Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 122 of 129
Found at i:20810667 original size:36 final size:36
Alignment explanation
Indices: 20810620--20810690 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
20810610 CCTAGGGGTC
20810620 TTACCTTTGAGTCTGTATGTTCTTTAAGGGTTGACG
1 TTACCTTTGAGTCTGTATGTTCTTTAAGGGTTGACG
20810656 TTACCTTTGAGTCTGTATGTTCTTTAAGGGTTGAC
1 TTACCTTTGAGTCTGTATGTTCTTTAAGGGTTGAC
20810691 ATACTAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.45
Consensus pattern (36 bp):
TTACCTTTGAGTCTGTATGTTCTTTAAGGGTTGACG
Found at i:20822680 original size:21 final size:21
Alignment explanation
Indices: 20822649--20822701 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
20822639 GATATTTTTA
20822649 AATATTTATA-TTTAAAAAAT
1 AATATTTATATTTTAAAAAAT
20822669 AATATGTTATATTTTAAAAAAT
1 AATAT-TTATATTTTAAAAAAT
20822691 AATATTT-TATT
1 AATATTTATATT
20822702 AATTTCGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.29
21 7 0.23
22 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTTATATTTTAAAAAAT
Found at i:20833297 original size:11 final size:10
Alignment explanation
Indices: 20833283--20833317 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
20833273 ATCGCATTCG
20833283 TATATTATTAT
1 TATATTA-TAT
20833294 TATATTATAT
1 TATATTATAT
20833304 TAATATTATAT
1 T-ATATTATAT
20833315 TAT
1 TAT
20833318 TATATCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTATAT
Found at i:20833301 original size:5 final size:5
Alignment explanation
Indices: 20833283--20833317 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
20833273 ATCGCATTCG
20833283 TATAT TATTAT TATAT TATAT TAATAT TATAT TAT
1 TATAT TA-TAT TATAT TATAT T-ATAT TATAT TAT
20833318 TATATCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:20833304 original size:16 final size:16
Alignment explanation
Indices: 20833283--20833317 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
20833273 ATCGCATTCG
*
20833283 TATATTATTATTATAT
1 TATATTAATATTATAT
20833299 TATATTAATATTATAT
1 TATATTAATATTATAT
20833315 TAT
1 TAT
20833318 TATATCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTAATATTATAT
Found at i:20834685 original size:34 final size:35
Alignment explanation
Indices: 20834575--20834685 Score: 106
Period size: 34 Copynumber: 3.3 Consensus size: 35
20834565 TTTTTTTCAC
* * *
20834575 ATAAA-TTTTAAAAAGT-TTTAAATCTTTTTGAAA
1 ATAAATTTTTAAAAAATATATAAATCTTTTTAAAA
* *
20834608 ATGAATTTTCAAAAAATCATATAAA--TTTTTAAAA
1 ATAAATTTTTAAAAAAT-ATATAAATCTTTTTAAAA
* * *
20834642 ATAGATTTTTAGAATAT-TATAAATCTTTTTAAAA
1 ATAAATTTTTAAAAAATATATAAATCTTTTTAAAA
20834676 ATAAATTTTT
1 ATAAATTTTT
20834686 GGAAAGTTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
32 6 0.10
33 4 0.06
34 47 0.76
36 5 0.08
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (35 bp):
ATAAATTTTTAAAAAATATATAAATCTTTTTAAAA
Found at i:20834696 original size:16 final size:16
Alignment explanation
Indices: 20834677--20834726 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
20834667 TTTTTAAAAA
*
20834677 TAAATTTTTGGAAAGT
1 TAAATTTTTGAAAAGT
20834693 TAAATTTTTGAAAAGATT
1 TAAATTTTTGAAAAG--T
20834711 TATAACTTTTTGAAAA
1 TA-AA-TTTTTGAAAA
20834727 TTTATTCAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 3 0.10
19 2 0.07
20 10 0.34
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAATTTTTGAAAAGT
Found at i:20834740 original size:33 final size:32
Alignment explanation
Indices: 20834702--20834798 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 32
20834692 TTAAATTTTT
* *
20834702 GAAAAGATTTATAACTTTTTGAAAATTTATTCA
1 GAAAAGATTTAT-ATTTTTTAAAAATTTATTCA
20834735 GAAAAGATTTATATTTTTTAAAAATTTATTTTCA
1 GAAAAGATTTATATTTTTTAAAAATTTA--TTCA
20834769 -AAAA-ATTATATGATTTTTTAAAAATTTATT
1 GAAAAGATT-TAT-ATTTTTTAAAAATTTATT
20834799 TTTAAAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
32 19 0.33
33 19 0.33
34 20 0.34
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (32 bp):
GAAAAGATTTATATTTTTTAAAAATTTATTCA
Found at i:20834771 original size:14 final size:14
Alignment explanation
Indices: 20834749--20834811 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 14
20834739 AGATTTATAT
20834749 TTTTTAAAAATTTA
1 TTTTTAAAAATTTA
*
20834763 TTTTCAAAAAATTATATGA
1 TTTT-TAAAAA-T-T-T-A
20834782 TTTTTTAAAAATTTA
1 -TTTTTAAAAATTTA
20834797 TTTTTAAAAATTTA
1 TTTTTAAAAATTTA
20834811 T
1 T
20834812 AAGAAATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
14 19 0.46
15 6 0.15
16 2 0.05
17 2 0.05
18 2 0.05
19 6 0.15
20 4 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTTTAAAAATTTA
Found at i:20834790 original size:34 final size:33
Alignment explanation
Indices: 20834717--20834812 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 33
20834707 GATTTATAAC
*
20834717 TTTTTGAAAATTTA--TTCAGAAAAGATT-TATAT
1 TTTTTAAAAATTTATTTTCA-AAAA-ATTATATAT
20834749 TTTTTAAAAATTTATTTTCAAAAAATTATATGAT
1 TTTTTAAAAATTTATTTTCAAAAAATTATAT-AT
* *
20834783 TTTTTAAAAATTTATTTTTAAAAATTTATA
1 TTTTTAAAAATTTATTTTCAAAAAATTATA
20834813 AGAAATATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
32 16 0.28
33 7 0.12
34 34 0.60
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (33 bp):
TTTTTAAAAATTTATTTTCAAAAAATTATATAT
Found at i:20834806 original size:33 final size:31
Alignment explanation
Indices: 20834698--20834812 Score: 115
Period size: 32 Copynumber: 3.5 Consensus size: 31
20834688 AAAGTTAAAT
* * *
20834698 TTTTGAAAAGATTTATAACTTTTTGAAAATTTA
1 TTTT-AAAAAATTTAT-ATTTTTTAAAAATTTA
*
20834731 -TTCAGAAAAGATTTATATTTTTTAAAAATTTA
1 TTTTA-AAAA-ATTTATATTTTTTAAAAATTTA
20834763 TTTTCAAAAAATTATATGATTTTTTAAAAATTTA
1 TTTT-AAAAAATT-TAT-ATTTTTTAAAAATTTA
*
20834797 TTTTTAAAAATTTATA
1 TTTTAAAAAATTTATA
20834813 AGAAATATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
31 2 0.03
32 25 0.36
33 22 0.31
34 21 0.30
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTTAAAAAATTTATATTTTTTAAAAATTTA
Found at i:20838810 original size:22 final size:22
Alignment explanation
Indices: 20838762--20838811 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
20838752 ACATAATTAT
* *
20838762 TTTTTTCTATAAAAAAATATAA
1 TTTTTTCTACAAAAAAATACAA
*
20838784 TTTTTTCTACAATAAAA-ACAA
1 TTTTTTCTACAAAAAAATACAA
20838805 TATTTTT
1 T-TTTTT
20838812 TAACTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTTTCTACAAAAAAATACAA
Found at i:20839915 original size:15 final size:15
Alignment explanation
Indices: 20839892--20839926 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
20839882 CATTCATTTG
*
20839892 AGATGTATGGTAGAT
1 AGATTTATGGTAGAT
20839907 AGATTTATGGTAGAT
1 AGATTTATGGTAGAT
20839922 AGATT
1 AGATT
20839927 ATTCTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (15 bp):
AGATTTATGGTAGAT
Found at i:20840640 original size:3 final size:3
Alignment explanation
Indices: 20840632--20840664 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
20840622 CATTCCCATC
20840632 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20840665 CAAATTTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20842761 original size:8 final size:8
Alignment explanation
Indices: 20842750--20842774 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20842740 AATAATCGTG
20842750 TAATAAAT
1 TAATAAAT
20842758 TAATAAAT
1 TAATAAAT
20842766 TAATAAAT
1 TAATAAAT
20842774 T
1 T
20842775 TTGTAAATAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATAAAT
Found at i:20843092 original size:16 final size:16
Alignment explanation
Indices: 20843073--20843148 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 16
20843063 ATTATTAAAA
20843073 AATTATATTTTTAATT
1 AATTATATTTTTAATT
*
20843089 AATTA-ATTATTTATTT
1 AATTATATT-TTTAATT
*
20843105 ATATATATATATTT-ATAT
1 A-AT-TATATTTTTAAT-T
* *
20843123 AATGATATTTTTAAAT
1 AATTATATTTTTAATT
*
20843139 ATTTATATTT
1 AATTATATTT
20843149 AAAAAATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
15 3 0.07
16 28 0.61
17 6 0.13
18 7 0.15
19 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
AATTATATTTTTAATT
Found at i:20843119 original size:14 final size:14
Alignment explanation
Indices: 20843100--20843149 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
20843090 ATTAATTATT
20843100 TATTTATATATATA
1 TATTTATATATATA
20843114 TATTTATATAATGATA
1 TATTTATAT-AT-ATA
* * *
20843130 TTTTTAAATATTTA
1 TATTTATATATATA
20843144 TATTTA
1 TATTTA
20843150 AAAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.53
15 4 0.13
16 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:20843148 original size:30 final size:30
Alignment explanation
Indices: 20843102--20843163 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
20843092 TAATTATTTA
* * * *
20843102 TTTATATATATATATTTATATAATGATATT
1 TTTAAATATATATATTTAAAAAATAATATT
*
20843132 TTTAAATATTTATATTTAAAAAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
20843162 TT
1 TT
20843164 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTAAATATATATATTTAAAAAATAATATT
Found at i:20843166 original size:21 final size:22
Alignment explanation
Indices: 20843136--20843187 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
20843126 GATATTTTTA
20843136 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
20843156 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
20843178 AATATTTTAT
1 AATATTTTAT
20843188 TAATTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:20844910 original size:21 final size:22
Alignment explanation
Indices: 20844880--20844931 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
20844870 GATATTTTTA
20844880 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
20844900 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
20844922 AATATTTTAT
1 AATATTTTAT
20844932 TAATTTCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:20854310 original size:25 final size:25
Alignment explanation
Indices: 20854275--20854340 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
20854265 TTTAACACAA
* *
20854275 AATATTATATAAATTTATAAATTT-T
1 AATATTTTAT-AATATATAAATTTAT
*
20854300 AATATTTTATACTATATAAATTTAT
1 AATATTTTATAATATATAAATTTAT
20854325 AA-ATTTTCATACATAT
1 AATATTTT-ATA-ATAT
20854341 TTTAATTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 16 0.47
25 15 0.44
26 3 0.09
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (25 bp):
AATATTTTATAATATATAAATTTAT
Found at i:20854322 original size:24 final size:24
Alignment explanation
Indices: 20854290--20854340 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
20854280 TATATAAATT
20854290 TATAAATTT-TAATATTTT-ATACTA
1 TATAAATTTATAA-ATTTTCATAC-A
20854314 TATAAATTTATAAATTTTCATACA
1 TATAAATTTATAAATTTTCATACA
20854338 TAT
1 TAT
20854341 TTTAATTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
TATAAATTTATAAATTTTCATACA
Found at i:20854757 original size:30 final size:30
Alignment explanation
Indices: 20854721--20854778 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20854711 TTGTTCAATC
* *
20854721 AAAAATTTAATTAGATGAAAATAAATATAT
1 AAAAATTTAATTAAATAAAAATAAATATAT
*
20854751 AAAAATTTAATTAAATAAAAATTAATAT
1 AAAAATTTAATTAAATAAAAATAAATAT
20854779 TTAATTGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAATTTAATTAAATAAAAATAAATATAT
Found at i:20854776 original size:15 final size:16
Alignment explanation
Indices: 20854721--20854773 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
20854711 TTGTTCAATC
*
20854721 AAAAATTTAATTAGAT
1 AAAAATTTAATTAAAT
* * *
20854737 GAAAA--TAAATATAT
1 AAAAATTTAATTAAAT
20854751 AAAAATTTAATTAAAT
1 AAAAATTTAATTAAAT
20854767 AAAAATT
1 AAAAATT
20854774 AATATTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 11 0.38
16 18 0.62
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (16 bp):
AAAAATTTAATTAAAT
Found at i:20858077 original size:2 final size:2
Alignment explanation
Indices: 20858072--20858096 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20858062 GTAATGTGTG
20858072 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 T
20858097 TTGTATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20867495 original size:18 final size:17
Alignment explanation
Indices: 20867469--20867507 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
20867459 TTATATTTAA
*
20867469 ATATTTAAAACTTATAAT
1 ATATATAAAACTTAT-AT
*
20867487 ATATATAAAATTTATAT
1 ATATATAAAACTTATAT
20867504 ATAT
1 ATAT
20867508 GAACTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATAAAACTTATAT
Found at i:20873140 original size:21 final size:21
Alignment explanation
Indices: 20873116--20873155 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20873106 TGAATATTAC
20873116 AATTTTATTT-TAATATAAATT
1 AATTTT-TTTATAATATAAATT
*
20873137 AATTTTTTTATAATTTAAA
1 AATTTTTTTATAATATAAA
20873156 AAAAAAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTTTTTATAATATAAATT
Found at i:20875674 original size:12 final size:12
Alignment explanation
Indices: 20875657--20875689 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20875647 CAAATAAAAT
20875657 TATAACATATAA
1 TATAACATATAA
20875669 TATAACATATAA
1 TATAACATATAA
20875681 TATAA-ATAT
1 TATAACATAT
20875690 TTAATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAACATATAA
Found at i:20876088 original size:18 final size:17
Alignment explanation
Indices: 20876061--20876099 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
20876051 ATTTATAATA
20876061 AATT-TATTAGATATTT
1 AATTATATTAGATATTT
*
20876077 ATATTATATTAGTTATTT
1 A-ATTATATTAGATATTT
20876095 AATTA
1 AATTA
20876100 ATGATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 7 0.35
18 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
AATTATATTAGATATTT
Found at i:20876326 original size:11 final size:11
Alignment explanation
Indices: 20876305--20876342 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20876295 TGTGTTTATG
*
20876305 AATAAAAATAA
1 AATAATAATAA
*
20876316 AATAATCATAA
1 AATAATAATAA
20876327 AATAA-AATAA
1 AATAATAATAA
20876337 AATAAT
1 AATAAT
20876343 TAATTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
AATAATAATAA
Found at i:20876416 original size:29 final size:27
Alignment explanation
Indices: 20876376--20876462 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
20876366 AAATAATAAT
20876376 AAAATATTTAATATGATATCTTAATTTTA
1 AAAATA-TTAATATGATAT-TTAATTTTA
*
20876405 AAAATATCT-A-ATGATATTTGAATTATA
1 AAAATAT-TAATATGATATTT-AATTTTA
*
20876432 AATTAATAATTAATATGATATTTATTTTTA
1 AA--AAT-ATTAATATGATATTTAATTTTA
20876462 A
1 A
20876463 TACAATTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
26 2 0.04
27 15 0.31
28 2 0.04
29 11 0.23
30 9 0.19
31 9 0.19
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (27 bp):
AAAATATTAATATGATATTTAATTTTA
Found at i:20876656 original size:23 final size:22
Alignment explanation
Indices: 20876629--20876674 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20876619 AGAGAAGTAA
*
20876629 AAAAAAAAGCTTAAGAAAAAAAAG
1 AAAAACAA-CTTAA-AAAAAAAAG
*
20876653 AAAAACAATTTAAAAAAAAAAG
1 AAAAACAACTTAAAAAAAAAAG
20876675 GTAAGGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAAACAACTTAAAAAAAAAAG
Found at i:20884932 original size:23 final size:25
Alignment explanation
Indices: 20884897--20884946 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 25
20884887 GCAGGTCGGA
* *
20884897 TTTATTTTTTTTA-ATTTTTTT-TG
1 TTTAATTTGTTTAGATTTTTTTATG
*
20884920 TTTAATTTGTTTAGGTTTTTTTATG
1 TTTAATTTGTTTAGATTTTTTTATG
20884945 TT
1 TT
20884947 CGCAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 11 0.50
24 7 0.32
25 4 0.18
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (25 bp):
TTTAATTTGTTTAGATTTTTTTATG
Found at i:20887391 original size:17 final size:17
Alignment explanation
Indices: 20887364--20887402 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
20887354 CTTTAATTTC
20887364 TATTT-AAATAAATCTT
1 TATTTAAAATAAATCTT
*
20887380 TATTTAAAATAAATTTT
1 TATTTAAAATAAATCTT
20887397 TATTTA
1 TATTTA
20887403 TGTTAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAAAATAAATCTT
Found at i:20889500 original size:11 final size:11
Alignment explanation
Indices: 20889480--20889518 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20889470 ATATAGTTTT
*
20889480 AATTTTTATAA
1 AATTTATATAA
*
20889491 AATTTATATAT
1 AATTTATATAA
20889502 AATTTATATTAA
1 AATTTATA-TAA
20889514 AATTT
1 AATTT
20889519 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTATATAA
Found at i:20892688 original size:38 final size:39
Alignment explanation
Indices: 20892631--20892706 Score: 118
Period size: 38 Copynumber: 1.9 Consensus size: 39
20892621 TTTTTCACAT
20892631 AATTAATTAAAATATGAACAAAACTTATATAAAATTATAC
1 AATTAATT-AAATATGAACAAAACTTATATAAAATTATAC
* *
20892671 AATTAATT-AATATGAACAAAATTTATATGAAATTAT
1 AATTAATTAAATATGAACAAAACTTATATAAAATTAT
20892707 TTAGTGAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 26 0.76
40 8 0.24
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (39 bp):
AATTAATTAAATATGAACAAAACTTATATAAAATTATAC
Found at i:20901000 original size:15 final size:15
Alignment explanation
Indices: 20900982--20901011 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20900972 TTGTTTTACA
20900982 TTTTGCTTTTTTTCT
1 TTTTGCTTTTTTTCT
*
20900997 TTTTTCTTTTTTTCT
1 TTTTGCTTTTTTTCT
20901012 AAATTAGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTGCTTTTTTTCT
Found at i:20902686 original size:18 final size:17
Alignment explanation
Indices: 20902660--20902693 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20902650 TTACTTTCAA
20902660 GATTGAAAATAGAATTAT
1 GATTGAAAATA-AATTAT
*
20902678 GATTTAAAATAAATTA
1 GATTGAAAATAAATTA
20902694 AATAAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (17 bp):
GATTGAAAATAAATTAT
Found at i:20903076 original size:21 final size:20
Alignment explanation
Indices: 20903051--20903099 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
20903041 TGAAATATGG
20903051 ATTTTATAGTTTTAACAAATA
1 ATTTTATAG-TTTAACAAATA
* *
20903072 ATTTTAGTTGTTTACCAAATA
1 ATTTTA-TAGTTTAACAAATA
*
20903093 ACTTTAT
1 ATTTTAT
20903100 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (20 bp):
ATTTTATAGTTTAACAAATA
Found at i:20904821 original size:13 final size:13
Alignment explanation
Indices: 20904784--20904837 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
20904774 TTTTTTTATT
*
20904784 TTTAATTTA-AAA
1 TTTAATATATAAA
20904796 TTTAA-AT-T-AA
1 TTTAATATATAAA
*
20904806 TTTAATATATACA
1 TTTAATATATAAA
20904819 TTTAATATATAAA
1 TTTAATATATAAA
20904832 TTTAAT
1 TTTAAT
20904838 TACAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 7 0.20
11 3 0.09
12 6 0.17
13 19 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTAATATATAAA
Found at i:20906806 original size:27 final size:28
Alignment explanation
Indices: 20906754--20906806 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20906744 TCCGATCGGA
*
20906754 TCATTTTGAATTAAAAATTTTTTAAAGT
1 TCATTTTGAATTAAAAATTGTTTAAAGT
*
20906782 TCATTTTGAATT-TAAATTGTTTAAA
1 TCATTTTGAATTAAAAATTGTTTAAA
20906807 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.51
Consensus pattern (28 bp):
TCATTTTGAATTAAAAATTGTTTAAAGT
Found at i:20908110 original size:16 final size:16
Alignment explanation
Indices: 20908089--20908122 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20908079 TGAAAATTTG
*
20908089 ATTTTATAATTCATAT
1 ATTTTATAATTAATAT
*
20908105 ATTTTATATTTAATAT
1 ATTTTATAATTAATAT
20908121 AT
1 AT
20908123 ATATAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTATAATTAATAT
Found at i:20911186 original size:22 final size:22
Alignment explanation
Indices: 20911117--20911189 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
20911107 AAAATATGAA
*
20911117 TAATTTACTATTAAGTTATC-T
1 TAATTTACTAATAAGTTATCAT
* * * ** *
20911138 AAACTTTACTACTAAGCTAAAAC
1 TAA-TTTACTAATAAGTTATCAT
20911161 TAATTTACTAATAAGTTATCAT
1 TAATTTACTAATAAGTTATCAT
20911183 TAATTTA
1 TAATTTA
20911190 TTGTTATCAC
Statistics
Matches: 38, Mismatches: 12, Indels: 3
0.72 0.23 0.06
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.42
Consensus pattern (22 bp):
TAATTTACTAATAAGTTATCAT
Found at i:20911430 original size:22 final size:22
Alignment explanation
Indices: 20911414--20911462 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
20911404 GTTATCAGTA
*
20911414 ATTTATTATTAAATTATTAAAG
1 ATTTATTATTAAATTATCAAAG
*
20911436 ATTTATTATTAAGTTAT-AAATG
1 ATTTATTATTAAATTATCAAA-G
20911458 ATTTA
1 ATTTA
20911463 ATTGATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTTATTATTAAATTATCAAAG
Found at i:20911505 original size:22 final size:22
Alignment explanation
Indices: 20911463--20911528 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
20911453 AAATGATTTA
* *
20911463 ATTGATGATTTAGTACT-AAGTT
1 ATTGATAATTTACTA-TAAAGTT
*
20911485 ATTGATAATTTATTATAAAGTT
1 ATTGATAATTTACTATAAAGTT
*
20911507 A-TAACTAATTTACTATAAAGTT
1 ATTGA-TAATTTACTATAAAGTT
20911529 GTCAATGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.08
22 35 0.92
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (22 bp):
ATTGATAATTTACTATAAAGTT
Found at i:20911528 original size:78 final size:78
Alignment explanation
Indices: 20911390--20911540 Score: 175
Period size: 78 Copynumber: 1.9 Consensus size: 78
20911380 AAGTCATTAC
* * * *
20911390 TGATTTATTACTACGTTATCAGTAATTTATTATTAAATTATTAAAGATTTATTATTAAGTTATAA
1 TGATTTAGTACTAAGTTATCAGTAATTTATTATTAAATTATTAAAGATTTACTATAAAGTTATAA
20911455 ATGATTTAATTGA
66 ATGATTTAATTGA
*
20911468 TGATTTAGTACTAAGTTAT-TGATAATTTATTA-TAAAGTTA-TAACTA-ATTTACTATAAAGTT
1 TGATTTAGTACTAAGTTATCAG-TAATTTATTATTAAA-TTATTAA--AGATTTACTATAAAGTT
* *
20911529 GTCAATGATTTA
62 ATAAATGATTTA
20911541 CTACAAAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
77 8 0.13
78 53 0.85
79 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (78 bp):
TGATTTAGTACTAAGTTATCAGTAATTTATTATTAAATTATTAAAGATTTACTATAAAGTTATAA
ATGATTTAATTGA
Found at i:20911559 original size:22 final size:22
Alignment explanation
Indices: 20911514--20911559 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
20911504 GTTATAACTA
* * *
20911514 ATTTACTATAAAGTTGTCAATG
1 ATTTACTACAAAATTATCAATG
*
20911536 ATTTACTACAAAATTATCATTG
1 ATTTACTACAAAATTATCAATG
20911558 AT
1 AT
20911560 ATATAACTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (22 bp):
ATTTACTACAAAATTATCAATG
Found at i:20911702 original size:22 final size:22
Alignment explanation
Indices: 20911661--20911721 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
20911651 AATCTTATTG
* * *
20911661 ATTTATTACTAAGTTTTCAA-T
1 ATTTACTAGTAAGTTATCAATT
*
20911682 ATTTAGCTATTAAGTTATCAATT
1 ATTTA-CTAGTAAGTTATCAATT
20911705 ATTTACTAGTAAGTTAT
1 ATTTACTAGTAAGTTAT
20911722 TTATGGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.15
22 23 0.68
23 6 0.18
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (22 bp):
ATTTACTAGTAAGTTATCAATT
Found at i:20911999 original size:22 final size:21
Alignment explanation
Indices: 20911964--20912005 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
20911954 ACTACTCACT
**
20911964 TACTACTATCTTATCACTGATC
1 TACTACTAAATTATCA-TGATC
20911986 TACTACTAAATTATCATGAT
1 TACTACTAAATTATCATGAT
20912006 TTATCACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (21 bp):
TACTACTAAATTATCATGATC
Found at i:20912163 original size:22 final size:23
Alignment explanation
Indices: 20911981--20912302 Score: 174
Period size: 22 Copynumber: 14.3 Consensus size: 23
20911971 ATCTTATCAC
* *
20911981 TGATCTACTACTAAA-TTA-TCA
1 TGATTTACTACTAAAGTTATTAA
*
20912002 TGATTTA-TCACT-AAGTTATAAA
1 TGATTTACT-ACTAAAGTTATTAA
* * *
20912024 TGATTTATTGCT-AAGTTATAAA
1 TGATTTACTACTAAAGTTATTAA
* * *
20912046 TGATTTATTACTTAA-TTATTGA
1 TGATTTACTACTAAAGTTATTAA
* *
20912068 TAATTTACTA-TTAAGTTATTAA
1 TGATTTACTACTAAAGTTATTAA
* * * *
20912090 TAATTAATTA-TAATA-TTATTAC
1 TGATTTACTACTAA-AGTTATTAA
20912112 TGATTTACTAC-AAAGTTATTAA
1 TGATTTACTACTAAAGTTATTAA
20912134 TGATTTACTA-TAAAGTTATTAA
1 TGATTTACTACTAAAGTTATTAA
* * *
20912156 TGATTTACTAATTTACAACTAAATTATCA
1 TGATTTACT-A-CTA-AAGT-TATTA--A
* *
20912185 TTGATTTA-TAACTAAA-TTATCAC
1 -TGATTTACT-ACTAAAGTTATTAA
* *
20912208 TGATTTACAACT-AAGTTATAAA
1 TGATTTACTACTAAAGTTATTAA
* * * * *
20912230 TGTTTTATTA-TTACGTTATTAG
1 TGATTTACTACTAAAGTTATTAA
*
20912252 TGATTTACTACT-AAGTTATCAA
1 TGATTTACTACTAAAGTTATTAA
*
20912274 TAATTTACTACTAAA-TTATTAA
1 TGATTTACTACTAAAGTTATTAA
20912296 TGATTTA
1 TGATTTA
20912303 GTATTATACT
Statistics
Matches: 237, Mismatches: 41, Indels: 45
0.73 0.13 0.14
Matches are distributed among these distances:
20 3 0.01
21 20 0.08
22 178 0.75
23 8 0.03
25 5 0.02
26 4 0.02
27 6 0.03
28 2 0.01
29 4 0.02
30 7 0.03
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (23 bp):
TGATTTACTACTAAAGTTATTAA
Found at i:20912316 original size:66 final size:66
Alignment explanation
Indices: 20912186--20912316 Score: 147
Period size: 66 Copynumber: 2.0 Consensus size: 66
20912176 AAATTATCAT
* * * * * **
20912186 TGATTTATAACTAAATTATCACTGATTTACAACTAAGTTATAAATGTTTTATTATTACGTTATTA
1 TGATTTATAACTAAATTATCAATAATTTACAACTAAATTATAAATGATTTAGTATTACACTATTA
20912251 G
66 G
* * * *
20912252 TGATTTACT-ACTAAGTTATCAATAATTTACTACTAAATTATTAATGATTTAGTATTATACTATT
1 TGATTTA-TAACTAAATTATCAATAATTTACAACTAAATTATAAATGATTTAGTATTACACTATT
20912316 A
65 A
20912317 TACATTTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
66 52 0.98
67 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (66 bp):
TGATTTATAACTAAATTATCAATAATTTACAACTAAATTATAAATGATTTAGTATTACACTATTA
G
Found at i:20912460 original size:22 final size:22
Alignment explanation
Indices: 20912432--20912485 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
20912422 TATAATTTAA
20912432 TTACTATTAAACTA-AACTAAAT
1 TTACTATTAAACTATAACT-AAT
** *
20912454 TTACTATTATGCTATCACTAAT
1 TTACTATTAAACTATAACTAAT
20912476 TTACTATTAA
1 TTACTATTAA
20912486 GTTTTCATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.43
Consensus pattern (22 bp):
TTACTATTAAACTATAACTAAT
Found at i:20912499 original size:22 final size:22
Alignment explanation
Indices: 20912452--20912823 Score: 116
Period size: 22 Copynumber: 17.2 Consensus size: 22
20912442 ACTAAACTAA
* * * *
20912452 ATTTACTATTATGCTATCACTA
1 ATTTACTATTAAGTTATCATTG
*
20912474 ATTTACTATTAAGTTTTCATTG
1 ATTTACTATTAAGTTATCATTG
* * * * *
20912496 ATTTGCCACTAAATTATCAATG
1 ATTTACTATTAAGTTATCATTG
*
20912518 ATTAACTATTAAGTTATCATT-
1 ATTTACTATTAAGTTATCATTG
* * *
20912539 -TTT-TTATGAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTG
* * * *
20912559 ATTTACAACTATGTTATTA-TG
1 ATTTACTATTAAGTTATCATTG
* * * *
20912580 CATTTACAACTATGTTATAATTG
1 -ATTTACTATTAAGTTATCATTG
* *
20912603 ATTTATTATTAAGTTATTA-TG
1 ATTTACTATTAAGTTATCATTG
* * * *
20912624 TTTTGACTATTATA-TTATTACTA
1 ATTT-ACTATTA-AGTTATCATTG
* * *
20912647 ATTTACTACTAAATTATAATTG
1 ATTTACTATTAAGTTATCATTG
* *
20912669 ATATACTATTAAGTTAT-ATCTCTA
1 ATTTACTATTAAGTTATCA--T-TG
* * *
20912693 ATTTACTATATTAAATTATTACTG
1 ATTTAC--TATTAAGTTATCATTG
* *
20912717 A-TTAGCTATTAATTTACTGA-TG
1 ATTTA-CTATTAAGTTA-TCATTG
20912739 A-TTACTATT-AGTTAT-ATTG
1 ATTTACTATTAAGTTATCATTG
* *
20912758 ATTTACTTTTAA-TTATTAATT-
1 ATTTACTATTAAGTTA-TCATTG
*
20912779 A-TTAC--TT-AGTTATAAATT-
1 ATTTACTATTAAGTTAT-CATTG
* *
20912797 ATTTACGATTAAATTATCATTG
1 ATTTACTATTAAGTTATCATTG
20912819 ATTTA
1 ATTTA
20912824 TTACTAAGCT
Statistics
Matches: 266, Mismatches: 55, Indels: 58
0.70 0.15 0.15
Matches are distributed among these distances:
17 2 0.01
18 11 0.04
19 22 0.08
20 20 0.08
21 24 0.09
22 154 0.58
23 13 0.05
24 9 0.03
26 10 0.04
27 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTG
Found at i:20913170 original size:22 final size:22
Alignment explanation
Indices: 20913145--20913483 Score: 161
Period size: 22 Copynumber: 15.8 Consensus size: 22
20913135 AATGAATCTT
20913145 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
* *
20913167 ATTTACTATTAGGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * *
20913189 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCATTA
* *
20913211 ATTAACTACTAAGTTATCATTTA
1 ATTTACTATTAAGTTATCA-TTA
* ** *
20913234 TTTTTTTATTAAGTTATCTTTA
1 ATTTACTATTAAGTTATCATTA
* *
20913256 ATTTACTAATATGTGT-T-A-TA
1 ATTTACTATTAAGT-TATCATTA
* * * * *
20913276 CATTTACAATTATG-TATAAATG
1 -ATTTACTATTAAGTTATCATTA
* * *
20913298 ATTTACTGTTAAGTTAT-TTGTT
1 ATTTACTATTAAGTTATCAT-TA
* * * *
20913320 ATTTCCTACTATGTTATTATGT-
1 ATTTACTATTAAGTTATCAT-TA
* *
20913342 ATTTATTATTATGTTATCA-T-
1 ATTTACTATTAAGTTATCATTA
*
20913362 A--CACTATT---TTATCAATT-
1 ATTTACTATTAAGTTATC-ATTA
* * * *
20913379 ATTTACTACTAAATTATTATTT
1 ATTTACTATTAAGTTATCATTA
*
20913401 ATTTACTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
*
20913423 TTTTACTATTAAGTTATTCA-TA
1 ATTTACTATTAAGTTA-TCATTA
*
20913445 ATTTACTA-TACAGTTATTATTA
1 ATTTACTATTA-AGTTATCATTA
* *
20913467 ATTTAGTATAAAGTTAT
1 ATTTACTATTAAGTTAT
20913484 TACTGGTTTT
Statistics
Matches: 242, Mismatches: 54, Indels: 42
0.72 0.16 0.12
Matches are distributed among these distances:
15 5 0.02
16 1 0.00
17 2 0.01
18 5 0.02
19 6 0.02
20 5 0.02
21 29 0.12
22 167 0.69
23 22 0.09
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:20913421 original size:11 final size:11
Alignment explanation
Indices: 20913392--20913485 Score: 57
Period size: 11 Copynumber: 8.5 Consensus size: 11
20913382 TACTACTAAA
* *
20913392 TTATTATTTAT
1 TTATTATTAAG
*
20913403 TTACTATTAAG
1 TTATTATTAAG
**
20913414 TTATTATTATT
1 TTATTATTAAG
*
20913425 TTACTATTAAG
1 TTATTATTAAG
*
20913436 TTATTCA-TAAT
1 TTATT-ATTAAG
*
20913447 TTACTA-TACAG
1 TTATTATTA-AG
*
20913458 TTATTATTAAT
1 TTATTATTAAG
* *
20913469 TTAGTATAAAG
1 TTATTATTAAG
20913480 TTATTA
1 TTATTA
20913486 CTGGTTTTGT
Statistics
Matches: 61, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
10 3 0.05
11 55 0.90
12 3 0.05
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:20916169 original size:151 final size:149
Alignment explanation
Indices: 20915880--20916157 Score: 314
Period size: 151 Copynumber: 1.8 Consensus size: 149
20915870 AATAGATTTA
20915880 AATTTAAATAACTAACAAATAAAAGGTTATATATATTTAATGACAAATAATCTTTATTAAATAAA
1 AATTTAAATAACTAACAAATAAAA-GTTATATATATTTAATGACAAATAATCTTTATTAAATAAA
* * * * ** ** *
20915945 TAAATGCTAGAAATTTAAAAGGTAAATTTGTTATTTTTTAAATTCATAAGGATACTTATGCGATC
65 TAAATGCTAAAAATTTAAAAGGTAAATTTGGTATTTTTAAAATTAATAAAAATACAAATGCGATA
20916010 TACTTTTAACATTTTTAGATT
130 TAC-TTTAACATTTTTAGATT
* * *
20916031 AATTTAAATAATTAACTAAT-AAA-TTATATATATTTAATGGCAAATAATCTTTAATACATAAAT
1 AATTTAAATAACTAACAAATAAAAGTTATATATATTTAATGACAAATAATCTTT-AT---TAAAT
*
20916094 AAA-AAATGCTAAAAATTT-GAAGGTAAATTTGGTATTTCTTAAAATTTAACTAACAAATA-AAA
62 AAATAAATGCTAAAAATTTAAAAGGTAAATTTGGTATTT-TTAAAA-TTAA-TAA-AAATACAAA
20916156 TG
123 TG
20916158 TTATATATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
148 28 0.26
149 2 0.02
150 20 0.19
151 37 0.35
152 11 0.10
153 6 0.06
154 3 0.03
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (149 bp):
AATTTAAATAACTAACAAATAAAAGTTATATATATTTAATGACAAATAATCTTTATTAAATAAAT
AAATGCTAAAAATTTAAAAGGTAAATTTGGTATTTTTAAAATTAATAAAAATACAAATGCGATAT
ACTTTAACATTTTTAGATT
Found at i:20916363 original size:252 final size:252
Alignment explanation
Indices: 20915888--20916644 Score: 1335
Period size: 252 Copynumber: 3.0 Consensus size: 252
20915878 TAAATTTAAA
* **
20915888 TAACTAACAAATAAAAGGTTATATATATTTAATGACAAATAATCTTTA-T---TAAATAAATAAA
1 TAACTAACAAATAAAATG-T-TATATATTTAATGGTAAATAATCTTTATTAAATAAATAAATAAA
* * *
20915949 TGCTAGAAATTTAAAAGGTAAATTTGTTATTTTTTAAATTCATAAGGATACTTATGCGA-TCTAC
64 TGTTAGAAATTTAAAAGGTGAATTTGTTATTTTTTAAATTCATAAGGATACTTATGCTATTC-AC
*
20916013 TTTTAACATTTTTAGATTAATTTAAATAATTAACTAATAAATTATATATATTTAATGGCAAATAA
128 TTTTAACATTTTTAGATTAATTTAAATAATTAACTAATAAA-T-TATATATTTAATGGTAAATAA
*
20916078 TCTTTAATACATAAATAAAAAATGCTAAAAATTTGAAGGTAAATTTGGTATTTCTTAAAATT
191 TCTTTCATACATAAATAAAAAATGCTAAAAATTTGAAGGTAAATTTGGTATTTCTTAAAATT
20916140 TAACTAACAAATAAAATGTTATATATTTAATGGTAAATAATCTTTATTAAATAAATAAATAAATG
1 TAACTAACAAATAAAATGTTATATATTTAATGGTAAATAATCTTTATTAAATAAATAAATAAATG
20916205 TTAGAAATTTAAAAGGTGAATTTGTTATTTTTTAAATTCATAAGGATACTTATGCTATTCACTTT
66 TTAGAAATTTAAAAGGTGAATTTGTTATTTTTTAAATTCATAAGGATACTTATGCTATTCACTTT
20916270 TAACATTTTTAGATTAATTTAAATAATTAACTAATAAATTATATATTTAATGGTAAATAATCTTT
131 TAACATTTTTAGATTAATTTAAATAATTAACTAATAAATTATATATTTAATGGTAAATAATCTTT
20916335 CATACATAAATAAAAAATGCTAAAAATTTGAAGGTAAATTTGGTATTTCTTAAAATT
196 CATACATAAATAAAAAATGCTAAAAATTTGAAGGTAAATTTGGTATTTCTTAAAATT
20916392 TAACTAACAAATAAAATGTTATATATTTAATGGTAAATAATCTTTATTAAATAAATAAATAAATG
1 TAACTAACAAATAAAATGTTATATATTTAATGGTAAATAATCTTTATTAAATAAATAAATAAATG
*
20916457 TTAGAAATTTAAAAGGTGAATTTGTTATTTTTTAAATTCATAAGGATATTTATGCTATTCACTTT
66 TTAGAAATTTAAAAGGTGAATTTGTTATTTTTTAAATTCATAAGGATACTTATGCTATTCACTTT
20916522 TAACATTTTTAGATTAATTTAAATAATTAACTAATAAATTATATATTTAATGGTAAATAATCTTT
131 TAACATTTTTAGATTAATTTAAATAATTAACTAATAAATTATATATTTAATGGTAAATAATCTTT
* *
20916587 CATACATAAATAAAAAATGCTAAAAATTTAAAGGTAAATTTGTTATTTCTTAAAATT
196 CATACATAAATAAAAAATGCTAAAAATTTGAAGGTAAATTTGGTATTTCTTAAAATT
20916644 T
1 T
20916645 GTAAATGTAT
Statistics
Matches: 489, Mismatches: 11, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
250 25 0.05
251 2 0.00
252 348 0.71
253 1 0.00
254 111 0.23
255 2 0.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (252 bp):
TAACTAACAAATAAAATGTTATATATTTAATGGTAAATAATCTTTATTAAATAAATAAATAAATG
TTAGAAATTTAAAAGGTGAATTTGTTATTTTTTAAATTCATAAGGATACTTATGCTATTCACTTT
TAACATTTTTAGATTAATTTAAATAATTAACTAATAAATTATATATTTAATGGTAAATAATCTTT
CATACATAAATAAAAAATGCTAAAAATTTGAAGGTAAATTTGGTATTTCTTAAAATT
Found at i:20926886 original size:2 final size:2
Alignment explanation
Indices: 20926873--20926908 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
20926863 TCTCAATTTC
*
20926873 AT AT AT AC 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 AT AT
20926909 CTCTGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20931173 original size:14 final size:14
Alignment explanation
Indices: 20931154--20931182 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20931144 CTTCTAAGAT
20931154 GTGATTTTCAGTAG
1 GTGATTTTCAGTAG
20931168 GTGATTTTCAGTAG
1 GTGATTTTCAGTAG
20931182 G
1 G
20931183 GAGTCGTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.31, T:0.41
Consensus pattern (14 bp):
GTGATTTTCAGTAG
Found at i:20934295 original size:11 final size:11
Alignment explanation
Indices: 20934279--20934318 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
20934269 AATATATAAC
20934279 AAATCTCAAAT
1 AAATCTCAAAT
*
20934290 AAATCTCTAAT
1 AAATCTCAAAT
*
20934301 AAATCTCAAAC
1 AAATCTCAAAT
20934312 AAATCTC
1 AAATCTC
20934319 TTATGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATCTCAAAT
Found at i:20934802 original size:34 final size:31
Alignment explanation
Indices: 20934764--20934828 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 31
20934754 AGATAGATAT
*
20934764 AATTTTCAATATAATATAGAAATAATATAATTTA
1 AATTTTCAATAAAAT-TA-AAA-AATATAATTTA
* *
20934798 AATTTTTAATAAAATTAAAAAATATATTTTA
1 AATTTTCAATAAAATTAAAAAATATAATTTA
20934829 TATATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.36
32 3 0.11
33 2 0.07
34 13 0.46
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (31 bp):
AATTTTCAATAAAATTAAAAAATATAATTTA
Found at i:20935905 original size:24 final size:24
Alignment explanation
Indices: 20935874--20935922 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
20935864 AAATTTTCAT
20935874 AAATTTTA-ATGTTAAAAAATAAAA
1 AAATTTTAGATGTTAAAAAA-AAAA
*
20935898 AAATTTTAGATGTTCAAAAAAAAA
1 AAATTTTAGATGTTAAAAAAAAAA
20935922 A
1 A
20935923 TAGAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATTTTAGATGTTAAAAAAAAAA
Found at i:20936080 original size:15 final size:15
Alignment explanation
Indices: 20936060--20936089 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20936050 ATTAGCTAAT
20936060 AAGTATACATTATGA
1 AAGTATACATTATGA
*
20936075 AAGTATTCATTATGA
1 AAGTATACATTATGA
20936090 GATGATCTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (15 bp):
AAGTATACATTATGA
Found at i:20936685 original size:17 final size:17
Alignment explanation
Indices: 20936663--20936711 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
20936653 CTAAGATACC
20936663 TGGTGATCAAATCACTT
1 TGGTGATCAAATCACTT
20936680 TGGTGATCAAATCACTT
1 TGGTGATCAAATCACTT
*
20936697 TGGTGATCATATCAC
1 TGGTGATCAAATCAC
20936712 CATGATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (17 bp):
TGGTGATCAAATCACTT
Found at i:20938882 original size:29 final size:29
Alignment explanation
Indices: 20938840--20938897 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
20938830 TCTAAAGAAA
20938840 GCTTAAACTATAAGTTATTGAATTCAAAT
1 GCTTAAACTATAAGTTATTGAATTCAAAT
20938869 GCTTAAACTATAAGTTATTGAATTCAAAT
1 GCTTAAACTATAAGTTATTGAATTCAAAT
20938898 AATCTCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (29 bp):
GCTTAAACTATAAGTTATTGAATTCAAAT
Found at i:20940399 original size:31 final size:32
Alignment explanation
Indices: 20940364--20940434 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
20940354 AAGTGAAATT
* *
20940364 AAATGAAATC-TATATGCATTAATATTTTATC
1 AAATGAAATCAAATATGCATTAATATTTTACC
* *
20940395 AAATGAAATCAAATGTGTATTAATATTTTACC
1 AAATGAAATCAAATATGCATTAATATTTTACC
20940427 AAATGAAA
1 AAATGAAA
20940435 CCATATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 10 0.29
32 25 0.71
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (32 bp):
AAATGAAATCAAATATGCATTAATATTTTACC
Found at i:20943194 original size:18 final size:18
Alignment explanation
Indices: 20943153--20943195 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20943143 TGTAAAATAT
* *
20943153 ATATTTTAATTTTTATTA
1 ATATTTTAAATTATATTA
*
20943171 AAATTTTAAATTATATTA
1 ATATTTTAAATTATATTA
*
20943189 TTATTTT
1 ATATTTT
20943196 TTATATCATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTAAATTATATTA
Found at i:20943214 original size:32 final size:30
Alignment explanation
Indices: 20943140--20943216 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
20943130 TGAACATGTC
*
20943140 AAATGTAAAATATATATTTTAATTTTTATTA
1 AAATTTAAAAT-TATATTTTAATTTTTATTA
* * *
20943171 AAATTTTAAATTATATTATTATTTTTTATATC
1 AAATTTAAAATTATATT-TTAATTTTTAT-TA
*
20943203 ATATTTAAAATTAT
1 AAATTTAAAATTAT
20943217 CAAAATCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 6 0.16
31 19 0.50
32 13 0.34
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
AAATTTAAAATTATATTTTAATTTTTATTA
Found at i:20949402 original size:2 final size:2
Alignment explanation
Indices: 20949390--20949420 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20949380 TTTAATCCTT
*
20949390 TA TA TA AA 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 T
20949421 TATTTGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20951321 original size:15 final size:16
Alignment explanation
Indices: 20951285--20951329 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
20951275 ATTAAATATG
20951285 AATATTACATTAATTA
1 AATATTACATTAATTA
20951301 AGATATTA-A-TAATTTA
1 A-ATATTACATTAA-TTA
20951317 AATATTACATTAA
1 AATATTACATTAA
20951330 AAAATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 9 0.36
16 7 0.28
17 9 0.36
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (16 bp):
AATATTACATTAATTA
Found at i:20953208 original size:12 final size:13
Alignment explanation
Indices: 20953179--20953211 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
20953169 TGCTTATTGA
20953179 TTTTTAATTTTAT
1 TTTTTAATTTTAT
*
20953192 TTTTTAATTTTTT
1 TTTTTAATTTTAT
20953205 TTTTTAA
1 TTTTTAA
20953212 ATGTTAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTAATTTTAT
Found at i:20956446 original size:14 final size:14
Alignment explanation
Indices: 20956438--20956477 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
20956428 AATATTATTT
20956438 TTTAAATATAAATA
1 TTTAAATATAAATA
20956452 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
20956468 TATAAATATA
1 TTTAAATATA
20956478 TAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:20956459 original size:8 final size:8
Alignment explanation
Indices: 20956443--20956483 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
20956433 TATTTTTTAA
20956443 ATATAAAT
1 ATATAAAT
*
20956451 ATTTAAAT
1 ATATAAAT
*
20956459 ATATAATT
1 ATATAAAT
20956467 ATATAAAT
1 ATATAAAT
20956475 ATATAAAT
1 ATATAAAT
20956483 A
1 A
20956484 AAAAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:20956490 original size:24 final size:24
Alignment explanation
Indices: 20956443--20956491 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
20956433 TATTTTTTAA
* * *
20956443 ATATAAATATTTAAATATATAATT
1 ATATAAATATATAAATAAAAAATT
20956467 ATATAAATATATAAATAAAAAATT
1 ATATAAATATATAAATAAAAAATT
20956491 A
1 A
20956492 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATATAAATAAAAAATT
Found at i:20956500 original size:13 final size:13
Alignment explanation
Indices: 20956482--20956506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20956472 AATATATAAA
20956482 TAAAAAATTAATT
1 TAAAAAATTAATT
20956495 TAAAAAATTAAT
1 TAAAAAATTAAT
20956507 ATTGGGTAGG
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAAATTAATT
Found at i:20957930 original size:2 final size:2
Alignment explanation
Indices: 20957923--20957970 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
20957913 AAAAACCGCT
* *
20957923 TA TA TA TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20957965 TA TA TA
1 TA TA TA
20957971 AGGTGTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:20960142 original size:20 final size:20
Alignment explanation
Indices: 20960106--20960143 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20960096 AAGAAAGTTG
*
20960106 AAAAATATATTTTTTTATAA
1 AAAAATATATTTGTTTATAA
20960126 AAAAAT-TATTATGTTTAT
1 AAAAATATATT-TGTTTAT
20960144 CTTTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAAATATATTTGTTTATAA
Found at i:20969327 original size:193 final size:191
Alignment explanation
Indices: 20968998--20969382 Score: 682
Period size: 193 Copynumber: 2.0 Consensus size: 191
20968988 AATCACATTT
20968998 AACTACTTGACATAGCTGCATTAGGTAACCATACCTTCAACATCCATAGGACCGGACTTTTGCTG
1 AACTACTTGACATAGCTGCATTAGGTAACCATACCTTCAACATCCATAGGACCGGACTTTTGCTG
20969063 CATTTGAAGCAACTTAATCATCATTGTCAAAATTCGCAATTTATACAAGTTTACGGTAGTGTCAT
66 CATTTGAAGCAACTTAATCATCATTGTCAAAATTCGCAATTTATACAAGTTTACGGTAGTGTCAT
20969128 GAATCAAAACAGAGATAACA-AGACAGATAGAGAGTGGTTCCTCCAGTTTAAAATGCAGGATTG
131 GAATCAAAACAGAGATAACAGA-ACAGAT--AGAGTGGTTCCTCCAGTTTAAAATGCAGGATTG
* *
20969191 AACTACTTGACATAGCTGCATTAGGTAACCATACCTTCAATATCCATATGACCGGACTTTTGCTG
1 AACTACTTGACATAGCTGCATTAGGTAACCATACCTTCAACATCCATAGGACCGGACTTTTGCTG
* *
20969256 CATTTGAAGCAACTTAATCATCATTGTCAAGATTCGGAATTTATACAAGTTTACGGTAGTGTCAT
66 CATTTGAAGCAACTTAATCATCATTGTCAAAATTCGCAATTTATACAAGTTTACGGTAGTGTCAT
* *
20969321 GAATCAAAACCGAGATAACAGAACAGATAGAGTGGTTCCTCCAGTTTAAAATGCCGGATTG
131 GAATCAAAACAGAGATAACAGAACAGATAGAGTGGTTCCTCCAGTTTAAAATGCAGGATTG
20969382 A
1 A
20969383 GATGATTATG
Statistics
Matches: 185, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
191 33 0.18
193 151 0.82
194 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (191 bp):
AACTACTTGACATAGCTGCATTAGGTAACCATACCTTCAACATCCATAGGACCGGACTTTTGCTG
CATTTGAAGCAACTTAATCATCATTGTCAAAATTCGCAATTTATACAAGTTTACGGTAGTGTCAT
GAATCAAAACAGAGATAACAGAACAGATAGAGTGGTTCCTCCAGTTTAAAATGCAGGATTG
Found at i:20976842 original size:34 final size:34
Alignment explanation
Indices: 20976804--20976876 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
20976794 TCTGAATTCT
* ** *
20976804 CATATCTAATAAATTATATAATTTACCAAAAATA
1 CATATCCAATAAAAAATATAATTTACCAAAAAAA
*
20976838 CATATCCAATAAAAAATATAATTTATCAAAAAAA
1 CATATCCAATAAAAAATATAATTTACCAAAAAAA
20976872 CATAT
1 CATAT
20976877 TTGAAAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (34 bp):
CATATCCAATAAAAAATATAATTTACCAAAAAAA
Found at i:20983331 original size:18 final size:18
Alignment explanation
Indices: 20983308--20983393 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 18
20983298 CAATTAAATT
*
20983308 AAATAAATTTATTCATAA
1 AAATAAATATATTCATAA
*
20983326 AAATAAATATATTTATAAA
1 AAATAAATATATTCAT-AA
*
20983345 TATATATAAATATATTTATGAA
1 -A-A-ATAAATATATTCAT-AA
* *
20983367 TAATAAATAAATT-ATAA
1 AAATAAATATATTCATAA
20983384 CTAAATAAAT
1 --AAATAAAT
20983394 TTAAATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.04
18 16 0.29
19 19 0.34
20 2 0.04
21 1 0.02
22 16 0.29
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (18 bp):
AAATAAATATATTCATAA
Found at i:20983339 original size:22 final size:22
Alignment explanation
Indices: 20983287--20983378 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 22
20983277 ATAAAATATT
* *
20983287 TATATTTGATTCAATTAAATTAAA
1 TATATTT-ATT-AATAAAAATAAA
* *
20983311 TAAATTTATTCATAAAAATAAA
1 TATATTTATTAATAAAAATAAA
* * *
20983333 TATATTTATAAATATATATAAA
1 TATATTTATTAATAAAAATAAA
*
20983355 TATATTTATGAATAATAAATAAA
1 TATATTTATTAATAA-AAATAAA
20983378 T
1 T
20983379 TATAACTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
22 39 0.71
23 10 0.18
24 6 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATTTATTAATAAAAATAAA
Found at i:20983343 original size:12 final size:12
Alignment explanation
Indices: 20983328--20983368 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
20983318 ATTCATAAAA
20983328 ATAAATATATTT
1 ATAAATATATTT
20983340 ATAAATATA--T
1 ATAAATATATTT
20983350 ATAAATATATTT
1 ATAAATATATTT
*
20983362 ATGAATA
1 ATAAATA
20983369 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 10 0.38
12 16 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
ATAAATATATTT
Found at i:20983388 original size:15 final size:14
Alignment explanation
Indices: 20983366--20983408 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
20983356 ATATTTATGA
20983366 ATAATAAATAAATT
1 ATAATAAATAAATT
20983380 ATAACTAAATAAATT
1 ATAA-TAAATAAATT
*
20983395 -TAAATAAATGAATT
1 AT-AATAAATAAATT
20983409 TTAAATGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAATAAATAAATT
Found at i:20983389 original size:44 final size:44
Alignment explanation
Indices: 20983302--20983403 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
20983292 TTGATTCAAT
** *
20983302 TAAAT-TAAATAAATTTATTCATAAAAATAAATATATTTATAAA
1 TAAATATAAATAAATTTATGAATAAAAATAAATATATTAATAAA
* *
20983345 TATATATAAATATATTTATGAATAATAAATAAAT-TA-TAACTAAA
1 TAAATATAAATAAATTTATGAATAA-AAATAAATATATTAA-TAAA
*
20983389 TAAATTTAAATAAAT
1 TAAATATAAATAAAT
20983404 GAATTTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
43 6 0.12
44 34 0.71
45 8 0.17
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (44 bp):
TAAATATAAATAAATTTATGAATAAAAATAAATATATTAATAAA
Found at i:20983436 original size:20 final size:20
Alignment explanation
Indices: 20983411--20983448 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20983401 AATGAATTTT
*
20983411 AAATGAATATGAATAAATTC
1 AAATGAATATAAATAAATTC
20983431 AAATGAATATAAATAAAT
1 AAATGAATATAAATAAAT
20983449 CTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (20 bp):
AAATGAATATAAATAAATTC
Found at i:20983448 original size:14 final size:14
Alignment explanation
Indices: 20983368--20983448 Score: 56
Period size: 15 Copynumber: 5.5 Consensus size: 14
20983358 ATTTATGAAT
*
20983368 AATAAATAAATTATA
1 AATAAATGAA-TATA
* * *
20983383 ACTAAATAAATTTA
1 AATAAATGAATATA
*
20983397 AATAAATGAATTTTA
1 AATAAATGAA-TATA
20983412 AATGAATATGAATA-A
1 AAT-AA-ATGAATATA
*
20983427 ATTCAAATGAATATA
1 AAT-AAATGAATATA
20983442 AATAAAT
1 AATAAAT
20983449 CTTAAAATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
14 22 0.41
15 24 0.44
16 3 0.06
17 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.33
Consensus pattern (14 bp):
AATAAATGAATATA
Found at i:20983521 original size:15 final size:15
Alignment explanation
Indices: 20983501--20983538 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
20983491 TAATATTATT
20983501 ATAAATGAAT-AACAA
1 ATAAAT-AATAAACAA
*
20983516 ATAAATAATAAATAA
1 ATAAATAATAAACAA
20983531 ATAAATAA
1 ATAAATAA
20983539 ATTTTAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
ATAAATAATAAACAA
Found at i:20990231 original size:13 final size:12
Alignment explanation
Indices: 20990204--20990248 Score: 65
Period size: 13 Copynumber: 3.8 Consensus size: 12
20990194 AGTAATTTTA
*
20990204 ATAATTTAAAAT
1 ATAATATAAAAT
20990216 ATAATATAATAAT
1 ATAATATAA-AAT
20990229 ATAATATAAAA-
1 ATAATATAAAAT
20990240 ATAATATAA
1 ATAATATAA
20990249 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 9 0.29
12 10 0.32
13 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:20990244 original size:16 final size:16
Alignment explanation
Indices: 20990213--20990255 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
20990203 AATAATTTAA
20990213 AATATAATATAATAATAT
1 AATATAA-A-AATAATAT
20990231 AATATAAAAATAATAT
1 AATATAAAAATAATAT
*
20990247 AATTTAAAA
1 AATATAAAA
20990256 TTTAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.67
17 1 0.04
18 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAAAAATAATAT
Found at i:20990515 original size:13 final size:12
Alignment explanation
Indices: 20990470--20990517 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
20990460 ATTTTCATAT
*
20990470 TAAATTATGATA
1 TAAATTATAATA
*
20990482 TATAATTATTATA
1 TA-AATTATAATA
*
20990495 TAAAATATAATA
1 TAAATTATAATA
20990507 TAAATATATAA
1 TAAAT-TATAA
20990518 AATCTAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 14 0.47
13 16 0.53
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
TAAATTATAATA
Found at i:20993013 original size:52 final size:52
Alignment explanation
Indices: 20992857--20993013 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 52
20992847 TATAACCATA
** * *
20992857 CAAATTTACCTATTAAGAATCCCTCTCCTCTTAGAATTCTT-TTTCTGTAAGT
1 CAAATTTACCTATTAAGAATCTATTTTCTCTTAGAATTCTTCTTT-TGTAAGT
* * * * * *
20992909 CAATTTTACCTATTAAAAATCTATTTTCTTTTAGAATTATTCTCTTATAAGT
1 CAAATTTACCTATTAAGAATCTATTTTCTCTTAGAATTCTTCTTTTGTAAGT
* * * *
20992961 CAAACTTACCTATTAAGAATCTTTTTTCTCTTAAAATTCTTCTTTTGCAAGT
1 CAAATTTACCTATTAAGAATCTATTTTCTCTTAGAATTCTTCTTTTGTAAGT
20993013 C
1 C
20993014 TTATTGTCCA
Statistics
Matches: 84, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
52 82 0.98
53 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (52 bp):
CAAATTTACCTATTAAGAATCTATTTTCTCTTAGAATTCTTCTTTTGTAAGT
Found at i:20993509 original size:18 final size:16
Alignment explanation
Indices: 20993476--20993518 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
20993466 TAAAATTATC
20993476 ATAATA-TAAAATAAA
1 ATAATATTAAAATAAA
20993491 ATAATATTATAAATAAAA
1 ATAATATTA-AAAT-AAA
20993509 ATAA-ATTAAA
1 ATAATATTAAA
20993519 TAATATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 4 0.16
17 8 0.32
18 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAATATTAAAATAAA
Found at i:20993523 original size:18 final size:18
Alignment explanation
Indices: 20993483--20993523 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20993473 ATCATAATAT
20993483 AAAAT-AAAATAATATTA
1 AAAATAAAAATAATATTA
*
20993500 TAAATAAAAATAA-ATTA
1 AAAATAAAAATAATATTA
20993517 AATAATA
1 AA-AATA
20993524 TTATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATAAAAATAATATTA
Found at i:20993832 original size:21 final size:21
Alignment explanation
Indices: 20993808--20993863 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
20993798 TTATTTATCT
* * *
20993808 ATTATCGTATGTACCAATTTC
1 ATTATCTTATGTACCAAATCC
*
20993829 ATTATCTTACGTACCAAATCC
1 ATTATCTTATGTACCAAATCC
20993850 ATTATCTTATGTAC
1 ATTATCTTATGTAC
20993864 TAAACATGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTATCTTATGTACCAAATCC
Found at i:20994234 original size:24 final size:25
Alignment explanation
Indices: 20994199--20994246 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
20994189 TCATAATGTT
*
20994199 ATTTTATCTTATC-ATAATTTTTTA
1 ATTTTATCTTATCTAGAATTTTTTA
*
20994223 ATTTTATTTTATCTAGAATTTTTT
1 ATTTTATCTTATCTAGAATTTTTT
20994247 CATTAACTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTATCTTATCTAGAATTTTTTA
Found at i:20996970 original size:16 final size:16
Alignment explanation
Indices: 20996949--20996981 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20996939 AATAATTTCA
20996949 AATAC-AACATAAAAAT
1 AATACAAACA-AAAAAT
20996965 AATACAAACAAAAAAT
1 AATACAAACAAAAAAT
20996981 A
1 A
20996982 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
AATACAAACAAAAAAT
Found at i:20997023 original size:15 final size:15
Alignment explanation
Indices: 20997003--20997032 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20996993 GATTTAAAAT
20997003 TTTAATAAAAATAAA
1 TTTAATAAAAATAAA
*
20997018 TTTAATAAAATTAAA
1 TTTAATAAAAATAAA
20997033 AAAAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAATAAAAATAAA
Found at i:21003987 original size:172 final size:172
Alignment explanation
Indices: 21003678--21004004 Score: 514
Period size: 172 Copynumber: 1.9 Consensus size: 172
21003668 CTTAGTTATT
*
21003678 GATATCTAGAAATTTAATGAGACTATCAACAATGTATAATAGCTAAATTAGCATCCATTTTATAT
1 GATATCTAGAAATTTAATGAGACTATCAACAATGTATAACAGCTAAATTAGCATCCATTTTATAT
* * * * * *
21003743 CAAGAGGGATATGTATATCTAAAACTAATTTTTTAAAGATTAGGTTGAATGTATCATTCCTACAA
66 CAAGAGGGATATCTATAGCTAAAACTAATTGTTTAAAGATAAGGTTGAATGTAACATTCCCACAA
21003808 CAAGCCATTAGGTGCCATCTTAGGTTTGATGGATGATTCAAG
131 CAAGCCATTAGGTGCCATCTTAGGTTTGATGGATGATTCAAG
* *
21003850 GATATCTAGAAATTTAATGAGACTATCAGCACTGTATAACATG-TAAATTAGCATCCATTTTATA
1 GATATCTAGAAATTTAATGAGACTATCAACAATGTATAACA-GCTAAATTAGCATCCATTTTATA
* *
21003914 TCAAGAGGGATATCTATAGCTAAAACTAATTGTTTAAAGATAATGTTGAGTAG-AACATTCCCAC
65 TCAAGAGGGATATCTATAGCTAAAACTAATTGTTTAAAGATAAGGTTGAAT-GTAACATTCCCAC
*
21003978 AATAAGCCATTAGGTGCCATCTTAGGT
129 AACAAGCCATTAGGTGCCATCTTAGGT
21004005 ACCATAATGA
Statistics
Matches: 141, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
172 139 0.99
173 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (172 bp):
GATATCTAGAAATTTAATGAGACTATCAACAATGTATAACAGCTAAATTAGCATCCATTTTATAT
CAAGAGGGATATCTATAGCTAAAACTAATTGTTTAAAGATAAGGTTGAATGTAACATTCCCACAA
CAAGCCATTAGGTGCCATCTTAGGTTTGATGGATGATTCAAG
Found at i:21006291 original size:2 final size:2
Alignment explanation
Indices: 21006284--21006317 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
21006274 TAACGAGTAG
21006284 AT AT AT AT AT AT AT AT AT AT AT CA- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
21006318 TTTTGTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 28 0.93
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21007772 original size:98 final size:99
Alignment explanation
Indices: 21007598--21007833 Score: 431
Period size: 98 Copynumber: 2.4 Consensus size: 99
21007588 AGCATTAATA
*
21007598 AAGACTATTTAGACAAATTTTCTTACAAGTAATAGAAAAAAAAATCTTTATGGTGATTGAATTAT
1 AAGACTATTTAGACAAATTTTCTTTCAAGTAATAGAAAAAAAAATCTTTATGGTGATTGAATTAT
21007663 ATTTCGTATGCTATAGTAATTGAGCTAAATTTAT
66 ATTTCGTATGCTATAGTAATTGAGCTAAATTTAT
*
21007697 AAGATTATTTAGACAAATTTTCTTTCAAGTAATAGAAAAAAAAAT-TTTATGGTGATTGAATTAT
1 AAGACTATTTAGACAAATTTTCTTTCAAGTAATAGAAAAAAAAATCTTTATGGTGATTGAATTAT
21007761 ATTTCGTATGCTATAGTAATTGAGCTAAATTTAT
66 ATTTCGTATGCTATAGTAATTGAGCTAAATTTAT
*
21007795 AAGACTATTT-GACAAATTTTCTTTCAATTAATAGAAAAA
1 AAGACTATTTAGACAAATTTTCTTTCAAGTAATAGAAAAA
21007834 TGTATTTTGG
Statistics
Matches: 133, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
97 28 0.21
98 62 0.47
99 43 0.32
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (99 bp):
AAGACTATTTAGACAAATTTTCTTTCAAGTAATAGAAAAAAAAATCTTTATGGTGATTGAATTAT
ATTTCGTATGCTATAGTAATTGAGCTAAATTTAT
Found at i:21007996 original size:105 final size:106
Alignment explanation
Indices: 21007886--21008099 Score: 369
Period size: 105 Copynumber: 2.0 Consensus size: 106
21007876 AAATTTTTAA
21007886 AAATTTAATTTTTTTGGTCTTTGGTTTTATAATCTCTTC-AAAAAAAA-AATTACTCTAAAAAAT
1 AAATTTAATTTTTTTGGTCTTTGGTTTTATAATCTCTTCAAAAAAAAATAATTACTCTAAAAAAT
21007949 AATATTACTACAAATTTTTTTCTTATAATATCTCAATATAAT
66 AATATTACTAC-AATTTTTTTCTTATAATATCTCAATATAAT
21007991 AAATTTAATTTTTTTGGTCTTTGGTTTTATAATCTCTTCAAAAAAAAATTTAATTACTCTAAAAA
1 AAATTTAATTTTTTTGGTCTTTGGTTTTATAATCTCTTCAAAAAAAAA--TAATTACTCTAAAAA
* *
21008056 ATAATTTTACTACAATTTTTTTCTTGTAATATCTCAATATAAT
64 ATAATATTACTACAATTTTTTTCTTATAATATCTCAATATAAT
21008099 A
1 A
21008100 CTTTCCATTA
Statistics
Matches: 103, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
105 39 0.38
106 8 0.08
108 30 0.29
109 26 0.25
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (106 bp):
AAATTTAATTTTTTTGGTCTTTGGTTTTATAATCTCTTCAAAAAAAAATAATTACTCTAAAAAAT
AATATTACTACAATTTTTTTCTTATAATATCTCAATATAAT
Found at i:21011123 original size:17 final size:16
Alignment explanation
Indices: 21011096--21011135 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
21011086 AAAACTGGAT
21011096 AAAAAATATAAT-ATTA
1 AAAAAATATAATGA-TA
21011112 AAAAAATAATAATGATA
1 AAAAAAT-ATAATGATA
21011129 AAAAAAT
1 AAAAAAT
21011136 TTGTAGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAAAATATAATGATA
Found at i:21013584 original size:27 final size:27
Alignment explanation
Indices: 21013533--21013586 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
21013523 TTAAGTTGTT
*
21013533 TATATAAAATTTAAATGTATAATTAAA
1 TATATAAAATTTAAATGCATAATTAAA
21013560 TATAT-AAATTTAATAT-CATAGATTAAA
1 TATATAAAATTTAA-ATGCATA-ATTAAA
21013587 AATCACTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (27 bp):
TATATAAAATTTAAATGCATAATTAAA
Found at i:21014438 original size:29 final size:28
Alignment explanation
Indices: 21014405--21014480 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 28
21014395 AATAATATAT
*
21014405 ATTTTATTAAA-ATTAATTTTTATTTTTAA
1 ATTTTA-TAAATA-TAAATTTTATTTTTAA
*
21014434 ATTTTATATATATAAATTTTATTTTT-A
1 ATTTTATAAATATAAATTTTATTTTTAA
21014461 ATTTATATATATATATAAAT
1 ATTT-TATA-A-ATATAAAT
21014481 ATATGTGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.12
28 20 0.50
29 7 0.17
30 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTATAAATATAAATTTTATTTTTAA
Found at i:21014469 original size:28 final size:28
Alignment explanation
Indices: 21014422--21014475 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
21014412 TAAAATTAAT
21014422 TTTTATTTTTAAATTTTATATATATAAA
1 TTTTATTTTTAAATTTTATATATATAAA
21014450 TTTTATTTTT-AATTTATATATATATA
1 TTTTATTTTTAAATTT-TATATATATA
21014476 TAAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTATTTTTAAATTTTATATATATAAA
Found at i:21015824 original size:15 final size:16
Alignment explanation
Indices: 21015784--21015826 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
21015774 TAATCGTATT
21015784 ATATCATATT-ATTTTA
1 ATAT-ATATTAATTTTA
*
21015800 ATATAAATTAATTTTA
1 ATATATATTAATTTTA
21015816 A-ATATATTAAT
1 ATATATATTAAT
21015827 CATATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATATTAATTTTA
Found at i:21021111 original size:181 final size:178
Alignment explanation
Indices: 21020814--21021287 Score: 478
Period size: 181 Copynumber: 2.6 Consensus size: 178
21020804 GAACAAGTTC
* *
21020814 AAATAATTATGACTATTTGAACAATTATATATTTAAAATCGTTATG-ATCTTTTGTTT-ATAAAA
1 AAATAATTATGACTATTTGAACAATTATATATTTAAAATCATTATGAAT-TTTTTTTTCATAAAA
* ** * *
21020877 CAATTATTTT-AGTTCATAAAAGCTTACCCAAAAT-AAAATAATATTATTTTATTAATATTTCAA
65 CAATTATTTTCA--TCATACAAGCTTATTCAAAATAAAAATAATACTAATTTATTAATATTTCAA
* * *
21020940 AAATTGAGAAGTTGGA-AATTAAAAAAGAAAATCA-G-TTTCTAGAA-TCAATTA
128 AAATTAAGAAGTTGGAGAATTAAAAAA-AAAAT-ATGCTTACCA-AACT-AATTA
* * * *
21020991 AAATAATTATGACCATTTGAACAGTTATCTATTTTAAATCATTATGAAGTTTTATTTTATCATAA
1 AAATAATTATGACTATTTGAACAATTATATATTTAAAATCATTATGAA-TTTT-TTTT-TCATAA
* * * *
21021056 AACAATTGTTTTCATGATACAAGCCTATTCAGAATAAAAATAATACTAATTTATTAATATTTCAA
63 AACAATTATTTTCATCATACAAGCTTATTCAAAATAAAAATAATACTAATTTATTAATATTTCAA
* * * * *
21021121 AAATTAATAAGTTGGAGATTTAAAAAATAAATATGCTTACCAAACTAGTTC
128 AAATTAAGAAGTTGGAGAATTAAAAAAAAAATATGCTTACCAAACTAATTA
* * * * * *
21021172 AACTAGTTATGATTATTTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAG
1 AAATAATTATGACTATTTGAACAATTATATATTTAAAATCATTATGA-ATTTT-TTTT-TCATAA
* * *
21021237 AACAATTATTTACCTTCATACAAGCTTATTCAAAATAAAAAAAATACTAAT
63 AACAATTATTT-TCATCATACAAGCTTATTCAAAATAAAAATAATACTAAT
21021288 ATAATAACAT
Statistics
Matches: 243, Mismatches: 41, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
177 41 0.17
178 4 0.02
179 4 0.02
180 17 0.07
181 129 0.53
182 48 0.20
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (178 bp):
AAATAATTATGACTATTTGAACAATTATATATTTAAAATCATTATGAATTTTTTTTTCATAAAAC
AATTATTTTCATCATACAAGCTTATTCAAAATAAAAATAATACTAATTTATTAATATTTCAAAAA
TTAAGAAGTTGGAGAATTAAAAAAAAAATATGCTTACCAAACTAATTA
Found at i:21021308 original size:182 final size:181
Alignment explanation
Indices: 21020578--21021334 Score: 429
Period size: 181 Copynumber: 4.2 Consensus size: 181
21020568 ATAATGTTAT
* * * * * *
21020578 AAAAATTAATAAGC-AAAAGATTTAAAAAATAAATGTGTTTATCAAACTAATTCAAATAGTTAAG
1 AAAAATTAATAA-CTAAAAGATTTAAAAAATAAATATGCTTACCAAACTAGTTCAACTAGTTATG
* * * * * * * * *
21020642 ATTA-TTGAAATAATTATCTATTTTAAATCATTTTG-ACAATTTGTTTAATCATAAAATAATTGT
65 ATTATTTG-AACAATTATATATTTCAAATCATTATGAAC-TTTTATTTTATCATAAAACAATTAT
* *** * * * *
21020705 TT-CAGTTCATACATA-CTTATTTGGAAT-AAAATAATACTATTTTATTAACA-TTC
128 TTCCA--TCATACA-AGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
* * * * * ** * * *
21020758 AAAAAACTAATCAGCAAAAAAATTTTAAAAAATAAATCTG-TCTACTGAACAAGTTCAAATAATT
1 -AAAAATTAAT-AACTAAAAGA-TTTAAAAAATAAATATGCT-TACCAAACTAGTTCAACTAGTT
* * * * *
21020822 ATGACTATTTGAACAATTATATATTTAAAATCGTTATGATC-TTT-TGTT-T-ATAAAACAATTA
62 ATGATTATTTGAACAATTATATATTTCAAATCATTATGAACTTTTATTTTATCATAAAACAATTA
* * * ** * * * * * *
21020883 TTT-TAGTTCATAAAAGCTTACCCAAAAT-AAAATAATATTATTTTATTAATATTTC
127 TTTCCA--TCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
* * * ** * * * * * * *
21020938 AAAAATTGAGAAGTTGGAA-A-TTAAAAAAGAAA-AT-CAGTTTCTAGAA-TCAATTAAAATAAT
1 AAAAATTAATAA-CTAAAAGATTTAAAAAATAAATATGC--TTACCA-AACT-AGTTCAACTAGT
** * * * *
21020998 TATGACCATTTGAACAGTTATCTATTTTAAATCATTATGAAGTTTTATTTTATCATAAAACAATT
61 TATGATTATTTGAACAATTATATATTTCAAATCATTATGAACTTTTATTTTATCATAAAACAATT
* * * * * * * *
21021063 GTTTTCATGATACAAGCCTATTCAGAATAAAAATAATACTAATTTATTAATATTTC
126 ATTTCCATCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
* ***
21021119 AAAAATTAATAAGTTGGAGATTTAAAAAATAAATATGCTTACCAAACTAGTTCAACTAGTTATGA
1 AAAAATTAATAACTAAAAGATTTAAAAAATAAATATGCTTACCAAACTAGTTCAACTAGTTATGA
* * * *
21021184 TTATTTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAGAACAATTATTTA
66 TTATTTGAACAATTATATATTTCAAATCATTATGAACTTTTATTTTATCATAAAACAATTATTT-
* *
21021249 CCTTCATACAAGCTTATTCAAAATAAAAAAAATACTAATATAATAACATTAT-
130 CCATCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATT-TC
*
21021301 GAAAATTAATAACTAAAAGATTTAAAAAATAAAT
1 AAAAATTAATAACTAAAAGATTTAAAAAATAAAT
21021335 TTGTTTGTTA
Statistics
Matches: 448, Mismatches: 101, Indels: 53
0.74 0.17 0.09
Matches are distributed among these distances:
175 1 0.00
176 14 0.03
177 48 0.11
178 6 0.01
179 62 0.14
180 23 0.05
181 130 0.29
182 97 0.22
183 62 0.14
184 5 0.01
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (181 bp):
AAAAATTAATAACTAAAAGATTTAAAAAATAAATATGCTTACCAAACTAGTTCAACTAGTTATGA
TTATTTGAACAATTATATATTTCAAATCATTATGAACTTTTATTTTATCATAAAACAATTATTTC
CATCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
Found at i:21021389 original size:182 final size:181
Alignment explanation
Indices: 21020578--21021414 Score: 427
Period size: 182 Copynumber: 4.6 Consensus size: 181
21020568 ATAATGTTAT
* * * *
21020578 AAAAATTAATAAGC-AAAAGATTTAAAAAATAAATGTGTTTATCAAACTAATTCAAATAGTTAAG
1 AAAAATTAATAA-CTAAAAGATTTAAAAAATAAATATGCTTACCAAACAAATTCAAATAGTTAAG
* * * * * ** * * * *
21020642 ATTAT-TGAAATAATTATCTATTTTAAATCATTTTGACAATTTGTTTAATCATAAAATAATTGTT
65 ACTATAT-AAACAATTATATATTTCAAATCATTATGACCTTTTATTTTATCATAAAACAATTATT
* *** * * * *
21020706 T-CAGTTCATACATA-CTTATTTGGAAT-AAAATAATACTATTTTATTAACA-TTC
129 TCCA--TCATACA-AGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
* * * * * ** * *
21020758 AAAAAACTAATCAGCAAAAAAATTTTAAAAAATAAATCTG-TCTACTGAACAAGTTCAAATAATT
1 -AAAAATTAAT-AACTAAAAGA-TTTAAAAAATAAATATGCT-TACCAAACAAATTCAAATAGTT
* * * * * * *
21020822 ATGACTATTTGAACAATTATATATTTAAAATCGTTATGATC-TTT-TGTT-T-ATAAAACAATTA
62 AAGACTATATAAACAATTATATATTTCAAATCATTATGACCTTTTATTTTATCATAAAACAATTA
* * * ** * * * * * *
21020883 TTT-TAGTTCATAAAAGCTTACCCAAAAT-AAAATAATATTATTTTATTAATATTTC
127 TTTCCA--TCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
* * * ** * * * * *
21020938 AAAAATTGAGAAGTTGGAA-A-TTAAAAAAGAAA-AT-CAGTTTCTAGAATC-AATTAAAATAAT
1 AAAAATTAATAA-CTAAAAGATTTAAAAAATAAATATGC--TTACCA-AA-CAAATTCAAATAGT
* * * * * * * **
21020998 TATGACCATTTGAACAGTTATCTATTTTAAATCATTATGAAGTTTTATTTTATCATAAAACAATT
61 TAAGACTATATAAACAATTATATATTTCAAATCATTATGACCTTTTATTTTATCATAAAACAATT
* * * * * * * *
21021063 GTTTTCATGATACAAGCCTATTCAGAATAAAAATAATACTAATTTATTAATATTTC
126 ATTTCCATCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
* *** * * * *
21021119 AAAAATTAATAAGTTGGAGATTTAAAAAATAAATATGCTTACCAAACTAGTTCAACTAGTTATGA
1 AAAAATTAATAACTAAAAGATTTAAAAAATAAATATGCTTACCAAACAAATTCAAATAGTTAAGA
* * * * * *
21021184 TTATTTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAGAACAATTATTTA
66 CTATATAAACAATTATATATTTCAAATCATTATGACCTTTTATTTTATCATAAAACAATTATTT-
* *
21021249 CCTTCATACAAGCTTATTCAAAATAAAAAAAATACTAATATAATAACATTAT-
130 CCATCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATT-TC
* * * ***
21021301 GAAAATTAATAACTAAAAGATTTAAAAAATAAATTTGTTTGTTAAACAAATTCAAATAGTTAA-A
1 AAAAATTAATAACTAAAAGATTTAAAAAATAAATATGCTTACCAAACAAATTCAAATAGTTAAGA
* * * **
21021365 GCTATATAAATAATTATTTATTTCATATTGTTATGACCTTTTATTTTATC
66 -CTATATAAACAATTATATATTTCAAATCATTATGACCTTTTATTTTATC
21021415 GCAAAATATA
Statistics
Matches: 508, Mismatches: 121, Indels: 53
0.74 0.18 0.08
Matches are distributed among these distances:
175 1 0.00
176 14 0.03
177 48 0.09
178 7 0.01
179 62 0.12
180 24 0.05
181 131 0.26
182 155 0.31
183 64 0.13
184 2 0.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (181 bp):
AAAAATTAATAACTAAAAGATTTAAAAAATAAATATGCTTACCAAACAAATTCAAATAGTTAAGA
CTATATAAACAATTATATATTTCAAATCATTATGACCTTTTATTTTATCATAAAACAATTATTTC
CATCATACAAGCCTATTCAAAATAAAAAAAATACTAATATAATAACATTTC
Found at i:21027013 original size:21 final size:21
Alignment explanation
Indices: 21026971--21027013 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
21026961 TTTTAATATC
*
21026971 TAAAATTTTATTTTTATATTT
1 TAAAATTTTATTTTGATATTT
*
21026992 TAAAATTATT-TTTTGATTTTT
1 TAAAATT-TTATTTTGATATTT
21027013 T
1 T
21027014 TTACTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TAAAATTTTATTTTGATATTT
Found at i:21027852 original size:14 final size:16
Alignment explanation
Indices: 21027823--21027857 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
21027813 TGATCGATTC
21027823 AATTAATTTAAAATTA
1 AATTAATTTAAAATTA
21027839 AATTAA-TT-AAATTA
1 AATTAATTTAAAATTA
21027853 AATTA
1 AATTA
21027858 TTTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 2 0.11
16 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAATTTAAAATTA
Found at i:21027868 original size:23 final size:22
Alignment explanation
Indices: 21027840--21027883 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
21027830 TTAAAATTAA
*
21027840 ATTAATTAAATTAAATTATTTTT
1 ATTAATCAAATTAAATT-TTTTT
*
21027863 ATTAATCAAGTTAAATTTTTT
1 ATTAATCAAATTAAATTTTTT
21027884 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTAATCAAATTAAATTTTTTT
Found at i:21028255 original size:22 final size:22
Alignment explanation
Indices: 21028230--21028279 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
21028220 TTAATTTAAT
21028230 AATTAA-TTGATTAATTAAATTA
1 AATTAATTTGATTAATT-AATTA
* *
21028252 AATTAATTTGATTGATTAATTC
1 AATTAATTTGATTAATTAATTA
21028274 AATTAA
1 AATTAA
21028280 AATTATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (22 bp):
AATTAATTTGATTAATTAATTA
Found at i:21028277 original size:27 final size:26
Alignment explanation
Indices: 21028218--21028307 Score: 94
Period size: 27 Copynumber: 3.5 Consensus size: 26
21028208 AATCAATTAA
* *
21028218 AATT-AATTTAATAATT-AATTGATT
1 AATTCAATTAAATTATTCAATTGATT
* **
21028242 AATTAAATTAAATTAATTTGATTGATT
1 AATTCAATTAAATT-ATTCAATTGATT
*
21028269 AATTCAATTAAAATTATTCAACTGATT
1 AATTCAATT-AAATTATTCAATTGATT
21028296 AATTCAATTAAA
1 AATTCAATTAAA
21028308 ATCAAATTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 4 0.07
25 7 0.13
26 6 0.11
27 33 0.60
28 5 0.09
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTCAATTAAATTATTCAATTGATT
Found at i:21028308 original size:27 final size:28
Alignment explanation
Indices: 21028229--21028309 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
21028219 ATTAATTTAA
* *
21028229 TAATT-AATTGATTAATTAAATT-AAAT
1 TAATTCAACTGATTAATTCAATTAAAAT
** *
21028255 TAATTTGATTGATTAATTCAATTAAAAT
1 TAATTCAACTGATTAATTCAATTAAAAT
21028283 T-ATTCAACTGATTAATTCAATTAAAAT
1 TAATTCAACTGATTAATTCAATTAAAAT
21028310 CAAATTATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 38 0.79
28 5 0.10
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (28 bp):
TAATTCAACTGATTAATTCAATTAAAAT
Found at i:21034451 original size:21 final size:20
Alignment explanation
Indices: 21034421--21034463 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
21034411 TCAATCAATC
*
21034421 AATAAATTAAAATATAATTA
1 AATAAATTAAAATAAAATTA
*
21034441 AATAAATTTAACATAAAATTA
1 AATAAA-TTAAAATAAAATTA
21034462 AA
1 AA
21034464 ACTAAACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAATTAAAATAAAATTA
Found at i:21034513 original size:18 final size:19
Alignment explanation
Indices: 21034490--21034526 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21034480 ATGTAATAAA
*
21034490 ATTTTTTAAT-TTTAATTT
1 ATTTTTAAATCTTTAATTT
21034508 ATTTTTAAATCTTTAATTT
1 ATTTTTAAATCTTTAATTT
21034527 TATTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTAAATCTTTAATTT
Found at i:21035082 original size:19 final size:18
Alignment explanation
Indices: 21035050--21035085 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21035040 TATGGGTGAG
21035050 AAAAAAATTAAAAAATAA
1 AAAAAAATTAAAAAATAA
*
21035068 AAAATAAATTTAAAAATA
1 AAAA-AAATTAAAAAATA
21035086 TCATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAAATTAAAAAATAA
Found at i:21035182 original size:34 final size:35
Alignment explanation
Indices: 21035134--21035201 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
21035124 TTGGATCAAA
* **
21035134 TTTAAATATCAAATATATATTAA-ATTAAATTAAAT
1 TTTAAATATAAAATATA-AAAAATATTAAATTAAAT
21035169 TTTAAAT-TAAAATATAAAAAATATTAAATTAAA
1 TTTAAATATAAAATATAAAAAATATTAAATTAAA
21035202 ATTAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 3 0.10
34 19 0.66
35 7 0.24
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (35 bp):
TTTAAATATAAAATATAAAAAATATTAAATTAAAT
Found at i:21037017 original size:28 final size:28
Alignment explanation
Indices: 21036986--21037040 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21036976 TCTCCTTGGT
21036986 GATGAAATTTTAGGGTATTACAATATGA
1 GATGAAATTTTAGGGTATTACAATATGA
21037014 GATGAAATTTTAGGGTATTACAATATG
1 GATGAAATTTTAGGGTATTACAATATG
21037041 GGGATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (28 bp):
GATGAAATTTTAGGGTATTACAATATGA
Done.