Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 62 of 190
Found at i:10251037 original size:7 final size:7
Alignment explanation
Indices: 10250995--10251043 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
10250985 TTTTATATTT
10250995 TTTTGATA
1 TTTTG-TA
10251003 TTTTGTA
1 TTTTGTA
10251010 TTTTGTA
1 TTTTGTA
*
10251017 -TTTATA
1 TTTTGTA
10251023 -TTT-T-
1 TTTTGTA
10251027 TTTTGTA
1 TTTTGTA
10251034 TTTTGTA
1 TTTTGTA
10251041 TTT
1 TTT
10251044 AATAATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
5 4 0.11
6 9 0.24
7 19 0.51
8 5 0.14
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.73
Consensus pattern (7 bp):
TTTTGTA
Found at i:10252825 original size:17 final size:17
Alignment explanation
Indices: 10252798--10252856 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
10252788 ATGATACATC
10252798 AAATATTATAAAAAATTT
1 AAAT-TTATAAAAAATTT
* *
10252816 AAATTTAT--AATA-TA
1 AAATTTATAAAAAATTT
* *
10252830 AAATATATAAAAATTTT
1 AAATTTATAAAAAATTT
10252847 AAATTTATAA
1 AAATTTATAA
10252857 TATTAAATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 2 0.06
17 14 0.45
18 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTTATAAAAAATTT
Found at i:10252840 original size:31 final size:31
Alignment explanation
Indices: 10252798--10252873 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
10252788 ATGATACATC
10252798 AAATATTATAAAAAATTTAAATTTATAATATA
1 AAATA-TATAAAAAATTTAAATTTATAATATA
* *
10252830 AAATATATAAAAATTTTAAATTTATAATATT
1 AAATATATAAAAAATTTAAATTTATAATATA
*
10252861 AAATATACAAAAA
1 AAATATATAAAAA
10252874 TCAAAATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 36 0.88
32 5 0.12
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATATATAAAAAATTTAAATTTATAATATA
Found at i:10261212 original size:20 final size:19
Alignment explanation
Indices: 10261177--10261214 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10261167 TCCTTTCAAC
10261177 AAATAATAAATAATAATAG
1 AAATAATAAATAATAATAG
*
10261196 AAATAGTAAACTAATAATA
1 AAATAATAAA-TAATAATA
10261215 AGAGTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATAATAAATAATAATAG
Found at i:10274564 original size:49 final size:49
Alignment explanation
Indices: 10274429--10274644 Score: 206
Period size: 50 Copynumber: 4.4 Consensus size: 49
10274419 GTAAAAACTA
* * * * *
10274429 TTTCAAATATGAGATTTTAAAGTTTTAAAGCCTCTATTAAGTA-TGAGCT
1 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTTTATTTAGAAGT-AGCT
* * *
10274478 TTTTAAAGATGATATTTTTAAAGTTTCAAAGCCTTTATTTAGGAGTAGCT
1 TTTCAAAGATGAGA-TTTTAAAGTTTCAAAGCCTTTATTTAGAAGTAGCT
*
10274528 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCTTTTATTTAAGAAGT-GCT
1 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTTTATTT-AGAAGTAGCT
* * * * * * *
10274577 TTTTAAATATGAGAATTATAGAGTTTCAAAACCTTTATTCGAGAA-AAGCT
1 TTTCAAAGATGAG-ATTTTAAAGTTTCAAAGCCTTTATT-TAGAAGTAGCT
10274627 GTTTC-AAGATGAGATTTT
1 -TTTCAAAGATGAGATTTT
10274645 CAAAAGTTGT
Statistics
Matches: 138, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
49 53 0.38
50 81 0.59
51 4 0.03
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.41
Consensus pattern (49 bp):
TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTTTATTTAGAAGTAGCT
Found at i:10274602 original size:99 final size:99
Alignment explanation
Indices: 10274429--10274615 Score: 250
Period size: 99 Copynumber: 1.9 Consensus size: 99
10274419 GTAAAAACTA
* * * * *
10274429 TTTCAAATATGAGATTTTAAAGTTTTAAAGCCTCTATTAAGTATGAGCTTTTTAAAGATGATATT
1 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTCTATTAAGTAAGAGCTTTTTAAAGATGAGAAT
* *
10274494 TTTAAAGTTTCAAAGCCTTTATTTAGGAGTAGCT
66 TATAAAGTTTCAAAACCTTTATTTAGGAGTAGCT
* * * *
10274528 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCTTTTATTTAAG-AAGTGCTTTTTAAATATGAGAA
1 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTCTA-TTAAGTAAGAGCTTTTTAAAGATGAGAA
*
10274592 TTATAGAGTTTCAAAACCTTTATT
65 TTATAAAGTTTCAAAACCTTTATT
10274616 CGAGAAAAGC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
99 70 0.93
100 5 0.07
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (99 bp):
TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTCTATTAAGTAAGAGCTTTTTAAAGATGAGAAT
TATAAAGTTTCAAAACCTTTATTTAGGAGTAGCT
Found at i:10274636 original size:99 final size:99
Alignment explanation
Indices: 10274429--10274644 Score: 249
Period size: 99 Copynumber: 2.2 Consensus size: 99
10274419 GTAAAAACTA
* * * * *
10274429 TTTCAAATATGAGATTTTAAAGTTTTAAAGCCTCTATTAAGTATGAGCTTTTTAAAGATGATATT
1 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTCTATTAAGTAAGAGCTTTTTAAAGATGAGAAT
* * * **
10274494 TTTAAAGTTTCAAAGCCTTTATTTAGGAGTAGCT
66 TATAAAGTTTCAAAACCTTTATTGAGGAAAAGCT
* * * *
10274528 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCTTTTATTTAAG-AAGTGCTTTTTAAATATGAGAA
1 TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTCTA-TTAAGTAAGAGCTTTTTAAAGATGAGAA
*
10274592 TTATAGAGTTTCAAAACCTTTATTCGA-GAAAAGCT
65 TTATAAAGTTTCAAAACCTTTATT-GAGGAAAAGCT
10274627 GTTTC-AAGATGAGATTTT
1 -TTTCAAAGATGAGATTTT
10274645 CAAAAGTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
99 89 0.90
100 10 0.10
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.41
Consensus pattern (99 bp):
TTTCAAAGATGAGATTTTAAAGTTTCAAAGCCTCTATTAAGTAAGAGCTTTTTAAAGATGAGAAT
TATAAAGTTTCAAAACCTTTATTGAGGAAAAGCT
Found at i:10274711 original size:46 final size:46
Alignment explanation
Indices: 10274640--10274784 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 46
10274630 TCAAGATGAG
* * * *
10274640 ATTTTCAAAAGTTGTGGAGCCTTTGCTTAAATGAGTTTTTAAATTT
1 ATTTTCGAAAGTTGTGAAACATTTGCTTAAATGAGTTTTTAAATTT
* * * ** *
10274686 ATTTTTGAAAGTTGTGAAACTTTTGCTTAAATAAACTTTTCAATTT
1 ATTTTCGAAAGTTGTGAAACATTTGCTTAAATGAGTTTTTAAATTT
* * *
10274732 GTTTTCGAAAATTGT-AAAGCATTTGCTTAAAGGAGTTTTTTAAATTT
1 ATTTTCGAAAGTTGTGAAA-CATTTGCTTAAATGAG-TTTTTAAATTT
10274779 ATTTTC
1 ATTTTC
10274785 AAAAAATGGT
Statistics
Matches: 78, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
45 3 0.04
46 61 0.78
47 14 0.18
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.47
Consensus pattern (46 bp):
ATTTTCGAAAGTTGTGAAACATTTGCTTAAATGAGTTTTTAAATTT
Found at i:10274844 original size:15 final size:16
Alignment explanation
Indices: 10274826--10274869 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
10274816 ACCAAAAAAG
10274826 AAAACAATAAAAATA-
1 AAAACAATAAAAATAT
*
10274841 AAAACAACAAAAATAT
1 AAAACAATAAAAATAT
10274857 AAAA-AATACAAAA
1 AAAACAATA-AAAA
10274870 ACAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAACAATAAAAATAT
Found at i:10274860 original size:17 final size:16
Alignment explanation
Indices: 10274826--10274870 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
10274816 ACCAAAAAAG
10274826 AAAACAATAAAAATAAA
1 AAAACAA-AAAAATAAA
*
10274843 AACAACAAAAATATAAA
1 AA-AACAAAAAAATAAA
10274860 AAATACAAAAA
1 AAA-ACAAAAA
10274871 CAAAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 19 0.76
18 5 0.20
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAACAAAAAAATAAA
Found at i:10277644 original size:6 final size:6
Alignment explanation
Indices: 10277623--10277661 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
10277613 ATTTCCTTTC
10277623 AATAAA TAAT-AA AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA -AATAAA AATAAA AATAAA AATAAA AATAAA AAT
10277662 CTTTGAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 3 0.10
6 25 0.81
7 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:10279706 original size:16 final size:16
Alignment explanation
Indices: 10279669--10279721 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10279659 TAAAATTTTG
*
10279669 AAAATTTCAA-AAAAT
1 AAAATTTTAATAAAAT
*
10279684 GATAATTTTAATAAAAT
1 -AAAATTTTAATAAAAT
*
10279701 AAAATTTTATTAAAAAT
1 AAAATTTTAAT-AAAAT
10279718 AAAA
1 AAAA
10279722 AAAATTGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAATTTTAATAAAAT
Found at i:10279956 original size:17 final size:18
Alignment explanation
Indices: 10279934--10279969 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10279924 AATGTTTCAG
*
10279934 ATTTTTCA-AAATTTTTA
1 ATTTTTCATAAAATTTTA
10279951 ATTTTTCATAAAATTTTA
1 ATTTTTCATAAAATTTTA
10279969 A
1 A
10279970 AATTTTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTCATAAAATTTTA
Found at i:10279975 original size:19 final size:19
Alignment explanation
Indices: 10279941--10279995 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
10279931 CAGATTTTTC
* * *
10279941 AAAATTTTTAATTTTTCAT
1 AAAATTTTAAAATTTTCAG
*
10279960 AAAATTTTAAAATTTTTAG
1 AAAATTTTAAAATTTTCAG
*
10279979 AATTATTTTAAAATTTT
1 AA-AATTTTAAAATTTT
10279996 TTTGAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
AAAATTTTAAAATTTTCAG
Found at i:10279975 original size:20 final size:19
Alignment explanation
Indices: 10279941--10279996 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
10279931 CAGATTTTTC
* *
10279941 AAAATTTT-TAATTTTTCAT
1 AAAATTTTAAAATTTTT-AG
10279960 AAAATTTTAAAATTTTTAG
1 AAAATTTTAAAATTTTTAG
*
10279979 AATTATTTTAAAATTTTT
1 AA-AATTTTAAAATTTTT
10279997 TTGAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.34
20 21 0.66
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
AAAATTTTAAAATTTTTAG
Found at i:10280012 original size:19 final size:19
Alignment explanation
Indices: 10279963--10280014 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
10279953 TTTTCATAAA
* *
10279963 ATTTTAAAATTTTTAGAATT
1 ATTTTAAATTTTTTTGAA-T
10279983 ATTTTAAAATTTTTTTGAAT
1 ATTTT-AAATTTTTTTGAAT
*
10280003 ATTTTTAATTTT
1 ATTTTAAATTTT
10280015 CAAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 6 0.21
20 11 0.39
21 11 0.39
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
ATTTTAAATTTTTTTGAAT
Found at i:10280084 original size:27 final size:27
Alignment explanation
Indices: 10280027--10280085 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
10280017 AAAAATTATT
* *
10280027 TTTTTCAAATTTTCATTTTTTTTGCAT
1 TTTTTCAAATTTTCATTTTTTTTGAAA
* *
10280054 TTTTTCAAATTTT-TTTTTATTTTTAAA
1 TTTTTCAAATTTTCATTTT-TTTTGAAA
10280081 TTTTT
1 TTTTT
10280086 ATTAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTTTCAAATTTTCATTTTTTTTGAAA
Found at i:10280178 original size:30 final size:30
Alignment explanation
Indices: 10280137--10280205 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
10280127 TATTTTTTAA
*
10280137 TTTTTATAA-TTTTAAAAAATATTTTAGATT
1 TTTTTAAAATTTTTAAAAAA-ATTTTAGATT
***
10280167 TTTTTAAAATTTTTTTTAAAATTTTAGATT
1 TTTTTAAAATTTTTAAAAAAATTTTAGATT
10280197 TTTTTAAAA
1 TTTTTAAAA
10280206 AGTTTTTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTTAAAATTTTTAAAAAAATTTTAGATT
Found at i:10280180 original size:12 final size:12
Alignment explanation
Indices: 10280165--10280191 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10280155 ATATTTTAGA
10280165 TTTTTTTAAAAT
1 TTTTTTTAAAAT
10280177 TTTTTTTAAAAT
1 TTTTTTTAAAAT
10280189 TTT
1 TTT
10280192 AGATTTTTTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTTAAAAT
Found at i:10280191 original size:9 final size:9
Alignment explanation
Indices: 10280072--10280180 Score: 67
Period size: 9 Copynumber: 11.7 Consensus size: 9
10280062 ATTTTTTTTT
10280072 ATTTTTAAA
1 ATTTTTAAA
*
10280081 TTTTTATTAAA
1 -ATTT-TTAAA
* *
10280092 ATTTTGAAG
1 ATTTTTAAA
10280101 ATTTTTAAA
1 ATTTTTAAA
10280110 ATTTTTAAA
1 ATTTTTAAA
* **
10280119 ATTTTCATT
1 ATTTTTAAA
*
10280128 ATTTTT-TA
1 ATTTTTAAA
*
10280136 ATTTTTATA
1 ATTTTTAAA
*
10280145 ATTTTAAAAA
1 ATTTT-TAAA
*
10280155 ATATTTTAGAT
1 AT-TTTTA-AA
*
10280166 TTTTTTAAA
1 ATTTTTAAA
10280175 ATTTTT
1 ATTTTT
10280181 TTTAAAATTT
Statistics
Matches: 76, Mismatches: 18, Indels: 11
0.72 0.17 0.10
Matches are distributed among these distances:
8 7 0.09
9 43 0.57
10 16 0.21
11 10 0.13
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:10280191 original size:20 final size:20
Alignment explanation
Indices: 10280168--10280211 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10280158 TTTTAGATTT
*
10280168 TTTTAAAATTTTTTTTAAAA-
1 TTTT-AAATTTTTTTAAAAAG
*
10280188 TTTTAGATTTTTTTAAAAAG
1 TTTTAAATTTTTTTAAAAAG
10280208 TTTT
1 TTTT
10280212 TGTAACTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTAAATTTTTTTAAAAAG
Found at i:10280640 original size:21 final size:21
Alignment explanation
Indices: 10280616--10280666 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
10280606 TTAAATAAAT
*
10280616 TAAAT-AATATTATTTCATTAA
1 TAAATAAATATTAATT-ATTAA
10280637 TAAATAAATATTAATTATT-A
1 TAAATAAATATTAATTATTAA
10280657 -AAATAAATAT
1 TAAATAAATAT
10280667 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.36
20 1 0.04
21 8 0.29
22 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATAAATATTAATTATTAA
Found at i:10280680 original size:14 final size:14
Alignment explanation
Indices: 10280632--10280680 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
10280622 ATATTATTTC
* *
10280632 ATTAATAAATAAAT
1 ATTAATATATAAAA
*
10280646 ATTAAT-TATTAAA
1 ATTAATATATAAAA
*
10280659 ATAAATATATAAAA
1 ATTAATATATAAAA
10280673 ATTAATAT
1 ATTAATAT
10280681 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAATATATAAAA
Found at i:10280697 original size:16 final size:17
Alignment explanation
Indices: 10280668--10280714 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
10280658 AATAAATATA
*
10280668 TAAAAATTAATATTTTT
1 TAAAAATTAATATTTAT
*
10280685 TAAAAATT-TTATTTAT
1 TAAAAATTAATATTTAT
*
10280701 TAATAAAATAATAT
1 TAA-AAATTAATAT
10280715 CATCTGATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 9 0.38
17 12 0.50
18 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAAAATTAATATTTAT
Found at i:10280951 original size:3 final size:3
Alignment explanation
Indices: 10280943--10280968 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10280933 ACAGCATTTT
10280943 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
10280969 TTTAGCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:10282990 original size:59 final size:60
Alignment explanation
Indices: 10282894--10283134 Score: 317
Period size: 59 Copynumber: 4.0 Consensus size: 60
10282884 TCTTGTGTAG
10282894 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTT-ATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTTGATTTTTAA
* * * * * *
10282953 GGAAAATTGATACTTCCAACTTTTCCTCAAAAGTATTTTTTTTTTGAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAA-AATATTTTTTTTGAAAATTTGATTTTTAA
* * *
10283015 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATCTCTTTTTTGAAAATTT-ACTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTTGAAAATTTGATTTTTAA
* * * *
10283074 GAAAAATCGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAATTTTGATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTTGATTTTTAA
10283134 G
1 G
10283135 GAAAGAAAAT
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 74 0.47
60 29 0.18
61 20 0.13
62 33 0.21
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (60 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTTGATTTTTAA
Found at i:10283111 original size:121 final size:121
Alignment explanation
Indices: 10282894--10283115 Score: 349
Period size: 121 Copynumber: 1.8 Consensus size: 121
10282884 TCTTGTGTAG
* * *
10282894 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATCTTTTTTGAAAATTTACTTTTAAGAAAAA
* *
10282959 TTGATACTTCCAACTTTTCCTCAAAAGTATTTTTTTTTTGAAACTTTGATTTTCAA
66 TCGATACTTCCAACTTTTCCTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAA
*
10283015 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATCTCTTTTTTGAAAATTTACTTTTAAGAAAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAAATATCTTTTTTGAAAATTTACTTTTAAGAAAA
*
10283079 ATCGATACTTTCAACTTTTCC-CTAAAAATATTTTTTT
65 ATCGATACTTCCAACTTTTCCTC-AAAAATATTTTTTT
10283116 AGAAATTTTG
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
120 1 0.01
121 90 0.98
122 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (121 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATCTTTTTTGAAAATTTACTTTTAAGAAAAA
TCGATACTTCCAACTTTTCCTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAA
Found at i:10283180 original size:6 final size:6
Alignment explanation
Indices: 10283169--10283230 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
10283159 AAGTGAAAAT
* * *
10283169 AAATAA AAATAA AAA-AT AAAGAA AAGT-A AAATAA AAATAA AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
10283214 AGATAA AGATAA AAATA
1 AAATAA AAATAA AAATA
10283231 TTAAATAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 12 0.26
6 34 0.74
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:10283189 original size:28 final size:28
Alignment explanation
Indices: 10283150--10283211 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 28
10283140 AAAATAGAAT
**
10283150 AATAAAAAAAAGTGAAAA-T-AAATAAA
1 AATAAAAAAAAAAGAAAAGTAAAATAAA
*
10283176 AATAAAAAATAAAGAAAAGTAAAATAAA
1 AATAAAAAAAAAAGAAAAGTAAAATAAA
10283204 AATAAAAA
1 AATAAAAA
10283212 TAAGATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.48
27 1 0.03
28 15 0.48
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (28 bp):
AATAAAAAAAAAAGAAAAGTAAAATAAA
Found at i:10283210 original size:17 final size:17
Alignment explanation
Indices: 10283140--10283230 Score: 73
Period size: 17 Copynumber: 5.4 Consensus size: 17
10283130 TTAAGGAAAG
*
10283140 AAAATAGAATAATAAA-A
1 AAAATAAAATAA-AAATA
10283157 AAAAGTGAAAAT--AAATA
1 AAAA-T-AAAATAAAAATA
*
10283174 AAAATAAAA-AATAAAGA
1 AAAATAAAATAA-AAATA
*
10283191 AAAGTAAAATAAAAATA
1 AAAATAAAATAAAAATA
* *
10283208 AAAATAAGATAAAGATA
1 AAAATAAAATAAAAATA
10283225 AAAATA
1 AAAATA
10283231 TTAAATAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.07
16 4 0.07
17 45 0.75
18 3 0.05
19 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:10283226 original size:28 final size:28
Alignment explanation
Indices: 10283140--10283227 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 28
10283130 TTAAGGAAAG
*
10283140 AAAATAGAATAATAAAAAAAAG-TGAAA-AT
1 AAAATA-AA-AATAAAAATAAGAT-AAAGAT
10283169 -AAATAAAAATAAAAAATAAAGA-AAAG-T
1 AAAATAAAAAT-AAAAAT-AAGATAAAGAT
10283196 AAAATAAAAATAAAAATAAGATAAAGAT
1 AAAATAAAAATAAAAATAAGATAAAGAT
10283224 AAAA
1 AAAA
10283228 ATATTAAATA
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
26 7 0.14
27 21 0.41
28 23 0.45
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (28 bp):
AAAATAAAAATAAAAATAAGATAAAGAT
Found at i:10284140 original size:31 final size:29
Alignment explanation
Indices: 10284105--10284208 Score: 86
Period size: 32 Copynumber: 3.4 Consensus size: 29
10284095 TAAAAATCAA
10284105 ATAAATATAAAAAAATAGATA-ATTAGAACAG
1 ATAAATA-AAAAAAATAGATATATTA-AA-AG
* * *
10284136 ATAAATCGAAAAAAATAGATATATTATAGG
1 ATAAAT-AAAAAAAATAGATATATTAAAAG
*
10284166 ATAAATAAAAAAAATAACAGATATA-TAATTAG
1 ATAAATAAAAAAAAT---AGATATATTAA-AAG
10284198 ATAAATAAAAA
1 ATAAATAAAAA
10284209 TAAAAATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
29 8 0.13
30 7 0.12
31 22 0.37
32 23 0.38
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (29 bp):
ATAAATAAAAAAAATAGATATATTAAAAG
Found at i:10284169 original size:30 final size:30
Alignment explanation
Indices: 10284105--10284181 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
10284095 TAAAAATCAA
10284105 ATAAATATAAAAAAATAGATAATTAGAACAG
1 ATAAATA-AAAAAAATAGATAATTAGAACAG
* * *
10284136 ATAAATCGAAAAAAATAGATATATTA-TA-GG
1 ATAAAT-AAAAAAAATAGATA-ATTAGAACAG
10284166 ATAAATAAAAAAAATA
1 ATAAATAAAAAAAATA
10284182 ACAGATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 9 0.22
30 7 0.17
31 20 0.50
32 4 0.10
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (30 bp):
ATAAATAAAAAAAATAGATAATTAGAACAG
Found at i:10284201 original size:32 final size:31
Alignment explanation
Indices: 10284144--10284214 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 31
10284134 AGATAAATCG
* *
10284144 AAAAAAATAGATATATTATAGGATAAATAAA
1 AAAAAAACAGATATATAATAGGATAAATAAA
10284175 AAAAATAACAGATATATAATTA-GATAAATAAA
1 AAAAA-AACAGATATATAA-TAGGATAAATAAA
10284207 AATAAAAA
1 AA-AAAAA
10284215 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 5 0.14
32 25 0.71
33 5 0.14
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (31 bp):
AAAAAAACAGATATATAATAGGATAAATAAA
Found at i:10284208 original size:30 final size:29
Alignment explanation
Indices: 10284105--10284213 Score: 83
Period size: 31 Copynumber: 3.5 Consensus size: 29
10284095 TAAAAATCAA
* * * *
10284105 ATAAATATAAAAAAATAGATAATTAGAACAG
1 ATAAATAAAAAAAAACAGAT-A-TATAATAG
** * *
10284136 ATAAATCGAAAAAAATAGATATATTATAGG
1 ATAAATAAAAAAAAACAGATATATAATA-G
10284166 ATAAATAAAAAAAATAACAGATATATAATTAG
1 ATAAAT-AAAAAAA-AACAGATATATAA-TAG
10284198 ATAAATAAAAATAAAA
1 ATAAATAAAAA-AAAA
10284214 ATAAAAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
29 4 0.06
30 8 0.12
31 30 0.47
32 20 0.31
33 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (29 bp):
ATAAATAAAAAAAAACAGATATATAATAG
Found at i:10284211 original size:6 final size:6
Alignment explanation
Indices: 10284200--10284260 Score: 63
Period size: 6 Copynumber: 9.8 Consensus size: 6
10284190 ATAATTAGAT
*
10284200 AAATAA AAATAA AAATAA AAAT-- AAATAA AATATAA AAATAA TAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATAA AAATAA AAATAA
10284247 TATAATAA TAAATA
1 -A-AATAA -AAATA
10284261 TATAACTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
4 4 0.08
6 27 0.56
7 10 0.21
8 7 0.15
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
AAATAA
Found at i:10284236 original size:17 final size:17
Alignment explanation
Indices: 10284206--10284260 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
10284196 AGATAAATAA
10284206 AAATAAAA-ATAAAAAT
1 AAATAAAATATAAAAAT
10284222 AAATAAAATATAAAAAT
1 AAATAAAATATAAAAAT
*
10284239 -AATAATAATATAATAAT
1 AAATAA-AATATAAAAAT
10284256 AAATA
1 AAATA
10284261 TATAACTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 13 0.37
17 18 0.51
18 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAAATATAAAAAT
Found at i:10284257 original size:23 final size:22
Alignment explanation
Indices: 10284198--10284277 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 22
10284188 ATATAATTAG
*
10284198 ATAAATAAAAATAAAAATAAAA
1 ATAAATAAAAATAAAAATAATA
10284220 ATAAATAAAATATAAAAATAATA
1 ATAAATAAAA-ATAAAAATAATA
*
10284243 ATAATATAATAATAAATATATAACTA
1 ATAA-ATAAAAATAAA-A-ATAA-TA
10284269 TATAAATAA
1 -ATAAATAA
10284278 TATACATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
22 10 0.20
23 20 0.40
24 6 0.12
25 4 0.08
26 6 0.12
27 4 0.08
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (22 bp):
ATAAATAAAAATAAAAATAATA
Found at i:10284265 original size:8 final size:8
Alignment explanation
Indices: 10284186--10284377 Score: 58
Period size: 8 Copynumber: 25.4 Consensus size: 8
10284176 AAAATAACAG
10284186 ATATATAA
1 ATATATAA
* *
10284194 TTAGATAA
1 ATATATAA
10284202 ATA-A-AA
1 ATATATAA
10284208 ATA-A-AA
1 ATATATAA
10284214 ATA-A-AA
1 ATATATAA
*
10284220 ATAAATAA
1 ATATATAA
10284228 A-ATATAA
1 ATATATAA
*
10284235 AAATA-ATA
1 ATATATA-A
10284243 ATA-ATATA
1 ATATATA-A
10284251 ATA-ATAA
1 ATATATAA
10284258 ATATATAA
1 ATATATAA
*
10284266 CTATATAA
1 ATATATAA
*
10284274 ATAATATAC
1 AT-ATATAA
10284283 ATATA-AA
1 ATATATAA
* *
10284290 TCTATTCTAA
1 -ATA-TATAA
*
10284300 ATA-AAAA
1 ATATATAA
10284307 AT-TAATAA
1 ATAT-ATAA
*
10284315 ATAAATAA
1 ATATATAA
* *
10284323 ATAAATAC
1 ATATATAA
* *
10284331 AGATATAC
1 ATATATAA
*
10284339 ATATATTA
1 ATATATAA
*
10284347 ATACAT-A
1 ATATATAA
10284354 ATA-AT-A
1 ATATATAA
10284360 ATA-ATAA
1 ATATATAA
*
10284367 ATATAAAA
1 ATATATAA
10284375 ATA
1 ATA
10284378 CAAAAAAAAT
Statistics
Matches: 145, Mismatches: 24, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
6 25 0.17
7 27 0.19
8 81 0.56
9 10 0.07
10 2 0.01
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.31
Consensus pattern (8 bp):
ATATATAA
Found at i:10284288 original size:15 final size:15
Alignment explanation
Indices: 10284242--10284290 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
10284232 TAAAAATAAT
10284242 AATAATATA-ATAATA
1 AATAATATACAT-ATA
10284257 AAT-ATATAACTATATA
1 AATAATAT-AC-ATATA
10284273 AATAATATACATATA
1 AATAATATACATATA
10284288 AAT
1 AAT
10284291 CTATTCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 8 0.27
17 6 0.20
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATACATATA
Found at i:10284317 original size:4 final size:4
Alignment explanation
Indices: 10284297--10284329 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
10284287 AAATCTATTC
*
10284297 TAAA TAAA -AAA TTAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
10284330 CAGATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:10284435 original size:20 final size:21
Alignment explanation
Indices: 10284412--10284452 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
10284402 GGCCTTACCC
10284412 ATTTGGGCCAGG-CCCAATTG
1 ATTTGGGCCAGGACCCAATTG
*
10284432 ATTTGGGCCTGGACCCAATTG
1 ATTTGGGCCAGGACCCAATTG
10284453 GGTGTCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (21 bp):
ATTTGGGCCAGGACCCAATTG
Found at i:10286550 original size:22 final size:22
Alignment explanation
Indices: 10286515--10286565 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
10286505 TGATCCCATG
*
10286515 CTTTGAATAATACTTTTCAAAAT
1 CTTTGAACAATACTTTTC-AAAT
*
10286538 -TTTGAACAGTACTTTTCAAAT
1 CTTTGAACAATACTTTTCAAAT
10286559 CTTTGAA
1 CTTTGAA
10286566 TGTGTATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (22 bp):
CTTTGAACAATACTTTTCAAAT
Found at i:10289421 original size:24 final size:24
Alignment explanation
Indices: 10289354--10289422 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
10289344 TTTTAACAAA
*
10289354 ATTATTAAAATATTAAAAATT-TTT
1 ATTATTAAAATATT-AATATTATTT
* *
10289378 ATTATTAAAACATTAGTATTATTT
1 ATTATTAAAATATTAATATTATTT
10289402 ATTA-TAAAATAATTAATATTA
1 ATTATTAAAAT-ATTAATATTA
10289423 AAAAATACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 9 0.24
24 29 0.76
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
ATTATTAAAATATTAATATTATTT
Found at i:10289436 original size:16 final size:17
Alignment explanation
Indices: 10289401--10289462 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
10289391 TAGTATTATT
*
10289401 TATTATAAAATAATTAA
1 TATTAAAAAATAATTAA
*
10289418 TATTAAAAAATACTT-A
1 TATTAAAAAATAATTAA
*
10289434 TATTTCGAAAATAATATTTAA
1 TA-TT--AAAA-AATAATTAA
10289455 TATTAAAA
1 TATTAAAA
10289463 TATTATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 3 0.08
17 15 0.41
18 4 0.11
19 4 0.11
20 8 0.22
21 3 0.08
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (17 bp):
TATTAAAAAATAATTAA
Found at i:10289635 original size:25 final size:25
Alignment explanation
Indices: 10289579--10289636 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
10289569 AATATAATAA
*
10289579 TATTAAAA-A-TACTAATGTTTATC
1 TATTAAAATATTACTAATATTTATC
10289602 -ATTAAAATATTA-TAATATTTATAC
1 TATTAAAATATTACTAATATTTAT-C
10289626 TATTAAAATAT
1 TATTAAAATAT
10289637 ATTTGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.23
23 10 0.33
24 3 0.10
25 10 0.33
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (25 bp):
TATTAAAATATTACTAATATTTATC
Found at i:10289834 original size:33 final size:34
Alignment explanation
Indices: 10289762--10289838 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
10289752 TTAAATTTAA
10289762 TAAAACTAATAAATTATTAAAAAAATTCATATTGT
1 TAAAA-TAATAAATTATTAAAAAAATTCATATTGT
*
10289797 TAAAATAATATAA-TATTAAATAATATT-A-ATTGT
1 TAAAATAATA-AATTATTAAA-AAAATTCATATTGT
10289830 TAAAATAAT
1 TAAAATAAT
10289839 TAAAAAATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
33 14 0.36
34 13 0.33
35 12 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (34 bp):
TAAAATAATAAATTATTAAAAAAATTCATATTGT
Found at i:10289840 original size:16 final size:16
Alignment explanation
Indices: 10289762--10289841 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 16
10289752 TTAAATTTAA
*
10289762 TAAAACTAATAAATTAT
1 TAAAA-TAATTAATTAT
* *
10289779 TAAAAAAATTCATATTGT
1 TAAAATAATT-A-ATTAT
10289797 TAAAATAATATAA-TAT
1 TAAAATAAT-TAATTAT
*
10289813 T-AAATAATATTAATTGT
1 TAAAAT-A-ATTAATTAT
10289830 TAAAATAATTAA
1 TAAAATAATTAA
10289842 AAAATCAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
15 4 0.08
16 15 0.30
17 13 0.26
18 17 0.34
19 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAAATAATTAATTAT
Found at i:10289974 original size:20 final size:19
Alignment explanation
Indices: 10289937--10289974 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10289927 ACAATATATA
*
10289937 TTTTATTTTTTAATTAAAT
1 TTTTATTTTTTAAATAAAT
10289956 TTTTATTTTTCTAAATAAA
1 TTTTATTTTT-TAAATAAA
10289975 CTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATTTTTTAAATAAAT
Found at i:10289979 original size:19 final size:19
Alignment explanation
Indices: 10289938--10289979 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10289928 CAATATATAT
* *
10289938 TTTATTTTTTAATTAAATT
1 TTTATTTTTTAAATAAATC
10289957 TTTATTTTTCTAAATAAA-C
1 TTTATTTTT-TAAATAAATC
10289976 TTTA
1 TTTA
10289980 AAAATATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTTTTTAAATAAATC
Found at i:10296235 original size:19 final size:19
Alignment explanation
Indices: 10296197--10296234 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
10296187 TTCAATTAAA
10296197 ATTAAATAATAATATTTTT
1 ATTAAATAATAATATTTTT
10296216 ATTAATATAATAATATTTT
1 ATTAA-ATAATAATATTTT
10296235 AAATTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAAATAATAATATTTTT
Found at i:10298292 original size:22 final size:21
Alignment explanation
Indices: 10298244--10298293 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
10298234 GAAGAAAAAA
*
10298244 AAGC-AAAAACTAAACCAAAT
1 AAGCTAAAAAATAAACCAAAT
10298264 AGTAGCTAAAAAATAGAACCAAAT
1 A--AGCTAAAAAATA-AACCAAAT
10298288 AAGCTA
1 AAGCTA
10298294 CTAACATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 8 0.32
23 7 0.28
24 9 0.36
ACGTcount: A:0.60, C:0.16, G:0.10, T:0.14
Consensus pattern (21 bp):
AAGCTAAAAAATAAACCAAAT
Found at i:10298406 original size:23 final size:22
Alignment explanation
Indices: 10298375--10298424 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
10298365 TCATAACCTT
*
10298375 AAAATATGCTTAAAATGAAACCA
1 AAAAAATGCTTAAAATGAAA-CA
* *
10298398 AAAAAATGCTTTAAATGGAACA
1 AAAAAATGCTTAAAATGAAACA
10298420 AAAAA
1 AAAAA
10298425 CTCATAGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (22 bp):
AAAAAATGCTTAAAATGAAACA
Found at i:10298734 original size:21 final size:21
Alignment explanation
Indices: 10298710--10298753 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10298700 CCTAAACTAT
*
10298710 CATGAAACCATAATAAAATAG
1 CATGAAACCAGAATAAAATAG
* *
10298731 CATGAAACTAGATTAAAATAG
1 CATGAAACCAGAATAAAATAG
10298752 CA
1 CA
10298754 AGCAAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (21 bp):
CATGAAACCAGAATAAAATAG
Found at i:10300113 original size:31 final size:30
Alignment explanation
Indices: 10300044--10300114 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
10300034 TATCGTGAAT
* *
10300044 TAAACCCTAAACCCTAACTCTAACTCTAAC
1 TAAACCTTAAACCCTAACTCTAACCCTAAC
**
10300074 TGTCACCTTAAACCCTAAC-CTAACCCTAAACC
1 T-AAACCTTAAACCCTAACTCTAACCCT-AA-C
10300106 TAAACCTTA
1 TAAACCTTA
10300115 GATCTTATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
30 8 0.25
31 22 0.69
32 2 0.06
ACGTcount: A:0.38, C:0.37, G:0.01, T:0.24
Consensus pattern (30 bp):
TAAACCTTAAACCCTAACTCTAACCCTAAC
Found at i:10302388 original size:15 final size:15
Alignment explanation
Indices: 10302327--10302393 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
10302317 ATTTTTTTAT
*
10302327 TTTAGGG-TTTGGGG
1 TTTAGGGTTTTGAGG
* *
10302341 TTTAAGGTTTTGA-T
1 TTTAGGGTTTTGAGG
* *
10302355 TTTAAGGTGTTGAAGG
1 TTTAGGGTTTTG-AGG
10302371 TTTAGGGTTTTGAGG
1 TTTAGGGTTTTGAGG
10302386 TTTTAGGG
1 -TTTAGGG
10302394 CTTGAATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 17 0.40
15 8 0.19
16 17 0.40
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTTGAGG
Found at i:10302456 original size:30 final size:29
Alignment explanation
Indices: 10302421--10302550 Score: 99
Period size: 28 Copynumber: 4.5 Consensus size: 29
10302411 GGAAAGTTTG
10302421 GGGTTTAGGGTTTT-AGTTTTAAGGTTTAAA
1 GGGTTTAGGGTTTTGA-TTTTAAGGTTT-AA
** *
10302451 GGGTTTAATGTTTTGATTTTAGGGTTTAA
1 GGGTTTAGGGTTTTGATTTTAAGGTTTAA
* * * *
10302480 -GGTTTGGGGTTTCGATTTTAGGGTTTGA
1 GGGTTTAGGGTTTTGATTTTAAGGTTTAA
* *
10302508 -GGTTTGGGGTTTCGATTTT-AGAGTTT-A
1 GGGTTTAGGGTTTTGATTTTAAG-GTTTAA
10302535 GTTGGTTTAGGGTTTT
1 G--GGTTTAGGGTTTT
10302551 TTTTTTTAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.02
28 46 0.55
29 2 0.02
30 33 0.39
31 1 0.01
ACGTcount: A:0.16, C:0.02, G:0.33, T:0.49
Consensus pattern (29 bp):
GGGTTTAGGGTTTTGATTTTAAGGTTTAA
Found at i:10302496 original size:28 final size:28
Alignment explanation
Indices: 10302460--10302534 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
10302450 AGGGTTTAAT
*
10302460 GTTTTGATTTTAGGGTTTAAGGTTTGGG
1 GTTTCGATTTTAGGGTTTAAGGTTTGGG
*
10302488 GTTTCGATTTTAGGGTTTGAGGTTTGGG
1 GTTTCGATTTTAGGGTTTAAGGTTTGGG
*
10302516 GTTTCGATTTTAGAGTTTA
1 GTTTCGATTTTAGGGTTTA
10302535 GTTGGTTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.49
Consensus pattern (28 bp):
GTTTCGATTTTAGGGTTTAAGGTTTGGG
Found at i:10303030 original size:14 final size:13
Alignment explanation
Indices: 10303004--10303063 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 13
10302994 AAACATGAAT
10303004 AAATAACAATAATA
1 AAATAA-AATAATA
10303018 AAACTAAAATAATA
1 AAA-TAAAATAATA
10303032 TAAATAATATATTAA-A
1 -AAATAA-A-A-TAATA
*
10303048 AAATAAAAAAATA
1 AAATAAAATAATA
10303061 AAA
1 AAA
10303064 AAACTACCTG
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
12 2 0.05
13 5 0.13
14 14 0.36
15 13 0.33
16 2 0.05
17 3 0.08
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:10305824 original size:9 final size:9
Alignment explanation
Indices: 10305808--10305841 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
10305798 GTTAAAATCT
10305808 AAAA-AAAA
1 AAAAGAAAA
10305816 AAAAG-AAA
1 AAAAGAAAA
10305824 AAAAGAAAA
1 AAAAGAAAA
10305833 AAAAGAAAA
1 AAAAGAAAA
10305842 GCAGGGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.50
9 12 0.50
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:10305834 original size:17 final size:16
Alignment explanation
Indices: 10305808--10305841 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
10305798 GTTAAAATCT
10305808 AAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAGAAA
10305824 AAAAGAAAAAAAAGAAA
1 AAAA-AAAAAAAAGAAA
10305841 A
1 A
10305842 GCAGGGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAGAAA
Found at i:10306196 original size:14 final size:14
Alignment explanation
Indices: 10306179--10306205 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10306169 AAAGCATCAA
10306179 CGGCGAAGCAAGAT
1 CGGCGAAGCAAGAT
10306193 CGGCGAAGCAAGA
1 CGGCGAAGCAAGA
10306206 ACAATCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.37, T:0.04
Consensus pattern (14 bp):
CGGCGAAGCAAGAT
Found at i:10307403 original size:28 final size:29
Alignment explanation
Indices: 10307363--10307423 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
10307353 TTTTTTTTTC
10307363 TTGCATTATTTAT-TTT-TCATGATATTTA
1 TTGCATTATTTATATTTGT-ATGATATTTA
*
10307391 TTGCATTATTTATATTTGTATGATTTTTA
1 TTGCATTATTTATATTTGTATGATATTTA
10307420 TTGC
1 TTGC
10307424 TCGATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 13 0.43
29 16 0.53
30 1 0.03
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.61
Consensus pattern (29 bp):
TTGCATTATTTATATTTGTATGATATTTA
Found at i:10307423 original size:29 final size:28
Alignment explanation
Indices: 10307357--10307423 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
10307347 GCAAGGTTTT
*
10307357 TTTTTCTTGCATTATTTATTTTTCATGA
1 TTTTTATTGCATTATTTATTTTTCATGA
*
10307385 TATTTATTGCATTATTTATATTTGT-ATGA
1 TTTTTATTGCATTATTTAT-TTT-TCATGA
10307414 TTTTTATTGC
1 TTTTTATTGC
10307424 TCGATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 17 0.50
29 16 0.47
30 1 0.03
ACGTcount: A:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (28 bp):
TTTTTATTGCATTATTTATTTTTCATGA
Found at i:10307462 original size:23 final size:24
Alignment explanation
Indices: 10307436--10307487 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
10307426 GATTTTTTTC
10307436 TTATTTACATAATT-TTTGCATGA
1 TTATTTACATAATTATTTGCATGA
* * *
10307459 TTATTAATATATTTATTTGCATGA
1 TTATTTACATAATTATTTGCATGA
10307483 -TATTT
1 TTATTT
10307488 TTGCATAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (24 bp):
TTATTTACATAATTATTTGCATGA
Found at i:10307492 original size:13 final size:14
Alignment explanation
Indices: 10307474--10307502 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10307464 AATATATTTA
10307474 TTTGCAT-GATATT
1 TTTGCATAGATATT
10307487 TTTGCATAGATATT
1 TTTGCATAGATATT
10307501 TT
1 TT
10307503 GATATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (14 bp):
TTTGCATAGATATT
Found at i:10307577 original size:12 final size:12
Alignment explanation
Indices: 10307560--10307605 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
10307550 ATGATATAAT
10307560 ATTTATTGCATG
1 ATTTATTGCATG
*
10307572 ATTTATTACATG
1 ATTTATTGCATG
10307584 ATATTTAATTGCATG
1 --ATTT-ATTGCATG
10307599 ATTTATT
1 ATTTATT
10307606 ACATAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 14 0.48
13 4 0.14
14 4 0.14
15 7 0.24
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (12 bp):
ATTTATTGCATG
Found at i:10307585 original size:31 final size:30
Alignment explanation
Indices: 10307550--10307622 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 30
10307540 ATATATTGGT
10307550 ATGATATAATATTTATTGCATGATTTATTAC
1 ATGATATAAT-TTTATTGCATGATTTATTAC
*
10307581 ATG--AT-ATTTAATTGCATGATTTATTAC
1 ATGATATAATTTTATTGCATGATTTATTAC
*
10307608 ATAATATAATTTTAT
1 ATGATATAATTTTAT
10307623 ATTATTGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 21 0.58
28 2 0.06
29 4 0.11
30 6 0.17
31 3 0.08
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.49
Consensus pattern (30 bp):
ATGATATAATTTTATTGCATGATTTATTAC
Found at i:10307597 original size:27 final size:26
Alignment explanation
Indices: 10307555--10307614 Score: 102
Period size: 27 Copynumber: 2.3 Consensus size: 26
10307545 TTGGTATGAT
10307555 ATAATATTTATTGCATGATTTATTAC
1 ATAATATTTATTGCATGATTTATTAC
*
10307581 ATGATATTTAATTGCATGATTTATTAC
1 ATAATATTT-ATTGCATGATTTATTAC
10307608 ATAATAT
1 ATAATAT
10307615 AATTTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (26 bp):
ATAATATTTATTGCATGATTTATTAC
Found at i:10313002 original size:42 final size:42
Alignment explanation
Indices: 10312862--10313009 Score: 136
Period size: 44 Copynumber: 3.5 Consensus size: 42
10312852 AACAATACTC
* * * * *
10312862 TATTTTTTAAAAGTTTTAAACCTTCAATTATGGGAGAACATTTT
1 TATTTTTCAAAAGTTTCAAAACTTAAATTATAGG-GAACA-TTT
* * * * *
10312906 TATTTTTCAAATGTTTCAAAACTTCAGTTGTAGAGGAATATTT
1 TATTTTTCAAAAGTTTCAAAACTTAAATTATAG-GGAACATTT
* **
10312949 TGTTTTTCAAAAGTTTC-AATGTCTAAATTATAGGGAACATTT
1 TATTTTTCAAAAGTTTCAAAACT-TAAATTATAGGGAACATTT
10312991 TATTTTTCAAAAGTTTCAA
1 TATTTTTCAAAAGTTTCAA
10313010 GCTTCAATTG
Statistics
Matches: 84, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 27 0.32
43 26 0.31
44 30 0.36
45 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (42 bp):
TATTTTTCAAAAGTTTCAAAACTTAAATTATAGGGAACATTT
Found at i:10313278 original size:3 final size:3
Alignment explanation
Indices: 10313257--10313294 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
10313247 AATTATGTTT
*
10313257 TTA TTCA TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10313295 GGTTTTTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10314904 original size:19 final size:19
Alignment explanation
Indices: 10314867--10314905 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10314857 CATATTTTCG
* *
10314867 TTCTTGCATGGTTTTTTTT
1 TTCTTGCATGATTTATTTT
*
10314886 TTCTTGCATTATTTATTTT
1 TTCTTGCATGATTTATTTT
10314905 T
1 T
10314906 CATGATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.69
Consensus pattern (19 bp):
TTCTTGCATGATTTATTTT
Found at i:10314949 original size:32 final size:33
Alignment explanation
Indices: 10314899--10314963 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
10314889 TTGCATTATT
10314899 TATTTTTCATGATATTTATTAGC-ATTTTTTTTA
1 TATTTTTCATGATATTTATT-GCTATTTTTTTTA
*
10314932 TATTTTT-ATGATTTTTATTGCTTATTTTTTTT
1 TATTTTTCATGATATTTATTGC-TATTTTTTTT
10314964 TCTTATTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 11 0.38
33 16 0.55
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.69
Consensus pattern (33 bp):
TATTTTTCATGATATTTATTGCTATTTTTTTTA
Found at i:10314971 original size:35 final size:32
Alignment explanation
Indices: 10314897--10314982 Score: 84
Period size: 35 Copynumber: 2.6 Consensus size: 32
10314887 TCTTGCATTA
*
10314897 TTTATTTTTCATGATATTTATTAGCATTTTTTT
1 TTTATTTTT-ATGATTTTTATTAGCATTTTTTT
*
10314930 TATATTTTTATGATTTTTATT-GCTTATTTTTTTT
1 TTTATTTTTATGATTTTTATTAGC--A-TTTTTTT
* *
10314964 TCTTATTTGTATAATTTTT
1 T-TTATTTTTATGATTTTT
10314983 GTATGATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.05
32 11 0.25
33 9 0.20
34 8 0.18
35 14 0.32
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.70
Consensus pattern (32 bp):
TTTATTTTTATGATTTTTATTAGCATTTTTTT
Found at i:10315047 original size:13 final size:14
Alignment explanation
Indices: 10315029--10315057 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10315019 AATATATTTA
10315029 TTTGCAT-GATATT
1 TTTGCATAGATATT
10315042 TTTGCATAGATATT
1 TTTGCATAGATATT
10315056 TT
1 TT
10315058 GATGTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (14 bp):
TTTGCATAGATATT
Found at i:10315199 original size:24 final size:24
Alignment explanation
Indices: 10315157--10315213 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
10315147 TTACATGATT
10315157 TATTGCATGGTATAATTTTATATC
1 TATTGCATGGTATAATTTTATATC
* ** * *
10315181 TATTGCGTGGTATGGTTTTATTTT
1 TATTGCATGGTATAATTTTATATC
10315205 TATTGCATG
1 TATTGCATG
10315214 ATTTTTGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.53
Consensus pattern (24 bp):
TATTGCATGGTATAATTTTATATC
Found at i:10317321 original size:17 final size:17
Alignment explanation
Indices: 10317299--10317339 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
10317289 TTGTAAATAC
*
10317299 TTATTTTCATTTTGTTT
1 TTATTTTCATTTTCTTT
* *
10317316 TTATTTGCCTTTTCTTT
1 TTATTTTCATTTTCTTT
10317333 TTATTTT
1 TTATTTT
10317340 TATGTCTCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (17 bp):
TTATTTTCATTTTCTTT
Found at i:10323520 original size:27 final size:27
Alignment explanation
Indices: 10323468--10323520 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
10323458 AAAGTGAAAA
* * *
10323468 GAATAATAGAAAAAAACATGGTAAGAG
1 GAATAAAAGAAAAAAACAAGGCAAGAG
*
10323495 GAATAAAAGAAAAAGACAAGGCAAGA
1 GAATAAAAGAAAAAAACAAGGCAAGA
10323521 AAAAAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.23, T:0.09
Consensus pattern (27 bp):
GAATAAAAGAAAAAAACAAGGCAAGAG
Found at i:10325026 original size:27 final size:27
Alignment explanation
Indices: 10324986--10325040 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
10324976 AGGCAATTGG
* * *
10324986 ATCATTGGAATAGACACTTGCATTTGC
1 ATCATTAGAATAGAAACTTACATTTGC
* *
10325013 ATCATTAGACTAGAAACTTATATTTGC
1 ATCATTAGAATAGAAACTTACATTTGC
10325040 A
1 A
10325041 GTTTGGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (27 bp):
ATCATTAGAATAGAAACTTACATTTGC
Found at i:10325738 original size:15 final size:15
Alignment explanation
Indices: 10325718--10325748 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10325708 TACTAGCATC
*
10325718 ATGGAAAGAATATTT
1 ATGGAAAGAACATTT
10325733 ATGGAAAGAACATTT
1 ATGGAAAGAACATTT
10325748 A
1 A
10325749 CAAGTACACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.29
Consensus pattern (15 bp):
ATGGAAAGAACATTT
Found at i:10326276 original size:26 final size:25
Alignment explanation
Indices: 10326178--10326282 Score: 79
Period size: 26 Copynumber: 4.0 Consensus size: 25
10326168 TTCTAGATTA
*
10326178 AGATTTTAAGCCCATGGCAATAAATG
1 AGATTTTAAGCCCATGGCACT-AATG
* *
10326204 AGATGTTAAACCCAATGTG--CTAGATG
1 AGATTTTAAGCCC-ATG-GCACTA-ATG
* ** *
10326230 AGAATTTAAGCCTGTGACACTAATTG
1 AGATTTTAAGCCCATGGCACTAA-TG
10326256 AGATTTTAAGCCCATGGCACTAGATG
1 AGATTTTAAGCCCATGGCACTA-ATG
10326282 A
1 A
10326283 AAGCTTTATC
Statistics
Matches: 59, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
25 4 0.07
26 50 0.85
27 4 0.07
28 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (25 bp):
AGATTTTAAGCCCATGGCACTAATG
Found at i:10329702 original size:2 final size:2
Alignment explanation
Indices: 10329695--10329726 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10329685 AAAAGCCATG
10329695 AT AT AT 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 AT AT AT
10329727 TCCTACTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10333388 original size:17 final size:17
Alignment explanation
Indices: 10333366--10333425 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
10333356 CTAGATCTAT
*
10333366 ACCCTAAACCCTAGTAA
1 ACCCTAAACCCTAGAAA
* *
10333383 ACCCTAAATCTTAGAAA
1 ACCCTAAACCCTAGAAA
*
10333400 ACCCTAAACCCTAGCCAA
1 ACCCTAAACCCTAG-AAA
10333418 ACCCTAAA
1 ACCCTAAA
10333426 TCTACGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 26 0.72
18 10 0.28
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.17
Consensus pattern (17 bp):
ACCCTAAACCCTAGAAA
Found at i:10333427 original size:35 final size:35
Alignment explanation
Indices: 10333366--10333445 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 35
10333356 CTAGATCTAT
*
10333366 ACCCTAAACCCTAGTAAACCCTAAATCTTA-G-AAA
1 ACCCTAAACCCTAGCAAACCCTAAATC-TACGAAAA
10333400 ACCCTAAACCCTAGCCAAACCCTAAATCTACGAAAA
1 ACCCTAAACCCTAG-CAAACCCTAAATCTACGAAAA
*
10333436 ACCTTAAACC
1 ACCCTAAACC
10333446 TACCTAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 16 0.39
35 13 0.32
36 12 0.29
ACGTcount: A:0.44, C:0.34, G:0.05, T:0.17
Consensus pattern (35 bp):
ACCCTAAACCCTAGCAAACCCTAAATCTACGAAAA
Found at i:10333437 original size:18 final size:16
Alignment explanation
Indices: 10333366--10333447 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 16
10333356 CTAGATCTAT
*
10333366 ACCCTAAACCCTAGTAA
1 ACCCTAAA-CCTAGAAA
*
10333383 ACCCTAAATCTTAGAAA
1 ACCCTAAA-CCTAGAAA
*
10333400 ACCCTAAACCCTAGCCAA
1 ACCCTAAA-CCTAG-AAA
*
10333418 ACCCTAAATCTACGAAAA
1 ACCCTAAACCTA-G-AAA
*
10333436 ACCTTAAACCTA
1 ACCCTAAACCTA
10333448 CCTAAAACCC
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
17 29 0.56
18 23 0.44
ACGTcount: A:0.44, C:0.33, G:0.05, T:0.18
Consensus pattern (16 bp):
ACCCTAAACCTAGAAA
Found at i:10333936 original size:18 final size:18
Alignment explanation
Indices: 10333915--10333959 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
10333905 AACCCTAGCC
* * *
10333915 AAACCTTAAATCTACGAG
1 AAACCTTAAACCTACCAA
*
10333933 AAACTTTAAACCTACCAA
1 AAACCTTAAACCTACCAA
10333951 AAACCTTAA
1 AAACCTTAA
10333960 GATTCCCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.22
Consensus pattern (18 bp):
AAACCTTAAACCTACCAA
Found at i:10334328 original size:52 final size:52
Alignment explanation
Indices: 10334228--10334330 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
10334218 TGGATAAGAA
* * * ** *
10334228 GACTTGCAGAAGAAGAATTCTAAGAGAAAAAATTTTTTTAAAAGGCAAGTTT
1 GACTTGCAAAAAAAAAATTCTAAGAGAAAAAAGATTCTTAAAAGGCAAGTTT
* *
10334280 GACTTGCAAAAAAAAAATTCTAAGAGGAAAGAGATTCTTAATAA-GCAAGTT
1 GACTTGCAAAAAAAAAATTCTAAGAGAAAAAAGATTCTTAA-AAGGCAAGTT
10334331 AGTATACTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 40 0.95
53 2 0.05
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (52 bp):
GACTTGCAAAAAAAAAATTCTAAGAGAAAAAAGATTCTTAAAAGGCAAGTTT
Found at i:10339980 original size:29 final size:28
Alignment explanation
Indices: 10339944--10340020 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
10339934 ATTTTGTTTA
10339944 ATTAAAAATTAATTAAATTAAAATAAAAT
1 ATTAAAAATTAATT-AATTAAAATAAAAT
* * *
10339973 ATTAAAAACTTGATTGATTTAAATAAAAT
1 ATTAAAAA-TTAATTAATTAAAATAAAAT
* *
10340002 ATTAATAATTTAAATAATT
1 ATTAA-AAATTAATTAATT
10340021 TTTAATTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 32 0.82
30 7 0.18
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (28 bp):
ATTAAAAATTAATTAATTAAAATAAAAT
Found at i:10340729 original size:29 final size:30
Alignment explanation
Indices: 10340694--10340779 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 30
10340684 TTTATCACTT
* *
10340694 TACTTAAATAAATTTTTATATTTTTA-TTG
1 TACTTAAATAAATTTTTAAATTTTAATTTG
* *
10340723 TATTTAAA-AAATATTTAAATTTTAATTTG
1 TACTTAAATAAATTTTTAAATTTTAATTTG
* * **
10340752 TACTCAAATAAATTCTTAACCTTTAATT
1 TACTTAAATAAATTTTTAAATTTTAATT
10340780 CATATTAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 14 0.31
29 16 0.36
30 15 0.33
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (30 bp):
TACTTAAATAAATTTTTAAATTTTAATTTG
Found at i:10347406 original size:17 final size:17
Alignment explanation
Indices: 10347367--10347408 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10347357 CAAAAACCAA
10347367 AAAAAAAAAAAAGCTAG
1 AAAAAAAAAAAAGCTAG
* *
10347384 ACAAAAAAAAAATC-ATG
1 AAAAAAAAAAAAGCTA-G
10347401 AAAAAAAA
1 AAAAAAAA
10347409 GCAAAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAAAAGCTAG
Found at i:10347555 original size:226 final size:227
Alignment explanation
Indices: 10347158--10347601 Score: 603
Period size: 231 Copynumber: 2.0 Consensus size: 227
10347148 AGAAAATGAC
* * *
10347158 AAAAAAGTCGTGAAAAAAAAACAAAGCAAGAGTTTGCTAAAAAACATAAGGAAATAAAATTAAAA
1 AAAAAAATCATGAAAAAAAAACAAAGCAAGAGTTTGCTAAAAAACATAAGGAAATAAAATAAAAA
* *
10347223 AACCATAAAAAAAAAGAGTTTTATAAACAACAAATAGGAATCAAAAAACCAAAAAGAAAAAAAAG
66 AACCAT-AAAAAAAAGAGTTTTATAAACAACAAACAAGAATCAAAAAACCAAAAAGAAAAAAAA-
* * *
10347288 CAAAAGAGCGTTTTGGATTTGAAGAAGGAAAAGAGAAACCAAAACAAAAAAACAAAAGAAGAGCT
129 CAAAAGAGCGTTTTGGATTTGAAGAAGGAAAAAAAAAACCAAAAC-AAAAAA-AAAAGAAAAGCT
10347353 TTTTCAAAAACCAAAAAAAAAAAAAAGCTAGACAAA
192 TTTTCAAAAACCAAAAAAAAAAAAAAGCTAGACAAA
* ** * *
10347389 AAAAAAATCATGAAAAAAAAGCAAAGTGAGAGTTTGCTGAAAAACAT-AGAGAAATAAGATAAAA
1 AAAAAAATCATGAAAAAAAAACAAAGCAAGAGTTTGCTAAAAAACATAAG-GAAATAAAAT-AAA
* * ** * *
10347453 AAAACCAT-AAAAAAAGAGTTTTATAAATAATAAGACAAGAATGGAAAAA-C-AAAA-ATAAAGA
64 AAAACCATAAAAAAAAGAGTTTTATAAACAACAA-ACAAGAATCAAAAAACCAAAAAGAAAAAAA
*
10347514 A-AAAAGAGGGTTTTGGATTTGAAGAAGGAAAAAAAAAACCAAAACAAAAAAAAAAGAAAAGCTT
128 ACAAAAGAGCGTTTTGGATTTGAAGAAGGAAAAAAAAAACCAAAACAAAAAAAAAAGAAAAGCTT
10347578 TTTCAAAAACCAAAAAAAAAAAAA
193 TTTCAAAAACCAAAAAAAAAAAAA
10347602 CCAGATAAGC
Statistics
Matches: 190, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
224 36 0.19
225 6 0.03
226 41 0.22
228 6 0.03
229 4 0.02
230 26 0.14
231 61 0.32
232 10 0.05
ACGTcount: A:0.63, C:0.09, G:0.14, T:0.14
Consensus pattern (227 bp):
AAAAAAATCATGAAAAAAAAACAAAGCAAGAGTTTGCTAAAAAACATAAGGAAATAAAATAAAAA
AACCATAAAAAAAAGAGTTTTATAAACAACAAACAAGAATCAAAAAACCAAAAAGAAAAAAAACA
AAAGAGCGTTTTGGATTTGAAGAAGGAAAAAAAAAACCAAAACAAAAAAAAAAGAAAAGCTTTTT
CAAAAACCAAAAAAAAAAAAAAGCTAGACAAA
Found at i:10347620 original size:35 final size:35
Alignment explanation
Indices: 10347547--10347620 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 35
10347537 GAAGGAAAAA
** *
10347547 AAAAACCAAAACAAAAAAAAAAGAAAAGCTTTTTC
1 AAAAACCAAAACAAAAAAAAAAGAAAAGCTGATCC
*
10347582 AAAAACCAAAA-AAAAAAAAACCAGATAAGC-GATCC
1 AAAAACCAAAACAAAAAAAAA--AGAAAAGCTGATCC
10347617 AAAA
1 AAAA
10347621 GCAGCCAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 9 0.27
35 17 0.52
36 7 0.21
ACGTcount: A:0.68, C:0.16, G:0.07, T:0.09
Consensus pattern (35 bp):
AAAAACCAAAACAAAAAAAAAAGAAAAGCTGATCC
Found at i:10361412 original size:13 final size:15
Alignment explanation
Indices: 10361385--10361435 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
10361375 AAAGAAAGAA
10361385 AAAAAACAGATAAAC
1 AAAAAACAGATAAAC
10361400 AAAAAACA-A-AAAC
1 AAAAAACAGATAAAC
* *
10361413 AAAACAAAAAATGAAAC
1 AAAA-AACAGAT-AAAC
10361430 AAAAAA
1 AAAAAA
10361436 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.26
14 4 0.13
15 9 0.29
16 2 0.06
17 8 0.26
ACGTcount: A:0.80, C:0.12, G:0.04, T:0.04
Consensus pattern (15 bp):
AAAAAACAGATAAAC
Found at i:10361450 original size:6 final size:7
Alignment explanation
Indices: 10361433--10361458 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10361423 ATGAAACAAA
10361433 AAAAATT
1 AAAAATT
10361440 AAAAATT
1 AAAAATT
10361447 AAAAATT
1 AAAAATT
10361454 AAAAA
1 AAAAA
10361459 AAAATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:10362491 original size:101 final size:101
Alignment explanation
Indices: 10362373--10362581 Score: 321
Period size: 101 Copynumber: 2.1 Consensus size: 101
10362363 TCAAGTCATA
* * *
10362373 ATTTTTAGATAAGATTTTTAAAG-TTTCAAAGCCTCTATTCATGAGGAACCATTTTCAAATGAGA
1 ATTTTCAGATAAAATTTTTAAAGTTTTCAAA-CCTCTATTCATGAGGAACCATTTTCAAATAAGA
* * * *
10362437 TATTTTAAAGTTTGAAAGCCTCTATTTATGAAGAGTC
65 TATTTTAAAGTTTCAAAACCTCTATTCATGAAGAGCC
*
10362474 ATTTTCAGATAAAATTTTTAAAGTTTTGAAACCTCTATTCATGAGGAACCATTTTCAAATAAGAT
1 ATTTTCAGATAAAATTTTTAAAGTTTTCAAACCTCTATTCATGAGGAACCATTTTCAAATAAGAT
*
10362539 ATTTTAAAGTTTCAAAACCTCTATTCATGAATAGCC
66 ATTTTAAAGTTTCAAAACCTCTATTCATGAAGAGCC
10362575 ATTTTCA
1 ATTTTCA
10362582 AACAGGCCTT
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 92 0.94
102 6 0.06
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (101 bp):
ATTTTCAGATAAAATTTTTAAAGTTTTCAAACCTCTATTCATGAGGAACCATTTTCAAATAAGAT
ATTTTAAAGTTTCAAAACCTCTATTCATGAAGAGCC
Found at i:10362527 original size:50 final size:51
Alignment explanation
Indices: 10362381--10362583 Score: 259
Period size: 51 Copynumber: 4.0 Consensus size: 51
10362371 TAATTTTTAG
*
10362381 ATAAGAT-TTTTAAAGTTTCAAAGCCTCTATTCATGAGGAACCATTTTCAA
1 ATAAGATATTTTAAAGTTTGAAAGCCTCTATTCATGAGGAACCATTTTCAA
* * * ** *
10362431 ATGAGATATTTTAAAGTTTGAAAGCCTCTATTTATGAAGAGTCATTTTCAG
1 ATAAGATATTTTAAAGTTTGAAAGCCTCTATTCATGAGGAACCATTTTCAA
*
10362482 ATAAAAT-TTTTAAAGTTTTGAAA-CCTCTATTCATGAGGAACCATTTTCAA
1 ATAAGATATTTTAAAG-TTTGAAAGCCTCTATTCATGAGGAACCATTTTCAA
* * ** *
10362532 ATAAGATATTTTAAAGTTTCAAAACCTCTATTCATGAATAGCCATTTTCAA
1 ATAAGATATTTTAAAGTTTGAAAGCCTCTATTCATGAGGAACCATTTTCAA
10362583 A
1 A
10362584 CAGGCCTTTA
Statistics
Matches: 130, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
50 48 0.37
51 82 0.63
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (51 bp):
ATAAGATATTTTAAAGTTTGAAAGCCTCTATTCATGAGGAACCATTTTCAA
Found at i:10362609 original size:32 final size:30
Alignment explanation
Indices: 10362565--10362644 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
10362555 ACCTCTATTC
* *
10362565 ATGAATAGCCATTTTCAAAC-AGGCCTTTATTT
1 ATGAAGAGCCATTTTCAAACAAGG--TTT-TTA
* *
10362597 ATGAGGAGCCATTTTCAGACAAGGTTTTTA
1 ATGAAGAGCCATTTTCAAACAAGGTTTTTA
10362627 ATGAAGAGCCATTTTCAA
1 ATGAAGAGCCATTTTCAA
10362645 TAAGATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 18 0.44
31 3 0.07
32 17 0.41
33 3 0.07
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (30 bp):
ATGAAGAGCCATTTTCAAACAAGGTTTTTA
Found at i:10362638 original size:30 final size:29
Alignment explanation
Indices: 10362565--10362656 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 29
10362555 ACCTCTATTC
* *
10362565 ATGAATAGCCATTTTCAA-ACAGGCCTTTATTT
1 ATGAAGAGCCATTTTCAACA-AGG--TTT-TTA
*
10362597 ATGAGGAGCCATTTTCAGACAAGGTTTTTA
1 ATGAAGAGCCATTTTCA-ACAAGGTTTTTA
* *
10362627 ATGAAGAGCCATTTTCAATAAGATTTTTA
1 ATGAAGAGCCATTTTCAACAAGGTTTTTA
10362656 A
1 A
10362657 AATTTCAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 11 0.21
30 18 0.35
31 3 0.06
32 15 0.29
33 4 0.08
34 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (29 bp):
ATGAAGAGCCATTTTCAACAAGGTTTTTA
Found at i:10362654 original size:29 final size:30
Alignment explanation
Indices: 10362565--10362656 Score: 87
Period size: 32 Copynumber: 3.0 Consensus size: 30
10362555 ACCTCTATTC
* * * * *
10362565 ATGAATAGCCATTTTCAAACAGGCCTTTATTT
1 ATGAAGAGCCATTTTCAGACAAG-ATTT-TTA
* *
10362597 ATGAGGAGCCATTTTCAGACAAGGTTTTTA
1 ATGAAGAGCCATTTTCAGACAAGATTTTTA
*
10362627 ATGAAGAGCCATTTTCA-ATAAGATTTTTA
1 ATGAAGAGCCATTTTCAGACAAGATTTTTA
10362656 A
1 A
10362657 AATTTCAAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 11 0.22
30 18 0.35
31 3 0.06
32 19 0.37
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (30 bp):
ATGAAGAGCCATTTTCAGACAAGATTTTTA
Found at i:10365555 original size:26 final size:25
Alignment explanation
Indices: 10365501--10365555 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
10365491 CTCACCTAAG
*
10365501 AATTTTATAGAAATTTACCATTTGA
1 AATTTTATAGAAATTTACCATTGGA
* *
10365526 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAGAAATTT-ACCATTGGA
10365551 TAATT
1 -AATT
10365556 AATATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 8 0.32
25 13 0.52
26 4 0.16
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (25 bp):
AATTTTATAGAAATTTACCATTGGA
Found at i:10365641 original size:22 final size:21
Alignment explanation
Indices: 10365616--10365662 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10365606 AAATACTAAG
*
10365616 AAAACAAAGACACAATAAATAA
1 AAAACAAAGAC-CAAAAAATAA
* *
10365638 AAAATAAATACCAAAAAATAA
1 AAAACAAAGACCAAAAAATAA
10365659 AAAA
1 AAAA
10365663 TAATGAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.77, C:0.11, G:0.02, T:0.11
Consensus pattern (21 bp):
AAAACAAAGACCAAAAAATAA
Found at i:10366219 original size:42 final size:39
Alignment explanation
Indices: 10366146--10366312 Score: 169
Period size: 39 Copynumber: 4.2 Consensus size: 39
10366136 TTTGAAAAAA
* *
10366146 GAAAA-AAA-GCTTTTCTAAACAGAGGCTCAACAACTTT
1 GAAAATAAAGGCTCTTCTAAACAGAGGCACAACAACTTT
* *
10366183 GAAAAAATAAATGGCTCCTCTATACAGAGGCACAACAACTTT
1 G--AAAATAAA-GGCTCTTCTAAACAGAGGCACAACAACTTT
* * ** *
10366225 GAAAATAAAAGGCTCTTTTAAATAGAGATACAACAACTAT
1 GAAAAT-AAAGGCTCTTCTAAACAGAGGCACAACAACTTT
* *
10366265 GAAAATAAAAGCTCTTTTAAACAGAGGCACAACAACTTT
1 GAAAATAAAGGCTCTTCTAAACAGAGGCACAACAACTTT
10366304 -AGAAATAAA
1 GA-AAATAAA
10366313 AAGCTTATCG
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 39 0.36
40 37 0.35
41 3 0.03
42 26 0.24
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (39 bp):
GAAAATAAAGGCTCTTCTAAACAGAGGCACAACAACTTT
Found at i:10366258 original size:40 final size:40
Alignment explanation
Indices: 10366161--10366313 Score: 184
Period size: 40 Copynumber: 3.8 Consensus size: 40
10366151 AAAGCTTTTC
* * * *
10366161 TAAACAGAGGCTCAACAACTTTGAAAAAATAAATGGCTCCTC
1 TAAACAGAGGCACAACAACTTTG--AAAATAAAAGGCTCTTT
*
10366203 TATACAGAGGCACAACAACTTTGAAAATAAAAGGCTCTTT
1 TAAACAGAGGCACAACAACTTTGAAAATAAAAGGCTCTTT
* ** *
10366243 TAAATAGAGATACAACAACTATGAAAATAAAA-GCTCTTT
1 TAAACAGAGGCACAACAACTTTGAAAATAAAAGGCTCTTT
10366282 TAAACAGAGGCACAACAACTTT-AGAAATAAAA
1 TAAACAGAGGCACAACAACTTTGA-AAATAAAA
10366314 AGCTTATCGA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.34
40 41 0.43
42 21 0.22
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (40 bp):
TAAACAGAGGCACAACAACTTTGAAAATAAAAGGCTCTTT
Found at i:10366840 original size:31 final size:32
Alignment explanation
Indices: 10366777--10366856 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 32
10366767 ATTTGAGTTC
*
10366777 TTCTTAAAGATTCTCATTTGAAAGCCTTAAAGA
1 TTCTAAAAGATTCTCATTTGAAA-CCTTAAAGA
*
10366810 TTCTCAAAGATTCTCATTTGAAA-CTTAAAGA
1 TTCTAAAAGATTCTCATTTGAAACCTTAAAGA
*
10366841 TTCTAAAAAATTCTCA
1 TTCTAAAAGATTCTCA
10366857 GTTAAGACTC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 22 0.50
33 22 0.50
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (32 bp):
TTCTAAAAGATTCTCATTTGAAACCTTAAAGA
Found at i:10366875 original size:21 final size:21
Alignment explanation
Indices: 10366850--10367110 Score: 155
Period size: 21 Copynumber: 11.5 Consensus size: 21
10366840 ATTCTAAAAA
*
10366850 ATTCTCAGTTAAGACTCAAAG
1 ATTCTCATTTAAGACTCAAAG
* *
10366871 GTTCTCATTTGAAAACATCTTAAAG
1 ATTCTCATTT-AAGAC-TC--AAAG
10366896 ATTCTCATTTAAGACTCAAAG
1 ATTCTCATTTAAGACTCAAAG
* * *
10366917 TTTCTCATTTGAAAATATCTTAAAG
1 ATTCTCATTT---AAGA-CTCAAAG
10366942 ATTCTCATTTAAGACTCAAATG
1 ATTCTCATTTAAGACTCAAA-G
* * * * *
10366964 -CTCTTATTTGAAAATATCTTAAAA
1 ATTCTCATTT---AAGA-CTCAAAG
* * *
10366988 ATTTTCATTTAAAATTCAAAG
1 ATTCTCATTTAAGACTCAAAG
* *
10367009 ATTCTCATTTGAAAACGTTTTAAAG
1 ATTCTCATTT-AAGAC---TCAAAG
*
10367034 ATTCTCATTTAATACTCAAAG
1 ATTCTCATTTAAGACTCAAAG
*
10367055 ATTCTCATTTGAAAACATCTTAAAG
1 ATTCTCATTT-AAGAC-TC--AAAG
10367080 ATTCTCATTTAAGACTCAAAG
1 ATTCTCATTTAAGACTCAAAG
*
10367101 GTTCTCATTT
1 ATTCTCATTT
10367111 GAAAATGTCT
Statistics
Matches: 187, Mismatches: 31, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
21 74 0.40
22 19 0.10
23 8 0.04
24 18 0.10
25 68 0.36
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
ATTCTCATTTAAGACTCAAAG
Found at i:10366922 original size:46 final size:46
Alignment explanation
Indices: 10366850--10367133 Score: 399
Period size: 46 Copynumber: 6.2 Consensus size: 46
10366840 ATTCTAAAAA
* *
10366850 ATTCTCAGTTAAGACTCAAAGGTTCTCATTTGAAAACATCTTAAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTTAAAG
* *
10366896 ATTCTCATTTAAGACTCAAAGTTTCTCATTTGAAAATATCTTAAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTTAAAG
* * * *
10366942 ATTCTCATTTAAGACTCAAATG-CTCTTATTTGAAAATATCTTAAAA
1 ATTCTCATTTAAGACTCAAA-GATTCTCATTTGAAAACATCTTAAAG
* * * * *
10366988 ATTTTCATTTAAAATTCAAAGATTCTCATTTGAAAACGTTTTAAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTTAAAG
*
10367034 ATTCTCATTTAATACTCAAAGATTCTCATTTGAAAACATCTTAAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTTAAAG
* **
10367080 ATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAATGTCTTAAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTTAAAG
10367126 ATTCTCAT
1 ATTCTCAT
10367134 CAAAAGATTC
Statistics
Matches: 212, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.00
46 210 0.99
47 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (46 bp):
ATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTTAAAG
Found at i:10367032 original size:138 final size:138
Alignment explanation
Indices: 10366846--10367133 Score: 441
Period size: 138 Copynumber: 2.1 Consensus size: 138
10366836 AAAGATTCTA
* * *
10366846 AAAAATTCTCAGTTAAGACTCAAAGGTTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
1 AAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
* * * *
10366911 TCAAAGTTTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAATGCTCTTATTTGAA
66 TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGGCTCTCATTTGAA
10366976 AATATCTT
131 AATATCTT
* * * * *
10366984 AAAAATTTTCATTTAAAATTCAAAGATTCTCATTTGAAAACGTTTTAAAGATTCTCATTTAATAC
1 AAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
*
10367049 TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAA
66 TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGGCTCTCATTTGAA
*
10367114 AATGTCTT
131 AATATCTT
*
10367122 AAAGATTCTCAT
1 AAAAATTCTCAT
10367134 CAAAAGATTC
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 134 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (138 bp):
AAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGGCTCTCATTTGAA
AATATCTT
Found at i:10367998 original size:6 final size:5
Alignment explanation
Indices: 10367960--10368013 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
10367950 ATTTTTTTAA
*
10367960 TTTT- TTTTC -TTTC TTTTC TTTCC TTTTCCC TTTTAC TTTTC TTTT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT--C TTTT-C TTTTC TTTTC
10368005 TTTTC TTTT
1 TTTTC TTTT
10368014 TAATTTTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
4 12 0.29
5 20 0.48
6 5 0.12
7 5 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:10368013 original size:9 final size:9
Alignment explanation
Indices: 10367929--10368014 Score: 64
Period size: 9 Copynumber: 8.8 Consensus size: 9
10367919 TTAATTTGAA
10367929 TCTTTTTTT
1 TCTTTTTTT
*
10367938 TCTCTCTTTT
1 TCT-TTTTTT
10367948 TCATTTTTTT
1 TC-TTTTTTT
**
10367958 AATTTTTTT
1 TCTTTTTTT
*
10367967 TCTTTCTTT
1 TCTTTTTTT
10367976 TCTTTCCTTTT
1 TCTTT--TTTT
*
10367987 CCCTTTTACTTT
1 -TCTTTT--TTT
10367999 TCTTTTTTT
1 TCTTTTTTT
10368008 TCTTTTT
1 TCTTTTT
10368015 AATTTTTTCC
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
9 31 0.52
10 13 0.22
11 9 0.15
12 7 0.12
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:10372210 original size:9 final size:8
Alignment explanation
Indices: 10372186--10372215 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
10372176 TCAACCAAAA
10372186 TTTTA-TT
1 TTTTATTT
10372193 TTTTATTT
1 TTTTATTT
10372201 TTTTATTT
1 TTTTATTT
10372209 TTTTATT
1 TTTTATT
10372216 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.23
8 17 0.77
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:10378263 original size:7 final size:7
Alignment explanation
Indices: 10378253--10378279 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10378243 AATAATTTAT
10378253 TTATGAG
1 TTATGAG
10378260 TTATGAG
1 TTATGAG
10378267 TTATGAG
1 TTATGAG
10378274 TTATGA
1 TTATGA
10378280 CATAGAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (7 bp):
TTATGAG
Found at i:10381167 original size:98 final size:98
Alignment explanation
Indices: 10380998--10381193 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 98
10380988 CAGCTTTCCG
* *
10380998 CACCCTCAACTCTTAATCAACCATAGAAGCTACCCTCATAGGTGAAGGTTGCTGTCCAGGCGGTT
1 CACCCTCAACTATTAATCAACCATAGAAGCTACCCTCATAGGTGAAGGTTGCTGTCCAGGCGATT
10381063 TATCTGCTTGGTAAAGAAGAGGTTTATCTACCA
66 TATCTGCTTGGTAAAGAAGAGGTTTATCTACCA
* *
10381096 CACCCTCAACTATTAATCAACGATAGAAGCTACCCTCATAGGTGATGGTTGCTGTCCAGGCGATT
1 CACCCTCAACTATTAATCAACCATAGAAGCTACCCTCATAGGTGAAGGTTGCTGTCCAGGCGATT
10381161 TATCTGCTTGGTAAAGAAGAGGTTTATCTACCA
66 TATCTGCTTGGTAAAGAAGAGGTTTATCTACCA
10381194 TTTGTCTCCC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (98 bp):
CACCCTCAACTATTAATCAACCATAGAAGCTACCCTCATAGGTGAAGGTTGCTGTCCAGGCGATT
TATCTGCTTGGTAAAGAAGAGGTTTATCTACCA
Found at i:10382008 original size:14 final size:14
Alignment explanation
Indices: 10381991--10382047 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
10381981 AGGTCTTCGC
*
10381991 AATATAAAATTTTA
1 AATATAAAATTATA
10382005 AATATAAATATAAATATA
1 AATATAAA-AT---TATA
*
10382023 AATACAAAATTATA
1 AATATAAAATTATA
10382037 AATATAAAATT
1 AATATAAAATT
10382048 CTAACTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.61
15 2 0.06
17 2 0.06
18 10 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AATATAAAATTATA
Found at i:10382014 original size:6 final size:6
Alignment explanation
Indices: 10382003--10382044 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
10381993 TATAAAATTT
*
10382003 TAAATA TAAATA TAAATA TAAATA CAAAATTA TAAATA TAAA
1 TAAATA TAAATA TAAATA TAAATA -TAAA-TA TAAATA TAAA
10382045 ATTCTAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 24 0.75
7 6 0.19
8 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:10382099 original size:8 final size:8
Alignment explanation
Indices: 10382086--10382110 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10382076 TAAAATTAAA
10382086 ATTCTAAT
1 ATTCTAAT
10382094 ATTCTAAT
1 ATTCTAAT
10382102 ATTCTAAT
1 ATTCTAAT
10382110 A
1 A
10382111 AAAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTCTAAT
Found at i:10385116 original size:18 final size:19
Alignment explanation
Indices: 10385077--10385127 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
10385067 GTGGTGGGGG
*
10385077 GATACATTTGTGGT-AAAT
1 GATACATTTGAGGTGAAAT
*
10385095 GATACATTTGAGGTGTAA-
1 GATACATTTGAGGTGAAAT
*
10385113 GATATATTTGAGGTG
1 GATACATTTGAGGTG
10385128 GATAATAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.93
19 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.37
Consensus pattern (19 bp):
GATACATTTGAGGTGAAAT
Found at i:10385484 original size:6 final size:6
Alignment explanation
Indices: 10385473--10385504 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10385463 CCAAAATTCG
*
10385473 CACCAT CACCAT CACCAT CTCCAT CACCAT CA
1 CACCAT CACCAT CACCAT CACCAT CACCAT CA
10385505 TCATTATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (6 bp):
CACCAT
Found at i:10385533 original size:30 final size:30
Alignment explanation
Indices: 10385497--10385568 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
10385487 CCATCTCCAT
10385497 CACCATCATCATTATCATTTGGACTTAAAC
1 CACCATCATCATTATCATTTGGACTTAAAC
10385527 CACCATCATCATTATCATTTGGACTTAAAC
1 CACCATCATCATTATCATTTGGACTTAAAC
10385557 CACCATCATCAT
1 CACCATCATCAT
10385569 CACTCTGACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (30 bp):
CACCATCATCATTATCATTTGGACTTAAAC
Found at i:10389214 original size:21 final size:20
Alignment explanation
Indices: 10389173--10389218 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
10389163 TTTCACAAAA
*
10389173 ATAAAAAGAATTATTCTAAT
1 ATAAAAAGAATTATACTAAT
10389193 ATAAAAAGAATTGATAAC-AAT
1 ATAAAAAGAATT-AT-ACTAAT
10389214 ATAAA
1 ATAAA
10389219 TATCAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 10 0.43
22 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (20 bp):
ATAAAAAGAATTATACTAAT
Found at i:10391122 original size:22 final size:21
Alignment explanation
Indices: 10391089--10391130 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
10391079 TATTAATTTG
10391089 AATTATTAATAATAA-ATTAAT
1 AATTATTAATAA-AATATTAAT
*
10391110 AATTAATTCATAAAATATTAA
1 AATT-ATTAATAAAATATTAA
10391131 AAATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTATTAATAAAATATTAAT
Done.