Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 67 of 77
Found at i:13397914 original size:267 final size:267
Alignment explanation
Indices: 13397439--13397975 Score: 803
Period size: 267 Copynumber: 2.0 Consensus size: 267
13397429 TCTTTTACAA
* * *
13397439 ATTTAAGACTACAAATATAATGTGTTATACATCAATTTTTTAAAATTTTTTTAGTAACTTTTTAA
1 ATTTAAGACTACAAATATAATATGTCATACATCAATTTTTTAAAATTTTTTCAGTAACTTTTTAA
* *
13397504 AGATATATTCTATTACTATTGCAATTTTTTTTTATAAATTTTTTAAAAAATATATTTTATTGTTA
66 AGATATATTCTACTACTATTGCAATTTTTTTTTATAAATTTTTTAAAAAATATATTTTATTATTA
* *
13397569 TTATAGTTTTATTCTTATGAAAAATAATTTTTTTTCAATTTATTTTTTCTTTTTTCACATATTTT
131 TTATAGTTTCATTCTTATGAAAAATAATTTTTTTTCAATTTATTTATTCTTTTTTCACATATTTT
*
13397634 CTAACATTTTTCATATTTTGTATAATAATTTAGTTAAAATTACTAAAGTGAAAGTGTGCTAATA-
196 CTAACATTTTTCATATTTTGTATAATAATTTAGTCAAAATTACTAAAGTGAAAGTGTGCTAATAC
13397698 TTTCTTTT
261 TTT-TTTT
* * ***
13397706 ATTTAAGACTACAAATGTAATATGTCGTACATC-ATTTTTTTTTATTTTTTCAGTAACTTTTTTA
1 ATTTAAGACTACAAATATAATATGTCATACATCAATTTTTTAAAATTTTTTCAGTAAC-TTTTTA
* * * ** *
13397770 ATG-TATATTCTACTGCTATTGTAATTTTTTATTTATAAATTTTTTCTAAGATATATTTTATTAT
65 AAGATATATTCTACTACTATTGCAATTTTTT-TTTATAAATTTTTTAAAAAATATATTTTATTAT
*
13397834 TATTATAGTTTCATTCTTATGAAAAATACTTTTTTTTTCAATTTATTTATTC-TTTTTCACATAT
129 TATTATAGTTTCATTCTTATGAAAAATA-ATTTTTTTTCAATTTATTTATTCTTTTTTCACATAT
* * *
13397898 TTTCTAACTTTTTTCATATTTTGTATAATAATTTAGTCAATATTACTAAAGTGAAAGTGTGTTAA
193 TTTCTAACATTTTTCATATTTTGTATAATAATTTAGTCAAAATTACTAAAGTGAAAGTGTGCTAA
13397963 TACTTTTTTT
258 TACTTTTTTT
13397973 ATT
1 ATT
13397976 ATTTAATTTA
Statistics
Matches: 243, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
266 44 0.18
267 175 0.72
268 24 0.10
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (267 bp):
ATTTAAGACTACAAATATAATATGTCATACATCAATTTTTTAAAATTTTTTCAGTAACTTTTTAA
AGATATATTCTACTACTATTGCAATTTTTTTTTATAAATTTTTTAAAAAATATATTTTATTATTA
TTATAGTTTCATTCTTATGAAAAATAATTTTTTTTCAATTTATTTATTCTTTTTTCACATATTTT
CTAACATTTTTCATATTTTGTATAATAATTTAGTCAAAATTACTAAAGTGAAAGTGTGCTAATAC
TTTTTTT
Found at i:13399733 original size:19 final size:20
Alignment explanation
Indices: 13399689--13399733 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
13399679 AAATATTTTA
*
13399689 TTAATTAAAATAGTTAAAAT
1 TTAATTAAAATAGTAAAAAT
*
13399709 AT-ATTAAAATA-TAAAAAT
1 TTAATTAAAATAGTAAAAAT
13399727 TTAATTA
1 TTAATTA
13399734 GATTTATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.33
19 13 0.62
20 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAATTAAAATAGTAAAAAT
Found at i:13400814 original size:22 final size:20
Alignment explanation
Indices: 13400786--13400825 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
13400776 ATAATTTTTA
13400786 TTTTATTAAATATATTTAAAAT
1 TTTTATTAAA-AT-TTTAAAAT
13400808 TTTTATTAAAATTTTAAA
1 TTTTATTAAAATTTTAAA
13400826 TCATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTATTAAAATTTTAAAAT
Found at i:13409258 original size:19 final size:19
Alignment explanation
Indices: 13409230--13409273 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13409220 TTACATCTTG
13409230 ATAA-TTAATT-AATAAATT
1 ATAATTTAATTAAAT-AATT
13409248 ATAATTTAATTAAATAATT
1 ATAATTTAATTAAATAATT
13409267 A-AATTTA
1 ATAATTTA
13409274 CACGCAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.42
19 11 0.46
20 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATTTAATTAAATAATT
Found at i:13409979 original size:17 final size:18
Alignment explanation
Indices: 13409946--13409981 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
13409936 GAGATAAAAA
13409946 TATCTTTATAATTTAATT
1 TATCTTTATAATTTAATT
*
13409964 TATCTTT-TATTTTAATT
1 TATCTTTATAATTTAATT
13409981 T
1 T
13409982 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
TATCTTTATAATTTAATT
Found at i:13410079 original size:19 final size:18
Alignment explanation
Indices: 13410040--13410077 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
13410030 ATTATTTTTT
13410040 AATTATTTTTATTCATAA
1 AATTATTTTTATTCATAA
13410058 AATTATTATTTA-TCATAA
1 AATTATT-TTTATTCATAA
13410076 AA
1 AA
13410078 ATAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATTTTTATTCATAA
Found at i:13410175 original size:16 final size:16
Alignment explanation
Indices: 13410111--13410174 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
13410101 ATTATTTTAT
*
13410111 AAATATTTAATAATTTA
1 AAATTTTTAATAA-TTA
*
13410128 AAATTTTTACTACA-TA
1 AAATTTTTAATA-ATTA
13410144 AAATTTTT-A-AATTA
1 AAATTTTTAATAATTA
*
13410158 ATATTTTTAATAATTA
1 AAATTTTTAATAATTA
13410174 A
1 A
13410175 TTTTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 1 0.03
16 16 0.41
17 10 0.26
18 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATTTTTAATAATTA
Found at i:13410621 original size:6 final size:6
Alignment explanation
Indices: 13410622--13410651 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13410612 AAATAAAAAT
13410622 AAATTA AAATTA AAATTA AAATTA AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA
13410652 TAATACCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:13416090 original size:102 final size:102
Alignment explanation
Indices: 13415886--13416121 Score: 287
Period size: 102 Copynumber: 2.3 Consensus size: 102
13415876 CTATTTCATT
* * *
13415886 AATCACAATACATAACCAGAATCAAAATGCCAAATATGCAATATTTTTCATATTTCACAAATGTG
1 AATCACAATACATAACCAGAATCATAATGCAAAATATGCAATATTTTTCACATTTCACAAATGTG
* *
13415951 ATCTCATCATAAAATTCTATTCAAATAATTCATCAAC
66 ATCTCATCATAAAATTCTATTAAAATAATTCAACAAC
* * *
13415988 AATCACAATACACAACTAGAATCATAATGTAAAATATGCAATATTTTTCACATTTCACAAATGTG
1 AATCACAATACATAACCAGAATCATAATGCAAAATATGCAATATTTTTCACATTTCACAAATGTG
** * ** *
13416053 ATCTTGTCGTAATGTAT-TA-TAAAGATAGTTCAACAAC
66 ATCTCATCATAAAAT-TCTATTAAA-ATAATTCAACAAC
* * *
13416090 AATCATAATACATAACCAAAATCATAAAGCAA
1 AATCACAATACATAACCAGAATCATAATGCAA
13416122 GTTACGCAAC
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
101 3 0.03
102 108 0.96
103 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (102 bp):
AATCACAATACATAACCAGAATCATAATGCAAAATATGCAATATTTTTCACATTTCACAAATGTG
ATCTCATCATAAAATTCTATTAAAATAATTCAACAAC
Found at i:13419150 original size:19 final size:19
Alignment explanation
Indices: 13419118--13419169 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
13419108 TATTAATTTT
13419118 TAAAATAAACCTTAAAAATAA
1 TAAAA-AAA-CTTAAAAATAA
**
13419139 TAAAAAAACTTAATGATAA
1 TAAAAAAACTTAAAAATAA
*
13419158 TACAAAAA-TTAA
1 TAAAAAAACTTAA
13419170 TAAAAATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 3 0.11
21 5 0.18
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAAAACTTAAAAATAA
Found at i:13419169 original size:18 final size:19
Alignment explanation
Indices: 13419135--13419170 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13419125 AACCTTAAAA
13419135 ATAATAAAAAAACTTAATG
1 ATAATAAAAAAACTTAATG
*
13419154 ATAATACAAAAA-TTAAT
1 ATAATAAAAAAACTTAAT
13419171 AAAAATGTAA
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:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (19 bp):
ATAATAAAAAAACTTAATG
Found at i:13419367 original size:18 final size:18
Alignment explanation
Indices: 13419341--13419386 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13419331 AGTTATAAAA
13419341 AAATAATAAA-TAAGAACT
1 AAATAATAAATTAAGAA-T
*
13419359 AATTAATAAATTAAGAAT
1 AAATAATAAATTAAGAAT
13419377 AAATAATAAA
1 AAATAATAAA
13419387 AAATGAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAATAATAAATTAAGAAT
Found at i:13430700 original size:18 final size:19
Alignment explanation
Indices: 13430674--13430709 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13430664 TTTTTGGTTG
13430674 AAAGAAAAAAA-GAAAAAA
1 AAAGAAAAAAATGAAAAAA
*
13430692 AAAGTAAAAAATGAAAAA
1 AAAGAAAAAAATGAAAAA
13430710 TAATGACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (19 bp):
AAAGAAAAAAATGAAAAAA
Found at i:13431868 original size:46 final size:47
Alignment explanation
Indices: 13431462--13432098 Score: 716
Period size: 48 Copynumber: 13.4 Consensus size: 47
13431452 TGAAGAACAT
* *
13431462 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCATG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAG
* * * * * * * * *
13431511 ATAAAATTTTAAAATTATTGAGCCTTTGTTTAAAAGAGCTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAG
** * *
13431559 A-GATTTTTTAAAGTTGTTGAGTCTCTGCTGAGATGAGCCCTTTTC-AG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTCAAG
* *
13431606 ATGAGATTTTTAAAGTTGTTGAACCTCTGTTGAGAGGAGCTTTTTCAAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAG
* * *
13431655 ATGA-ATTTTTAAAGTTGTTGAGCCTTTACTGAGAGAAGCTTTTTCAAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAG
* * * *
13431703 ATGAGATTTTAAAGTTGTTGAGCATCTACTGAGAAGAGCTTTTTTAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAG
*
13431751 ATGAGATTTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAG
1 ATGAGA--TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-CAAG
*
13431801 ATGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCAA-
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
* * *
13431847 ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
* *
13431894 ATGAAATTTTAAAGTTTTTGAGCCTCTG-TCGAGAGGAGCTTTTCAA-
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCT-GAGAGGAGCTTTTCAAG
* * * *
13431940 ATGAGATTTTAAAATTGTTGAGCCTTTACTAAGAGGAGCTTTTCAA-
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
* * * *
13431986 ATGAGATTTTAAAGTTGTTAAGCCTCTGCTGAAAAGAGCTTTTTAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
* *
13432033 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGA--AACTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
13432078 ATGAGATTTTAAAGTTGTTGA
1 ATGAGATTTTAAAGTTGTTGA
13432099 TTTTAAAGTT
Statistics
Matches: 502, Mismatches: 72, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
45 29 0.06
46 119 0.24
47 103 0.21
48 167 0.33
49 44 0.09
50 40 0.08
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (47 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
Found at i:13432102 original size:15 final size:15
Alignment explanation
Indices: 13432082--13432113 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13432072 TTCAAGATGA
13432082 GATTTTAAAGTTGTT
1 GATTTTAAAGTTGTT
13432097 GATTTTAAAGTTGTT
1 GATTTTAAAGTTGTT
13432112 GA
1 GA
13432114 GCCTCTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (15 bp):
GATTTTAAAGTTGTT
Found at i:13432117 original size:60 final size:64
Alignment explanation
Indices: 13432038--13432164 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 64
13432028 TTAAGATGAA
13432038 ATTTTAAAGTTGTTGAGCCTCTGCTGA-GA-AACTTTTCAAGATGAG-A-TTTTAAAGTTGTTG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGGAGAACTTTTCAAGATGAGAATTTTTAAAGTTGTTG
** **
13432098 ATTTTAAAGTTGTTGAGCCTCTTTTGAGGGGAGCCCTTTTCAAGATGAGAATTTTTAAAGTTGTT
1 ATTTTAAAGTTGTTGAGCCTCTGCTGA--GGAGAACTTTTCAAGATGAGAATTTTTAAAGTTGTT
13432163 G
64 G
13432164 A
1 A
13432165 GCCTTTGCTG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
60 25 0.44
63 2 0.04
64 14 0.25
65 1 0.02
66 15 0.26
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (64 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGGAGAACTTTTCAAGATGAGAATTTTTAAAGTTGTTG
Found at i:13432224 original size:47 final size:48
Alignment explanation
Indices: 13432097--13432531 Score: 441
Period size: 47 Copynumber: 8.9 Consensus size: 48
13432087 TAAAGTTGTT
** * *
13432097 GATTTTAAAGTTGTTGAGCCTCTTTTGAGGGGAGCCCTTTTCAAGATGA
1 GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGA
*
13432146 GAATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCAAGATG-
1 G-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
* * * *
13432195 GATTTTAAAATTGTTGAGTCTCTGTTGAGAGGAGCTTTTCCAA-ATGA
1 GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
* ** * *
13432242 GATTTTAAAGTCGCCGAGCTTCTGCTGAGAGGAGCTTTCTCAAGATGA
1 GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
* * *
13432290 -ATTTTAAAGTTATTGAGCCTCTGTTGAGA-GAGAC-TTTTCCAGATGA
1 GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGA
* * *
13432336 GATTTTAAAATTGAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCAA-AAGA
1 GATTTT---A---AAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
* *
13432389 GATTTTAAAGTTGTTGAGCCTCTGCTAAGATGAGCTCTTTTCAAGATGA
1 GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCT-TTTTCAAGATGA
* * *
13432438 GATTTTTAAAGTTGTTGAACCTCTGCTGAGATGAGCCCTTTTCAAGATGA
1 GA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGA
* * *
13432488 AATTTTTAAAGTTGTTGAGCCTCTACTGAAAGGAGTCTTTTTCA
1 GA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
13432532 GATTTTAAAT
Statistics
Matches: 320, Mismatches: 48, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
46 16 0.05
47 124 0.39
48 12 0.04
49 7 0.02
50 94 0.29
51 29 0.09
53 30 0.09
54 8 0.03
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (48 bp):
GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
Found at i:13432312 original size:94 final size:97
Alignment explanation
Indices: 13431462--13432511 Score: 949
Period size: 94 Copynumber: 10.8 Consensus size: 97
13431452 TGAAGAACAT
* * * *
13431462 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCATGATAAAATTTTAAAATT
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAT-GAATTTTAAAGTT
* * * * * *
13431527 ATTGAGCCTTTGTTTAAAAGAG-CTTTTTCAAG
65 GTTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* * * *
13431559 A-GA-TTTTTTAAAGTTGTTGAGTCTCTGCTGAGATGAGCCCTTTTC-AGATGAGATTTTTAAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGA-A-TTTTAAAG
* *
13431621 TTGTTGAACCTCTGTTGAGAGGAG-CTTTTTCAAG
63 TTGTTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* * *
13431655 ATGA-ATTTTTAAAGTTGTTGAGCCTTTACTGAGAGAAGCTTTTTCAAGATGAGATTTTAAAGTT
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-ATTTTAAAGTT
* ** * **
13431719 GTTGAGCATCTACTGAGAAGAG-CTTTTTTAAG
65 GTTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* *
13431751 ATGAGATTTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGATTTTAAAGT
1 ATGAGA-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-ATTTTAAAGT
13431816 TGTTGAGCCTCTGTTGAGAGGAG-CTTTT-CAA-
64 TGTTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* *
13431847 ATGAGA-TTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTT-AAGATGAAATTTTAAAGTT
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG-AATTTTAAAGTT
* *
13431910 TTTGAGCCTCTGTCGAGAGGAG-CTTTT-CAA-
65 GTTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* * * *
13431940 ATGAGA-TTTTAAAATTGTTGAGCCTTTACTAAGAGGAGC-TTTTCAA-ATGAGATTTTAAAGTT
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-ATTTTAAAGTT
* * * * *
13432002 GTTAAGCCTCTGCTGAAAAGAG-CTTTT-TAAG
65 GTTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* *
13432033 ATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGA--AAC-TTTTCAAGATGAGATTTTAAAGTT
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-ATTTTAAAGTT
* * *
13432094 GTTGATTTTAAAGTTGTTGAGCCTCTTTTGAGGGGAGCCCTTTT-CAAG
65 GTTG-------A------G-C-CTCTGTTGAGAGGAG-CCTTTTCCAAG
* * *
13432142 ATGAGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCAAGATGGATTTTAAAATT
1 ATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAATTTTAAAGTT
*
13432207 GTTGAGTCTCTGTTGAGAGGAG-CTTTTCCAA-
65 GTTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* ** * * *
13432238 ATGAGA-TTTTAAAGTCGCCGAGCTTCTGCTGAGAGGAGCTTTCTCAAGATGAATTTTAAAGTTA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAATTTTAAAGTTG
*
13432302 TTGAGCCTCTGTTGAGA-GAGACTTTTCC-AG
66 TTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
* * * *
13432332 ATGAGATTTTAAAATTGAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCAA-AAGAGATTTTA
1 ATGAGA-TTT----TTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-ATTTTA
* * *
13432396 AAGTTGTTGAGCCTCTGCTAAGATGAGCTCTTTT-CAAG
60 AAGTTGTTGAGCCTCTGTTGAGAGGAGC-CTTTTCCAAG
* * *
13432434 ATGAGATTTTTAAAGTTGTTGAACCTCTGCTGAGATGAGCCCTTTTCAAGATGAAATTTTTAAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATG-AA-TTTTAAAG
13432499 TTGTTGAGCCTCT
63 TTGTTGAGCCTCT
13432512 ACTGAAAGGA
Statistics
Matches: 800, Mismatches: 101, Indels: 101
0.80 0.10 0.10
Matches are distributed among these distances:
91 10 0.01
92 61 0.08
93 114 0.14
94 116 0.14
95 35 0.04
96 108 0.14
97 70 0.09
98 100 0.12
99 7 0.01
100 80 0.10
101 7 0.01
102 13 0.02
105 1 0.00
106 1 0.00
107 10 0.01
109 12 0.01
111 28 0.04
113 16 0.02
114 11 0.01
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (97 bp):
ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAATTTTAAAGTTG
TTGAGCCTCTGTTGAGAGGAGCCTTTTCCAAG
Found at i:13432360 original size:53 final size:53
Alignment explanation
Indices: 13432296--13432397 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
13432286 ATGAATTTTA
** * *
13432296 AAGTTATTGAGCCTCTGTTGAGAG-AGACTTTTCCAGATGAGATTTTAAAATTG
1 AAGTTATTGAGCCTCTACTGAGAGAAG-CTTTTCCAAAAGAGATTTTAAAATTG
* *
13432349 AAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCAAAAGAGATTTTAAA
1 AAGTTATTGAGCCTCTACTGAGAGAAGCTTTTCCAAAAGAGATTTTAAA
13432398 GTTGTTGAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 40 0.95
54 2 0.05
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (53 bp):
AAGTTATTGAGCCTCTACTGAGAGAAGCTTTTCCAAAAGAGATTTTAAAATTG
Found at i:13433803 original size:22 final size:24
Alignment explanation
Indices: 13433768--13433818 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
13433758 ATTAATTTTT
13433768 AAAATAAACTTTAAAAATAATA-A
1 AAAATAAACTTTAAAAATAATACA
**
13433791 AAAATAAAC-TTAATGATAATACA
1 AAAATAAACTTTAAAAATAATACA
13433814 AAAAT
1 AAAAT
13433819 TAATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAATAAACTTTAAAAATAATACA
Found at i:13433998 original size:18 final size:18
Alignment explanation
Indices: 13433972--13434017 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13433962 AGTTATAAAA
13433972 AAATAATAAA-TAAGAACT
1 AAATAATAAATTAAGAA-T
*
13433990 AATTAATAAATTAAGAAT
1 AAATAATAAATTAAGAAT
13434008 AAATAATAAA
1 AAATAATAAA
13434018 AAATGAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAATAATAAATTAAGAAT
Found at i:13435967 original size:52 final size:52
Alignment explanation
Indices: 13435821--13435976 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
13435811 TATAACCATA
* * * * ** *
13435821 CAAACTTACCCATTAAGAATCTCTCTTCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCTATTTTCTTTTAGAATTCTTCTTTTGCAAGT
* *
13435873 CAAATTTACCTA-TAAAAAT-TATTTTCTTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCTATTTTC-TTTTAGAATTCTTCTTTTGCAAGT
*
13435924 CAAACTTACCTATTAAGAATCTTTTTTCTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCTATTTTCTTTTAGAATTCTTCTTTTGCAAGT
13435976 C
1 C
13435977 TTCTTGTCCA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 5 0.06
51 37 0.42
52 41 0.46
53 6 0.07
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTATTTTCTTTTAGAATTCTTCTTTTGCAAGT
Found at i:13436309 original size:25 final size:25
Alignment explanation
Indices: 13436260--13436383 Score: 101
Period size: 25 Copynumber: 5.0 Consensus size: 25
13436250 AAACCATGCA
**
13436260 CTTCTCACATCTTAAACCTTT-AGCT
1 CTTCTCACATCTCGAA-CTTTCAGCT
*
13436285 CTTCCCACATCTCGAACTTTCAGCT
1 CTTCTCACATCTCGAACTTTCAGCT
* *
13436310 -TTTTCACGTCTCGAACTTTCAGCT
1 CTTCTCACATCTCGAACTTTCAGCT
* * *
13436334 CTTTTCACATCTTGAA-TCTTCAACT
1 CTTCTCACATCTCGAACT-TTCAGCT
** * *
13436359 CTTCTCATGTTTCGAACCTTCAGCT
1 CTTCTCACATCTCGAACTTTCAGCT
13436384 ATAATACAAC
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
24 26 0.33
25 53 0.67
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (25 bp):
CTTCTCACATCTCGAACTTTCAGCT
Found at i:13436440 original size:31 final size:30
Alignment explanation
Indices: 13436400--13436460 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
13436390 CAACTTGTCA
13436400 GGGAACACCACAGCTCTGATACCATTTGTT
1 GGGAACACCACAGCTCTGATACCATTTGTT
**
13436430 GGGAATCACCATTGCTCTGATACCATTTGTT
1 GGGAA-CACCACAGCTCTGATACCATTTGTT
13436461 AGGCTAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (30 bp):
GGGAACACCACAGCTCTGATACCATTTGTT
Found at i:13437021 original size:52 final size:51
Alignment explanation
Indices: 13436938--13437094 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 51
13436928 TATAACCATA
* * *
13436938 CAAACTTGCCCATTAAGAATCTCTCTTCTTTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCT-TTTTCTTTTAGAATTCTTCTCCTGCAAGT
*
13436990 CAAACTTGCCTATTAAGAAT-TATTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCT-TTTT-CTTTTAGAATTCTTCTCCTGCAAGT
* * **
13437042 CAAACTTACCTATTAAGAATCTTTTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-TTTTTCTTTTAGAATTCTTCTCCTGCAAGT
13437094 C
1 C
13437095 TTTTTGTCCA
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 4 0.04
52 85 0.90
53 4 0.04
54 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCTTTTTCTTTTAGAATTCTTCTCCTGCAAGT
Found at i:13437129 original size:21 final size:22
Alignment explanation
Indices: 13437111--13437155 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13437101 TCCATCAAGC
*
13437111 AATATCTAACAAATTTCAAACA
1 AATATCTAACAAATCTCAAACA
*
13437133 AATCTCTAACAAATCTCAAACA
1 AATATCTAACAAATCTCAAACA
13437155 A
1 A
13437156 CTTTCTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.24
Consensus pattern (22 bp):
AATATCTAACAAATCTCAAACA
Found at i:13437134 original size:11 final size:11
Alignment explanation
Indices: 13437118--13437155 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
13437108 AGCAATATCT
*
13437118 AACAAATTTCA
1 AACAAATCTCA
*
13437129 AACAAATCTCT
1 AACAAATCTCA
13437140 AACAAATCTCA
1 AACAAATCTCA
13437151 AACAA
1 AACAA
13437156 CTTTCTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:13441955 original size:13 final size:13
Alignment explanation
Indices: 13441937--13441961 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13441927 ATATTATATT
13441937 ATTTTAAAATAAA
1 ATTTTAAAATAAA
13441950 ATTTTAAAATAA
1 ATTTTAAAATAA
13441962 TATTAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTTTAAAATAAA
Found at i:13442326 original size:21 final size:21
Alignment explanation
Indices: 13442302--13442350 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
13442292 CATATCGTAA
*
13442302 AAATCATTTAAACTATTTGTC
1 AAATCATTTAAAATATTTGTC
*
13442323 AAATCATTTAAAATATTTGTT
1 AAATCATTTAAAATATTTGTC
13442344 AAATCAT
1 AAATCAT
13442351 AATATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (21 bp):
AAATCATTTAAAATATTTGTC
Found at i:13442372 original size:25 final size:25
Alignment explanation
Indices: 13442330--13442393 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
13442320 GTCAAATCAT
*
13442330 TTAAAATATTTGTTAAATCA-TAATA
1 TTAAAATATTT-TAAAATCATTAATA
*
13442355 TTAAAATATTTTAAAAATCATTATTA
1 TTAAAATATTTT-AAAATCATTAATA
*
13442381 TATCAAATATTTT
1 T-TAAAATATTTT
13442394 GTAGATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 17 0.52
26 5 0.15
27 10 0.30
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAAATATTTTAAAATCATTAATA
Found at i:13445365 original size:26 final size:26
Alignment explanation
Indices: 13445335--13445391 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13445325 GATATACAAG
*
13445335 ATTATGATAGGATAATA-TAAGATAAT
1 ATTATAATAGGATAATATTAA-ATAAT
*
13445361 ATTATAATAGGATTATATTAAATAAT
1 ATTATAATAGGATAATATTAAATAAT
13445387 ATTAT
1 ATTAT
13445392 CCTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 25 0.89
27 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTATAATAGGATAATATTAAATAAT
Found at i:13445472 original size:17 final size:18
Alignment explanation
Indices: 13445432--13445478 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
13445422 ATGATAAGAT
13445432 AATTTATTTATTTGTCAA
1 AATTTATTTATTTGTCAA
13445450 AA-TTATTCT-TTT-TCAA
1 AATTTATT-TATTTGTCAA
*
13445466 AATTTATATATTT
1 AATTTATTTATTT
13445479 TAAATTATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 7 0.28
17 15 0.60
18 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTTATTTATTTGTCAA
Found at i:13450829 original size:2 final size:2
Alignment explanation
Indices: 13450822--13450862 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
13450812 ATACAAACAT
13450822 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
13450863 TATATATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13459904 original size:15 final size:14
Alignment explanation
Indices: 13459871--13459903 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13459861 TAACTTAACG
13459871 TTTTTCATGATCGT
1 TTTTTCATGATCGT
*
13459885 TTTTTCATGATTGT
1 TTTTTCATGATCGT
13459899 TTTTT
1 TTTTT
13459904 TACCAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.67
Consensus pattern (14 bp):
TTTTTCATGATCGT
Found at i:13464751 original size:2 final size:2
Alignment explanation
Indices: 13464739--13464769 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
13464729 TATGTATCAA
13464739 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
13464770 TAGTGGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13466160 original size:6 final size:6
Alignment explanation
Indices: 13466149--13466211 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
13466139 ATTATATTTT
*
13466149 AATATA AATATA AAT-TA AATA-A ATATAAA AAGTATAA AATATA AATATA
1 AATATA AATATA AATATA AATATA A-ATATA AA-TAT-A AATATA AATATA
*
13466198 AA-ATT AA-ATA AATA
1 AATATA AATATA AATA
13466212 ATTAAAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
5 15 0.31
6 23 0.48
7 7 0.15
8 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (6 bp):
AATATA
Found at i:13466172 original size:15 final size:16
Alignment explanation
Indices: 13466147--13466194 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
13466137 ATATTATATT
13466147 TTAATATAAATATAAA
1 TTAATATAAATATAAA
13466163 TTAA-ATAAATATAAA
1 TTAATATAAATATAAA
13466178 --AAGTATAAAATATAAA
1 TTAA-TAT-AAATATAAA
13466194 T
1 T
13466195 ATAAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.07
15 13 0.46
16 13 0.46
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
TTAATATAAATATAAA
Found at i:13466208 original size:16 final size:17
Alignment explanation
Indices: 13466147--13466211 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 17
13466137 ATATTATATT
13466147 TTAATATAAATAT-AAA
1 TTAATATAAATATAAAA
13466163 TTAA-ATAAATATAAAAA
1 TTAATATAAATAT-AAAA
13466180 GTATAAAATATAAATATAAAA
1 -T-T--AATATAAATATAAAA
13466201 TTAA-ATAAATA
1 TTAATATAAATA
13466212 ATTAAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
15 8 0.19
16 11 0.26
17 5 0.12
18 1 0.02
19 2 0.05
20 1 0.02
21 6 0.14
22 8 0.19
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TTAATATAAATATAAAA
Found at i:13468454 original size:22 final size:21
Alignment explanation
Indices: 13468424--13468474 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
13468414 TTTTATTCTT
*
13468424 AAATTTATTTAAAT-ATATTAA
1 AAATTTATTAAAATAATA-TAA
13468445 AAATTATATTAAAATAATATAA
1 AAATT-TATTAAAATAATATAA
13468467 AAAGTTTA
1 AAA-TTTA
13468475 AATTTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.19
22 16 0.62
23 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATTTATTAAAATAATATAA
Found at i:13469920 original size:17 final size:17
Alignment explanation
Indices: 13469888--13469921 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13469878 TTTTATTCAA
**
13469888 ATAATTATAATTTTTAT
1 ATAATTATAACATTTAT
13469905 ATAATTATAACATTTAT
1 ATAATTATAACATTTAT
13469922 GAATAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTATAACATTTAT
Found at i:13469953 original size:41 final size:40
Alignment explanation
Indices: 13469887--13469988 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 40
13469877 TTTTTATTCA
* *
13469887 AATAATTATAATT-TTTATATAATTATAAC-ATTTATGA-AT
1 AATAATTAT--TTATTTAAATAATTATAACTATTTATCATAT
13469926 AATAATATATTTATATTTAAATAATTATAACTATTTATCATAT
1 AATAAT-TA-TT-TATTTAAATAATTATAACTATTTATCATAT
13469969 AATAATTATTTATTTAAATA
1 AATAATTATTTATTTAAATA
13469989 TATTTATTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
39 7 0.13
40 13 0.24
41 18 0.33
42 9 0.16
43 8 0.15
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (40 bp):
AATAATTATTTATTTAAATAATTATAACTATTTATCATAT
Found at i:13470004 original size:15 final size:14
Alignment explanation
Indices: 13469975--13470004 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13469965 ATATAATAAT
13469975 TATTTATTTAAATA
1 TATTTATTTAAATA
13469989 TATTTATTTAAA-A
1 TATTTATTTAAATA
13470002 TAT
1 TAT
13470005 GAATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTATTTAAATA
Found at i:13470064 original size:14 final size:14
Alignment explanation
Indices: 13470045--13470075 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13470035 CATCAACAAT
13470045 TAAAATTTTCTATA
1 TAAAATTTTCTATA
13470059 TAAAATTTTCTATA
1 TAAAATTTTCTATA
13470073 TAA
1 TAA
13470076 GGAGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAATTTTCTATA
Found at i:13473981 original size:12 final size:12
Alignment explanation
Indices: 13473964--13473989 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13473954 TTTCCTTGAA
13473964 ATCCAATAATCT
1 ATCCAATAATCT
13473976 ATCCAATAATCT
1 ATCCAATAATCT
13473988 AT
1 AT
13473990 TTTAAGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (12 bp):
ATCCAATAATCT
Found at i:13478577 original size:2 final size:2
Alignment explanation
Indices: 13478565--13478594 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13478555 CAACTTTCTC
*
13478565 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13478595 CCACCAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13479169 original size:2 final size:2
Alignment explanation
Indices: 13479162--13479213 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
13479152 AAATAATAAG
13479162 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13479204 CT CT CT CT CT
1 CT CT CT CT CT
13479214 TATATATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13481082 original size:6 final size:6
Alignment explanation
Indices: 13481033--13481088 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
13481023 AATTCAATCG
* *
13481033 AATTT- AATTTA AATTTTA AGTTTTA AATTTTA AA-TTA AATTTA AACTTA
1 AATTTA AATTTA AA-TTTA A-ATTTA AA-TTTA AATTTA AATTTA AATTTA
13481082 AATTTA A
1 AATTTA A
13481089 TATTGTATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
5 10 0.24
6 16 0.38
7 16 0.38
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:13481630 original size:2 final size:2
Alignment explanation
Indices: 13481623--13481657 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13481613 TCTTAACCAT
13481623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13481658 TGCTTGAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13495391 original size:52 final size:51
Alignment explanation
Indices: 13495214--13495549 Score: 286
Period size: 51 Copynumber: 6.7 Consensus size: 51
13495204 TTTCGAGAAT
* * * * * *
13495214 AGATGAA--TTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGC-TTTTCCA
1 AGATGAATTTTTTTAAAGTTGTTTAACCTCTACTTAGAGGAACTTTTTTCA
** * * *
13495262 AGATG-ATGAATTTTAAAGTTGTTGAACCTCTACTTAGATGAACTTTTTTTA
1 AGATGAAT-TTTTTTAAAGTTGTTTAACCTCTACTTAGAGGAACTTTTTTCA
* * *
13495313 A-ATGAA---TTTTAAAGTTG-TTAAGCCTCTGCTTAGAGGTATTTTTTCTCA
1 AGATGAATTTTTTTAAAGTTGTTTAA-CCTCTACTTAGAGGAACTTTTT-TCA
* *
13495361 AGATGAATTTTTTTAAAGTTGTTTAACCTCTACTTAGAGG-AGTTTTTCCCA
1 AGATGAATTTTTTTAAAGTTGTTTAACCTCTACTTAGAGGAACTTTTT-TCA
* * * * *
13495412 AGAT-ATTTTTTTTTTAAGTTGTTTAGCCTCTACTTAAAGAAACTTTTTTCA
1 AGATGA-ATTTTTTTAAAGTTGTTTAACCTCTACTTAGAGGAACTTTTTTCA
* * *
13495463 AGATGATTTTTTTTTAAGTTG-TTAAGCCTCTAATTAGAGGAACTTTTTTCA
1 AGATGAATTTTTTTAAAGTTGTTTAA-CCTCTACTTAGAGGAACTTTTTTCA
* *
13495514 AGATG-A-TTTTTTAAAGTTGTTGAGCCTCTACTTAGA
1 AGATGAATTTTTTTAAAGTTGTTTAACCTCTACTTAGA
13495550 AGAGTCATTT
Statistics
Matches: 238, Mismatches: 33, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
46 3 0.01
47 30 0.13
48 8 0.03
49 28 0.12
50 37 0.16
51 97 0.41
52 31 0.13
53 4 0.02
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (51 bp):
AGATGAATTTTTTTAAAGTTGTTTAACCTCTACTTAGAGGAACTTTTTTCA
Found at i:13495691 original size:140 final size:137
Alignment explanation
Indices: 13495478--13495745 Score: 349
Period size: 140 Copynumber: 1.9 Consensus size: 137
13495468 ATTTTTTTTT
* * * * * *
13495478 AAGTTGTTAAGCCTCTAATTAGAGGAACTTTTTTCAAGATGATTTTTTAAAGTTGTTGAGCCTCT
1 AAGTTGTTAAGCCTCTAATTAGAGGAACTTTTTTCAAAATAAATTTTAAAAATTATTGAGCCTCT
* * * * *
13495543 ACTTAGAAGAGTCATTTTATATTTTCAAAAACTATTTGTTGAGCCTCTACTTTGAAGAGCCTTTT
66 ACTTAGAAGAGCCATTTTATATTTTC--AAA--AGTTGTTAAGCCTCTACTTAGAAAAGCCTTTT
13495608 TATATTTTCAA
127 TATATTTTCAA
* * * *
13495619 AAGTTGTTTAGCCTTTACTTAGAGGAGC-TTTTTCAAAATAAATTTTAAAAATTATTGAGCCTCT
1 AAGTTGTTAAGCCTCTAATTAGAGGAACTTTTTTCAAAATAAATTTTAAAAATTATTGAGCCTCT
*
13495683 ACTTAGAAGAGCCTTTTTATATTTTCAAAAGTTGTTAAGCCTCTACTTAGAAAAGCCTTTTTA
66 ACTTAGAAGAGCCATTTTATATTTTCAAAAGTTGTTAAGCCTCTACTTAGAAAAGCCTTTTTA
13495746 AAAGTCATTA
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
136 30 0.27
138 3 0.03
140 54 0.49
141 24 0.22
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (137 bp):
AAGTTGTTAAGCCTCTAATTAGAGGAACTTTTTTCAAAATAAATTTTAAAAATTATTGAGCCTCT
ACTTAGAAGAGCCATTTTATATTTTCAAAAGTTGTTAAGCCTCTACTTAGAAAAGCCTTTTTATA
TTTTCAA
Found at i:13495728 original size:44 final size:44
Alignment explanation
Indices: 13495526--13495745 Score: 237
Period size: 48 Copynumber: 4.8 Consensus size: 44
13495516 ATGATTTTTT
* *
13495526 AAAGTTGTTGAGCCTCTACTTAGAAGAGTCATTTTATATTTTCAAA
1 AAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTATATTTTC--A
* *
13495572 AACTATTTGTTGAGCCTCTACTTTGAAGAGCCTTTTTATATTTTCA
1 AA--AGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTATATTTTCA
* * *
13495618 AAAGTTGTTTAGCCTTTACTTAGAGGAG-CTTTTTCAAAATAAATTTT-A
1 AAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTT----AT--ATTTTCA
* *
13495666 AAAATTATTGAGCCTCTACTTAGAAGAGCCTTTTTATATTTTCA
1 AAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTATATTTTCA
* *
13495710 AAAGTTGTTAAGCCTCTACTTAGAAAAGCCTTTTTA
1 AAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTA
13495746 AAAGTCATTA
Statistics
Matches: 146, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
43 11 0.08
44 54 0.37
45 2 0.01
46 5 0.03
47 2 0.01
48 61 0.42
49 11 0.08
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (44 bp):
AAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTATATTTTCA
Found at i:13496580 original size:22 final size:20
Alignment explanation
Indices: 13496555--13496599 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
13496545 AGAGAGTCTG
* *
13496555 AGAAGAAGTAAGAGAAAAAATA
1 AGAAGAAATAA-A-AAAAAAAA
13496577 AGAAGAAATAAAAAAAAAAA
1 AGAAGAAATAAAAAAAAAAA
13496597 AGA
1 AGA
13496600 TGATTTGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (20 bp):
AGAAGAAATAAAAAAAAAAA
Found at i:13496889 original size:20 final size:21
Alignment explanation
Indices: 13496864--13496903 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13496854 AAAAAAAAAT
*
13496864 TTTTTAAATT-TTTTGAATTG
1 TTTTTAAATTATTTTAAATTG
*
13496884 TTTTTATATTATTTTAAATT
1 TTTTTAAATTATTTTAAATT
13496904 TTATTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTAAATTATTTTAAATTG
Found at i:13497201 original size:20 final size:20
Alignment explanation
Indices: 13497169--13497220 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
13497159 TGTATTAGAG
*
13497169 TATTTATAAAAAAATTTTAA
1 TATTAATAAAAAAATTTTAA
**
13497189 TA-TAATAAAAAAATTTTTC
1 TATTAATAAAAAAATTTTAA
13497208 TATTAATAAAAAA
1 TATTAATAAAAAA
13497221 TAGAATTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TATTAATAAAAAAATTTTAA
Found at i:13499274 original size:39 final size:39
Alignment explanation
Indices: 13499231--13499307 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
13499221 CATTGATATC
*
13499231 CATGACAATAATTCGAGTGATGATCACCTACCTTCTCTT
1 CATGACAATAATTCGAGTGATGAGCACCTACCTTCTCTT
13499270 CATGACAATAATTCGAGTGATGAGCACCTACCTTCTCT
1 CATGACAATAATTCGAGTGATGAGCACCTACCTTCTCT
13499308 CTGTGTTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (39 bp):
CATGACAATAATTCGAGTGATGAGCACCTACCTTCTCTT
Found at i:13501941 original size:15 final size:16
Alignment explanation
Indices: 13501923--13501958 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
13501913 ATAAATAAAA
13501923 AATTTC-AAAAATTAT
1 AATTTCTAAAAATTAT
13501938 AATTTCTTAAAAATTAT
1 AATTTC-TAAAAATTAT
13501955 AATT
1 AATT
13501959 ATTAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
17 13 0.68
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTCTAAAAATTAT
Found at i:13501968 original size:17 final size:17
Alignment explanation
Indices: 13501929--13501968 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13501919 AAAAAATTTC
*
13501929 AAAAATTATAATTTCTT
1 AAAAATTATAATTTATT
13501946 AAAAATTATAA-TTATT
1 AAAAATTATAATTTATT
13501962 AATAAAT
1 AA-AAAT
13501969 AAAAATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTATAATTTATT
Found at i:13505203 original size:41 final size:42
Alignment explanation
Indices: 13505119--13505208 Score: 128
Period size: 45 Copynumber: 2.1 Consensus size: 42
13505109 ATATTACACT
* *
13505119 AATGAATAGGATGTTTATAAAATTATTTTTGTTGGTATATATATG
1 AATGAATAAGATGTTTATAAAATTATTTATGTTGG---ATATATG
13505164 AATGAATAAGATGTTTATAAAATTATTTATGTTGG-TATATG
1 AATGAATAAGATGTTTATAAAATTATTTATGTTGGATATATG
13505205 AATG
1 AATG
13505209 GATGATTACC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 10 0.23
45 33 0.77
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (42 bp):
AATGAATAAGATGTTTATAAAATTATTTATGTTGGATATATG
Found at i:13506271 original size:14 final size:14
Alignment explanation
Indices: 13506252--13506282 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13506242 TCGATATAGG
13506252 ATTTATTGTGTTAT
1 ATTTATTGTGTTAT
13506266 ATTTATTGTGTTAT
1 ATTTATTGTGTTAT
13506280 ATT
1 ATT
13506283 GATAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (14 bp):
ATTTATTGTGTTAT
Found at i:13508599 original size:27 final size:27
Alignment explanation
Indices: 13508560--13508623 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
13508550 TTGATTCGAT
13508560 TTTATATTTATAATATTTGA-GTTTAAA
1 TTTA-ATTTATAATATTTGATGTTTAAA
* * *
13508587 TTTAATTTAATAATTTTTTATTTTTAAA
1 TTTAATTT-ATAATATTTGATGTTTAAA
13508615 TTTGAATTT
1 TTT-AATTT
13508624 GATATTGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 4 0.13
27 13 0.42
28 9 0.29
29 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (27 bp):
TTTAATTTATAATATTTGATGTTTAAA
Found at i:13508696 original size:6 final size:6
Alignment explanation
Indices: 13508685--13508728 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
13508675 ATTATATTTT
13508685 AATATA AATATA AAT-TA AATA-A ATATATAA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA A-ATAT-A AATATA AATATA AA
13508729 AGTAAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 7 0.21
6 21 0.62
7 4 0.12
8 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:13508708 original size:15 final size:16
Alignment explanation
Indices: 13508683--13508728 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
13508673 ATATTATATT
13508683 TTAATATAAATATAAA
1 TTAATATAAATATAAA
13508699 TTAA-ATAAATATATAA
1 TTAATATAAATATA-AA
13508715 --AATATAAATATAAA
1 TTAATATAAATATAAA
13508729 AGTAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.14
15 18 0.64
16 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAATATAAATATAAA
Found at i:13509723 original size:21 final size:21
Alignment explanation
Indices: 13509697--13509738 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13509687 TATTACGTCA
13509697 TCATTTTACTTCATAAATTTC
1 TCATTTTACTTCATAAATTTC
13509718 TCATTTTACTTCATAAATTTC
1 TCATTTTACTTCATAAATTTC
13509739 ATATCTTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (21 bp):
TCATTTTACTTCATAAATTTC
Found at i:13520737 original size:50 final size:49
Alignment explanation
Indices: 13520643--13520975 Score: 327
Period size: 50 Copynumber: 6.8 Consensus size: 49
13520633 TTTCGAGAAT
* * * * *
13520643 AGATGA-ATTTTTAAAGTTGTTGAGCCTTTGCATAGAGGAGCTTTTCCA
1 AGATGATATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAACTTTTTCA
* * * * **
13520691 AGATGATGAATTTTAAAGTTGTTGAACCTCTACTTAAATGAACTTTTTTT
1 AGATGAT-ATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAACTTTTTCA
* **
13520741 AGATGA-A-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGTATTTTTTTTCA
1 AGATGATATTTTTAAAGTTGTTGAGCCTCTACTTAGAGG-A-ACTTTTTCA
* * * * *
13520790 AGATGAATTTTTTTAAAGTTGTTTACCCTCTACTTAGAGGAGCTTTTCCCA
1 AGATG-ATATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAACTTTT-TCA
* * *
13520841 AGAT-ATTTTTTTTAAA-TTGTTTAGCCTCTACTTAAAGGAACTTTTTTCA
1 AGATGA-TATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAAC-TTTTTCA
* * *
13520890 AGATGATTTTTTTAAAGTTGTTAAGCCTCTAATTAGAGGAACTTTTTTCA
1 AGATGATATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAAC-TTTTTCA
13520940 AGATGAT-TTTTTAAAGTTGTTGAGCCTCTACTTAGA
1 AGATGATATTTTTAAAGTTGTTGAGCCTCTACTTAGA
13520976 AAAGTCCTTT
Statistics
Matches: 238, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
47 26 0.11
48 8 0.03
49 76 0.32
50 94 0.39
51 7 0.03
52 27 0.11
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (49 bp):
AGATGATATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAACTTTTTCA
Found at i:13520820 original size:99 final size:97
Alignment explanation
Indices: 13520643--13520975 Score: 325
Period size: 99 Copynumber: 3.4 Consensus size: 97
13520633 TTTCGAGAAT
* * * * **
13520643 AGATGA-ATTTTTAAAGTTGTTGAGCCTTTGCATAGAGGAGC-TTTTCCAAGATGATGAATTTTA
1 AGATGATA-TTTTAAAGTTGTTGAGCCTCTACTTAGAGGA-CTTTTTTCAAGATGAT-TTTTTTA
* * * *
13520706 AAGTTGTTGAACCTCTACTTAAATGAACTTTTTTT
63 AAGTTGTTAAACCTCTACTTAGAGGAACTTTTTTA
* *
13520741 AGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGTATTTTTTTTCAAGATGAATTTTTTTA
1 AGATGATATTTTAAAGTTGTTGAGCCTCTACTTAGAGG-A-CTTTTTTCAAGATG-ATTTTTTTA
* * * **
13520805 AAGTTGTTTACCCTCTACTTAGAGGAGCTTTTCCCA
63 AAGTTGTTAAACCTCTACTTAGAGGAACTTTT-TTA
* * *
13520841 AGAT-ATTTTTTTTAAA-TTGTTTAGCCTCTACTTAAAGGAACTTTTTTCAAGATGATTTTTTTA
1 AGATGA--TATTTTAAAGTTGTTGAGCCTCTACTTAGAGG-ACTTTTTTCAAGATGATTTTTTTA
* *
13520904 AAGTTGTTAAGCCTCTAATTAGAGGAACTTTTTTCA
63 AAGTTGTTAAACCTCTACTTAGAGGAACTTTTTT-A
*
13520940 AGATGATTTTTTAAAGTTGTTGAGCCTCTACTTAGA
1 AGATGATATTTTAAAGTTGTTGAGCCTCTACTTAGA
13520976 AAAGTCCTTT
Statistics
Matches: 196, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
97 28 0.14
98 17 0.09
99 104 0.53
100 20 0.10
101 20 0.10
102 7 0.04
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (97 bp):
AGATGATATTTTAAAGTTGTTGAGCCTCTACTTAGAGGACTTTTTTCAAGATGATTTTTTTAAAG
TTGTTAAACCTCTACTTAGAGGAACTTTTTTA
Found at i:13521168 original size:92 final size:91
Alignment explanation
Indices: 13521004--13521174 Score: 261
Period size: 92 Copynumber: 1.9 Consensus size: 91
13520994 CAAAAATTAT
* * *
13521004 TTATTGAGCCTCTACTTAGAAGAGCCTTTTTATATTTTCAAAAGTTGTTTAGCCTCTACTTAGAG
1 TTATTGAGCCTCTACTTAAAAGAGCCTTTTTATATTTTCAAAAGTTGTTAAGCCTCTACTTAGAA
* *
13521069 GAGCTTTTTCAAAATAAATTTTAAAAA
66 AAACTTTTT-AAAATAAATTTTAAAAA
* * *
13521096 TTATTGAGCTTCTGCTTAAAAGAGCCTTTTTATATTTTCAAAAGTTGTTAAGCCTTTACTTAGAA
1 TTATTGAGCCTCTACTTAAAAGAGCCTTTTTATATTTTCAAAAGTTGTTAAGCCTCTACTTAGAA
13521161 AAACTTTTTAAAAT
66 AAACTTTTTAAAAT
13521175 TTTCTAAAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 5 0.07
92 66 0.93
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (91 bp):
TTATTGAGCCTCTACTTAAAAGAGCCTTTTTATATTTTCAAAAGTTGTTAAGCCTCTACTTAGAA
AAACTTTTTAAAATAAATTTTAAAAA
Found at i:13522345 original size:20 final size:21
Alignment explanation
Indices: 13522320--13522359 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13522310 AAAAAAAAAT
*
13522320 TTTTTAAATT-TTTTGAATTG
1 TTTTTAAATTATTTTAAATTG
*
13522340 TTTTTATATTATTTTAAATT
1 TTTTTAAATTATTTTAAATT
13522360 TTATTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTAAATTATTTTAAATTG
Found at i:13524748 original size:39 final size:39
Alignment explanation
Indices: 13524705--13524781 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
13524695 CATTGATATC
13524705 CATGACAATAATTCGAGTGATGATCACCTACCTTCTCTT
1 CATGACAATAATTCGAGTGATGATCACCTACCTTCTCTT
13524744 CATGACAATAATTCGAGTGATGATCACCTACCTTCTCT
1 CATGACAATAATTCGAGTGATGATCACCTACCTTCTCT
13524782 CTGTGTTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (39 bp):
CATGACAATAATTCGAGTGATGATCACCTACCTTCTCTT
Found at i:13526572 original size:2 final size:2
Alignment explanation
Indices: 13526560--13526593 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
13526550 CAACTTTCTC
* *
13526560 AT AT TT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13526594 CCACCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13527419 original size:16 final size:17
Alignment explanation
Indices: 13527400--13527436 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13527390 TATAAATAAA
13527400 AATTT-TCAAAAATTAT
1 AATTTCTCAAAAATTAT
*
13527416 AATTTCTTAAAAATTAT
1 AATTTCTCAAAAATTAT
13527433 AATT
1 AATT
13527437 ATTAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTCTCAAAAATTAT
Found at i:13527446 original size:17 final size:17
Alignment explanation
Indices: 13527407--13527446 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13527397 AAAAATTTTC
*
13527407 AAAAATTATAATTTCTT
1 AAAAATTATAATTTATT
13527424 AAAAATTATAA-TTATT
1 AAAAATTATAATTTATT
13527440 AATAAAT
1 AA-AAAT
13527447 AAAAATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTATAATTTATT
Found at i:13528203 original size:126 final size:126
Alignment explanation
Indices: 13528039--13528290 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
13528029 CCTGTCACTG
13528039 CATTTTTACAGTTTGTTGTAATATTGTGAATTTGTGAAAAATTGAAAATGTTTTGTGTTAACTCT
1 CATTTTTACAGTTTGTTGTAATATTGTGAATTTGTGAAAAATTGAAAATGTTTTGTGTTAACTCT
13528104 ATAAAATTACTGATTTAATTGCTTATGAAGGATGGCTTTGATTTGTCATCTTATTGTATAT
66 ATAAAATTACTGATTTAATTGCTTATGAAGGATGGCTTTGATTTGTCATCTTATTGTATAT
13528165 CATTTTTACAGTTTGTTGTAATATTGTGAATTTGTGAAAAATTGAAAATGTTTTGTGTTAACTCT
1 CATTTTTACAGTTTGTTGTAATATTGTGAATTTGTGAAAAATTGAAAATGTTTTGTGTTAACTCT
13528230 ATAAAATTACTGATTTAATTGCTTATGAAGGATGGCTTTGATTTGTCATCTTATTGTATAT
66 ATAAAATTACTGATTTAATTGCTTATGAAGGATGGCTTTGATTTGTCATCTTATTGTATAT
13528291 TGGTAGAAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (126 bp):
CATTTTTACAGTTTGTTGTAATATTGTGAATTTGTGAAAAATTGAAAATGTTTTGTGTTAACTCT
ATAAAATTACTGATTTAATTGCTTATGAAGGATGGCTTTGATTTGTCATCTTATTGTATAT
Found at i:13531886 original size:14 final size:14
Alignment explanation
Indices: 13531867--13531897 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13531857 TCGATATAGG
13531867 ATTTATTGTGTTAT
1 ATTTATTGTGTTAT
13531881 ATTTATTGTGTTAT
1 ATTTATTGTGTTAT
13531895 ATT
1 ATT
13531898 GATAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (14 bp):
ATTTATTGTGTTAT
Found at i:13534282 original size:22 final size:22
Alignment explanation
Indices: 13534227--13534279 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
13534217 TTTTTATTTT
13534227 TAAATTTGAATTTGATATTATA
1 TAAATTTGAATTTGATATTATA
* *
13534249 TAAAATTGAATTTGATTTTAT-
1 TAAATTTGAATTTGATATTATA
*
13534270 TCAATTTGAA
1 TAAATTTGAA
13534280 ATTAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
TAAATTTGAATTTGATATTATA
Found at i:13534312 original size:6 final size:6
Alignment explanation
Indices: 13534301--13534369 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
13534291 ATTATATTTT
*
13534301 AATATA AATATA AAT-TA AATA-A ATATAAA AAGTATAA AATATA AATATA
1 AATATA AATATA AATATA AATATA A-ATATA AA-TAT-A AATATA AATATA
*
13534350 AATATA AA-ATT AA-ATA AATA
1 AATATA AATATA AATATA AATA
13534370 ATTAAAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
5 15 0.28
6 29 0.54
7 7 0.13
8 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (6 bp):
AATATA
Found at i:13534347 original size:22 final size:19
Alignment explanation
Indices: 13534301--13534365 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
13534291 ATTATATTTT
13534301 AATATAAATATAAAT-T-A
1 AATATAAATATAAATATAA
*
13534318 AATA-AATATAAAAAGTATAA
1 AATATAA-ATATAAA-TATAA
13534338 AATATAAATATAAATATAA
1 AATATAAATATAAATATAA
13534357 AAT-TAAATA
1 AATATAAATA
13534366 AATAATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.05
17 10 0.24
18 7 0.17
19 9 0.22
20 11 0.27
21 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AATATAAATATAAATATAA
Found at i:13534375 original size:18 final size:19
Alignment explanation
Indices: 13534301--13534381 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
13534291 ATTATATTTT
*
13534301 AATATAAATATAAAT-T-A
1 AATATAAATAAAAATATAA
13534318 AATA-AATATAAAAAGTATAA
1 AATATAA-ATAAAAA-TATAA
*
13534338 AATATAAATATAAATATAA
1 AATATAAATAAAAATATAA
13534357 AAT-TAAATAAATAAT-TAA
1 AATATAAATAAA-AATATAA
*
13534375 AAAATAA
1 AATATAA
13534382 TTTATATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
16 2 0.04
17 10 0.19
18 13 0.25
19 15 0.28
20 11 0.21
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (19 bp):
AATATAAATAAAAATATAA
Found at i:13535347 original size:22 final size:22
Alignment explanation
Indices: 13535322--13535364 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13535312 TAATATTATA
13535322 TCAT-TATTTTACTTTATAAATT
1 TCATATATTTTAC-TTATAAATT
*
13535344 TCATATCTTTTACTTATAAAT
1 TCATATATTTTACTTATAAAT
13535365 AAAGATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (22 bp):
TCATATATTTTACTTATAAATT
Found at i:13537871 original size:15 final size:16
Alignment explanation
Indices: 13537847--13537879 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13537837 AAATTATTAA
*
13537847 AAAATAAATAAATAAT
1 AAAATAAATAAAAAAT
13537863 AAAAT-AATAAAAAAT
1 AAAATAAATAAAAAAT
13537878 AA
1 AA
13537880 TTTTAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAATAAAAAAT
Found at i:13538097 original size:18 final size:18
Alignment explanation
Indices: 13538069--13538142 Score: 51
Period size: 19 Copynumber: 3.7 Consensus size: 18
13538059 ATTTATGAAC
13538069 AATAATATATTTATATTTA
1 AATAAT-TATTTATATTTA
*
13538088 AATAATTATTACTATTTATCATA
1 AATAATTATT--TA--TAT-TTA
13538111 TAATAATTATTT-TATTTA
1 -AATAATTATTTATATTTA
13538129 AATATATTTATTTA
1 AATA-A-TTATTTA
13538143 AAATATGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
17 4 0.09
18 7 0.16
19 15 0.34
20 2 0.05
22 4 0.09
23 2 0.05
24 10 0.23
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
AATAATTATTTATATTTA
Found at i:13538127 original size:41 final size:39
Alignment explanation
Indices: 13538029--13538132 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 39
13538019 TTTTTATTCA
* *
13538029 AATAATTATAATTT-TTTATATAATTATAACATTTATGAAC
1 AATAATTAT--TTTATTTAAATAATTATAACATTTATCAAC
* *
13538069 AATAATATATTTATATTTAAATAATTATTACTATTTATCATAT
1 AATAAT-TATTT-TATTTAAATAATTATAAC-ATTTATCA-AC
13538112 AATAATTATTTTATTTAAATA
1 AATAATTATTTTATTTAAATA
13538133 TATTTATTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
39 2 0.04
40 7 0.13
41 27 0.49
42 12 0.22
43 7 0.13
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (39 bp):
AATAATTATTTTATTTAAATAATTATAACATTTATCAAC
Found at i:13547995 original size:2 final size:2
Alignment explanation
Indices: 13547988--13548057 Score: 92
Period size: 2 Copynumber: 35.5 Consensus size: 2
13547978 TTTCTGTTGG
*
13547988 TA TA TA TA TA TA TA TA TA TA TA TA TGA -A TGA T- TA TC T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA TA TA
13548029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13548058 GAATAAATAA
Statistics
Matches: 62, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
1 3 0.05
2 56 0.90
3 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13550134 original size:2 final size:2
Alignment explanation
Indices: 13550122--13550152 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
13550112 TATGTATCAA
13550122 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
13550153 TAGTGGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13551522 original size:22 final size:22
Alignment explanation
Indices: 13551488--13551530 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13551478 TTTTTATTTT
*
13551488 TAAATTTGAATTTGATATTATA
1 TAAAATTGAATTTGATATTATA
* *
13551510 TAAAATTGCATTTGATCTTAT
1 TAAAATTGAATTTGATATTAT
13551531 TCAATTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (22 bp):
TAAAATTGAATTTGATATTATA
Found at i:13551569 original size:19 final size:20
Alignment explanation
Indices: 13551545--13551588 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
13551535 TTTGAAATTA
*
13551545 ATAAAATATTAT-TTTTAAT
1 ATAAAATATTATATTTCAAT
13551564 ATAAAATATTATATTTCAAT
1 ATAAAATATTATATTTCAAT
13551584 ATAAA
1 ATAAA
13551589 TATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAATATTATATTTCAAT
Found at i:13551592 original size:6 final size:6
Alignment explanation
Indices: 13551581--13551653 Score: 75
Period size: 6 Copynumber: 12.7 Consensus size: 6
13551571 ATTATATTTC
*
13551581 AATATA AATATA AAT-TA AAT-TA ATATAAA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA A-ATATA AATATA AATATA AATATA
*
13551628 AA-ATTA AATATA AA-ATT AA-ATA AATA
1 AATA-TA AATATA AATATA AATATA AATA
13551654 ATTAAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
5 17 0.29
6 38 0.66
7 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:13551665 original size:11 final size:12
Alignment explanation
Indices: 13551620--13551667 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
13551610 AATATAAATA
13551620 TAAATATAA-AAT
1 TAAATA-AATAAT
13551632 TAAATATAA-AAT
1 TAAATA-AATAAT
13551644 TAAATAAATAAT
1 TAAATAAATAAT
13551656 TAAA-AAATAAT
1 TAAATAAATAAT
13551667 T
1 T
13551668 TATATATATC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:13553569 original size:18 final size:19
Alignment explanation
Indices: 13553546--13553583 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13553536 GAAAAAATAA
13553546 AAAATT-TAAAATTAATTT
1 AAAATTATAAAATTAATTT
* *
13553564 AAAATTATAGATTTAATTT
1 AAAATTATAAAATTAATTT
13553583 A
1 A
13553584 GTTGAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
AAAATTATAAAATTAATTT
Found at i:13555276 original size:41 final size:40
Alignment explanation
Indices: 13555208--13555310 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 40
13555198 TTTTTATTCA
* * *
13555208 AATAATTATAATTTTTTATATAATTATAAC-ATTTATGA-AT
1 AATAATTAT--TTATTTAAATAATTATAACTATTTATCATAT
13555248 AATAATATATTTATATTTAAATAATTATAACTATTTATCATAT
1 AATAAT-TA-TT-TATTTAAATAATTATAACTATTTATCATAT
13555291 AATAATTATTTATTTAAATA
1 AATAATTATTTATTTAAATA
13555311 TATTTATTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
40 17 0.31
41 20 0.36
42 10 0.18
43 8 0.15
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (40 bp):
AATAATTATTTATTTAAATAATTATAACTATTTATCATAT
Found at i:13555284 original size:18 final size:18
Alignment explanation
Indices: 13555202--13555284 Score: 53
Period size: 18 Copynumber: 4.3 Consensus size: 18
13555192 TATAAATTTT
* *
13555202 TATTCAAATAATTATAAT
1 TATTTAAATAATTATAAC
* *
13555220 TTTTTATATAATTATAAC
1 TATTTAAATAATTATAAC
13555238 -ATTTATGAATAATAATATATTTA-
1 TATTTA--AATAAT--TATA---AC
13555261 TATTTAAATAATTATAAC
1 TATTTAAATAATTATAAC
13555279 TATTTA
1 TATTTA
13555285 TCATATAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
17 5 0.10
18 20 0.40
19 5 0.10
20 4 0.08
21 4 0.08
22 6 0.12
24 6 0.12
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (18 bp):
TATTTAAATAATTATAAC
Found at i:13555326 original size:15 final size:14
Alignment explanation
Indices: 13555297--13555326 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13555287 ATATAATAAT
13555297 TATTTATTTAAATA
1 TATTTATTTAAATA
13555311 TATTTATTTAAA-A
1 TATTTATTTAAATA
13555324 TAT
1 TAT
13555327 GAATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTATTTAAATA
Found at i:13555386 original size:14 final size:14
Alignment explanation
Indices: 13555367--13555397 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13555357 CATCAACAAT
13555367 TAAAATTTTCTATA
1 TAAAATTTTCTATA
13555381 TAAAATTTTCTATA
1 TAAAATTTTCTATA
13555395 TAA
1 TAA
13555398 GGAGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAATTTTCTATA
Found at i:13562832 original size:20 final size:21
Alignment explanation
Indices: 13562784--13562832 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
13562774 AGAAGTTGTC
*
13562784 AAAATTTAAATTTTGATTATT
1 AAAATTTAAATATTGATTATT
13562805 AAAA-TTAAA-ATT-ATTATAT
1 AAAATTTAAATATTGATTAT-T
13562824 AAAATTTAA
1 AAAATTTAA
13562833 GTAAACCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 7 0.28
20 9 0.36
21 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AAAATTTAAATATTGATTATT
Found at i:13563176 original size:2 final size:2
Alignment explanation
Indices: 13563169--13563194 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13563159 CTTCATCTTA
13563169 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13563195 TACCAAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13565554 original size:6 final size:6
Alignment explanation
Indices: 13565543--13565577 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
13565533 TCAAGATAAA
* *
13565543 AGGGAG AGGGAG AGGGAG ATGGAG AGGGGG AGGGA
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGA
13565578 TCTCAAAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (6 bp):
AGGGAG
Found at i:13570920 original size:2 final size:2
Alignment explanation
Indices: 13570913--13570939 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13570903 AAAGTTTCTA
13570913 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13570940 AGCCATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13574578 original size:14 final size:15
Alignment explanation
Indices: 13574559--13574588 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13574549 TATATTTAAG
13574559 AATTTTA-TAAATAA
1 AATTTTATTAAATAA
13574573 AATTTTATTAAATAA
1 AATTTTATTAAATAA
13574588 A
1 A
13574589 TATATATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTTATTAAATAA
Found at i:13577270 original size:14 final size:13
Alignment explanation
Indices: 13577253--13577291 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13577243 TGGAAAAAAT
13577253 AAAAAAACATAAA
1 AAAAAAACATAAA
*
13577266 CAAAAAACATAAA
1 AAAAAAACATAAA
*
13577279 AATAAAAAAATAA
1 AA-AAAAACATAA
13577292 GGAGATGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAAAACATAAA
Found at i:13590025 original size:12 final size:13
Alignment explanation
Indices: 13589999--13590023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13589989 ATAATAAATA
13589999 AAAAAATATTTTT
1 AAAAAATATTTTT
13590012 AAAAAATATTTT
1 AAAAAATATTTT
13590024 AATAATCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAAATATTTTT
Found at i:13590104 original size:3 final size:3
Alignment explanation
Indices: 13590096--13590123 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13590086 TTGCAATGCT
13590096 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13590124 GTCAAAGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13607874 original size:31 final size:31
Alignment explanation
Indices: 13607818--13607883 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 31
13607808 TTATATATTT
* *
13607818 TTTTTGTGTAAAATAAATTATAATATGT-AA
1 TTTTTATGTAAAATAAATTATAATATATGAA
13607848 TTTTTATGTAAAATATAATT-TAAATATATGAA
1 TTTTTATGTAAAATA-AATTAT-AATATATGAA
13607880 TTTT
1 TTTT
13607884 AATATTTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (31 bp):
TTTTTATGTAAAATAAATTATAATATATGAA
Found at i:13609209 original size:12 final size:12
Alignment explanation
Indices: 13609186--13609231 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
13609176 TGTAATAAGA
13609186 AAGAAAATAAATC
1 AAGAAAA-AAATC
13609199 AA-AAGAAAAATC
1 AAGAA-AAAAATC
13609211 AGAGAAAAAAATC
1 A-AGAAAAAAATC
13609224 AAGAAAAA
1 AAGAAAAA
13609232 GCAAAGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 15 0.50
13 13 0.43
14 2 0.07
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.09
Consensus pattern (12 bp):
AAGAAAAAAATC
Found at i:13611308 original size:20 final size:20
Alignment explanation
Indices: 13611273--13611324 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
13611263 AATTTAAATT
*
13611273 TTTATATATTATTTTAATAAAA
1 TTTATATA-TATTTAAAT-AAA
*
13611295 TTTTTATATATTTAAATAAA
1 TTTATATATATTTAAATAAA
13611315 TTTATATATA
1 TTTATATATA
13611325 AAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 12 0.44
21 8 0.30
22 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATATATATTTAAATAAA
Found at i:13611332 original size:16 final size:18
Alignment explanation
Indices: 13611297--13611330 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13611287 TAATAAAATT
*
13611297 TTTATATATTTAAATAAA
1 TTTATATATTAAAATAAA
13611315 TTTATATA-TAAAATAA
1 TTTATATATTAAAATAA
13611331 TTATTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATATATTAAAATAAA
Found at i:13613979 original size:16 final size:16
Alignment explanation
Indices: 13613954--13613984 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13613944 TAGTTTGATA
13613954 AAATTCATGAAAAATT
1 AAATTCATGAAAAATT
*
13613970 AAATTTATGAAAAAT
1 AAATTCATGAAAAAT
13613985 ACTCCAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
AAATTCATGAAAAATT
Found at i:13614145 original size:3 final size:3
Alignment explanation
Indices: 13614139--13614163 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13614129 AGTTGAAGAT
13614139 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13614164 AAGAAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13614185 original size:22 final size:23
Alignment explanation
Indices: 13614153--13614210 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
13614143 TAATAATAAT
*
13614153 AATAATAATAAAA-GAAATCTAAAA
1 AATAA-AATAAAATGAAAAC-AAAA
*
13614177 AAT-AAATAAAATGAAAACATAA
1 AATAAAATAAAATGAAAACAAAA
13614199 AATAAAATAAAA
1 AATAAAATAAAA
13614211 AAAGAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 13 0.43
23 14 0.47
24 3 0.10
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (23 bp):
AATAAAATAAAATGAAAACAAAA
Found at i:13614188 original size:18 final size:18
Alignment explanation
Indices: 13614173--13614230 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
13614163 AAAGAAATCT
13614173 AAAAAAT-AAATAAAATG
1 AAAAAATAAAATAAAATG
* *
13614190 AAAACATAAAATAAAATA
1 AAAAAATAAAATAAAATG
* * *
13614208 AAAAAAGAAAAGAAAAGG
1 AAAAAATAAAATAAAATG
13614226 AAAAA
1 AAAAA
13614231 CCTATGAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 6 0.18
18 27 0.82
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAATAAAATG
Found at i:13614198 original size:17 final size:17
Alignment explanation
Indices: 13614139--13614212 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 17
13614129 AGTTGAAGAT
13614139 ATAATAATAATAATAATAATA
1 ATAA-AATAA-AATAA-AA-A
* *
13614160 ATAAAAGAAATCTAAAAA
1 ATAAAATAAA-ATAAAAA
*
13614178 AT-AAATAAAATGAAAAC
1 ATAAAATAAAAT-AAAAA
13614195 ATAAAATAAAATAAAAA
1 ATAAAATAAAATAAAAA
13614212 A
1 A
13614213 AGAAAAGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
16 1 0.02
17 17 0.39
18 12 0.27
19 3 0.07
20 7 0.16
21 4 0.09
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (17 bp):
ATAAAATAAAATAAAAA
Found at i:13615489 original size:30 final size:30
Alignment explanation
Indices: 13615451--13615545 Score: 145
Period size: 30 Copynumber: 3.2 Consensus size: 30
13615441 AAGAAAAATC
*
13615451 TATTAGCTTGCAACAAGCAGTTGATGAATT
1 TATTAGCTTGCAAGAAGCAGTTGATGAATT
* * *
13615481 TGTTAGCTTGCAAGAAGCAGCTGATGAATC
1 TATTAGCTTGCAAGAAGCAGTTGATGAATT
*
13615511 TATTAGCTTGTAAGAAGCAGTTGATGAATT
1 TATTAGCTTGCAAGAAGCAGTTGATGAATT
13615541 TATTA
1 TATTA
13615546 AAAGAAATAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.34
Consensus pattern (30 bp):
TATTAGCTTGCAAGAAGCAGTTGATGAATT
Found at i:13617242 original size:53 final size:53
Alignment explanation
Indices: 13617162--13617269 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
13617152 AAAGTAAGAA
*
13617162 TTTTTTTTTTTTTTATGCTTACTCCTTTCTGCCAATTAATATTGTAGTTTGTC
1 TTTTTTTTTTTTTAATGCTTACTCCTTTCTGCCAATTAATATTGTAGTTTGTC
* *
13617215 TTTTTTTTTTTTTAATGTTTATTCCTTTCTGCCAATTAATATTGTAGTTTGTC
1 TTTTTTTTTTTTTAATGCTTACTCCTTTCTGCCAATTAATATTGTAGTTTGTC
13617268 TT
1 TT
13617270 ATATTTTTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.16, C:0.13, G:0.09, T:0.62
Consensus pattern (53 bp):
TTTTTTTTTTTTTAATGCTTACTCCTTTCTGCCAATTAATATTGTAGTTTGTC
Found at i:13620143 original size:19 final size:19
Alignment explanation
Indices: 13620119--13620155 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13620109 AAGCTTTGTC
13620119 TTCTGCTAACCCTCAAGCA
1 TTCTGCTAACCCTCAAGCA
*
13620138 TTCTGCTACCCCTCAAGC
1 TTCTGCTAACCCTCAAGC
13620156 GTGAACTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.27
Consensus pattern (19 bp):
TTCTGCTAACCCTCAAGCA
Found at i:13621432 original size:30 final size:31
Alignment explanation
Indices: 13621392--13621458 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
13621382 TTATATTATC
* *
13621392 TTTTTGTGTAAAATA-AATTATAATATGTAA
1 TTTTTATGTAAAATATAATTATAATATATAA
*
13621422 TTTTTATGTAAAATATAATTTTAATATATAA
1 TTTTTATGTAAAATATAATTATAATATATAA
*
13621453 ATTTTA
1 TTTTTA
13621459 ATATTTTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (31 bp):
TTTTTATGTAAAATATAATTATAATATATAA
Found at i:13621452 original size:13 final size:14
Alignment explanation
Indices: 13621434--13621462 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13621424 TTTATGTAAA
13621434 ATAT-AATTTTAAT
1 ATATAAATTTTAAT
13621447 ATATAAATTTTAAT
1 ATATAAATTTTAAT
13621461 AT
1 AT
13621463 TTTACATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATAAATTTTAAT
Found at i:13622785 original size:12 final size:12
Alignment explanation
Indices: 13622762--13622807 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
13622752 TGTAATAAGA
13622762 AAGAAAATAAATC
1 AAGAAAA-AAATC
13622775 AA-AAGAAAAATC
1 AAGAA-AAAAATC
13622787 AGAGAAAAAAATC
1 A-AGAAAAAAATC
13622800 AAGAAAAA
1 AAGAAAAA
13622808 GCAAAGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 15 0.50
13 13 0.43
14 2 0.07
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.09
Consensus pattern (12 bp):
AAGAAAAAAATC
Found at i:13627546 original size:16 final size:16
Alignment explanation
Indices: 13627525--13627555 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13627515 TAGTTTGATA
13627525 AAATTCATGAAAAATT
1 AAATTCATGAAAAATT
13627541 AAATTCATGAAAAAT
1 AAATTCATGAAAAAT
13627556 ACTCCAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AAATTCATGAAAAATT
Found at i:13627716 original size:3 final size:3
Alignment explanation
Indices: 13627710--13627761 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
13627700 AGCTGAAGAT
13627710 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
13627756 A-A ATA A
1 ATA ATA A
13627762 AAGAAATCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13627782 original size:22 final size:23
Alignment explanation
Indices: 13627754--13627808 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
13627744 TAATAATAAG
*
13627754 TAAAATAAAA-GAAATCTAAAAAA
1 TAAAATAAAATGAAAAC-AAAAAA
*
13627777 T-AAATAAAATGAAAACATAAAA
1 TAAAATAAAATGAAAACAAAAAA
13627799 TAAAATAAAA
1 TAAAATAAAA
13627809 AAAGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAATAAAATGAAAACAAAAAA
Found at i:13627786 original size:18 final size:17
Alignment explanation
Indices: 13627771--13627810 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13627761 AAAGAAATCT
13627771 AAAAAATAAATAAAATG
1 AAAAAATAAATAAAATG
*
13627788 AAAACATAAAATAAAAT-
1 AAAAAAT-AAATAAAATG
13627805 AAAAAA
1 AAAAAA
13627811 AGAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAATAAATAAAATG
Found at i:13627816 original size:18 final size:18
Alignment explanation
Indices: 13627778--13627820 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13627768 TCTAAAAAAT
* * *
13627778 AAATAAAATGAAAACATA
1 AAATAAAATAAAAAAAGA
13627796 AAATAAAATAAAAAAAGA
1 AAATAAAATAAAAAAAGA
13627814 AAA-AAAA
1 AAATAAAA
13627821 AGGAAAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (18 bp):
AAATAAAATAAAAAAAGA
Done.