Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168171.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_41, 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: 255648
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
File 3 of 6
Found at i:94608 original size:33 final size:31
Alignment explanation
Indices: 94526--94613 Score: 99
Period size: 30 Copynumber: 2.8 Consensus size: 31
94516 ATAAGATAAG
* * *
94526 ATATT-TAATGTTATATTAAATAAAATTAAT
1 ATATTATATTGTTATAATAAATAATATTAAT
* *
94556 ATAATA-ATTATTATAATAAATAATATTAAAT
1 ATATTATATTGTTATAATAAATAATATT-AAT
94587 AATATTATATTGTTATAATAAATAATA
1 -ATATTATATTGTTATAATAAATAATA
94614 ACAATAAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
30 21 0.45
31 3 0.06
32 5 0.11
33 18 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
ATATTATATTGTTATAATAAATAATATTAAT
Found at i:94624 original size:33 final size:32
Alignment explanation
Indices: 94544--94639 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 32
94534 TGTTATATTA
94544 AATAAAATTAATATAATAATTATTATAATAAAT
1 AATAAAA-TAATATAATAATTATTATAATAAAT
* *
94577 AATATTAAATAATATTAT-ATTGTTATAATAAAT
1 AATA--AAATAATATAATAATTATTATAATAAAT
*
94610 AATAACAATAAATATAATAATAATTATAAT
1 AATAA-AAT-AATATAATAATTATTATAAT
94640 TGTTTTCATA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
31 1 0.02
32 3 0.06
33 29 0.55
34 17 0.32
35 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAAAATAATATAATAATTATTATAATAAAT
Found at i:94631 original size:12 final size:12
Alignment explanation
Indices: 94601--94639 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
94591 TTATATTGTT
94601 ATAATAAATAATA
1 ATAATAAAT-ATA
*
94614 ACAATAAATATA
1 ATAATAAATATA
*
94626 ATAATAATTATA
1 ATAATAAATATA
94638 AT
1 AT
94640 TGTTTTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:95317 original size:33 final size:34
Alignment explanation
Indices: 95252--95336 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
95242 GATTATTTTT
*
95252 TTAA-TATAATAATA-AATT-ATTATATAGTTTA
1 TTAATTATTATAATATAATTAATTATATAGTTTA
95283 TTAATTATTATAATATAATTAATT-TAT-GTATTA
1 TTAATTATTATAATATAATTAATTATATAGT-TTA
* *
95316 TTAATAATTATATTATAATTA
1 TTAATTATTATAATATAATTA
95337 GTTGTAACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.09
32 11 0.23
33 29 0.62
34 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (34 bp):
TTAATTATTATAATATAATTAATTATATAGTTTA
Found at i:95331 original size:22 final size:22
Alignment explanation
Indices: 95267--95336 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
95257 ATAATAATAA
*
95267 ATTATTATATAGTT-TATTAATT
1 ATTATTATATAATTATATT-ATT
*
95289 ATTATAATATAATTA-ATTTATGT
1 ATTATTATATAATTATA-TTAT-T
*
95312 ATTATTA-ATAATTATATTATA
1 ATTATTATATAATTATATTATT
95333 ATTA
1 ATTA
95337 GTTGTAACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.10
22 26 0.65
23 10 0.25
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
ATTATTATATAATTATATTATT
Found at i:95700 original size:15 final size:15
Alignment explanation
Indices: 95651--95707 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
95641 ATATATAACA
*
95651 AATTAATAATATTATT
1 AATT-ATAATATTAAT
*
95667 AATT-TAAT-TGTTAT
1 AATTATAATAT-TAAT
95681 AAATTATAATATTAAT
1 -AATTATAATATTAAT
95697 AATTATAATAT
1 AATTATAATAT
95708 ATAGACAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
13 1 0.03
14 6 0.18
15 15 0.44
16 11 0.32
17 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATTATAATATTAAT
Found at i:95710 original size:22 final size:22
Alignment explanation
Indices: 95651--95707 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
95641 ATATATAACA
95651 AATTAATAATATTATTAATTTAAT
1 AATT-ATAATATTA-TAATTTAAT
**
95675 TGTTATAA-ATTATAATATTAAT
1 AATTATAATATTATAAT-TTAAT
95697 AATTATAATAT
1 AATTATAATAT
95708 ATAGACAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 4 0.15
22 15 0.56
23 6 0.22
24 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTATAATATTATAATTTAAT
Found at i:96727 original size:4 final size:4
Alignment explanation
Indices: 96718--96789 Score: 62
Period size: 4 Copynumber: 18.5 Consensus size: 4
96708 AATTATTGTT
* * * *
96718 ATTA ATTA A-T- ATTA GTTA ATTT ATTA ATTAA CATTT ATTA ATTA AAT-
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT-A -ATTA ATTA ATTA ATTA
96765 ATTA ATTA A-TA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
96790 ATTTAATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
2 1 0.02
3 7 0.13
4 42 0.78
5 1 0.02
6 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:96738 original size:14 final size:13
Alignment explanation
Indices: 96700--96792 Score: 74
Period size: 14 Copynumber: 7.5 Consensus size: 13
96690 AACAATTGTA
96700 AATATT-TTAATT
1 AATATTATTAATT
* *
96712 ATTGTTATTAATT
1 AATATTATTAATT
*
96725 -A-A-TATTAGTT
1 AATATTATTAATT
96735 AAT-TTATTAATT
1 AATATTATTAATT
*
96747 AACATTTATTAATT
1 AATA-TTATTAATT
96761 AA-A-TATTAATT
1 AATATTATTAATT
96772 AATAATTAATTAATT
1 AAT-ATT-ATTAATT
96787 AATATT
1 AATATT
96793 TAATTTACTA
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
10 7 0.11
11 11 0.17
12 13 0.20
13 8 0.12
14 15 0.23
15 10 0.16
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (13 bp):
AATATTATTAATT
Found at i:96783 original size:26 final size:24
Alignment explanation
Indices: 96717--96797 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 24
96707 TAATTATTGT
*
96717 TATTAATTAATATTAGTTAATT--
1 TATTAATTAATATTAATTAATTAA
* *
96739 TATTAATTAACATTTATTAATTAAA
1 TATTAATTAATATTAATTAATT-AA
96764 TATTAATTAATAATTAATTAATTAA
1 TATTAATTAAT-ATTAATTAATTAA
96789 TATTTAATT
1 TA-TTAATT
96798 TACTATAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
22 19 0.39
25 14 0.29
26 16 0.33
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
TATTAATTAATATTAATTAATTAA
Found at i:96926 original size:15 final size:16
Alignment explanation
Indices: 96895--96928 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
96885 TATAAAACTA
*
96895 ATTTATTAGCTTAATT
1 ATTTATTAGCATAATT
96911 ATTTATTAG-ATAATT
1 ATTTATTAGCATAATT
96926 ATT
1 ATT
96929 ATAACTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTATTAGCATAATT
Found at i:97096 original size:23 final size:22
Alignment explanation
Indices: 97051--97105 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
97041 AAATATTTAA
*
97051 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
97073 TATAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
97096 TATAA-TAATA
1 TATAATTAATA
97106 CAAATTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 14 0.47
24 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:97345 original size:14 final size:13
Alignment explanation
Indices: 97326--97360 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
97316 TATTTATTAA
97326 TAAATATAAATAAT
1 TAAATATAAA-AAT
97340 TAAATAATAAAAAT
1 TAAAT-ATAAAAAT
97354 TAAATAT
1 TAAATAT
97361 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 13 0.65
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATATAAAAAT
Found at i:97616 original size:20 final size:21
Alignment explanation
Indices: 97567--97617 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
97557 TTATGTAGTT
97567 TTTATAATATAATAATAAATTA
1 TTTATAAT-TAATAATAAATTA
* *
97589 TATA-AATTAATTAT-AATTA
1 TTTATAATTAATAATAAATTA
97608 TTTATAATTA
1 TTTATAATTA
97618 TTAAACGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 8 0.32
20 11 0.44
21 3 0.12
22 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTATAATTAATAATAAATTA
Found at i:97893 original size:24 final size:24
Alignment explanation
Indices: 97861--97922 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
97851 TTTAAATTTT
*
97861 AATTGTATAGATT-ATAATTGAATA
1 AATTATATAG-TTAATAATTGAATA
*
97885 ATATT-TATAGTTAATAATTTAATA
1 A-ATTATATAGTTAATAATTGAATA
*
97909 AATTATATATTTAA
1 AATTATATAGTTAA
97923 ATCATAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 5 0.15
24 25 0.76
25 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
AATTATATAGTTAATAATTGAATA
Found at i:98205 original size:27 final size:28
Alignment explanation
Indices: 98157--98222 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
98147 TATTTAAATT
98157 ATTAAT-T-TTATTATAAATT-TATTTG
1 ATTAATATATTATTATAAATTATATTTG
*
98182 TTTAATATATTATTATATAATTATATTTG
1 ATTAATATATTATTATA-AATTATATTTG
98211 ATTAATATATTA
1 ATTAATATATTA
98223 AAAGATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 5 0.14
26 1 0.03
27 8 0.23
28 4 0.11
29 17 0.49
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTAATATATTATTATAAATTATATTTG
Found at i:98476 original size:50 final size:49
Alignment explanation
Indices: 98386--98492 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 49
98376 AAAATTGATA
* * *
98386 ATTAAAACTATAAAATATATTTATTAAATAGATAATATTGATATACT-TT
1 ATTAAAATTATAAAATATATTTAATAAATAGAAAATATTGATA-ACTATT
*
98435 ATTAAAATTATATATAATAT-TTTAATAAATTA-AAAATATTGATAATTATT
1 ATTAAAATTATA-A-AATATATTTAATAAA-TAGAAAATATTGATAACTATT
98485 ATTAAAAT
1 ATTAAAAT
98493 CTTAATATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
49 13 0.26
50 30 0.60
51 7 0.14
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (49 bp):
ATTAAAATTATAAAATATATTTAATAAATAGAAAATATTGATAACTATT
Found at i:98593 original size:17 final size:17
Alignment explanation
Indices: 98571--98605 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
98561 ATTAATAAAA
98571 TATTAATTAAT-TAATAT
1 TATTAATT-ATCTAATAT
98588 TATTAATTATCTAATAT
1 TATTAATTATCTAATAT
98605 T
1 T
98606 TCATAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTAATTATCTAATAT
Found at i:98793 original size:25 final size:24
Alignment explanation
Indices: 98731--98798 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
98721 TAATTTATCA
* *
98731 TTAATTT-TATAATAAGAATTAAT
1 TTAATTTATATTATAATAATTAAT
*
98754 TATAAGATTAT-TTATAATAATTATAT
1 T-TAA-TTTATATTATAATAATTA-AT
*
98780 TTAATTTATATTATTATAA
1 TTAATTTATATTATAATAA
98799 GATATTAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.20
25 23 0.66
26 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
TTAATTTATATTATAATAATTAAT
Found at i:99735 original size:30 final size:30
Alignment explanation
Indices: 99701--99759 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
99691 TATATAATTC
* * *
99701 TAAA-TATATAATTTACTTCTATATTATTAG
1 TAAATTATATAACTTAATT-TATAATATTAG
99731 TAAATTATATAACTTAATTTATAATATTA
1 TAAATTATATAACTTAATTTATAATATTA
99760 ATATATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (30 bp):
TAAATTATATAACTTAATTTATAATATTAG
Found at i:99908 original size:22 final size:21
Alignment explanation
Indices: 99883--99948 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
99873 TATTCTAATT
99883 TAATTATAAAATTAATATAAAA
1 TAATTAT-AAATTAATATAAAA
*
99905 TAATTAT-AATTATATATTAAA
1 TAATTATAAATTA-ATATAAAA
*
99926 T-ATTATATATTTAATTATAAAA
1 TAATTATA-AATTAA-TATAAAA
99948 T
1 T
99949 TATATGTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 10 0.27
21 9 0.24
22 18 0.49
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTATAAATTAATATAAAA
Found at i:99942 original size:12 final size:13
Alignment explanation
Indices: 99907--99944 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
99897 ATATAAAATA
99907 ATTATAATTATAT
1 ATTATAATTATAT
*
99920 ATTAAATATTATAT
1 ATTATA-ATTATAT
99934 ATT-TAATTATA
1 ATTATAATTATA
99945 AAATTATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 6 0.27
14 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATAATTATAT
Found at i:99970 original size:20 final size:20
Alignment explanation
Indices: 99884--99963 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
99874 ATTCTAATTT
* *
99884 AATTATAAAATTAAT-ATAA
1 AATTATATATTTAATAATAA
* * *
99903 AATAATTATAATTATATATTAA
1 AATTA-TATATTTA-ATAATAA
*
99925 ATATTATATATTTAATTATAA
1 A-ATTATATATTTAATAATAA
*
99946 AATTATATGTTTAATAAT
1 AATTATATATTTAATAAT
99964 TTAATTAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 4 0.08
20 22 0.46
21 8 0.17
22 11 0.23
23 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
AATTATATATTTAATAATAA
Found at i:100476 original size:26 final size:25
Alignment explanation
Indices: 100434--100485 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
100424 ATTAATATTG
100434 ATTTAATATATAAATAATTTAATTA
1 ATTTAATATATAAATAATTTAATTA
*
100459 ATTTAATAT-TAATTATAATTTTATTA
1 ATTTAATATATAA--ATAATTTAATTA
100485 A
1 A
100486 CCTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 3 0.12
25 9 0.38
26 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTAATATATAAATAATTTAATTA
Found at i:100923 original size:22 final size:23
Alignment explanation
Indices: 100866--100919 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 23
100856 TAATTGAAAT
100866 TTAATATTAATAATATTTATGATAA
1 TTAATA-T-ATAATATTTATGATAA
100891 TTAAT-TATAATATTT-T-ATAA
1 TTAATATATAATATTTATGATAA
100911 TTAATATAT
1 TTAATATAT
100920 TAATCATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 9 0.32
23 1 0.04
25 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATATATAATATTTATGATAA
Found at i:100983 original size:17 final size:17
Alignment explanation
Indices: 100963--101000 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
100953 ATCTTTGAAC
100963 AATTATAATATTAAATT
1 AATTATAATATTAAATT
*
100980 AATTATAATATTAAGTT
1 AATTATAATATTAAATT
100997 AATT
1 AATT
101001 TTATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTATAATATTAAATT
Found at i:101283 original size:32 final size:30
Alignment explanation
Indices: 101247--101317 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 30
101237 ATAATATAAA
*
101247 AAATTTA-TGATAATTTGTAATAATTAATAATT
1 AAATTTATTGATAA--TATAATAATT-ATAATT
101279 AAA-TTATTGATAATATAATAATTATAATT
1 AAATTTATTGATAATATAATAATTATAATT
101308 ACAA-TTATTG
1 A-AATTTATTG
101318 TAACTAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 7 0.19
30 17 0.47
31 3 0.08
32 9 0.25
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATTTATTGATAATATAATAATTATAATT
Found at i:101773 original size:21 final size:20
Alignment explanation
Indices: 101749--101788 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
101739 TAATAGGTTA
101749 AATATTAAT-TATAATTATTAT
1 AATATT-ATCTATAA-TATTAT
101770 AATATTATCTATAATATTA
1 AATATTATCTATAATATTA
101789 CTTTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTATCTATAATATTAT
Found at i:101800 original size:13 final size:12
Alignment explanation
Indices: 101749--101813 Score: 57
Period size: 13 Copynumber: 5.6 Consensus size: 12
101739 TAATAGGTTA
*
101749 AATATTAATTAT
1 AATATTATTTAT
101761 -A-ATTA-TTAT
1 AATATTATTTAT
*
101770 AATATTATCTAT
1 AATATTATTTAT
101782 AATATTACTTTAT
1 AATATTA-TTTAT
*
101795 ATTATTATTTTAT
1 AATATTA-TTTAT
101808 AA-ATTA
1 AATATTA
101814 ATGTAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 4 0.09
10 5 0.11
11 5 0.11
12 14 0.32
13 16 0.36
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
AATATTATTTAT
Found at i:102028 original size:22 final size:22
Alignment explanation
Indices: 102003--102047 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
101993 TTCAATTGTT
* *
102003 TAATAAAAATAATATTATTATA
1 TAATAAAAATAATAATATAATA
* *
102025 TAATTAAATTAATAATATAATA
1 TAATAAAAATAATAATATAATA
102047 T
1 T
102048 TTATTATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAAAAATAATAATATAATA
Found at i:102084 original size:21 final size:22
Alignment explanation
Indices: 102034--102090 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
102024 ATAATTAAAT
*
102034 TAATAATATAATATTTATTATA
1 TAATAATATAATATTTAATATA
* *
102056 TTAGAATA-AATATTTAATATA
1 TAATAATATAATATTTAATATA
*
102077 TAATAATATTATAT
1 TAATAATATAATAT
102091 AACTAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TAATAATATAATATTTAATATA
Found at i:102106 original size:28 final size:28
Alignment explanation
Indices: 102011--102108 Score: 79
Period size: 32 Copynumber: 3.2 Consensus size: 28
102001 TTTAATAAAA
* *
102011 ATAATATTATTATATAATTAAATTAATAAT
1 ATAATATTATTATATAAATAAA-T-ATATT
102041 ATAATATTTATTATATTAGAATAAATATTTAATAT
1 ATAATA-TTATTATA-TA-AATAAATA--T-AT-T
* *
102076 ATAATAATATTATATAACTAAATATATT
1 ATAATATTATTATATAAATAAATATATT
102104 ATAAT
1 ATAAT
102109 GATAGACATT
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
28 6 0.11
29 2 0.04
30 7 0.12
31 9 0.16
32 10 0.18
33 8 0.14
34 8 0.14
35 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATAATATTATTATATAAATAAATATATT
Found at i:102158 original size:18 final size:18
Alignment explanation
Indices: 102130--102165 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
102120 ACTTATTAAT
102130 TATTATAATTTAACTATTA
1 TATTATAATTTAA-TATTA
102149 TATT-TAATTTAATATTA
1 TATTATAATTTAATATTA
102166 CAGATTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATAATTTAATATTA
Found at i:102964 original size:46 final size:45
Alignment explanation
Indices: 102885--102982 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 45
102875 AATATTTGAT
* * **
102885 ATTAATTTTATTATTTTATAATTATATGTAATAAATT-ATATAATA
1 ATTAATTTAATTATTATATAATTATATAAAAT-AATTGATATAATA
*
102930 ATTTAATTTAATTATTATATTAATTAT-TAAAATAATTGATATAATG
1 A-TTAATTTAATTATTATA-TAATTATATAAAATAATTGATATAATA
102976 ATTAATT
1 ATTAATT
102983 ATTCTATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
45 11 0.24
46 27 0.60
47 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (45 bp):
ATTAATTTAATTATTATATAATTATATAAAATAATTGATATAATA
Found at i:103161 original size:27 final size:29
Alignment explanation
Indices: 103113--103172 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
103103 TATTAATTAA
103113 AATAATTAATATTGATAGATAAATAAATAT
1 AATAATTAATATTGATAGATAAATAAAT-T
* *
103143 AATAATTATTA-T-ATA-ATAAATAGATT
1 AATAATTAATATTGATAGATAAATAAATT
103169 AATA
1 AATA
103173 TCTAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 9 0.32
28 3 0.11
29 1 0.04
30 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (29 bp):
AATAATTAATATTGATAGATAAATAAATT
Found at i:103169 original size:19 final size:18
Alignment explanation
Indices: 103138--103201 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 18
103128 TAGATAAATA
*
103138 AATATAATAATTATTATAT
1 AATA-AATAATTAATATAT
*
103157 AATAAATAGATTAATATCT
1 AATAAATA-ATTAATATAT
* *
103176 AAT-AATTATTTATAT-T
1 AATAAATAATTAATATAT
*
103192 ATTAAATAAT
1 AATAAATAAT
103202 ATAAATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.08
17 12 0.32
18 7 0.19
19 15 0.41
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAAATAATTAATATAT
Found at i:103422 original size:13 final size:13
Alignment explanation
Indices: 103400--103476 Score: 52
Period size: 13 Copynumber: 6.1 Consensus size: 13
103390 TATTAATTGA
*
103400 ATTAAATATTAAT
1 ATTAATTATTAAT
103413 ATTAATTATTAAT
1 ATTAATTATTAAT
* *
103426 ATTTATGA-TAA-
1 ATTAATTATTAAT
* *
103437 ATTAA-AATTTAT
1 ATTAATTATTAAT
* *
103449 AATAAATAATTAAT
1 -ATTAATTATTAAT
*
103463 ATTTATTATTAAT
1 ATTAATTATTAAT
103476 A
1 A
103477 AGTAATATAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
10 1 0.02
11 6 0.12
12 3 0.06
13 33 0.67
14 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (13 bp):
ATTAATTATTAAT
Found at i:103439 original size:20 final size:20
Alignment explanation
Indices: 103416--103468 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 20
103406 TATTAATATT
*
103416 AATTATTAATATTTATGATA
1 AATTATTAATATTTATAATA
103436 AATTA--AA-ATTTATAATA
1 AATTATTAATATTTATAATA
*
103453 AATAATTAATATTTAT
1 AATTATTAATATTTAT
103469 TATTAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 2 0.07
20 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTATTAATATTTATAATA
Found at i:103476 original size:20 final size:20
Alignment explanation
Indices: 103399--103484 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
103389 ATATTAATTG
*
103399 AATTAA-ATATTAATATTAAT
1 AATTAATAT-TTATTATTAAT
* *
103419 TATTAATATTTATGA-T-A-
1 AATTAATATTTATTATTAAT
* * *
103436 AATTAAAATTTATAATAAAT
1 AATTAATATTTATTATTAAT
103456 AATTAATATTTATTATTAAT
1 AATTAATATTTATTATTAAT
*
103476 AAGTAATAT
1 AATTAATAT
103485 AAATAAATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
17 12 0.24
18 1 0.02
19 2 0.04
20 34 0.67
21 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTAATATTTATTATTAAT
Found at i:103611 original size:20 final size:19
Alignment explanation
Indices: 103588--103642 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
103578 TAATATTATT
*
103588 ATAATTATTATAATATTTAG
1 ATAATTATTATAATAATT-G
103608 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
103628 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
103643 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:103745 original size:17 final size:17
Alignment explanation
Indices: 103694--103748 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
103684 TAATTAAAAT
*
103694 ATATTAA-AAGTACTTA
1 ATATTAATAATTACTTA
*
103710 AT-TT-ATAATTTAATTA
1 ATATTAATAA-TTACTTA
103726 ATATTAATAATTACTTA
1 ATATTAATAATTACTTA
103743 ATATTA
1 ATATTA
103749 TTAGCATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.03
15 4 0.12
16 9 0.28
17 14 0.44
18 4 0.12
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATTAATAATTACTTA
Found at i:103764 original size:21 final size:21
Alignment explanation
Indices: 103740--103794 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
103730 TAATAATTAC
103740 TTAATATTATTAGCATAATAA
1 TTAATATTATTAGCATAATAA
* *
103761 TTAATATTATTAGGATAATTA
1 TTAATATTATTAGCATAATAA
*
103782 TATAATATAATTA
1 T-TAATATTATTA
103795 TATATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (21 bp):
TTAATATTATTAGCATAATAA
Found at i:103997 original size:29 final size:30
Alignment explanation
Indices: 103944--104002 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
103934 AATATTCTAT
103944 TATATTAAATAATTAATAAGAATTTATTTAA
1 TATATTAAATAA-TAATAAGAATTTATTTAA
* *
103975 TATATTAAATAA-ATTAAGTATTTATTTA
1 TATATTAAATAATAATAAGAATTTATTTA
104003 GTTAACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 14 0.54
31 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
TATATTAAATAATAATAAGAATTTATTTAA
Found at i:104107 original size:18 final size:18
Alignment explanation
Indices: 104084--104118 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104074 ATTATTCATA
*
104084 ATTAATTGAATTATATAT
1 ATTAATTCAATTATATAT
*
104102 ATTAATTCTATTATATA
1 ATTAATTCAATTATATA
104119 CAAATTAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTAATTCAATTATATAT
Found at i:104487 original size:21 final size:21
Alignment explanation
Indices: 104461--104505 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
104451 AAAGAAATAG
104461 ATAATAATCTATTATT-ATT-TT
1 ATAATAA--TATTATTAATTATT
104482 ATAATAATATTATTAATTATT
1 ATAATAATATTATTAATTATT
104503 ATA
1 ATA
104506 TTATATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
21 12 0.55
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAATAATATTATTAATTATT
Found at i:104636 original size:20 final size:20
Alignment explanation
Indices: 104600--104638 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
104590 TATATAAGAT
*
104600 ATAATTTATTATAAATATTA
1 ATAATTTATAATAAATATTA
104620 ATAATATTATAAT-AATATT
1 ATAAT-TTATAATAAATATT
104639 TGATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATTTATAATAAATATTA
Found at i:104735 original size:20 final size:18
Alignment explanation
Indices: 104702--104739 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
104692 AAAAAACATA
104702 TAACTTAATTATAAATAT
1 TAACTTAATTATAAATAT
104720 TAACGTTAATTTATAAATAT
1 TAAC-TTAA-TTATAAATAT
104740 AATTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
TAACTTAATTATAAATAT
Found at i:104752 original size:23 final size:24
Alignment explanation
Indices: 104726--104815 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 24
104716 ATATTAACGT
104726 TAATTTATAAATATAATTATA-AA
1 TAATTTATAAATATAATTATATAA
* *
104749 TAATTTA-AAATTTTAATTATTATAT
1 TAATTTATAAA-TATAATTA-TATAA
*
104774 TCATTTATCAAATATAATTA-ATAA
1 TAATTTAT-AAATATAATTATATAA
* *
104798 T-ATTTATAATTATTATTA
1 TAATTTATAAATATAATTA
104816 GTTATTTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 12 0.22
23 20 0.36
24 6 0.11
25 7 0.13
26 7 0.13
27 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATTTATAAATATAATTATATAA
Found at i:105176 original size:16 final size:17
Alignment explanation
Indices: 105144--105176 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105134 GACGAGTGCA
105144 AACAATTATGACTATTTG
1 AACAATTAT-ACTATTTG
105162 AACAATTAT-CTATTT
1 AACAATTATACTATTT
105177 AAAATCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
AACAATTATACTATTTG
Found at i:105376 original size:181 final size:180
Alignment explanation
Indices: 104835--105376 Score: 531
Period size: 181 Copynumber: 3.0 Consensus size: 180
104825 ATAATATCAA
* * * * * *
104835 TTTTGTCATAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAATAAAATAATAT-TAATTTA
1 TTTTATCATAAAACAATTGTTTTTGTTAATATAAGCTTATTCGGAAT-AAATAAT-TCTAATTTA
* * * *
104899 TTAATATTTCAAAAATTAATACGTAAGAGATTTAAAAAATAAATCTGTTTGCC-ATACCAGTTCA
64 TTAATATTTCAAAAATTAATACATAACAGATTTAAAAAATGAATCTGTTTGCCGA-ACAAGTTCA
* * * * * * *
104963 ATTAGTTATAACTATTT-GACCAAATATTTATTTCAAATCATTATGACCATTTG
128 AATAATTATAGCTATTTGGA-CAATTATCTATTTCAAATCGTTATGACCTTTTG
* * * * *
105016 TTTTATCATAAAACAATTGTTTCTATTTATATAATCTTATTCGGAATAAAGTAATGCTAATTTAT
1 TTTTATCATAAAACAATTGTTTTTGTTAATATAAGCTTATTCGGAATAAA-TAATTCTAATTTAT
** ** * * * * *
105081 TAATATTTTGAAAATTAATA-AGTAATGGATTTAGAAAATGTATCT-TTTGGCTTG-ACGAGTGC
65 TAATATTTCAAAAATTAATACA-TAACAGATTTAAAAAATGAATCTGTTT-GC-CGAACAAGTTC
* * *
105143 AAACAATTAT-GACTATTTGAACAATTATCTATTTAAAATCGTTATGACCTTTTG
127 AAATAATTATAG-CTATTTGGACAATTATCTATTTCAAATCGTTATGACCTTTTG
* * * *
105197 TTTTCTCACAAAACAATTGTTTTTGTTAATACAAGCTTATTCAGAATAACATAATTCTAATTTAT
1 TTTTATCATAAAACAATTGTTTTTGTTAATATAAGCTTATTCGGAATAA-ATAATTCTAATTTAT
* * *
105262 TAATATTCCAAAAATTAATACATGACAGATTTAAAAAATGAATCTGTTTACCGAACAAGTTCAAA
65 TAATATTTCAAAAATTAATACATAACAGATTTAAAAAATGAATCTGTTTGCCGAACAAGTTCAAA
* * * * *
105327 TAATTATAGCTATTTGGATAATTATCTAGTTCAAATTGCTATAACCTTTT
130 TAATTATAGCTATTTGGACAATTATCTATTTCAAATCGTTATGACCTTTT
105377 TATTGTCATA
Statistics
Matches: 288, Mismatches: 60, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
180 7 0.02
181 274 0.95
182 7 0.02
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (180 bp):
TTTTATCATAAAACAATTGTTTTTGTTAATATAAGCTTATTCGGAATAAATAATTCTAATTTATT
AATATTTCAAAAATTAATACATAACAGATTTAAAAAATGAATCTGTTTGCCGAACAAGTTCAAAT
AATTATAGCTATTTGGACAATTATCTATTTCAAATCGTTATGACCTTTTG
Found at i:105808 original size:181 final size:182
Alignment explanation
Indices: 105465--105821 Score: 468
Period size: 181 Copynumber: 2.0 Consensus size: 182
105455 CTATTGGAAC
* * * * ***
105465 AATTATTTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTTTTGTTCATAT
1 AATTATCTATGTCAAATCGTTATGACCTTTTGTTTTGCCATAAAACAATTATTATCAATTCATAT
* * * * *
105530 TAGCTTATTCGAATTAAAATAATATTAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTA
66 TAGCTTATTCAAAATAAAATAATACTAACTTATTAATATTTCAAAAATTAATAAGTAAAAGATTA
*
105595 AAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTAATAACTATATGAAT
131 AAAAAATAAATATATTTACCAAACAAGTTCAAATAGTAATAACTATATGAAT
105647 AATTATCTATGTCAAATCGTTATGACCTTTTGTTTTGCCATAAAACAATTA-TATCAATTCATA-
1 AATTATCTATGTCAAATCGTTATGACCTTTTGTTTTGCCATAAAACAATTATTATCAATTCATAT
* * * * *
105710 TAGGCTTATTCAAAATGAAGTAATACTAACTTATTACTA-TTCAAAAAATTAATGAGTAAGAGAT
66 TA-GCTTATTCAAAATAAAATAATACTAACTTATTAATATTTC-AAAAATTAATAAGTAAAAGAT
* * * * *
105774 TTAAAAAATGAATCTATTTACCAAACAAGTTCAAATAGTTATGACTAT
129 TAAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTAATAACTAT
105822 TTATATATAA
Statistics
Matches: 150, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
180 5 0.03
181 97 0.65
182 48 0.32
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (182 bp):
AATTATCTATGTCAAATCGTTATGACCTTTTGTTTTGCCATAAAACAATTATTATCAATTCATAT
TAGCTTATTCAAAATAAAATAATACTAACTTATTAATATTTCAAAAATTAATAAGTAAAAGATTA
AAAAAATAAATATATTTACCAAACAAGTTCAAATAGTAATAACTATATGAAT
Found at i:105864 original size:22 final size:23
Alignment explanation
Indices: 105835--105885 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
105825 TATATAAATA
105835 AATAATTTA-ATATTA-AGTATT
1 AATAATTTATATATTATAGTATT
*
105856 AATAGATTTATTATATTATATTATT
1 AATA-ATTTA-TATATTATAGTATT
105881 AATAA
1 AATAA
105886 CACAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 5 0.20
24 7 0.28
25 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AATAATTTATATATTATAGTATT
Found at i:106540 original size:19 final size:20
Alignment explanation
Indices: 106490--106537 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
106480 AAACTTATAT
106490 TAACAAAAACAATTGTTTTA
1 TAACAAAAACAATTGTTTTA
106510 TAACAAAAACAATTGTTTTA
1 TAACAAAAACAATTGTTTTA
*
106530 TGACAAAA
1 TAACAAAA
106538 CAAATCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
TAACAAAAACAATTGTTTTA
Found at i:108022 original size:25 final size:25
Alignment explanation
Indices: 107994--108069 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
107984 AATTTATTAT
107994 ATTAATATTTATAATATTACTAATA
1 ATTAATATTTATAATATTACTAATA
* *
108019 ATTAATA-TTATTATAATAC-AATA
1 ATTAATATTTATAATATTACTAATA
*
108042 ATTATAATATTTTTATAATATTAGTAAT
1 A-T-TAATA--TTTATAATATTACTAAT
108070 TTTGTTATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 12 0.30
28 9 0.22
29 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTAATATTTATAATATTACTAATA
Found at i:108305 original size:19 final size:18
Alignment explanation
Indices: 108281--108319 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
108271 TGTTTGAAAT
108281 ATTAATAATTAATATTTTA
1 ATTAATAATTAAT-TTTTA
*
108300 ATTAATAATTTATTTTTA
1 ATTAATAATTAATTTTTA
108318 AT
1 AT
108320 AAAATTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATAATTAATTTTTA
Found at i:109750 original size:19 final size:19
Alignment explanation
Indices: 109726--109765 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
109716 TAATTAAGTG
*
109726 TAATAATAA-ATACTATTAT
1 TAATAAGAAGATACTA-TAT
109745 TAATAAGAAGATACTATAT
1 TAATAAGAAGATACTATAT
109764 TA
1 TA
109766 TAGTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATAAGAAGATACTATAT
Found at i:109803 original size:18 final size:18
Alignment explanation
Indices: 109758--109806 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
109748 TAAGAAGATA
109758 CTATA-TTATAGTATTTAT
1 CTATATTTATA-TATTTAT
109776 CTATTATTTATATATTTAAT
1 CTA-TATTTATATATTT-AT
109796 -TATATTTATAT
1 CTATATTTATAT
109807 TATATGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 12 0.43
19 9 0.32
20 7 0.25
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (18 bp):
CTATATTTATATATTTAT
Found at i:109809 original size:23 final size:22
Alignment explanation
Indices: 109759--109824 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
109749 AAGAAGATAC
*
109759 TATATTATAGTATTT-ATCTA-T
1 TATATTATA-TATTTAATATATT
109780 TAT-TTATATATTTAATTATATT
1 TATATTATATATTTAA-TATATT
*
109802 TATATTATATGCTTTAATATATT
1 TATATTATAT-ATTTAATATATT
109825 AATCATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 5 0.13
20 6 0.16
21 6 0.16
22 4 0.11
23 12 0.32
24 5 0.13
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (22 bp):
TATATTATATATTTAATATATT
Found at i:110034 original size:15 final size:16
Alignment explanation
Indices: 110000--110042 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
109990 TTATTACATG
* *
110000 TATTATAAATTATTAT
1 TATTATAAATTAGTAA
110016 TATT-TAAATTAGTAA
1 TATTATAAATTAGTAA
*
110031 TATTATTAATTA
1 TATTATAAATTA
110043 TAACTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTATAAATTAGTAA
Found at i:110998 original size:121 final size:119
Alignment explanation
Indices: 110743--110969 Score: 269
Period size: 121 Copynumber: 1.9 Consensus size: 119
110733 TATTCCCCTT
* * * ***
110743 CAAAAA-AAAATAAATAAAAAGAATTTCTAAATAGGCACAAATGGTGGAAAATTTAGAATTTTTG
1 CAAAAATATAATAAATAAAAAGAATTTCTAAATAGGCACAAATGGTGAAAAATTTAGAAATTCAA
* * *
110807 AAAAGAAATATTTCTAAATTGACCTAAATGGTGGAAAATTTAGAAATCCAAATAA
66 AAAAAAAATATTTCTAAATTGACCCAAATGGTAGAAAATTTAGAAAT-CAAATAA
* * *
110862 -AATAAATAATAATAAATAAAGATAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTC
1 CAA-AAAT-ATAATAAATAAAAAGAATTTCTAAATAGGCACAAATGGTGAAAAATTTAGAAATTC
* *
110926 AAAAGAAAAAATATTTCTAATTTGCCCCAAATGGTAGAATAATT
64 AAAA-AAAAAATATTTCTAAATTGACCCAAATGGTAGAA-AATT
110970 AGATATATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
118 2 0.02
119 3 0.03
121 51 0.57
122 29 0.33
123 4 0.04
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (119 bp):
CAAAAATATAATAAATAAAAAGAATTTCTAAATAGGCACAAATGGTGAAAAATTTAGAAATTCAA
AAAAAAAATATTTCTAAATTGACCCAAATGGTAGAAAATTTAGAAATCAAATAA
Found at i:111491 original size:21 final size:22
Alignment explanation
Indices: 111448--111803 Score: 248
Period size: 21 Copynumber: 16.0 Consensus size: 22
111438 AATTAATAAA
* *
111448 TCTTCAAATGAAAATAATTTGAG
1 TCTTCAAATGAGAAT-CTTTGAG
*
111471 TCAT-AAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
*
111492 TCTT-AAATGAGAATCTTTAAGAAA
1 TCTTCAAATGAGAATCTTT--G-AG
*
111516 TCTTCAAATGAAAATC-TTGAG
1 TCTTCAAATGAGAATCTTTGAG
111537 AAATCTTCAAATGAGAATCTTTGAG
1 ---TCTTCAAATGAGAATCTTTGAG
*
111562 TCTT-AAATGAGAATATTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* * * *
111583 TCTT-AAATAAGAAACTATAAGAAA
1 TCTTCAAATGAGAATCT-T-TG-AG
* *
111607 TCCTCAAATGAGAATTTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* * *
111629 T-TTTAAATGAAAAT-TTATAAG
1 TCTTCAAATGAGAATCTT-TGAG
* ** *
111650 TCTT-AAATGAAAATCCTTAAAAAA
1 TCTTCAAATGAGAAT-CTT--TGAG
* * *
111674 TCCTCAAATGAGAATTTTTGCG
1 TCTTCAAATGAGAATCTTTGAG
*
111696 TCCTT-AAATGAGAATCTTTGAA
1 T-CTTCAAATGAGAATCTTTGAG
111718 TCTTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* * *
111740 TTTTCAAATGAGAATGTTTAAG
1 TCTTCAAATGAGAATCTTTGAG
111762 T-TTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* *
111783 T-TTCAAATGAAAATTTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
111804 ATATGAAACT
Statistics
Matches: 268, Mismatches: 45, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
20 2 0.01
21 117 0.44
22 71 0.26
23 10 0.04
24 35 0.13
25 33 0.12
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (22 bp):
TCTTCAAATGAGAATCTTTGAG
Found at i:111532 original size:46 final size:46
Alignment explanation
Indices: 111475--111638 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 46
111465 TTTGAGTCAT
111475 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTC
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTC
* *
111521 AAATGAAAATC-TTGAGAAATCTTCAAATGAGAATCTTT--G-AGTCTT-
1 AAATGAGAATCTTTGAG---TCTT-AAATGAGAATCTTTAAGAAATCTTC
* * * * *
111566 AAATGAGAATATTTGAGTCTTAAATAAGAAACTATAAGAAATCCTC
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTC
* *
111612 AAATGAGAATTTTTGAGTTTTAAATGA
1 AAATGAGAATCTTTGAGTCTTAAATGA
111639 AAATTTATAA
Statistics
Matches: 97, Mismatches: 12, Indels: 18
0.76 0.09 0.14
Matches are distributed among these distances:
42 11 0.11
43 4 0.04
44 1 0.01
45 18 0.19
46 44 0.45
47 1 0.01
48 4 0.04
49 14 0.14
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (46 bp):
AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTC
Found at i:111570 original size:91 final size:92
Alignment explanation
Indices: 111445--111617 Score: 267
Period size: 91 Copynumber: 1.9 Consensus size: 92
111435 TATAATTAAT
* * * *
111445 AAATCTTCAAATGAAAATAATTTGAGTCATAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT
1 AAATCTTCAAATGAAAATAATTTGAGTCATAAATGAGAATATTTGAGTCTTAAATAAGAAACTAT
*
111510 AAGAAATCTTCAAATGAAAATCTTGAG
66 AAGAAATCCTCAAATGAAAATCTTGAG
* * *
111537 AAATCTTCAAATGAGAAT-CTTTGAGTCTTAAATGAGAATATTTGAGTCTTAAATAAGAAACTAT
1 AAATCTTCAAATGAAAATAATTTGAGTCATAAATGAGAATATTTGAGTCTTAAATAAGAAACTAT
111601 AAGAAATCCTCAAATGA
66 AAGAAATCCTCAAATGA
111618 GAATTTTTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 56 0.77
92 17 0.23
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (92 bp):
AAATCTTCAAATGAAAATAATTTGAGTCATAAATGAGAATATTTGAGTCTTAAATAAGAAACTAT
AAGAAATCCTCAAATGAAAATCTTGAG
Found at i:111635 original size:67 final size:67
Alignment explanation
Indices: 111475--111796 Score: 327
Period size: 67 Copynumber: 4.8 Consensus size: 67
111465 TTTGAGTCAT
* *
111475 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAAAATCTTGAGAAA
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT--G-AGTCTTCAAATGAAAATCTTAAGAAA
*
111540 TCTTC
63 TCCTC
* *
111545 AAATGAGAATCTTTGAGTCTTAAATGAGAATATTTGAGTCTT-AAAT-AAGAAACTATAAGAAAT
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTGAGTCTTCAAATGAA-AATCT-TAAGAAAT
111608 CCTC
64 CCTC
* * * * *
111612 AAATGAGAATTTTTGAGTTTTAAATGAAAAT-TTATAAGTCTT-AAATGAAAATCCTTAAAAAAT
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTT-TGAGTCTTCAAATGAAAAT-CTTAAGAAAT
111675 CCTC
64 CCTC
* * * * * * *
111679 AAATGAGAATTTTTGCGTCCTTAAATGAGAATCTTTGAATCTTCAAATGAGAATCTT-TG-AGTT
1 AAATGAGAATCTTTGAGT-CTTAAATGAGAATCTTTGAGTCTTCAAATGAAAATCTTAAGAAATC
*
111742 TTC
65 CTC
* *
111745 AAATGAGAATGTTTAAGT-TTCAAATGAGAATCTTTGAGT-TTCAAATGAAAAT
1 AAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTTGAGTCTTCAAATGAAAAT
111797 TTTTGAGATA
Statistics
Matches: 216, Mismatches: 27, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
64 14 0.06
65 19 0.09
66 29 0.13
67 84 0.39
68 25 0.12
69 11 0.05
70 34 0.16
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.35
Consensus pattern (67 bp):
AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTGAGTCTTCAAATGAAAATCTTAAGAAATCC
TC
Found at i:111704 original size:22 final size:22
Alignment explanation
Indices: 111677--111803 Score: 152
Period size: 22 Copynumber: 5.9 Consensus size: 22
111667 TAAAAAATCC
* *
111677 TCAAATGAGAATTTTTGCGTCCT
1 TCAAATGAGAATCTTTGAGT-CT
*
111700 T-AAATGAGAATCTTTGAATCT
1 TCAAATGAGAATCTTTGAGTCT
*
111721 TCAAATGAGAATCTTTGAGTTT
1 TCAAATGAGAATCTTTGAGTCT
* *
111743 TCAAATGAGAATGTTTAAGT-T
1 TCAAATGAGAATCTTTGAGTCT
111764 TCAAATGAGAATCTTTGAGT-T
1 TCAAATGAGAATCTTTGAGTCT
* *
111785 TCAAATGAAAATTTTTGAG
1 TCAAATGAGAATCTTTGAG
111804 ATATGAAACT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
21 40 0.43
22 51 0.55
23 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAGTCT
Found at i:113945 original size:9 final size:9
Alignment explanation
Indices: 113931--113955 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
113921 TTTTGGTTTG
113931 TATAATTAC
1 TATAATTAC
113940 TATAATTAC
1 TATAATTAC
113949 TATAATT
1 TATAATT
113956 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
TATAATTAC
Found at i:114530 original size:20 final size:20
Alignment explanation
Indices: 114494--114557 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
114484 AAATTAGTAT
114494 TATTAATTATAATAA-TTAAA
1 TATT-ATTATAATAATTTAAA
*
114514 TATTATTATTATGAATTTTAAA
1 TATTATTATAAT-AA-TTTAAA
* *
114536 TATATATTAAAATTATTTAAA
1 TAT-TATTATAATAATTTAAA
114557 T
1 T
114558 TAATTAATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 7 0.19
20 6 0.17
21 7 0.19
22 9 0.25
23 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTATTATAATAATTTAAA
Found at i:114869 original size:15 final size:14
Alignment explanation
Indices: 114829--114870 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
114819 TAATAATATA
114829 AATATATTATAATT
1 AATATATTATAATT
114843 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
114859 AATATATTATAA
1 AATATATTATAA
114871 GATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:114916 original size:18 final size:16
Alignment explanation
Indices: 114893--114926 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
114883 ACAGTTAATT
114893 ATTATAAATATATATTAA
1 ATTAT-AATA-ATATTAA
114911 ATTATAATAATATTAA
1 ATTATAATAATATTAA
114927 CATGATTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATAATAATATTAA
Found at i:114979 original size:15 final size:16
Alignment explanation
Indices: 114961--114994 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
114951 ATAATAATGC
114961 AATTAAATTAA-TATT
1 AATTAAATTAATTATT
*
114976 AATTATATTAATTATT
1 AATTAAATTAATTATT
114992 AAT
1 AAT
114995 ATTTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATTAATTATT
Found at i:115240 original size:34 final size:36
Alignment explanation
Indices: 115200--115267 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 36
115190 TTGTTTTTGT
115200 TAATAAAATTGAA-ATTAACATT-AATAA-TTATTAA
1 TAAT-AAATTGAATATTAACATTAAATAACTTATTAA
* *
115234 TAATAAATTTAATATTAATATTAAATAACTTATT
1 TAATAAATTGAATATTAACATTAAATAACTTATT
115268 TCAATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 7 0.24
34 12 0.41
35 5 0.17
36 5 0.17
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (36 bp):
TAATAAATTGAATATTAACATTAAATAACTTATTAA
Found at i:115267 original size:18 final size:17
Alignment explanation
Indices: 115213--115267 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
115203 TAAAATTGAA
*
115213 ATTAACATT-AATAATT
1 ATTAATATTAAATAATT
*
115229 ATTAATAATAAATTTAA-T
1 ATTAATATTAAA--TAATT
115247 ATTAATATTAAATAACTT
1 ATTAATATTAAATAA-TT
115265 ATT
1 ATT
115268 TCAATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 10 0.32
17 2 0.06
18 16 0.52
19 3 0.10
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAATATTAAATAATT
Found at i:116415 original size:24 final size:25
Alignment explanation
Indices: 116388--116439 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
116378 TGAATTTATT
*
116388 TAAATATT-TT-ATATAATATAGTAA
1 TAAATATTATTAATA-AAAATAGTAA
116412 TAAATATTATTAATAAAAATAGTAA
1 TAAATATTATTAATAAAAATAGTAA
116437 TAA
1 TAA
116440 TGTATTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 14 0.56
26 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
TAAATATTATTAATAAAAATAGTAA
Found at i:116699 original size:16 final size:16
Alignment explanation
Indices: 116678--116713 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
116668 ATATTTGTTA
*
116678 AATTAATTTGTAATAT
1 AATTAATTTATAATAT
*
116694 AATTAATTTATTATAT
1 AATTAATTTATAATAT
116710 AATT
1 AATT
116714 TATATAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTAATTTATAATAT
Found at i:116815 original size:19 final size:19
Alignment explanation
Indices: 116782--116834 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
116772 ACTTAAATAT
* *
116782 AATATATTGTTATTATCTA
1 AATATATTATAATTATCTA
*
116801 AATATATTATAATTATTTA
1 AATATATTATAATTATCTA
**
116820 TTTATA-TATAATTAT
1 AATATATTATAATTAT
116835 ATATAATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
AATATATTATAATTATCTA
Found at i:116834 original size:10 final size:10
Alignment explanation
Indices: 116803--116844 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
116793 ATTATCTAAA
116803 TATATTATAAT
1 TATA-TATAAT
*
116814 TAT-T-TATT
1 TATATATAAT
116822 TATATATAAT
1 TATATATAAT
116832 TATATATAAT
1 TATATATAAT
116842 TAT
1 TAT
116845 TTTTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 16 0.59
11 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATATAAT
Found at i:116865 original size:25 final size:28
Alignment explanation
Indices: 116803--116871 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 28
116793 ATTATCTAAA
116803 TATATTATAATTATTTATTTATATATAAT
1 TATA-TATAATTATTTATTTATATATAAT
116832 TATATATAATTATTT-TTTAT-T-TAAT
1 TATATATAATTATTTATTTATATATAAT
116857 TA-ATAATAATATATT
1 TATAT-ATAAT-TATT
116872 GATACTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.05
25 11 0.29
26 5 0.13
27 5 0.13
28 11 0.29
29 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATATATAATTATTTATTTATATATAAT
Found at i:117315 original size:15 final size:16
Alignment explanation
Indices: 117284--117331 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
117274 ATTATTCAAA
117284 TAATATATTAATAATT
1 TAATATATTAATAATT
*
117300 TAATAT-TTAATTATT
1 TAATATATTAATAATT
117315 T-ATCATAATTAATAATT
1 TAAT-AT-ATTAATAATT
117332 ATTTATATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 2 0.07
15 11 0.41
16 6 0.22
17 8 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATATTAATAATT
Found at i:117803 original size:27 final size:29
Alignment explanation
Indices: 117747--117805 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 29
117737 AAATAATTTA
117747 TTTAAGTAATTAAAATTTTAATTACTTAATT
1 TTTAAGTAA-TAAAATTTTAATTAC-TAATT
117778 TTTAAGTAA-AAAA-TTTAATTTA-TAATT
1 TTTAAGTAATAAAATTTTAA-TTACTAATT
117805 T
1 T
117806 ATTATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 6 0.22
28 5 0.19
29 7 0.26
31 9 0.33
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (29 bp):
TTTAAGTAATAAAATTTTAATTACTAATT
Found at i:120447 original size:10 final size:9
Alignment explanation
Indices: 120301--120454 Score: 52
Period size: 10 Copynumber: 16.2 Consensus size: 9
120291 TTATAAACAT
120301 ATAATATT-
1 ATAATATTA
*
120309 ATTATATTA
1 ATAATATTA
*
120318 GTAATTATATA
1 ATAA-TAT-TA
*
120329 ATTATTATTA
1 A-TAATATTA
120339 ATAATATTTCA
1 ATAATA-TT-A
*
120350 TTAATA-TA
1 ATAATATTA
*
120358 CTATAAAATTA
1 --ATAATATTA
120369 ATGAATATT-
1 AT-AATATTA
120378 A-AA-ATTA
1 ATAATATTA
* *
120385 ATTATCAGTA
1 ATAAT-ATTA
*
120395 ATAATAATA
1 ATAATATTA
120404 TATCAATATTACA
1 -AT-AATATT--A
120417 ATAAT-TATA
1 ATAATAT-TA
120426 ATAATA-TA
1 ATAATATTA
120434 ATAATATTTA
1 ATAATA-TTA
120444 ATAATATTA
1 ATAATATTA
120453 AT
1 AT
120455 TTAATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 43
0.65 0.09 0.26
Matches are distributed among these distances:
6 3 0.03
7 3 0.03
8 17 0.16
9 24 0.22
10 35 0.32
11 22 0.20
12 4 0.04
13 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (9 bp):
ATAATATTA
Found at i:120589 original size:19 final size:19
Alignment explanation
Indices: 120567--120607 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
120557 ATAATTTTCA
* *
120567 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
120586 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
120605 AAA
1 AAA
120608 CAACAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:120896 original size:20 final size:24
Alignment explanation
Indices: 120859--120901 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
120849 CACTAATAAT
120859 TAATATTATTTAGAAT-AATTTAA
1 TAATATTATTTAGAATAAATTTAA
120882 TAATA-TATTT-G-ATAAATTTA
1 TAATATTATTTAGAATAAATTTA
120902 CAAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 7 0.37
22 5 0.26
23 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (24 bp):
TAATATTATTTAGAATAAATTTAA
Found at i:121356 original size:180 final size:179
Alignment explanation
Indices: 121052--121574 Score: 536
Period size: 180 Copynumber: 2.9 Consensus size: 179
121042 TATTAATAAG
* * * *
121052 ACAATTAATAAGCAAAAGATTTAAAAAATAAATCTATTTATCGAACAAATTCAAATCGTTATGAT
1 ACAATTAATAAGTAAAAGATTTAAAAAATAAA--TATTTATCGAACAAGTTCAAATAGTTATGAC
* *
121117 TATTTGAATAATTATTTATTTCAAATTC-TTATGACTTTTTTGTTTTGTCATAAAACAATTGTTT
64 TATTTGAATAATTATCTATTTCAAA-TCATTATAAC-TTTTTGTTTTGTCATAAAACAATTGTTT
* * * * * * *
121181 CTGTCCATACAAGATTATTCGGATTAAAATAATATTGATTTATTAATATTTCA
127 CTATCCATACAAGATTATTCGAAATAAAATAACACTAATTTATTAATATTCCA
* * * *
121234 ACAATTAATAAGTAAAAGATTTTTAAAAAAT-AA-GTTTACCAAACAAGTTCAAATAGTCATGAC
1 ACAATTAATAAGTAAAAGA--TTTAAAAAATAAATATTTATCGAACAAGTTCAAATAGTTATGAC
* * * *
121297 TATTTGAATAATTATCTACTTCAAATCATTGTAACATTTTTGTTTTGTAATAAAACAATTGTCTC
64 TATTTGAATAATTATCTATTTCAAATCATTATAAC-TTTTTGTTTTGTCATAAAACAATTGTTTC
* *** * *
121362 TATTCATGTTAGCTTATTTGAAATAAAATAACACTAATTTATTAATATTCCA
128 TATCCATACAAGATTATTCGAAATAAAATAACACTAATTTATTAATATTCCA
* * * *
121414 AAAATTACA-AAGTAAGAGAATTAAAAAAATAAATCTATTTATCGAACAAGTTCAAATAGTTATA
1 ACAATTA-ATAAGTAAAAG-ATTTAAAAAATAAA--TATTTATCGAACAAGTTCAAATAGTTATG
* * * *
121478 ACTATCTT-AATAATTATCTATTTCAAAACATTACAACCTTTTGTTTTGTCATAAAACAATTGGT
62 ACTAT-TTGAATAATTATCTATTTCAAATCATTATAACTTTTTGTTTTGTCATAAAACAATTGTT
* * * *
121542 TCTATTCATTCAAGCTTATTTC-AAATAGAATAA
126 TCTATCCATACAAGATTA-TTCGAAATAAAATAA
121575 TATAAATTTA
Statistics
Matches: 281, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
179 11 0.04
180 133 0.47
181 2 0.01
182 66 0.23
183 57 0.20
184 12 0.04
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (179 bp):
ACAATTAATAAGTAAAAGATTTAAAAAATAAATATTTATCGAACAAGTTCAAATAGTTATGACTA
TTTGAATAATTATCTATTTCAAATCATTATAACTTTTTGTTTTGTCATAAAACAATTGTTTCTAT
CCATACAAGATTATTCGAAATAAAATAACACTAATTTATTAATATTCCA
Found at i:122730 original size:178 final size:175
Alignment explanation
Indices: 122199--122732 Score: 486
Period size: 178 Copynumber: 3.0 Consensus size: 175
122189 TAGCAAATTT
* ** * * * *
122199 ATATTATTTTATTTGAAATAAGCTTGAATGAATAAAACCAATTGTTTTATGACAAAACAAAAGGT
1 ATATTATTTTAATCCAAATAAGCTAGCATGAAGAAAA-CAATTGTTTTATGACAAAACAAAAAGT
** * * * * *
122264 TGTAATGTTTTGGAATAGACAATTATTAAGATAGTCATAACTATTTGAACTTGTTCGATAAATAG
65 CATAA-GATTTGAAATAGATAATTATTAAAATAGTCATAACTATTTGAACTTGTTTGATAAATAG
* * * * *
122329 ATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATATTAATAAATTA
129 A-TTA-TTTTTTAAATCTTTTACTTATTAATTGTT---ATATTAATAAATCA
* * * * * * *
122381 GTGTTATTTTATTTCAAATAAGCTAGCATGAATAGAAACAATTGTTTTATTACAAAACAAAATGT
1 ATATTATTTTAATCCAAATAAGCTAGCATGAAGA-AAACAATTGTTTTATGACAAAACAAAAAGT
* * * * *
122446 ACA-ATGATTTGAAGTAGATAATTATTTAAATAGTCATGACTATTTGAACTTGTTTGGT-AA-A-
65 -CATAAGATTTGAAATAGATAATTATTAAAATAGTCATAACTATTTGAACTTGTTTGATAAATAG
*
122507 CTTATTTTTTAAAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATCA
129 ATTATTTTTT--AAATCTTTTACTTATTAATTGTT---ATATTAATAAATCA
* * *
122559 ATATTATTTTAATCCGAATAAGCTTA-TATGGACGAAAACAATTGTTTTATGACAAAACAAAAAA
1 ATATTATTTTAATCCAAATAAGC-TAGCAT-GAAGAAAACAATTGTTTTATGACAAAAC-AAAAA
* * * * * *
122623 GTCATAAGAATTTGAAATAAATAATTATTCATATAATCATAACGATTTGAATTTGTTTGATAAAT
63 GTCATAAG-ATTTGAAATAGATAATTATTAAAATAGTCATAACTATTTGAACTTGTTTGATAAAT
122688 AGATTATTTTTTAAATCTTTTACTTATTAATTGTCT-TATTAATAA
127 AGATTATTTTTTAAATCTTTTACTTATTAATTGT-TATATTAATAA
122733 CTATTTATAA
Statistics
Matches: 292, Mismatches: 47, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
176 6 0.02
177 3 0.01
178 87 0.30
179 14 0.05
180 45 0.15
181 68 0.23
182 57 0.20
183 12 0.04
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (175 bp):
ATATTATTTTAATCCAAATAAGCTAGCATGAAGAAAACAATTGTTTTATGACAAAACAAAAAGTC
ATAAGATTTGAAATAGATAATTATTAAAATAGTCATAACTATTTGAACTTGTTTGATAAATAGAT
TATTTTTTAAATCTTTTACTTATTAATTGTTATATTAATAAATCA
Found at i:123048 original size:18 final size:19
Alignment explanation
Indices: 123005--123052 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
122995 AGTAATATTT
*
123005 GATAATTATATTATCAAATA
1 GATAATTA-ATTATAAAATA
123025 -ATTAATTAATT-TAAAATA
1 GA-TAATTAATTATAAAATA
123043 GATAATTAAT
1 GATAATTAAT
123053 AGAATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 14 0.56
19 5 0.20
20 6 0.24
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (19 bp):
GATAATTAATTATAAAATA
Found at i:123175 original size:19 final size:19
Alignment explanation
Indices: 123148--123188 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
123138 ATAATTGTTG
* *
123148 TTTATAATAGTAAATATTA
1 TTTAAAATAGTAAATAATA
*
123167 TTTAAAATAGTTAATAATA
1 TTTAAAATAGTAAATAATA
123186 TTT
1 TTT
123189 TGAAAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAAAATAGTAAATAATA
Found at i:123237 original size:16 final size:15
Alignment explanation
Indices: 123193--123244 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
123183 ATATTTTGAA
123193 AATTATTTTTTATTT
1 AATTATTTTTTATTT
** *
123208 AATTTACATATTATTAT
1 AA-TTATTTTTTATT-T
123225 AATTATTTTTTATTT
1 AATTATTTTTTATTT
123240 -ATTAT
1 AATTAT
123245 ATTTATTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 18 0.62
17 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
AATTATTTTTTATTT
Found at i:123259 original size:20 final size:20
Alignment explanation
Indices: 123218--123259 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
123208 AATTTACATA
* *
123218 TTATTATAATTATTTTTTAT
1 TTATTATAATTATTTCTAAT
*
123238 TTATTATATTTATTTCTAAT
1 TTATTATAATTATTTCTAAT
123258 TT
1 TT
123260 TTTAACACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTATAATTATTTCTAAT
Found at i:123384 original size:28 final size:26
Alignment explanation
Indices: 123344--123405 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 26
123334 TATTTTGTAT
*
123344 ATAAATATCTAAATTGTATATAATTAATTA
1 ATAAATATCTAAAAT-TA-ATAA-T-ATTA
123374 ATAAAT-T-TAAAATTAATAATATTA
1 ATAAATATCTAAAATTAATAATATTA
123398 ATAAATAT
1 ATAAATAT
123406 ATTTATTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 10 0.33
25 2 0.07
26 4 0.13
27 2 0.07
28 5 0.17
29 1 0.03
30 6 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
ATAAATATCTAAAATTAATAATATTA
Found at i:123810 original size:22 final size:22
Alignment explanation
Indices: 123766--123811 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
123756 ATTATTAAAT
*
123766 AATATTATTATTTGAACATTTA
1 AATATTATTATTTGAACAATTA
*
123788 AATATTAGTTATTT-AATAATTA
1 AATATTA-TTATTTGAACAATTA
123810 AA
1 AA
123812 ATTTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (22 bp):
AATATTATTATTTGAACAATTA
Found at i:123813 original size:23 final size:22
Alignment explanation
Indices: 123766--123813 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
123756 ATTATTAAAT
* *
123766 AATATTATTATTTGAACATTTA
1 AATATTATTATTTGAAAATTAA
123788 AATATTAGTTATTT-AATAATTAA
1 AATATTA-TTATTTGAA-AATTAA
123811 AAT
1 AAT
123814 TTAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (22 bp):
AATATTATTATTTGAAAATTAA
Found at i:123843 original size:26 final size:24
Alignment explanation
Indices: 123814--123881 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
123804 TAATTAAAAT
123814 TTAATTAAATATAAATTAAATAATAG
1 TTAATTAAATATAAATTAAAT-A-AG
* * * *
123840 TTAATTAGATATTAGTTTAATAAG
1 TTAATTAAATATAAATTAAATAAG
*
123864 TTAATTAATTATATAATT
1 TTAATTAAATATA-AATT
123882 GTTATATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 12 0.36
25 4 0.12
26 17 0.52
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
TTAATTAAATATAAATTAAATAAG
Found at i:124040 original size:22 final size:22
Alignment explanation
Indices: 124008--124050 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
123998 TATAAACAAT
*
124008 TATTATTGTATTAATTT-AATAA
1 TATTATAGTATT-ATTTGAATAA
124030 TATTATAGTATTATTTGAATA
1 TATTATAGTATTATTTGAATA
124051 TAACTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTATAGTATTATTTGAATAA
Found at i:124149 original size:11 final size:11
Alignment explanation
Indices: 124133--124157 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
124123 TATTGATTAG
124133 TTACTAATAAA
1 TTACTAATAAA
124144 TTACTAATAAA
1 TTACTAATAAA
124155 TTA
1 TTA
124158 ATATTTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (11 bp):
TTACTAATAAA
Found at i:124526 original size:16 final size:16
Alignment explanation
Indices: 124501--124545 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
124491 TAAGATAATT
*
124501 TTTAAATTAATTATAA
1 TTTAATTTAATTATAA
124517 TTTAATTTAATTATAA
1 TTTAATTTAATTATAA
*
124533 TTT-ATATAATTAT
1 TTTAATTTAATTAT
124546 TTATATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTTAATTATAA
Found at i:124562 original size:25 final size:25
Alignment explanation
Indices: 124512--124565 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
124502 TTAAATTAAT
*
124512 TATAATTTAATTTAATTATAATTTA
1 TATAATTTAATTTAATTAAAATTTA
124537 TATAA-TT-ATTTATATTAAAATATTA
1 TATAATTTAATTTA-ATTAAAAT-TTA
124562 TATA
1 TATA
124566 TTTGAACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 9 0.35
25 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TATAATTTAATTTAATTAAAATTTA
Found at i:124563 original size:23 final size:24
Alignment explanation
Indices: 124510--124568 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 24
124500 TTTTAAATTA
*
124510 ATTATAATTTAATTTAATTATAAT
1 ATTATAATTTAATTTAATTAAAAT
*
124534 -TTATATAATT-ATTTATATTAAAAT
1 ATTATA-ATTTAATTTA-ATTAAAAT
124558 ATTATATATTT
1 ATTATA-ATTT
124569 GAACAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 10 0.34
24 10 0.34
25 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTATAATTTAATTTAATTAAAAT
Found at i:124735 original size:13 final size:14
Alignment explanation
Indices: 124712--124742 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
124702 ATTAATAACT
124712 AAATATCATAATAA
1 AAATATCATAATAA
124726 AAATAT-ATAATAA
1 AAATATCATAATAA
124739 AAAT
1 AAAT
124743 TAATAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATATCATAATAA
Found at i:125449 original size:20 final size:17
Alignment explanation
Indices: 125426--125468 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 17
125416 TATAAACCAT
125426 ATTAAATTAATAAATTAATA
1 ATTAAATTAAT--ATTAA-A
125446 ATTAAATTAATATTAAA
1 ATTAAATTAATATTAAA
125463 ATTAAA
1 ATTAAA
125469 ATCCTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
18 5 0.22
20 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAATTAATATTAAA
Found at i:126940 original size:11 final size:11
Alignment explanation
Indices: 126921--126950 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
126911 ATTAAATTAA
126921 TAATCAATTATC
1 TAAT-AATTATC
126933 TAATAATTATC
1 TAATAATTATC
126944 TAATAAT
1 TAATAAT
126951 AATTAGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATTATC
Found at i:127338 original size:182 final size:186
Alignment explanation
Indices: 127030--127460 Score: 502
Period size: 182 Copynumber: 2.3 Consensus size: 186
127020 TTATTTGTTA
* ** * *
127030 AAATAAAATAATACTAATTTCTTAATATTTTGAAAGTTAATAAGCAAGAGTTTTAAAAAATAAAA
1 AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAAA
* * *
127095 TTTGTTTACCGAACAAATTCAAATAGTTACAACTATTTAAACAATTGTCTATTTAAAATTGTTAT
66 TTTGTTTACCGAACAAATTCAAATAATTACAACCATTTAAACAATTATCTATTTAAAATTGTTAT
*
127160 GACCTTTCGTTTTGTCATAAAACAATTG-TTTCAATTTTAT-AT-AAGCTTATTCG
131 GACCTTTCGTTTGGTCATAAAACAATTGTTTTCAATTTTATCATAAAGCTTATTCG
* * * * * * *
127213 AAATAAAATAATACTAATTTATTAATATTCCAAAAATGAATAAGTACGTGATTTAAAAAGT-GAA
1 AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAAA
*** * *
127277 TTTGTTTACCGAATC-AATTCAAATAATTATGGCCATTTCAACAATTATCTATTTCAAATTGTTA
66 TTTGTTTACCGAA-CAAATTCAAATAATTACAACCATTTAAACAATTATCTATTTAAAATTGTTA
* * * *** *
127341 TTACCTTTTGTTTGGTCATATAACAATTGTTTTTTTTTTTTTATCATACAAGCTTATTTG
130 TGACCTTTCGTTTGGTCATAAAACAATTG--TTTTCAATTTTATCATA-AAGCTTATTCG
*
127401 AAATAAAATAATACTAATTTATTAATCTTTCAAAAATTAAT----AAGAGATTTAAAAAATAAA
1 AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAA
127461 TCTCTTTACC
Statistics
Matches: 205, Mismatches: 35, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
182 81 0.40
183 51 0.25
184 13 0.06
185 10 0.05
186 2 0.01
188 48 0.23
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (186 bp):
AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAAA
TTTGTTTACCGAACAAATTCAAATAATTACAACCATTTAAACAATTATCTATTTAAAATTGTTAT
GACCTTTCGTTTGGTCATAAAACAATTGTTTTCAATTTTATCATAAAGCTTATTCG
Found at i:128183 original size:18 final size:19
Alignment explanation
Indices: 128149--128201 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
128139 ATATTATAAT
*
128149 TTAAT-TAATAGATATATTA
1 TTAATATAATATA-ATATTA
128168 -TAA-ATAATTATAATATTA
1 TTAATATAA-TATAATATTA
128186 TTAATATAATATAATA
1 TTAATATAATATAATA
128202 GTGTTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 12 0.41
19 13 0.45
20 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TTAATATAATATAATATTA
Found at i:128239 original size:30 final size:31
Alignment explanation
Indices: 128160--128241 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 31
128150 TAATTAATAG
*
128160 ATATATTATAA-ATAATTATA-ATATTATTA
1 ATATAATATAATATAATTATATATATTATTA
* *
128189 ATATAATATAATAGT-GTTATATTTA-TATTA
1 ATATAATATAATA-TAATTATATATATTATTA
128219 ATATAA-ATAGATATAATTATATA
1 ATATAATATA-ATATAATTATATA
128242 ATCAATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 14 0.33
30 26 0.60
31 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (31 bp):
ATATAATATAATATAATTATATATATTATTA
Found at i:128332 original size:48 final size:48
Alignment explanation
Indices: 128275--128393 Score: 129
Period size: 48 Copynumber: 2.5 Consensus size: 48
128265 TAACTTGTTA
*
128275 ATATTAATTATTTCTAATTATTAGTTAATATT-TT-ATATATTATATTAT
1 ATATAAATTATTT-TAATTATTAGTTAAT-TTATTAATATATTATATTAT
* * *
128323 ATATAAATTATATTAATT-TAATTTAATTTAATTAATATATTATATTAT
1 ATATAAATTATTTTAATTATTAGTTAATTT-ATTAATATATTATATTAT
128371 A-ATAATTATTATTTTAATTATTA
1 ATATAA--ATTATTTTAATTATTA
128394 ATCCATTTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
45 2 0.03
46 7 0.12
47 11 0.19
48 26 0.44
49 11 0.19
50 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (48 bp):
ATATAAATTATTTTAATTATTAGTTAATTTATTAATATATTATATTAT
Found at i:128537 original size:9 final size:8
Alignment explanation
Indices: 128523--128596 Score: 51
Period size: 9 Copynumber: 8.8 Consensus size: 8
128513 AATATAAGTC
128523 TTATATTA
1 TTATATTA
*
128531 GTAATATTA
1 -TTATATTA
128540 TTATACTTA
1 TTATA-TTA
128549 -TATATTA
1 TTATATTA
128556 TTTATATTA
1 -TTATATTA
* *
128565 TAATATAA
1 TTATATTA
128573 GTTATATTA
1 -TTATATTA
* *
128582 ATAAATTA
1 TTATATTA
128590 GTTATAT
1 -TTATAT
128597 CATATTAAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
7 3 0.06
8 20 0.40
9 27 0.54
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (8 bp):
TTATATTA
Found at i:128543 original size:17 final size:17
Alignment explanation
Indices: 128523--128596 Score: 82
Period size: 17 Copynumber: 4.4 Consensus size: 17
128513 AATATAAGTC
128523 TTATATTAGTAATATTA-
1 TTATATTA-TAATATTAG
*
128540 TTATACTTAT-ATATTAT
1 TTATA-TTATAATATTAG
*
128557 TTATATTATAATATAAG
1 TTATATTATAATATTAG
128574 TTATATTAATAA-ATTAG
1 TTATATT-ATAATATTAG
128591 TTATAT
1 TTATAT
128597 CATATTAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
16 10 0.20
17 33 0.66
18 7 0.14
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
TTATATTATAATATTAG
Found at i:128561 original size:34 final size:34
Alignment explanation
Indices: 128523--128612 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 34
128513 AATATAAGTC
* * *
128523 TTATATTAGTAATATTA-TTATACTT-ATATATTAT
1 TTATATTA-TAATATAAGTTATA-TTAATAAATTAG
128557 TTATATTATAATATAAGTTATATTAATAAATTAG
1 TTATATTATAATATAAGTTATATTAATAAATTAG
*
128591 TTATATCAT-AT-TAAGATTATAT
1 TTATATTATAATATAAG-TTATAT
128613 GATTAACTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
32 4 0.08
33 17 0.35
34 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (34 bp):
TTATATTATAATATAAGTTATATTAATAAATTAG
Found at i:128916 original size:13 final size:13
Alignment explanation
Indices: 128898--128942 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
128888 TTTATTTTAA
128898 TAATTATAAAAAT
1 TAATTATAAAAAT
128911 TAATTAGTAAATAAT
1 TAATTA-TAAA-AAT
* *
128926 TAAATCTAAAAAT
1 TAATTATAAAAAT
128939 TAAT
1 TAAT
128943 CAAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 12 0.44
14 8 0.30
15 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (13 bp):
TAATTATAAAAAT
Found at i:129380 original size:15 final size:15
Alignment explanation
Indices: 129354--129388 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
129344 ATTTTAAATT
129354 ATTATT-TAATAATA
1 ATTATTATAATAATA
129368 ATTATTATAATAATA
1 ATTATTATAATAATA
129383 A-TATTA
1 ATTATTA
129389 AATGTAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATTATAATAATA
Found at i:129702 original size:12 final size:12
Alignment explanation
Indices: 129687--129721 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
129677 TTTTTTAGAA
129687 TATTAATTAAAC
1 TATTAATTAAAC
129699 TATTTAATTAAAC
1 TA-TTAATTAAAC
*
129712 TACTAATTAA
1 TATTAATTAA
129722 TAATAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (12 bp):
TATTAATTAAAC
Found at i:131524 original size:181 final size:180
Alignment explanation
Indices: 131209--131580 Score: 473
Period size: 181 Copynumber: 2.1 Consensus size: 180
131199 TCATTATGAC
* * * *
131209 CAATTGTTTCTATTCAAACAAGCTTATTTGGAACAAAATAATTCTAATTAATTAATATTCCAAAA
1 CAATTGTTTCTATTCAAACAAGCTTATTTGGAACAAAACAATACTAATTAATTAACATTCAAAAA
* * * * * * **
131274 TTACTAAGTAAAAGATTTAAAAAATAAATTTGTTTACCGAGTGAGTTCAAATAGTTATGATTGTT
66 TTAATAAGTAAAAGATTTAAAAAATAAATTAGTTTACCAAATCAGTTCAAATAGTCATGATCATT
*
131339 TGAACAATTATTTATTTCAAATCATTATGATC-TTTTGTTTTGTTATAAAA
131 TGAACAATTATTTATTTCAAATCATTATGA-CATTTTATTTTGTTATAAAA
* * * *
131389 CAATCGTTTCTATTCATACAAGTTTATTTGGAATAAAACAATACTAA-TATATTAACATTCTAAA
1 CAATTGTTTCTATTCAAACAAGCTTATTTGGAACAAAACAATACTAATTA-ATTAACATTC-AAA
*
131453 AATTAATAAGCT-AAAGATTTAAAAAATTAATTAGTTTACCAAATCAGTTCAAATAGTCATG-TC
64 AATTAATAAG-TAAAAGATTTAAAAAATAAATTAGTTTACCAAATCAGTTCAAATAGTCATGAT-
* * * *
131516 CATTTGAACTATTATTTCTTTCAAATTATTATGACATTTTATTTTGTTGTAAAA
127 CATTTGAACAATTATTTATTTCAAATCATTATGACATTTTATTTTGTTATAAAA
131570 CAATTGTTTCT
1 CAATTGTTTCT
131581 TATCGATCAA
Statistics
Matches: 164, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
179 2 0.01
180 52 0.32
181 109 0.66
182 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (180 bp):
CAATTGTTTCTATTCAAACAAGCTTATTTGGAACAAAACAATACTAATTAATTAACATTCAAAAA
TTAATAAGTAAAAGATTTAAAAAATAAATTAGTTTACCAAATCAGTTCAAATAGTCATGATCATT
TGAACAATTATTTATTTCAAATCATTATGACATTTTATTTTGTTATAAAA
Found at i:132324 original size:27 final size:27
Alignment explanation
Indices: 132279--132332 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
132269 AAAATTAAAA
*
132279 TAATGTTATAATTAAATATAATCTAATT
1 TAATGTTATAAATAAATATAAT-TAATT
*
132307 TAAT-TTATAAATATATATAATTAATT
1 TAATGTTATAAATAAATATAATTAATT
132333 AAAATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 15 0.62
28 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
TAATGTTATAAATAAATATAATTAATT
Found at i:132354 original size:20 final size:19
Alignment explanation
Indices: 132309--132355 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
132299 ATCTAATTTA
*
132309 ATTTATAAATATATATAATT
1 ATTTA-AAATATATATAAAT
*
132329 AATTAAAATATAATATAAAT
1 ATTTAAAATAT-ATATAAAT
132349 ATTTAAA
1 ATTTAAA
132356 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTAAAATATATATAAAT
Found at i:132356 original size:19 final size:19
Alignment explanation
Indices: 132314--132356 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
132304 ATTTAATTTA
*
132314 TAAATATATATAATTAATT
1 TAAATATATATAAATAATT
*
132333 AAAATATAATATAAAT-ATT
1 TAAATAT-ATATAAATAATT
132352 TAAAT
1 TAAAT
132357 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATATATAAATAATT
Found at i:132596 original size:13 final size:14
Alignment explanation
Indices: 132578--132611 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
132568 ATATAAATCC
132578 TAATTATTA-TAAT
1 TAATTATTAGTAAT
132591 TAATTATTAGTAAT
1 TAATTATTAGTAAT
132605 T-ATTATT
1 TAATTATT
132612 TAAACAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TAATTATTAGTAAT
Found at i:132702 original size:18 final size:17
Alignment explanation
Indices: 132681--132736 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
132671 AGTATTATTA
132681 TTTAATTATTAATTAAAT
1 TTTAATTATTAATT-AAT
132699 TTTAA--ATT--TTAAT
1 TTTAATTATTAATTAAT
* *
132712 TTTAATTATCAATTTAT
1 TTTAATTATTAATTAAT
132729 TTTAATTA
1 TTTAATTA
132737 AATAGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.25
14 2 0.06
15 2 0.06
16 3 0.09
17 12 0.38
18 5 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAATTATTAATTAAT
Found at i:133605 original size:28 final size:28
Alignment explanation
Indices: 133539--133595 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
133529 AGAAAATTAA
133539 TAAT-CTATTAACATATTTATTAATTTT
1 TAATACTATTAACATATTTATTAATTTT
*
133566 TAATACAATTAACAGTTATTT-TTAATTTT
1 TAATACTATTAACA--TATTTATTAATTTT
133595 T
1 T
133596 CAAATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.15
28 8 0.31
29 9 0.35
30 5 0.19
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (28 bp):
TAATACTATTAACATATTTATTAATTTT
Found at i:134135 original size:13 final size:13
Alignment explanation
Indices: 134094--134129 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
134084 ATATAATAAT
*
134094 ATTATATAATTATT
1 ATTA-ATAATTATA
134108 ATTAATAATTATA
1 ATTAATAATTATA
134121 ATTAATAAT
1 ATTAATAAT
134130 AGTAATCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATAATTATA
Found at i:135214 original size:22 final size:21
Alignment explanation
Indices: 135202--135243 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
135192 TTATAATCCT
*
135202 TATTAATTATAATTAATTATAA
1 TATTAATTATAATT-ATAATAA
*
135224 TATTTATTATAATTATAATA
1 TATTAATTATAATTATAATA
135244 GAAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTAATTATAATTATAATAA
Found at i:135220 original size:26 final size:28
Alignment explanation
Indices: 135187--135242 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
135177 ATTTATTTGT
*
135187 ATTAATTATAATCCTTA-T-TAATTATA
1 ATTAATTATAATACTTATTATAATTATA
*
135213 ATTAATTATAATATTTATTATAATTATA
1 ATTAATTATAATACTTATTATAATTATA
135241 AT
1 AT
135243 AGAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 15 0.58
27 1 0.04
28 10 0.38
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTAATTATAATACTTATTATAATTATA
Done.