTGCAATGGAGCT
1 GCCAGAATAGCCAAACTAGAAAAATCGCTTCATCAGCATCATAACCGTAACTCTGCAATGGAGCT
*
86461257 GAAGGCGAGCTTGGATGAGATTAAAGAGCTGAAAAGGAAGGTCGAAAAACTCGAGATTACGTTAC
66 GAAGGCGAGCTTGGATGAGATTAAAGAGCTGAAAAGGAAGGTCGAAAAACTCGAGACTACGTTAC
* *
86461322 AAAATAGT-AGGCTCCGGGTTGAGCTCCTTGAAGCAGGTAATGAGCAGTGTAATAT
131 AAAATAGTGA-GCTCCAGGTTGAGCTCCTTGAAGCAAGTAATGAGCAGTGTAATAT
* *
86461377 GCCAGAATAGCCAAACTAGAAAAATCGCTTCATCAGCATCGTAGCCGTAACTCTGCAATGGAGCT
1 GCCAGAATAGCCAAACTAGAAAAATCGCTTCATCAGCATCATAACCGTAACTCTGCAATGGAGCT
* *
86461442 GAAGGCGAGCTTGGATGAGATTAAAGAGCTGAAAAGGAAGGTCGAAGAACTCGAGACTGCGTTAC
66 GAAGGCGAGCTTGGATGAGATTAAAGAGCTGAAAAGGAAGGTCGAAAAACTCGAGACTACGTTAC
*
86461507 AAAATAGTGAGCTCCAGGTTGAGCTCTTTGAAGCAAGTAATGAG
131 AAAATAGTGAGCTCCAGGTTGAGCTCCTTGAAGCAAGTAATGAG
86461551 TGGTGAATGA
Statistics
Matches: 164, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 163 0.99
186 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (185 bp):
GCCAGAATAGCCAAACTAGAAAAATCGCTTCATCAGCATCATAACCGTAACTCTGCAATGGAGCT
GAAGGCGAGCTTGGATGAGATTAAAGAGCTGAAAAGGAAGGTCGAAAAACTCGAGACTACGTTAC
AAAATAGTGAGCTCCAGGTTGAGCTCCTTGAAGCAAGTAATGAGCAGTGTAATAT
Found at i:86462061 original size:12 final size:12
Alignment explanation
Indices: 86462046--86462079 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
86462036 ATGCAGAAGG
86462046 AGATGCAAGAAC
1 AGATGCAAGAAC
*
86462058 AGATGCAAGCAC
1 AGATGCAAGAAC
*
86462070 AAATGCAAGA
1 AGATGCAAGA
86462080 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:86468650 original size:27 final size:27
Alignment explanation
Indices: 86468620--86468797 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
86468610 ATATTGAGTC
* * * *
86468620 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
86468647 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86468674 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
86468702 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
86468729 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
86468756 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86468783 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86468798 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:86468759 original size:82 final size:81
Alignment explanation
Indices: 86468641--86468796 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
86468631 TGCTATATAA
* *
86468641 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
86468706 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
86468723 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
86468787 CACTTAGTGC
65 CACTTAGTGC
86468797 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:86472857 original size:46 final size:46
Alignment explanation
Indices: 86472805--86473061 Score: 342
Period size: 46 Copynumber: 5.6 Consensus size: 46
86472795 GCTTTCTGAA
*
86472805 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
86472851 ATGAAAT--GTAAGACCATGGTTGAAATAAACCATGGCATCATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
86472895 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
86472941 A-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
86472987 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAGATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
86473033 A-GAAAATGAGTGAGACCATAGTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
86473062 CATTATGGCA
Statistics
Matches: 189, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
44 41 0.22
45 2 0.01
46 145 0.77
47 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:86481863 original size:42 final size:42
Alignment explanation
Indices: 86481816--86481906 Score: 155
Period size: 42 Copynumber: 2.1 Consensus size: 42
86481806 AACTAGTCGC
*
86481816 CACATTTTGTATTCCGAGGTAAGTTGCATGTAAATAGTACAA
1 CACATTTTGTATTCCGAGGTAAGTTGCAAGTAAATAGTACAA
*
86481858 CACATTTTGTATTCCGAGGTAAGTTGTAAGTAAATAGTACAA
1 CACATTTTGTATTCCGAGGTAAGTTGCAAGTAAATAGTACAA
86481900 CTACATT
1 C-ACATT
86481907 AATATATGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (42 bp):
CACATTTTGTATTCCGAGGTAAGTTGCAAGTAAATAGTACAA
Found at i:86486791 original size:11 final size:11
Alignment explanation
Indices: 86486770--86486823 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
86486760 TTTTGCGTGT
86486770 TTAATTTTTTAA
1 TTAA-TTTTTAA
86486782 TTAATTTTTAA
1 TTAATTTTTAA
* *
86486793 ATAA--TGTAA
1 TTAATTTTTAA
86486802 TT-A-TTTTAA
1 TTAATTTTTAA
86486811 TTAATTTTTAA
1 TTAATTTTTAA
86486822 TT
1 TT
86486824 CATTATTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 1 0.03
9 11 0.31
10 1 0.03
11 18 0.51
12 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:86487734 original size:33 final size:34
Alignment explanation
Indices: 86487697--86487760 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
86487687 GGTATCAAGA
* * *
86487697 TTTTATATTTTA-AATTTTTTTATAAAATATCAG
1 TTTTATATGTTATAATTATTTTAAAAAATATCAG
*
86487730 TTTTATATGTTATTATTATTTTAAAAAATAT
1 TTTTATATGTTATAATTATTTTAAAAAATAT
86487761 AAAATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.42
34 15 0.58
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (34 bp):
TTTTATATGTTATAATTATTTTAAAAAATATCAG
Found at i:86489203 original size:12 final size:13
Alignment explanation
Indices: 86489169--86489206 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
86489159 GAATATTGCA
*
86489169 AATATAAAAAATAT
1 AATATAAATAA-AT
86489183 AATATAAATAAAT
1 AATATAAATAAAT
86489196 AA-ATAAATAAA
1 AATATAAATAAA
86489207 ATTACCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
13 4 0.17
14 10 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AATATAAATAAAT
Found at i:86489820 original size:12 final size:12
Alignment explanation
Indices: 86489758--86489823 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
86489748 TTTTCGTTTT
86489758 TTATATATTGTTA
1 TTAT-TATTGTTA
* **
86489771 TTATTTTTCCTA
1 TTATTATTGTTA
* **
86489783 ATATTATTAATA
1 TTATTATTGTTA
86489795 TTATTATT-TCTA
1 TTATTATTGT-TA
86489807 TTATTATTGTTA
1 TTATTATTGTTA
86489819 TTATT
1 TTATT
86489824 GACATCCTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
12 37 0.88
13 5 0.12
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:86489898 original size:18 final size:18
Alignment explanation
Indices: 86489875--86489913 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
86489865 CTATTATTAG
* *
86489875 TTATTACTATTTGTAGTA
1 TTATTACTATATGTAATA
*
86489893 TTATTATTATATGTAATA
1 TTATTACTATATGTAATA
86489911 TTA
1 TTA
86489914 GTATAGGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (18 bp):
TTATTACTATATGTAATA
Found at i:86490291 original size:20 final size:23
Alignment explanation
Indices: 86490245--86490291 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
86490235 TTTTAAATCC
*
86490245 CATATTATGTATGTATGTTTCTA
1 CATATTATGTATATATGTTTCTA
86490268 -ATATTATGT-TATAT-TTTC-A
1 CATATTATGTATATATGTTTCTA
86490287 CATAT
1 CATAT
86490292 ATTAAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 1 0.05
20 8 0.36
21 4 0.18
22 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.53
Consensus pattern (23 bp):
CATATTATGTATATATGTTTCTA
Found at i:86492209 original size:20 final size:20
Alignment explanation
Indices: 86492184--86492241 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
86492174 AAAAAGTTAA
86492184 AAAAATTATAAAATTATTTT
1 AAAAATTATAAAATTATTTT
*
86492204 AAAAATTA-AAAATTA-TTA
1 AAAAATTATAAAATTATTTT
* *
86492222 AAAAAGTATAAAAATATTTT
1 AAAAATTATAAAATTATTTT
86492242 TAATTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.28
19 13 0.41
20 10 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATTATAAAATTATTTT
Found at i:86492252 original size:39 final size:38
Alignment explanation
Indices: 86492161--86492254 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 38
86492151 AATTAATTAT
* *
86492161 TTTTTAAAATTTTAAAAAGTTAAAAAAATTATAAAATTA
1 TTTTT-AAATTTTAAAAAGTTAAAAAAAGTATAAAAATA
**
86492200 -TTTTAAAAATTAAAAA-TTATTAAAAAAGTATAAAAATA
1 TTTTTAAATTTTAAAAAGTTA--AAAAAAGTATAAAAATA
*
86492238 TTTTTAATTTTTAAAAA
1 TTTTTAAATTTTAAAAA
86492255 AGTAATTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
36 3 0.07
37 10 0.22
38 19 0.42
39 13 0.29
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (38 bp):
TTTTTAAATTTTAAAAAGTTAAAAAAAGTATAAAAATA
Found at i:86492384 original size:22 final size:22
Alignment explanation
Indices: 86492359--86492402 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
86492349 CAATGTAAGT
86492359 TTAAAAGTTAAAAGAAA-AAAAA
1 TTAAAA-TTAAAAGAAAGAAAAA
*
86492381 TTAAAATTAAAATAAAGAAAAA
1 TTAAAATTAAAAGAAAGAAAAA
86492403 AAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (22 bp):
TTAAAATTAAAAGAAAGAAAAA
Found at i:86492415 original size:11 final size:12
Alignment explanation
Indices: 86492376--86492426 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
86492366 TTAAAAGAAA
86492376 AAAAATTAAAAT
1 AAAAATTAAAAT
* * *
86492388 TAAAATAAAGAAA
1 AAAAATTAA-AAT
86492401 AAAAATT-AAAT
1 AAAAATTAAAAT
86492412 AAAAATTAAAAT
1 AAAAATTAAAAT
86492424 AAA
1 AAA
86492427 TTGTTTTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 9 0.29
12 15 0.48
13 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (12 bp):
AAAAATTAAAAT
Found at i:86492421 original size:25 final size:26
Alignment explanation
Indices: 86492360--86492421 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
86492350 AATGTAAGTT
*
86492360 TAAAAGTTAAAAGAAAAAAAATTAAAA
1 TAAAAATT-AAAGAAAAAAAATTAAAA
*
86492387 TTAAAA-TAAAGAAAAAAAATT-AAA
1 TAAAAATTAAAGAAAAAAAATTAAAA
86492411 TAAAAATTAAA
1 TAAAAATTAAA
86492422 ATAAATTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 8 0.26
25 18 0.58
26 1 0.03
27 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (26 bp):
TAAAAATTAAAGAAAAAAAATTAAAA
Found at i:86492658 original size:16 final size:16
Alignment explanation
Indices: 86492637--86492704 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
86492627 TTTGGTTCGT
86492637 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
86492653 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
86492669 TGTAATAGATTAGAGG
1 TGTATTGGATTAGAGG
*
86492685 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
86492701 TGTA
1 TGTA
86492705 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:86492680 original size:32 final size:32
Alignment explanation
Indices: 86492644--86492708 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
86492634 CGTTGTATTG
*
86492644 GATTAGAGGTGTATTGGATTAGAGGTGTAATA
1 GATTAGAGGTGTATTGGAATAGAGGTGTAATA
86492676 GATTAGAGGTGTATTGGAATAGAGGTGTAATA
1 GATTAGAGGTGTATTGGAATAGAGGTGTAATA
86492708 G
1 G
86492709 CAAATCAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (32 bp):
GATTAGAGGTGTATTGGAATAGAGGTGTAATA
Found at i:86492744 original size:45 final size:41
Alignment explanation
Indices: 86492685--86492794 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
86492675 AGATTAGAGG
*
86492685 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
86492727 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
86492770 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
86492795 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:86492948 original size:25 final size:25
Alignment explanation
Indices: 86492916--86492970 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
86492906 TAATTTAATC
*
86492916 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
86492940 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
86492965 ATATAT
1 ATATAT
86492971 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:86496376 original size:31 final size:31
Alignment explanation
Indices: 86496338--86496396 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
86496328 ATTATTTAGT
86496338 TATTTGAAAGTTTTTATTTAAGTCACTGAAC
1 TATTTGAAAGTTTTTATTTAAGTCACTGAAC
*
86496369 TATTTGAAAGTTTTTGTTTAAGTCACTG
1 TATTTGAAAGTTTTTATTTAAGTCACTG
86496397 GCTATTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (31 bp):
TATTTGAAAGTTTTTATTTAAGTCACTGAAC
Found at i:86501502 original size:18 final size:18
Alignment explanation
Indices: 86501469--86501503 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86501459 GCAAAAGCGG
* *
86501469 GAAGAAGAATAGTAACAA
1 GAAGAAGAACAATAACAA
86501487 GAAGAAGAACAATAACA
1 GAAGAAGAACAATAACA
86501504 GCGACAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.09, G:0.20, T:0.09
Consensus pattern (18 bp):
GAAGAAGAACAATAACAA
Found at i:86502923 original size:28 final size:29
Alignment explanation
Indices: 86502872--86502927 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
86502862 TAGTTCACTT
86502872 GGTTCGACAGTTTTTCGATTCAATTAGTG
1 GGTTCGACAGTTTTTCGATTCAATTAGTG
*
86502901 GGTTTGACAG-TTTTCGATTCAATTAGT
1 GGTTCGACAGTTTTTCGATTCAATTAGT
86502928 TCGACCGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.43
Consensus pattern (29 bp):
GGTTCGACAGTTTTTCGATTCAATTAGTG
Found at i:86507333 original size:14 final size:14
Alignment explanation
Indices: 86507314--86507341 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
86507304 TGTGTTGATC
86507314 TAGGGTCAACTAAT
1 TAGGGTCAACTAAT
86507328 TAGGGTCAACTAAT
1 TAGGGTCAACTAAT
86507342 GCATATACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
TAGGGTCAACTAAT
Found at i:86509428 original size:68 final size:69
Alignment explanation
Indices: 86509345--86509481 Score: 213
Period size: 68 Copynumber: 2.0 Consensus size: 69
86509335 GAATTAACAC
* * **
86509345 GTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTA-AATGTGATAAATTGATA
1 GTCAAATCAACTTCTCATACAACTTCAATTGAAAATTAAAGTAATTATAATAAGATAAATTGATA
86509409 ACGT
66 ACGT
* *
86509413 GTCAAATCAATTTCTCATATAACTTCAATTGAAAATTAAAGTAATTATAATAAGATAAATTGATA
1 GTCAAATCAACTTCTCATACAACTTCAATTGAAAATTAAAGTAATTATAATAAGATAAATTGATA
86509478 ACGT
66 ACGT
86509482 CAGTGGTCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 43 0.69
69 19 0.31
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (69 bp):
GTCAAATCAACTTCTCATACAACTTCAATTGAAAATTAAAGTAATTATAATAAGATAAATTGATA
ACGT
Found at i:86513040 original size:21 final size:22
Alignment explanation
Indices: 86513011--86513057 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
86513001 CAGAAGGAGT
*
86513011 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
86513033 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
86513054 GAGT
1 GAGT
86513058 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:86514777 original size:19 final size:21
Alignment explanation
Indices: 86514744--86514783 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
86514734 ATTTTGGCCT
*
86514744 AAACCCAAATCAATAA-AAAA
1 AAACCAAAATCAATAATAAAA
86514764 AAACCAAAAT-AATAATAAAA
1 AAACCAAAATCAATAATAAAA
86514784 TAGTCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.12
Consensus pattern (21 bp):
AAACCAAAATCAATAATAAAA
Found at i:86515305 original size:18 final size:18
Alignment explanation
Indices: 86515278--86515312 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86515268 GTATTTTATT
*
86515278 TTTATGTTTATTTATTTA
1 TTTATGTTTATCTATTTA
*
86515296 TTTATTTTTATCTATTT
1 TTTATGTTTATCTATTT
86515313 TAAAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATGTTTATCTATTTA
Done.