Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168359.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_58, 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: 144159
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:83 original size:10 final size:10
Alignment explanation
Indices: 68--92 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58 GCATATTAAT
68 ATTAAAGATA
1 ATTAAAGATA
78 ATTAAAGATA
1 ATTAAAGATA
88 ATTAA
1 ATTAA
93 TATGACTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
ATTAAAGATA
Found at i:335 original size:23 final size:24
Alignment explanation
Indices: 296--362 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 24
286 TAATCTATTT
*
296 GATTTAAT-TATATAAATAAAT-TA
1 GATTTAATATTTA-AAATAAATATA
*
319 GATTTAATATTTAAAATTAATATA
1 GATTTAATATTTAAAATAAATATA
*
343 TATTATAATA-TTAAATATAA
1 GATT-TAATATTTAAA-ATAA
363 CTAGTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 15 0.42
24 13 0.36
25 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
GATTTAATATTTAAAATAAATATA
Found at i:544 original size:18 final size:19
Alignment explanation
Indices: 510--550 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
500 TTAATTTTAT
510 ATTAATTTAACATATATAA
1 ATTAATTTAACATATATAA
529 ATTAATTTAA-ATATATAA
1 ATTAATTTAACATATATAA
547 ATTA
1 ATTA
551 TTAATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAATTTAACATATATAA
Found at i:564 original size:23 final size:23
Alignment explanation
Indices: 535--625 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 23
525 ATAAATTAAT
*
535 TTAAATATATAAATTATTAATTA
1 TTAAATATATAATTTATTAATTA
* *
558 TTAAATATTTAATTTATTAATGA
1 TTAAATATATAATTTATTAATTA
581 TT--ATAT-TAATTTATTAA-TA
1 TTAAATATATAATTTATTAATTA
*
600 TTAATAAATATATATTTATTGAATTA
1 TTAA-ATATATA-ATTTATT-AATTA
626 ATTGATATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.05
20 11 0.20
21 4 0.07
22 3 0.05
23 24 0.43
24 7 0.12
25 2 0.04
26 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATATATAATTTATTAATTA
Found at i:576 original size:16 final size:16
Alignment explanation
Indices: 551--601 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
541 ATATAAATTA
551 TTAA-TTATTAAATAT
1 TTAATTTATTAAATAT
566 TTAATTTATTAATGATTAT
1 TTAATTTATTAA--A-TAT
585 ATTAATTTATT-AATAT
1 -TTAATTTATTAAATAT
601 T
1 T
602 AATAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.16
16 10 0.32
17 1 0.03
18 1 0.03
19 4 0.13
20 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTAATTTATTAAATAT
Found at i:591 original size:20 final size:19
Alignment explanation
Indices: 549--602 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
539 ATATATAAAT
549 TATTAA-TTATTAA-A-TA
1 TATTAATTTATTAATATTA
565 T-TTAATTTATTAATGATTA
1 TATTAATTTATTAAT-ATTA
584 TATTAATTTATTAATATTA
1 TATTAATTTATTAATATTA
603 ATAAATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 4 0.12
16 8 0.24
18 1 0.03
19 7 0.21
20 13 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTAATTTATTAATATTA
Found at i:1125 original size:180 final size:174
Alignment explanation
Indices: 713--1379 Score: 558
Period size: 180 Copynumber: 3.8 Consensus size: 174
703 TAATATCATT
* * * * *
713 AATAATACTAATTTATTAATATTTC-AAAAATTAATCAGTAAGAGATTT-AAAAGTAAATCTAGT
1 AATAATACTAATTTAATAATA-TTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATT
* ** * * ** *
776 TACCAAACCATTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTTGAATCATTATAACCTT
65 TACCAAACCAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACCTT
* * * *
841 TTATTTTATCATCAAACAATTGGTTCTGTT-TATACTATTTTATTCGAAATAA
130 TT-TTTTGTTAT-AAACAATT-GTTTTGTTCTATA--A--TTATTTG-AATAA
* * * * * * * *
893 AATAAAACTAATTTAATAATATTCTAAAACTTAATAACCACGAAAATTAAAAAATAAATCTAATT
1 AATAATACTAATTTAATAATATTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATTT
* ** * * * *
958 GCTGAACCAGTTGAAATAGTTAAGACTATATGAATGATTATCTATTTCAAATCGTTATGACCTTT
66 ACCAAACCAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACCTTT
* *
1023 TCTTTTGTTGTAAAGCAATTGTTTTGTTCGTATAAGCTTATTTGTATTAA
131 T-TTTTGTTATAAA-CAATTGTTTTGTTC-TATAA--TTATTTG-AATAA
* *
1073 AATAATACTAATTTAATAATATTTC-AAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTT
1 AATAATACTAATTTAATAATA-TTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATT
* * * * * * **
1137 TACCAAATCAGTTCAAATGGTTAAAACTATTAGAATAATTATCTATTTCAAATTGTTCTAATATT
65 TACCAAACCAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACCTT
*
1202 TTATTTGCTTATAAAACAATTGTTTTTGTTC-AT-ATTATTTAGAATAA
130 TTTTTTG-TTAT-AAACAATTG-TTTTGTTCTATAATTATTT-GAATAA
* * * * * *
1249 ATTAATACTAATTTAGTAACATTCAAAAAATTAATAA-AAATTATATTTAAAAAAATAAATCTAT
1 AATAATACTAATTTAATAATATTCAAAAAATTAATAACTAA-GAGATTT-AAAAAATAAATCTAT
** * * ** *
1313 TTACTGAACAAGTACAAATAGTTATTACTATTTGAATAATTATCTATTTTAAATCGTTATAA-CT
64 TTACCAAACCAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACCT
1377 TTT
129 TTT
1380 ATTAAAACAA
Statistics
Matches: 390, Mismatches: 84, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
175 5 0.01
176 49 0.13
177 64 0.16
178 1 0.00
179 9 0.02
180 168 0.43
181 90 0.23
182 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (174 bp):
AATAATACTAATTTAATAATATTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATTT
ACCAAACCAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACCTTT
TTTTTGTTATAAACAATTGTTTTGTTCTATAATTATTTGAATAA
Found at i:1527 original size:21 final size:20
Alignment explanation
Indices: 1487--1543 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
1477 AATTAATTAA
*
1487 AATATTAATTAATAATTTATT
1 AATATTAA-TAATAATTTATC
1508 AATATTAATAACT-ATATTATC
1 AATATTAATAA-TAAT-TTATC
* *
1529 AATTTTAATATTAAT
1 AATATTAATAATAAT
1544 AAAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTAATAATAATTTATC
Found at i:2694 original size:179 final size:176
Alignment explanation
Indices: 2282--2694 Score: 435
Period size: 179 Copynumber: 2.3 Consensus size: 176
2272 ATTTTGTAAG
* * * *
2282 TAGAATTATTTTCTAAATCTCTTATAAATTTTTTAAATATTAATAAATTA-ATT-TTATTCTACT
1 TAGATTTATTTTTTAAATCTCTTATTAA-TTTTAAAATATTAATAAATTATATTATTATTCTACT
* * * * *
2345 CCGAACAAGCTTCTATGAGCATAAATAATTGTTTTATGACACACAAAAGGTTATAACAAGTTGAA
65 CCAAACAAGCTTATATGAACAGAAACAATTGTTTTATGACACACAAAAGGTTATAACAAGTTGAA
* * * * *
2410 ATAAATAATTTTTCATATAGTCTAACTATTTGAACTGATTTAACAAA
130 ATAAATAATTGTTCAAATAATCTAACTATTTAAACTGATTCAACAAA
* *
2457 TAGATTTATTTTTTAAATCTCATAGTTATTGATTTTCAAAATATTACTAAA-T-TATTATTACTT
1 TAGATTTATTTTTTAAATCTC----TTATTAATTTT-AAAATATTAATAAATTATATTATTA-TT
* * * * * *
2520 -TATTCTAAATAAGCTTATATGAACAGAAACAATTGTTTTATGATAGAGC-AAATGTTATAACAA
60 CTACTCCAAACAAGCTTATATGAACAGAAACAATTGTTTTATGACACA-CAAAAGGTTATAACAA
* *
2583 TTTGAAATAGATAATTGTTCAAATAATCATAACTATTTAAACTCGA-TCAACAAA
124 GTTGAAATAAATAATTGTTCAAATAATC-TAACTATTTAAACT-GATTCAACAAA
* *
2637 TAGATTTCTTTTTTAAATCTCTTATTAATTCTTGAAATATTAATAAATTAGTATTATT
1 TAGATTTATTTTTTAAATCTCTTATTAATT-TTAAAATATTAATAAATTA-TATTATT
2695 TTATTTAGAA
Statistics
Matches: 195, Mismatches: 28, Indels: 26
0.78 0.11 0.10
Matches are distributed among these distances:
175 19 0.10
176 20 0.10
177 3 0.02
178 8 0.04
179 100 0.51
180 43 0.22
181 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (176 bp):
TAGATTTATTTTTTAAATCTCTTATTAATTTTAAAATATTAATAAATTATATTATTATTCTACTC
CAAACAAGCTTATATGAACAGAAACAATTGTTTTATGACACACAAAAGGTTATAACAAGTTGAAA
TAAATAATTGTTCAAATAATCTAACTATTTAAACTGATTCAACAAA
Found at i:4141 original size:182 final size:178
Alignment explanation
Indices: 3680--4198 Score: 507
Period size: 177 Copynumber: 2.9 Consensus size: 178
3670 TACTAAATTA
* * ** *
3680 TTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGTTAAATTAGTATTATTTTA-TTTC
1 TTATTTTTTAAAT-TCTTACTTATTAATTTTTA-AATATTAATAAATTAGTATTATTTTATTTTA
* * * * *
3744 GGAAAAGCTTGTATGAACAGAAACAATTGTTTTATGATAGAACAAAATGTTGTAACAATTTGAAA
64 GGTAAA-CTTGTATGAACA-AAACAATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAAA
* * * *
3809 TAGAAAATTATTCAAATAG-TCATAACTATTTGAACTAGTTCAATAAACTGAT
127 TAGATAATTGTTTAAATAGCT-ATAATTATTTGAACTAGTTCAATAAACTGAT
* * * *
3861 TTATTTTTTAAA-T-GT-CTTATTAATTCTTAAAATATTAATAAATTAGTATTATTTTATTTCAA
1 TTATTTTTTAAATTCTTACTTATTAATT-TTTAAATATTAATAAATTAGTATTATTTTATTTTAG
* *
3923 ATAAGCTTGTATGTTGAA-AAAA-AATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAAA
65 GTAAACTTGTA---TGAACAAAACAATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAAA
* * ***
3986 TAGATAGTTGTTTAAATGGCTATAATTATTTGAACT-GATTGGGTAAACTGAT
127 TAGATAATTGTTTAAATAGCTATAATTATTTGAACTAG-TTCAATAAACTGAT
* *
4038 TTATTCTTTTAAATTACTTACTTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTT
1 TTATT-TTTTAAATT-CTTACTTATTAATTTTT-AAATATTAATAAATTAGTATTATTTTATTTT
* * * * ** *
4103 GGGTAAACTTTTATGAACTAAAGCAATTGTTTTATGACAAAACAAATGGTCA-TAATTATTTTAA
63 AGGTAAACTTGTATGAAC-AAAACAATTGTTTTATGACAAAACAAAAGGT-AGTAACAATTTGAA
* *
4167 ATAAAATAATTGTTTAAATAGCCATAATTATT
126 AT-AGATAATTGTTTAAATAGCTATAATTATT
4199 CAAACTTGTT
Statistics
Matches: 276, Mismatches: 44, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
176 1 0.00
177 119 0.43
178 19 0.07
179 7 0.03
180 4 0.01
181 18 0.07
182 82 0.30
183 26 0.09
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (178 bp):
TTATTTTTTAAATTCTTACTTATTAATTTTTAAATATTAATAAATTAGTATTATTTTATTTTAGG
TAAACTTGTATGAACAAAACAATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAAATAGA
TAATTGTTTAAATAGCTATAATTATTTGAACTAGTTCAATAAACTGAT
Found at i:4737 original size:27 final size:28
Alignment explanation
Indices: 4670--4737 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
4660 TTAGATATCT
4670 ATTAATTAATAAAAATCAATAATTAAAATA
1 ATTAA-TAAT-AAAATCAATAATTAAAATA
* * * *
4700 TTTAA-ATTAAAATCAAT-ATTCAGATA
1 ATTAATAATAAAATCAATAATTAAAATA
4726 ATTAATAATAAA
1 ATTAATAATAAA
4738 TTATAAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.35
27 14 0.45
28 2 0.06
30 4 0.13
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (28 bp):
ATTAATAATAAAATCAATAATTAAAATA
Found at i:4738 original size:26 final size:27
Alignment explanation
Indices: 4672--4738 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
4662 AGATATCTAT
4672 TAATTAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * * *
4698 TATTTAA-ATTAAAATCAAT-ATTCAGA
1 TAATTAATAAT-AAATCAATAATTAAAA
4724 TAATTAATAATAAAT
1 TAATTAATAATAAAT
4739 TATAAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:5814 original size:28 final size:27
Alignment explanation
Indices: 5773--5844 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
5763 AAATTAAGGC
*
5773 ATAATTTAAATTTAATTGT-TGTAAATT
1 ATAATATAAATTTAATT-TATGTAAATT
*
5800 ATTAATATAAATTTAAATTTATTTAAATT
1 A-TAATATAAATTT-AATTTATGTAAATT
5829 ATAATA-AAATTTAATT
1 ATAATATAAATTTAATT
5845 ATTATAACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.10
27 7 0.17
28 17 0.43
29 12 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
ATAATATAAATTTAATTTATGTAAATT
Found at i:6784 original size:32 final size:31
Alignment explanation
Indices: 6701--6784 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 31
6691 TTAAATTGTA
6701 AATATAATAATT-ATTAAAATAATTATAATTT
1 AATATAATAATTAATTAAAAT-ATTATAATTT
* *
6732 -A-ATAATAAATATTTATAAATATTAT-ATTT
1 AATATAATAATTAATTA-AAATATTATAATTT
6761 GAATATAATTAATTAATTAAAATA
1 -AATATAA-TAATTAATTAAAATA
6785 GATAAATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
29 12 0.28
30 9 0.21
31 5 0.12
32 9 0.21
33 8 0.19
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
AATATAATAATTAATTAAAATATTATAATTT
Found at i:7269 original size:14 final size:15
Alignment explanation
Indices: 7250--7284 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
7240 TTAAATTATA
7250 ATAATAATA-ATTTT
1 ATAATAATATATTTT
7264 ATAAT-ATATATTTT
1 ATAATAATATATTTT
7278 ATAATAA
1 ATAATAA
7285 ATTTGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 15 0.79
15 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATAATATATTTT
Found at i:7318 original size:18 final size:21
Alignment explanation
Indices: 7294--7338 Score: 69
Period size: 18 Copynumber: 2.3 Consensus size: 21
7284 AATTTGTTTA
7294 ATAATTAATAA-TATAT-TAT
1 ATAATTAATAATTATATGTAT
7313 -TAATTAATAATTATATGTAT
1 ATAATTAATAATTATATGTAT
7333 ATAATT
1 ATAATT
7339 TTTGTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.43
19 5 0.22
20 3 0.13
21 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAATTAATAATTATATGTAT
Found at i:7801 original size:23 final size:20
Alignment explanation
Indices: 7769--7817 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
7759 ATATGGTATT
*
7769 TATAAAATAT-TAATATACTA
1 TATATAATATATAAT-TACTA
*
7789 TATAATAATATATAATTACTT
1 TAT-ATAATATATAATTACTA
7810 TATATAAT
1 TATATAAT
7818 TGTTATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
TATATAATATATAATTACTA
Found at i:8462 original size:18 final size:19
Alignment explanation
Indices: 8437--8485 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
8427 CTAACTAGTA
8437 CAAATAATTATGATTATTT
1 CAAATAATTATGATTATTT
* *
8456 -GAATAATTAT-TTTATTT
1 CAAATAATTATGATTATTT
8473 CAAATAATTATGA
1 CAAATAATTATGA
8486 CCTTTTGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (19 bp):
CAAATAATTATGATTATTT
Found at i:8678 original size:27 final size:27
Alignment explanation
Indices: 8610--8678 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
8600 TTTAGATATT
8610 TATTAATTAATAAAAATCAATAATTAAAA
1 TATTAA-TAAT-AAAATCAATAATTAAAA
* *
8639 TATTTAA-ATTAAAATCAAT-ATTCAGAA
1 TA-TTAATAATAAAATCAATAATT-AAAA
8666 TATTAATAATAAA
1 TATTAATAATAAA
8679 TTATAAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
26 7 0.21
27 19 0.56
28 2 0.06
29 2 0.06
30 4 0.12
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (27 bp):
TATTAATAATAAAATCAATAATTAAAA
Found at i:8699 original size:23 final size:25
Alignment explanation
Indices: 8669--8718 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
8659 TTCAGAATAT
*
8669 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
8692 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
8717 TA
1 TA
8719 TTTTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:9040 original size:33 final size:32
Alignment explanation
Indices: 9001--9103 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 32
8991 AGCCATTATT
9001 ATTAATATTAATAATTCAATATTATTTTTAA-A
1 ATTAATATTAATAATT-AATATTATTTTTAATA
* * *
9033 ATATAATAATAAT-ATTAAAATATTAATTTAAATA
1 AT-TAATATTAATAATT--AATATTATTTTTAATA
9067 ATTAATAATTAATAATTAATA--ATTTTTAATTA
1 ATTAAT-ATTAATAATTAATATTATTTTTAA-TA
9099 ATTAA
1 ATTAA
9104 ATAATATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
31 6 0.10
32 12 0.21
33 29 0.50
34 8 0.14
35 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (32 bp):
ATTAATATTAATAATTAATATTATTTTTAATA
Found at i:9054 original size:14 final size:14
Alignment explanation
Indices: 9037--9124 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 14
9027 TTTAAAATAT
9037 AATAATAATATTAA
1 AATAATAATATTAA
*
9051 AATATTAAT-TT-A
1 AATAATAATATTAA
9063 AATAATTAATAATTAA
1 AATAA-TAAT-ATTAA
*
9079 TAATTAATAATTTTTAA
1 -AA-TAATAA-TATTAA
9096 TTAATTAAATAATATT-A
1 --AA-T-AATAATATTAA
9113 AATAATAATATT
1 AATAATAATATT
9125 TCATATTATT
Statistics
Matches: 61, Mismatches: 4, Indels: 19
0.73 0.05 0.23
Matches are distributed among these distances:
12 5 0.08
13 15 0.25
14 9 0.15
15 4 0.07
16 1 0.02
17 10 0.16
18 12 0.20
19 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATAATAATATTAA
Found at i:9704 original size:180 final size:180
Alignment explanation
Indices: 9451--10430 Score: 692
Period size: 180 Copynumber: 5.5 Consensus size: 180
9441 CTATCAGAAT
* * * * *
9451 AATTATTTATTTCAAATCATTCT-ATCATTTTG-TTTAGTCATAAAACAATTATTTCAGTTCATA
1 AATTATCTATTTAAAATCATTATGA-CATTTTGTTTTA-TCATAAAACAATTGTTTTAGTTCATA
* *
9514 GAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATTCAAAAAATT-A-AAGCAAGAGATT
64 AAAGCTTATTTGAAATAAAATAATACTAATTTATTAACATTC-AAAAATTAATAAGCAAGAGA-T
* **
9577 TTAAAAAATAAATCTGTTTACTGAACAATTTCAAATAAATATGACTATTTAAAC
127 TTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAAC
* * * * *
9631 AATTATCTATTTAAAATTATTTTGACATTTTGTTTTGTCATAAAACAATTTTTTTAGTTAATAAA
1 AATTATCTATTTAAAATCATTATGACATTTTGTTTTATCATAAAACAATTGTTTTAGTTCATAAA
* * * *
9696 AACTTATTTGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTA
66 AGCTTATTTGAAATAAAATAATACTAATTTATTAACA-TTCAAAAATTAATAAGCAAGAGATTTA
* * * * *
9761 AAAACTAAAGCTGTTT-TTCAA-AGCAGTTCTAATAGTTATGACTATTTAAAC
130 AAAAATAAATCTGTTTACTGAACA--AGTTCAAATAGTTATGACTATTTAAAC
* * * * * * *
9812 AAATAT-TAATCTCAAATCGTTATG--ATCTTTGTTTTTTCATAAAACAATTATTTTTA-ATCAT
1 AATTATCT-ATTTAAAATCATTATGACAT-TTTGTTTTATCATAAAACAATT-GTTTTAGTTCAT
* * * * ** *
9873 ATAAGCTTA-TTCAAATAAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGTAAGAGA
63 AAAAGCTTATTTGAAAT-AAAATAATACTAATTTATTAACA-TTCAAAAATTAATAAGCAAGAGA
* ** * * * * *
9937 TTTAAAAAATAAATGTGTTTGTTGATCAA-TTCAATTAGTTAAGATTA-TTAGAAT
126 TTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTA-AAC
* ** * * * * * *
9991 AATTATCTATTTCAAATTGTTCTGACCTTTTGTTTAATCATAAAATAATTGTTTCAGTTCATACA
1 AATTATCTATTTAAAATCATTATGACATTTTGTTTTATCATAAAACAATTGTTTTAGTTCATAAA
* ** * * * * *
10056 AGCTTATTCGAAAGCAAATAATACTAATTTATTAACTTTTGAAAGATTAATAAGCAGGATATTTG
66 AGCTTATTTGAAATAAAATAATACTAATTTATTAAC-ATTCAAAAATTAATAAGCAAGAGATTT-
* * ** * * *
10121 AAAAACTAAATTTGTTTACCAAACAAGTTCAAATAGTTATGATTGTTTGAAC
129 AAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAAC
* *
10173 AATTATCTATTTAAAATCATTGTGA-ATTTTTGTTTTATCATAAAACAATTGTTTTAGTTCACAA
1 AATTATCTATTTAAAATCATTATGACA-TTTTGTTTTATCATAAAACAATTGTTTTAGTTCATAA
** *** * * * *** *
10237 AAATTTATCCAAAATAAAATAATACTACTTTTCTTAATATT-TTGAA--AAT-A--AAGAGATTA
65 AAGCTTATTTGAAATAAAATAATACTA-ATTTATTAACATTCAAAAATTAATAAGCAAGAGATTT
* * * * * *
10296 AAAAAATAAATCAGTTT-CTG-ACTTAGTTTAAATAATTATG-GTCATTTGAAC
129 AAAAAATAAATCTGTTTACTGAAC-AAGTTCAAATAGTTATGACT-ATTTAAAC
* * * * ** * * * **** *
10347 AATTATCTATTTCAAATCGTTATTACCTTTCATTTTGTCATAAAACAACTATTTTTCAACATACA
1 AATTATCTATTTAAAATCATTATGACATTTTGTTTTATCATAAAACAATTGTTTTAGTTCATAAA
10412 AGCTTATTTGAAATAAAAT
66 AGCTTATTTGAAATAAAAT
10431 TGTTTGTACT
Statistics
Matches: 627, Mismatches: 145, Indels: 62
0.75 0.17 0.07
Matches are distributed among these distances:
173 3 0.00
174 84 0.13
175 14 0.02
176 6 0.01
178 4 0.01
179 50 0.08
180 255 0.41
181 98 0.16
182 104 0.17
183 9 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
AATTATCTATTTAAAATCATTATGACATTTTGTTTTATCATAAAACAATTGTTTTAGTTCATAAA
AGCTTATTTGAAATAAAATAATACTAATTTATTAACATTCAAAAATTAATAAGCAAGAGATTTAA
AAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAAC
Found at i:10824 original size:181 final size:178
Alignment explanation
Indices: 10441--10914 Score: 471
Period size: 181 Copynumber: 2.6 Consensus size: 178
10431 TGTTTGTACT
* * *
10441 TTTTGTTTTGTCATAAAACAATTATTTTTGAATGCATAAGTTTA-TCTGAAATAAAATAATGCTA
1 TTTTGTTTTGTCATAAAACAATTATTTTTGATTGCATAAGTTTATTC-AAAATAAAATAATACTA
* * *
10505 ATTTATTAATATTTCA-AGAATTAGT-AT--GAGATTCAAAAAATAAATCTGTTTACCGAATAAG
65 ATTTATTAATA-TTCAGA-AATTA-TAATAAGAGATTTAAAAAATAAATTTATTTACCGAATAAG
* * * * *
10566 TTCAAATAATTATGACTATTTGAATAATTATTTATTTCAAATTGTTATAATA
127 TTCAAATAATTAAGACTATATAAATAATTATCTATTTCAAATTGTTATAACA
* *
10618 TTTTGTTTTGTCATAAAATAATTATTTTTG-TTCGCATAAATTTATTCAAAATAAAATAATACTA
1 TTTTGTTTTGTCATAAAACAATTATTTTTGATT-GCATAAGTTTATTCAAAATAAAATAATACTA
* * ***
10682 AATTAATAATATTCTAGAAATTCATAACTAAGAGATTTAAAAAATAAATTTATTTGTTGAACT-A
65 ATTTATTAATATTC-AGAAATT-ATAA-TAAGAGATTTAAAAAATAAATTTATTTACCGAA-TAA
* ** * *
10746 GTTTAAATCTTTAAGACTATATAAATAATTATCTATTTTAAATTGTTATAACC
126 GTTCAAATAATTAAGACTATATAAATAATTATCTATTTCAAATTGTTATAACA
* ** * * * *
10799 TTTTGTTTTGTTATAAAACAATTATTTCAGCTT--ATACGAGCTTATTCATAATAAAATAAAACT
1 TTTTGTTTTGTCATAAAACAATTATTTTTGATTGCATA--AGTTTATTCAAAATAAAATAATACT
* * *
10862 AATTTATTAATATTCAAAAATTTATATGTAAGAGATTTAAAAAATAATTTTAT
64 AATTTATTAATATTCAGAAA-TTATA-ATAAGAGATTTAAAAAATAAATTTAT
10915 GAGTATTAAT
Statistics
Matches: 246, Mismatches: 36, Indels: 27
0.80 0.12 0.09
Matches are distributed among these distances:
176 4 0.02
177 69 0.28
178 5 0.02
179 4 0.02
180 31 0.13
181 130 0.53
182 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (178 bp):
TTTTGTTTTGTCATAAAACAATTATTTTTGATTGCATAAGTTTATTCAAAATAAAATAATACTAA
TTTATTAATATTCAGAAATTATAATAAGAGATTTAAAAAATAAATTTATTTACCGAATAAGTTCA
AATAATTAAGACTATATAAATAATTATCTATTTCAAATTGTTATAACA
Found at i:18053 original size:16 final size:16
Alignment explanation
Indices: 17997--18053 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
17987 TCTTCCTTAA
17997 AATTA-TTAATAATAT
1 AATTATTTAATAATAT
18012 ATATTATTTAACTAATA-
1 A-ATTATTTAA-TAATAT
*
18029 AATTGTTTAATAATACT
1 AATTATTTAATAATA-T
18046 AATT-TTTA
1 AATTATTTA
18054 TTATTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.17
16 16 0.44
17 9 0.25
18 5 0.14
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (16 bp):
AATTATTTAATAATAT
Found at i:18388 original size:12 final size:12
Alignment explanation
Indices: 18350--18400 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
18340 ATTATAACAA
18350 TATAAT-ATTAT
1 TATAATAATTAT
18361 T-TAATATTATTTAT
1 TATAATA--A-TTAT
18375 TATAATAATTAT
1 TATAATAATTAT
18387 TATAATAATT-T
1 TATAATAATTAT
18398 TAT
1 TAT
18401 TTAATATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 4 0.11
11 5 0.14
12 14 0.40
13 2 0.06
14 5 0.14
15 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATAATAATTAT
Found at i:18397 original size:25 final size:26
Alignment explanation
Indices: 18350--18406 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
18340 ATTATAACAA
18350 TATAAT-ATTATTTAATAT-TATTTAT
1 TATAATAATTATTTAATATAT-TTTAT
18375 TATAATAATTATTATAATA-ATTTTAT
1 TATAATAATTATT-TAATATATTTTAT
18401 T-TAATA
1 TATAATA
18407 TAACATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 11 0.38
26 12 0.41
27 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATAATAATTATTTAATATATTTTAT
Found at i:18403 original size:30 final size:33
Alignment explanation
Indices: 18332--18419 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 33
18322 TATTTATTGT
*
18332 TATTATTTATTATAACAATATAATATTATTTAA
1 TATTATTTATTATAACAATATAATATTATATAA
* *
18365 TATTATTTATTATAATAAT-TATTA-TA-ATAA
1 TATTATTTATTATAACAATATAATATTATATAA
* * *
18395 TTTTATTTAATATAACATTA-AATAT
1 TATTATTTATTATAACAATATAATAT
18420 CTTATCTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
30 21 0.47
31 2 0.04
32 4 0.09
33 18 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (33 bp):
TATTATTTATTATAACAATATAATATTATATAA
Found at i:18439 original size:15 final size:15
Alignment explanation
Indices: 18415--18448 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18405 TATAACATTA
18415 AATATCTTATCTTAT
1 AATATCTTATCTTAT
* *
18430 AATATTTTATTTTAT
1 AATATCTTATCTTAT
18445 AATA
1 AATA
18449 AATTTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATCTTATCTTAT
Found at i:18567 original size:19 final size:20
Alignment explanation
Indices: 18534--18573 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
18524 TAATTAGTAT
*
18534 TAATAAATTATTATTAATTA
1 TAATAAATTAATATTAATTA
*
18554 TAAT-AATTAATATTTATTA
1 TAATAAATTAATATTAATTA
18573 T
1 T
18574 TATATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAATTAATATTAATTA
Found at i:18570 original size:23 final size:23
Alignment explanation
Indices: 18516--18741 Score: 71
Period size: 23 Copynumber: 9.7 Consensus size: 23
18506 AATATTGGAC
* * *
18516 ATATATATTAATTAGTATTAATAA
1 ATATTTATTAATTA-TAATAATTA
18540 AT-TATTATTAATTATAATAATTA
1 ATAT-TTATTAATTATAATAATTA
* *
18563 ATATTTATT-ATTATATTAAAATA
1 ATATTTATTAATTATAAT-AATTA
* *
18586 ATATACTTAATTATTTAAAATAAATTA
1 ATAT--TT-ATTAATTATAAT-AATTA
* * *
18613 TTGTATTATTAA-TACAATAATTA
1 ATAT-TTATTAATTATAATAATTA
* *
18636 TTATATTT-TT-ACTA-AATATTTGA
1 --ATATTTATTAATTATAATAATT-A
*
18659 AT-TATTATTAATTATATAAAATT-
1 ATAT-TTATTAATTATA-ATAATTA
* *
18682 ATATATATTAAATAT-AT-A-TA
1 ATATTTATTAATTATAATAATTA
*
18702 A-ATTTATAAATTATAATAATTTA
1 ATATTTATTAATTATAATAA-TTA
*
18725 TTATTTATAATAATTAT
1 ATATTTAT--TAATTAT
18742 TAAAATATTT
Statistics
Matches: 149, Mismatches: 28, Indels: 48
0.66 0.12 0.21
Matches are distributed among these distances:
19 11 0.07
20 5 0.03
21 6 0.04
22 16 0.11
23 49 0.33
24 27 0.18
25 12 0.08
26 11 0.07
27 12 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (23 bp):
ATATTTATTAATTATAATAATTA
Found at i:18580 original size:27 final size:27
Alignment explanation
Indices: 18532--18587 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
18522 ATTAATTAGT
*
18532 ATTAATAAATTATTATTAATTATAATA
1 ATTAATAAATTATTATTAATTAAAATA
*
18559 ATTAAT-ATTTATTATTATATTAAAATA
1 ATTAATAAATTATTATTA-ATTAAAATA
18586 AT
1 AT
18588 ATACTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTAATAAATTATTATTAATTAAAATA
Found at i:18598 original size:26 final size:26
Alignment explanation
Indices: 18543--18600 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
18533 TTAATAAATT
* *
18543 ATTATTAATTATAATAATTAATATTT
1 ATTATTAATTAAAATAATTAATATTA
18569 ATTATTATATTAAAATAA-T-ATACTTA
1 ATTATTA-ATTAAAATAATTAATA-TTA
18595 ATTATT
1 ATTATT
18601 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 16 0.57
27 9 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTATTAATTAAAATAATTAATATTA
Found at i:18716 original size:17 final size:18
Alignment explanation
Indices: 18690--18739 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
18680 TTATATATAT
18690 TAAATATAT-ATAAATTTA
1 TAAATATATAAT-AATTTA
18708 TAAAT-TATAATAATTTA
1 TAAATATATAATAATTTA
* *
18725 T-TATTTATAATAATT
1 TAAATATATAATAATT
18740 ATTAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.07
17 20 0.69
18 7 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATATATAATAATTTA
Found at i:18817 original size:35 final size:36
Alignment explanation
Indices: 18732--18818 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 36
18722 TTATTATTTA
*
18732 TAAT-AATTATTAAAATAT-TTAAGTATAATATAAT
1 TAATAAATTATTAAATTATATTAAGTATAATATAAT
* *
18766 TAATAAA--ATTATATTATATT-AG-ATAATATTAT
1 TAATAAATTATTAAATTATATTAAGTATAATATAAT
*
18798 TATTCAAATTATTAAATTATA
1 TAAT-AAATTATTAAATTATA
18819 AAATAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
32 12 0.28
33 13 0.30
34 6 0.14
35 12 0.28
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (36 bp):
TAATAAATTATTAAATTATATTAAGTATAATATAAT
Found at i:19324 original size:182 final size:179
Alignment explanation
Indices: 18989--19340 Score: 408
Period size: 181 Copynumber: 1.9 Consensus size: 179
18979 AACATGAATT
* * * * *
18989 GAAACAATTGTTTTATTACAAAACAAAATGTTACAATGATTTGAAGTAAATAATTATTCAAATAG
1 GAAACAATTGTTTTATGACAAAACAAAAAGTCACAATGATTTAAAATAAATAATTATTCAAATAG
* * * *
19054 TCATTACTATTTGAACTTATTTGGTAAACTTATTTTTTTTTAAATCTTTTACTTATTAATTTTTG
66 TCATTAATATTTGAACTTATTCGATAAACTAATTTTTTTTTAAATCTTTTACTTATTAATTTTT-
19119 AAATATTAATAAATCAATATTATTTTAATCCGAA-TAAGCTCGTATGGATG
130 AAATATTAATAAATCAATATTATTTT-ATCCGAAGTAAGCTCGTATGGATG
* * *
19169 GAAATAATTGTTTTATGACAAAACAAAAAAGTCATAA-GAATTTAAAATAAATAATTATTCAGAT
1 GAAACAATTGTTTTATGACAAAAC-AAAAAGTCACAATG-ATTTAAAATAAATAATTATTCAAAT
* *
19233 AGTCA-TAATGATTTGAATTTGTTCGATAAA-TAAATTTATTTTTTAAATCTTTTACTTATTAAT
64 AGTCATTAAT-ATTTGAACTTATTCGATAAACT-AATTT-TTTTTTAAATCTTTTACTTATTAAT
* * *** *
19296 TGTCTT-AGTATTATTAAATTTGTATTATTTTATTCGAAGTAAGCT
126 T-T-TTAAATATTAATAAATCAATATTATTTTATCCGAAGTAAGCT
19341 TATATGAACA
Statistics
Matches: 144, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
180 27 0.19
181 62 0.43
182 52 0.36
183 1 0.01
184 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (179 bp):
GAAACAATTGTTTTATGACAAAACAAAAAGTCACAATGATTTAAAATAAATAATTATTCAAATAG
TCATTAATATTTGAACTTATTCGATAAACTAATTTTTTTTTAAATCTTTTACTTATTAATTTTTA
AATATTAATAAATCAATATTATTTTATCCGAAGTAAGCTCGTATGGATG
Found at i:19389 original size:29 final size:30
Alignment explanation
Indices: 19347--19407 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
19337 AGCTTATATG
19347 AACAAATAAAATCATTATATGAC-AAACCA
1 AACAAATAAAATCATTATATGACAAAACCA
19376 AACAAATAAAATCATTATATGACAAAACCA
1 AACAAATAAAATCATTATATGACAAAACCA
19406 AA
1 AA
19408 AGGTTATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.61, C:0.16, G:0.03, T:0.20
Consensus pattern (30 bp):
AACAAATAAAATCATTATATGACAAAACCA
Found at i:19550 original size:17 final size:17
Alignment explanation
Indices: 19480--19552 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
19470 TAAATAATAC
*
19480 TAAT-TTATAATTA-AA
1 TAATATTATAATTATTA
*
19495 TAATATT-TAATTAGATA
1 TAATATTATAATTA-TTA
* * * *
19512 TAACATAAAAATTATTC
1 TAATATTATAATTATTA
*
19529 GAATATTATAATTATTA
1 TAATATTATAATTATTA
19546 TAATATT
1 TAATATT
19553 GTAGTATATT
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
15 10 0.24
16 2 0.05
17 25 0.60
18 5 0.12
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TAATATTATAATTATTA
Found at i:19684 original size:12 final size:12
Alignment explanation
Indices: 19650--19701 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
19640 AATCTCAAAA
*
19650 TATTTTAATTAT
1 TATTTTAATAAT
19662 TGATTTTAATAAT
1 T-ATTTTAATAAT
*
19675 TATTTAAATAAT
1 TATTTTAATAAT
**
19687 TATTTCGATAAT
1 TATTTTAATAAT
19699 TAT
1 TAT
19702 AATTCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 24 0.69
13 11 0.31
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (12 bp):
TATTTTAATAAT
Found at i:20602 original size:12 final size:12
Alignment explanation
Indices: 20568--20602 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
20558 AATATTATTA
*
20568 TTAATTAGTAGT
1 TTAATTAATAGT
20580 TTAATTAAATAGT
1 TTAATT-AATAGT
20593 TTAATTAATA
1 TTAATTAATA
20603 TTCTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (12 bp):
TTAATTAATAGT
Found at i:20680 original size:15 final size:15
Alignment explanation
Indices: 20637--20684 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 15
20627 CATTGTTATT
20637 ATTAAGATAATAATA
1 ATTAAGATAATAATA
20652 ATGTTATA-ATTAATAATA
1 A--TTA-AGA-TAATAATA
20670 ATTAAGATAATAATA
1 ATTAAGATAATAATA
20685 TAGTTTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
15 10 0.36
16 4 0.14
17 4 0.14
18 10 0.36
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
ATTAAGATAATAATA
Found at i:21008 original size:17 final size:15
Alignment explanation
Indices: 20957--21004 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 15
20947 CCCTTAGATT
20957 TAAT-ATTATT-TTA
1 TAATAATTATTATTA
20970 TAATAA-TATTATTA
1 TAATAATTATTATTA
20984 TAATAATTATTATTA
1 TAATAATTATTATTA
20999 -AATAAT
1 TAATAAT
21005 AATTTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.25
14 16 0.50
15 8 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATAATTATTATTA
Found at i:21210 original size:21 final size:22
Alignment explanation
Indices: 21166--21211 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
21156 AAATTGATTA
*
21166 TTAAAATTAAATAAAATAATAT
1 TTAAAATTAAATAAAATAAGAT
* *
21188 TTAAAA-TAAATATAATTAGAT
1 TTAAAATTAAATAAAATAAGAT
21209 TTA
1 TTA
21212 TAACTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TTAAAATTAAATAAAATAAGAT
Found at i:21449 original size:15 final size:13
Alignment explanation
Indices: 21413--21459 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
21403 AAAATAATTT
21413 TGATTAATTTTTA
1 TGATTAATTTTTA
21426 -GATTTAATTATTTA
1 TGA-TTAATT-TTTA
21440 CTGATTAATTTTTA
1 -TGATTAATTTTTA
*
21454 TAATTA
1 TGATTA
21460 TTAAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 2 0.07
13 11 0.38
14 8 0.28
15 6 0.21
16 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (13 bp):
TGATTAATTTTTA
Found at i:21525 original size:36 final size:34
Alignment explanation
Indices: 21457--21527 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 34
21447 ATTTTTATAA
21457 TTATTAAAATAAATAAATAACTAATAAAAGTTAT
1 TTATTAAAATAAATAAATAACTAATAAAAGTTAT
* *
21491 TTATTATAATAAAATATAATAA-TAATTAATAGTTAT
1 TTATTAAAAT-AAATA-AATAACTAA-TAAAAGTTAT
21527 T
1 T
21528 AAATGTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 9 0.28
35 8 0.25
36 15 0.47
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (34 bp):
TTATTAAAATAAATAAATAACTAATAAAAGTTAT
Found at i:21824 original size:17 final size:18
Alignment explanation
Indices: 21802--21877 Score: 70
Period size: 17 Copynumber: 4.3 Consensus size: 18
21792 TCTTAATACG
21802 ATATAACTAAT-TTATTA
1 ATATAACTAATATTATTA
*
21819 ATATAACTTATATTA-TA
1 ATATAACTAATATTATTA
* *
21836 ACATAAATAATA-TATATA
1 ATATAACTAATATTAT-TA
*
21854 AGTATAA-TAATATTACTA
1 A-TATAACTAATATTATTA
21872 ATATAA
1 ATATAA
21878 GACTTATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.04
17 26 0.54
18 14 0.29
19 6 0.12
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAACTAATATTATTA
Found at i:22061 original size:21 final size:21
Alignment explanation
Indices: 22036--22084 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
22026 TTATTTATTT
22036 TAATTAATATGAAAATAATAA
1 TAATTAATATGAAAATAATAA
* * * *
22057 TAATTATTATTATAATTATAA
1 TAATTAATATGAAAATAATAA
22078 T-ATTAAT
1 TAATTAAT
22085 TCAATTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTAATATGAAAATAATAA
Found at i:23930 original size:13 final size:14
Alignment explanation
Indices: 23884--23932 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
23874 ATAAATTCTT
23884 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
23896 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
23912 ATTAATTAATATT-
1 ATTAATTAATATTA
23925 ATTAATTA
1 ATTAATTA
23933 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:24180 original size:18 final size:19
Alignment explanation
Indices: 24121--24181 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
24111 AATGATAAAC
24121 ATTT-ACTTATTAATTATTATA
1 ATTTAACTTATT-A-TATT-TA
24142 ATTTAACTTATTATA--TA
1 ATTTAACTTATTATATTTA
24159 ATTTAAC-TATTATATTTA
1 ATTTAACTTATTATATTTA
24177 ATTTA
1 ATTTA
24182 TTAACTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 7 0.19
20 2 0.05
21 5 0.14
22 7 0.19
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTAACTTATTATATTTA
Found at i:24907 original size:23 final size:23
Alignment explanation
Indices: 24880--24930 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
24870 CTTATTTAGT
*
24880 TTTATAAAACAATTTTTT-ATTAA
1 TTTAT-AAACAATTTTTTAAATAA
* *
24903 TTTATTAATAATTTTTTAAATAA
1 TTTATAAACAATTTTTTAAATAA
24926 TTTAT
1 TTTAT
24931 TTAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATAAACAATTTTTTAAATAA
Found at i:24926 original size:12 final size:11
Alignment explanation
Indices: 24890--24934 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
24880 TTTATAAAAC
*
24890 AATTTTTTATT
1 AATTTTTTAAT
*
24901 AATTTATTAAT
1 AATTTTTTAAT
24912 AATTTTTTAAAT
1 AATTTTTT-AAT
24924 AATTTATTTAA
1 AATTT-TTTAA
24935 ATTATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 16 0.55
12 10 0.34
13 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:25087 original size:24 final size:24
Alignment explanation
Indices: 25057--25107 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
25047 ATAATTATGT
*
25057 ATTATAATTAA-TAGATTATAATTA
1 ATTATAATTAATTA-ATTAGAATTA
25081 ATTATAATTAATTAATTAGAATTA
1 ATTATAATTAATTAATTAGAATTA
25105 ATT
1 ATT
25108 TTTTTGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTATAATTAATTAATTAGAATTA
Found at i:25092 original size:14 final size:14
Alignment explanation
Indices: 25061--25107 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
25051 TTATGTATTA
*
25061 TAATTAA-TAGATT
1 TAATTAATTAGAAT
*
25074 ATAATTAATTATAAT
1 -TAATTAATTAGAAT
25089 TAATTAATTAGAAT
1 TAATTAATTAGAAT
25103 TAATT
1 TAATT
25108 TTTTTGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 25 0.86
15 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
TAATTAATTAGAAT
Found at i:25370 original size:16 final size:16
Alignment explanation
Indices: 25346--25394 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
25336 ATAGTAATTT
25346 ATATAATATTACTAATA
1 ATATAATATTA-TAATA
*
25363 AT-TAATATTATTATA
1 ATATAATATTATAATA
25378 ATATAATAATTATAATA
1 ATATAAT-ATTATAATA
25395 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.21
16 12 0.43
17 10 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAATATTATAATA
Found at i:25381 original size:11 final size:11
Alignment explanation
Indices: 25365--25408 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
25355 TACTAATAAT
25365 TAATATTATTA
1 TAATATTATTA
25376 TAATATAATAATTA
1 TAATAT--T-ATTA
*
25390 TAATATTTTTA
1 TAATATTATTA
25401 TAATATTA
1 TAATATTA
25409 GTAATTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
13 1 0.04
14 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATATTATTA
Found at i:25748 original size:19 final size:18
Alignment explanation
Indices: 25724--25762 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
25714 TGTTTGAAAT
25724 ATTAATAATTAATATTTTA
1 ATTAATAATTAAT-TTTTA
*
25743 ATTAATAATTTATTTTTA
1 ATTAATAATTAATTTTTA
25761 AT
1 AT
25763 AAAACAACGT
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:26141 original size:22 final size:22
Alignment explanation
Indices: 26100--26141 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26090 TTATGGGTTT
*
26100 AAATTTTTAATTAAATAATTAA
1 AAATTTTTAATTAAACAATTAA
26122 AAATTTTATAATT-AACAATT
1 AAATTTT-TAATTAAACAATT
26142 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTTTTAATTAAACAATTAA
Found at i:26142 original size:15 final size:15
Alignment explanation
Indices: 26114--26155 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
26104 TTTTAATTAA
26114 ATAATTAAAAATTTT
1 ATAATTAAAAATTTT
*
26129 ATAATTAACAATTTT
1 ATAATTAAAAATTTT
*
26144 A-AATTTAAAATT
1 ATAATTAAAAATT
26156 ATCAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAAAATTTT
Found at i:26525 original size:13 final size:13
Alignment explanation
Indices: 26507--26531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26497 AGGATTTATT
26507 ATAAAATTATTAG
1 ATAAAATTATTAG
26520 ATAAAATTATTA
1 ATAAAATTATTA
26532 ATATTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATAAAATTATTAG
Found at i:28520 original size:23 final size:22
Alignment explanation
Indices: 28479--28540 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
28469 TTGCTATAAA
* *
28479 TATTAATTTTAATTTATAATTT
1 TATTAATTTTAATTAATAATCT
*
28501 TATTAGTTATTAATTAATAATCT
1 TATTAATT-TTAATTAATAATCT
* *
28524 TA-TAATATTAAGTAATA
1 TATTAATTTTAATTAATA
28541 TAGTATTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 9 0.27
22 10 0.30
23 14 0.42
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (22 bp):
TATTAATTTTAATTAATAATCT
Found at i:28806 original size:13 final size:13
Alignment explanation
Indices: 28790--28832 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
28780 TGATTTAATT
*
28790 TATATATTTATAA
1 TATATAATTATAA
28803 TATATAATTA-AA
1 TATATAATTATAA
* *
28815 TAAATACTTATAA
1 TATATAATTATAA
28828 TATAT
1 TATAT
28833 TTATTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATAATTATAA
Found at i:29251 original size:14 final size:14
Alignment explanation
Indices: 29221--29261 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
29211 TTTATAATTA
29221 TTATTAATATAAATG
1 TTATTAATAT-AATG
29236 TTATTAATATAATG
1 TTATTAATATAATG
29250 TTATTAATATAA
1 TTATTAATATAA
29262 CTTAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
TTATTAATATAATG
Found at i:29314 original size:14 final size:13
Alignment explanation
Indices: 29268--29332 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
29258 ATAACTTAAA
29268 TTAATAATTATAT
1 TTAATAATTATAT
*
29281 ATT-ATTATTATAT
1 -TTAATAATTATAT
*
29294 TAAAATAATTAATAT
1 T-TAATAATT-ATAT
*
29309 TTAATAATTGTAT
1 TTAATAATTATAT
*
29322 ATAATATATTA
1 TTAATA-ATTA
29333 GTAAAAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 1 0.03
13 17 0.43
14 17 0.43
15 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAATAATTATAT
Found at i:29493 original size:20 final size:21
Alignment explanation
Indices: 29470--29512 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
29460 TTTTAATTAT
*
29470 AATAAAATAAAT-TTATTAAA
1 AATAAAATAAATGATATTAAA
**
29490 AATATTATAAATGATATTAAA
1 AATAAAATAAATGATATTAAA
29511 AA
1 AA
29513 GGAATAACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AATAAAATAAATGATATTAAA
Found at i:30041 original size:25 final size:25
Alignment explanation
Indices: 29972--30065 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
29962 TAAATTTAAT
* * *
29972 TAATAATAAATAATCATTAATCTATTA
1 TAAT-ATAAATTATAATTAAT-AATTA
*
29999 TAATTTAAATT-TATATTAATAATTA
1 TAATATAAATTATA-ATTAATAATTA
*
30024 TAATATAAATTATAATTACA-AACTA
1 TAATATAAATTATAATTA-ATAATTA
*
30049 TCA-ATAAATTA-AATTAA
1 TAATATAAATTATAATTAA
30066 ATTTTTAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 5 0.09
24 8 0.14
25 25 0.44
26 14 0.25
27 4 0.07
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATATAAATTATAATTAATAATTA
Found at i:30086 original size:18 final size:17
Alignment explanation
Indices: 30055--30088 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30045 ACTATCAATA
30055 AATTAAATTAAATTTTT
1 AATTAAATTAAATTTTT
*
30072 AATTATAATTTAATTTT
1 AATTA-AATTAAATTTT
30089 ATCTATTAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTAAATTAAATTTTT
Found at i:30413 original size:29 final size:27
Alignment explanation
Indices: 30367--30429 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
30357 ATTAATGAAT
* *
30367 TATTAATTTATTATTATAAACAATATTAA
1 TATT-ATTTAATAATATAAACAA-ATTAA
*
30396 TAATTATTTAATAATATAAATAAATTAA
1 T-ATTATTTAATAATATAAACAAATTAA
30424 TATTAT
1 TATTAT
30430 AATATACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 5 0.17
28 6 0.20
29 16 0.53
30 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTATTTAATAATATAAACAAATTAA
Found at i:30417 original size:20 final size:21
Alignment explanation
Indices: 30388--30440 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
30378 TATTATAAAC
*
30388 AATATTAATAATT-AT-TTAAT
1 AATATAAATAATTAATATT-AT
30408 AATATAAATAAATTAATATTAT
1 AATATAAAT-AATTAATATTAT
30430 AATATACAATA
1 AATATA-AATA
30441 TCTATAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.29
21 4 0.14
22 11 0.39
23 5 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATAAATAATTAATATTAT
Found at i:30446 original size:16 final size:15
Alignment explanation
Indices: 30422--30451 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30412 TAAATAAATT
30422 AATATTATAATATAC
1 AATATTATAATATAC
30437 AATATCTATAATATA
1 AATAT-TATAATATA
30452 ATAATTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATTATAATATAC
Found at i:30487 original size:12 final size:12
Alignment explanation
Indices: 30470--30494 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30460 CATAATTTAT
30470 TATTAATTATAA
1 TATTAATTATAA
30482 TATTAATTATAA
1 TATTAATTATAA
30494 T
1 T
30495 TTAGTAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTAATTATAA
Found at i:31176 original size:29 final size:30
Alignment explanation
Indices: 31144--31200 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
31134 AATTGAAATA
31144 TAATAATTAATTAT-AAAA-TAAT-ACTAATC
1 TAATAA-T-ATTATGAAAATTAATAACTAATC
31173 TAATAATATTATGAAAATTAATAACTAA
1 TAATAATATTATGAAAATTAATAACTAA
31201 GAGAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.20
28 5 0.20
29 10 0.40
30 5 0.20
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (30 bp):
TAATAATATTATGAAAATTAATAACTAATC
Found at i:32190 original size:41 final size:41
Alignment explanation
Indices: 32126--32254 Score: 170
Period size: 41 Copynumber: 3.2 Consensus size: 41
32116 TTGATAAGCC
* * *
32126 TTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAGGAGAAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAT
* *
32167 TTTATTTTTCAAAGCTGTGGTGCCTCTGTTTAGAGAAGCA-
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAT
* * * *
32207 TTTGTTTTTCAAAGTTATGGTGCCTTTGTTTAGAGGAGCCT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAT
32248 TTTATTT
1 TTTATTT
32255 ATTTTTCCAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
40 34 0.45
41 41 0.55
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAT
Found at i:32704 original size:25 final size:25
Alignment explanation
Indices: 32676--32726 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
32666 ATAGTTAATG
* *
32676 TTAATATA-TATAATTATTTATATAA
1 TTAATATATTAAAATTATATA-ATAA
32701 TTAATATATTAAAATTATATAATAA
1 TTAATATATTAAAATTATATAATAA
32726 T
1 T
32727 AAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATATATTAAAATTATATAATAA
Found at i:32976 original size:27 final size:24
Alignment explanation
Indices: 32931--32983 Score: 61
Period size: 27 Copynumber: 2.1 Consensus size: 24
32921 ATAATATTAA
* *
32931 TATAACTATAAGTAAATTAACAAT
1 TATAACTATAAATAAATTAAAAAT
32955 TATAACTTAATAAATAATATTAAAAAT
1 TATAAC-T-ATAAATAA-ATTAAAAAT
32982 TA
1 TA
32984 CTTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 1 0.04
26 7 0.29
27 10 0.42
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (24 bp):
TATAACTATAAATAAATTAAAAAT
Found at i:36107 original size:21 final size:23
Alignment explanation
Indices: 36081--36132 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
36071 AATTATAAAC
*
36081 AATTATTAAAT-TTATATTAT-T
1 AATTATTAAATAATATATTATAT
36102 AATTATT-AATAATATATTATAT
1 AATTATTAAATAATATATTATAT
*
36124 ACTTATTAA
1 AATTATTAA
36133 TATTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 7 0.27
23 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATTAAATAATATATTATAT
Found at i:36621 original size:24 final size:22
Alignment explanation
Indices: 36586--36630 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
36576 TAAAATAAAC
36586 ATTAAATAAATATAT-AATTAAT
1 ATTAAATAAATA-ATCAATTAAT
36608 ATTAAATTAGAATAATCAATTAA
1 ATTAAA-TA-AATAATCAATTAA
36631 GTCATGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.30
23 4 0.20
24 10 0.50
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTAAATAAATAATCAATTAAT
Found at i:36680 original size:15 final size:13
Alignment explanation
Indices: 36649--36680 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36639 ATTAAAATTA
*
36649 ATATTTAATATTC
1 ATATATAATATTC
36662 ATATATAATATTC
1 ATATATAATATTC
36675 ATATAT
1 ATATAT
36681 TCTAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATAATATTC
Found at i:36922 original size:33 final size:32
Alignment explanation
Indices: 36883--36993 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 32
36873 TTATAGTATA
36883 TAATAATATACT-TAATTATAATTAAATAACTAT
1 TAATAATATA-TATAATTATAATTAAA-AACTAT
* *
36916 TAATAATATATATAATTATATTTATAAACTAT
1 TAATAATATATATAATTATAATTAAAAACTAT
* *
36948 TAATTATATTATCAATAATTAT--TTAACAA-T-T
1 TAATAATA-TAT--ATAATTATAATTAAAAACTAT
36979 TAAT-ATATATATAAT
1 TAATAATATATATAAT
36994 ATTAATATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
27 5 0.07
29 3 0.04
30 3 0.04
31 5 0.07
32 15 0.22
33 30 0.43
35 8 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
TAATAATATATATAATTATAATTAAAAACTAT
Found at i:37008 original size:15 final size:15
Alignment explanation
Indices: 36978--37045 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 15
36968 ATTTAACAAT
36978 TTAATATATATATAATA
1 TTAATATA-AT-TAATA
36995 TTAATATAATTAATA
1 TTAATATAATTAATA
37010 TT-ATAT--TT--T-
1 TTAATATAATTAATA
*
37019 TTAATATAA-TAATT
1 TTAATATAATTAATA
37033 TTAA-ATAATTAAT
1 TTAATATAATTAAT
37046 TAAATATCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
9 2 0.05
10 5 0.11
11 1 0.02
12 2 0.05
13 5 0.11
14 12 0.27
15 7 0.16
16 2 0.05
17 8 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:37234 original size:15 final size:17
Alignment explanation
Indices: 37214--37249 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
37204 TCCCAATTCT
37214 TATTTAATTAA-TAA-A
1 TATTTAATTAACTAATA
37229 TATTTAATTAACTAATA
1 TATTTAATTAACTAATA
37246 TATT
1 TATT
37250 AATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 3 0.16
17 5 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATTAACTAATA
Found at i:37280 original size:12 final size:12
Alignment explanation
Indices: 37246--37317 Score: 51
Period size: 13 Copynumber: 6.0 Consensus size: 12
37236 TTAACTAATA
37246 TATT-AATAAATT
1 TATTAAATAAA-T
37258 TATTAATATAAAT
1 TATTAA-ATAAAT
37271 TATTAAAT-AAT
1 TATTAAATAAAT
***
37282 TATTTTTTAAAT
1 TATTAAATAAAT
* *
37294 AATTTAAATAACT
1 TA-TTAAATAAAT
37307 TATT-AATAAAT
1 TATTAAATAAAT
37318 ATAATTTATT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
11 14 0.30
12 12 0.26
13 15 0.33
14 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTAAATAAAT
Found at i:37284 original size:24 final size:26
Alignment explanation
Indices: 37257--37325 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
37247 ATTAATAAAT
*
37257 TTATTAATATAAATTA-TTAAATAA-
1 TTATTAATATAAATAATTTAAATAAC
* *
37281 TTATT-TTTTAAATAATTTAAATAAC
1 TTATTAATATAAATAATTTAAATAAC
37306 TTATTAATA-AATATAATTTA
1 TTATTAATATAA-ATAATTTA
37326 TTATTATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 7 0.19
24 13 0.36
25 7 0.19
26 9 0.25
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
TTATTAATATAAATAATTTAAATAAC
Found at i:37831 original size:23 final size:21
Alignment explanation
Indices: 37804--37845 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
37794 TAATCTAATT
37804 CATTTTAAATTTAATAGAAATAG
1 CATTTTAAA-TTAATA-AAATAG
37827 CATTTTAAATTAATAAAAT
1 CATTTTAAATTAATAAAAT
37846 TAAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
CATTTTAAATTAATAAAATAG
Found at i:38016 original size:14 final size:15
Alignment explanation
Indices: 37999--38027 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37989 TAATTTTTAA
37999 TTTTTATTAT-ATAT
1 TTTTTATTATGATAT
38013 TTTTTATTATGATAT
1 TTTTTATTATGATAT
38028 ATAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTATTATGATAT
Found at i:38060 original size:19 final size:19
Alignment explanation
Indices: 38036--38091 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
38026 ATATAGTTAT
38036 TAATTATTAAATAGATTAA
1 TAATTATTAAATAGATTAA
* *
38055 TAATTAATAAATAGATAAA
1 TAATTATTAAATAGATTAA
*
38074 TCATT-TT-AATA-ATTAA
1 TAATTATTAAATAGATTAA
38090 TA
1 TA
38092 TTAAAACTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 5 0.16
17 4 0.13
18 1 0.03
19 21 0.68
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (19 bp):
TAATTATTAAATAGATTAA
Found at i:38975 original size:176 final size:178
Alignment explanation
Indices: 38465--39036 Score: 503
Period size: 182 Copynumber: 3.2 Consensus size: 178
38455 TTTTAAATAA
* * * * * * * *
38465 ATTTATTTTTAAAAT-TTTTACTTACTAATTTTTGGAACATTAATAAATTTATATTATTTTATTT
1 ATTT-TTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAA-TTAGATTATTTAATCT
* * ** * * *** *
38529 GAAATAAGCTTGA-ATGAATATAACCAATTGTTTTTATGACAAAACAAAAGGTTGTAATGTTTTG
64 CAAATAAGC-TAACATGAATGGAAACAATTG-TTTTATGACAAAACAAAAAGTCACAATGATTTG
* * * *
38593 AAATAGATAATTATTAAGATAATCATAACTATTTGAACTTGTTCGATAAACAT
127 AAATAGATAATTATTCAGATAGTCAT-ACTATTTGAACTTGTTTGATAAACTT
* * * * * * *
38646 ATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATATTAATAAATTAGTATTATTTTATT
1 A-TT-TTTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAG-ATTATTTAATC
* * * *
38711 TCAAATAAGCTAACATGAATTGAAACAATTGTTTTATTACAAAACAAAATGTTACAATGATTTGA
63 TCAAATAAGCTAACATGAATGGAAACAATTGTTTTATGACAAAACAAAAAGTCACAATGATTTGA
* * * *
38776 AGTAGATAATTATTCAAATAGTCATGACTATTTGAACCTGTTTGGTAAACTT
128 AATAGATAATTATTCAGATAGTCAT-ACTATTTGAACTTGTTTGATAAACTT
*
38828 ATTTTTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTA-A-TA-TTAATCT-G
1 ATTTTTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAGATTATTTAATCTCA
* *** * * *
38889 AATAAGGTCGTATGGATGGAAACAATTGTTTTATGATAAAACAAAAAAGTCATAA-GAATTTGAA
66 AATAAGCTAACATGAATGGAAACAATTGTTTTATGACAAAAC-AAAAAGTCACAATG-ATTTGAA
* * * * *
38953 ATAAATAATTATTCAGATAGTCATAATGATTTAAATTTGTTTGATAAA-TAG
129 ATAGATAATTATTCAGATAGTCATACT-ATTTGAACTTGTTTGATAAACT-T
*
39004 ATTTATTGTTTAAATCTTTTACTTATTAATTGT
1 ATTT-TTTTTTAAATCTTTTACTTATTAATTGT
39037 CTTATTAATA
Statistics
Matches: 326, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
175 38 0.12
176 62 0.19
177 29 0.09
178 1 0.00
180 42 0.13
181 3 0.01
182 88 0.27
183 63 0.19
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (178 bp):
ATTTTTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAGATTATTTAATCTCA
AATAAGCTAACATGAATGGAAACAATTGTTTTATGACAAAACAAAAAGTCACAATGATTTGAAAT
AGATAATTATTCAGATAGTCATACTATTTGAACTTGTTTGATAAACTT
Found at i:39102 original size:9 final size:9
Alignment explanation
Indices: 39082--39110 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
39072 TATAACTAAA
39082 AATTAA-AT
1 AATTAATAT
39090 AATTAATAT
1 AATTAATAT
39099 AATTAATAT
1 AATTAATAT
39108 AAT
1 AAT
39111 ATCAAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTAATAT
Found at i:39520 original size:19 final size:19
Alignment explanation
Indices: 39493--39533 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
39483 ATAATTGTTG
* *
39493 TTTATAATAGTAAATATTA
1 TTTAAAATAGTAAATAATA
*
39512 TTTAAAATAGTTAATAATA
1 TTTAAAATAGTAAATAATA
39531 TTT
1 TTT
39534 TTAAAATTAT
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:39667 original size:3 final size:3
Alignment explanation
Indices: 39646--39715 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
39636 ATTAAATTAA
* * *
39646 ATT AAT ATT ATT AAAT ATT ATT ATT ATT ATAT ATT ATT ATA ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* *
39693 -GT AAT ATT GATAT ATT ATT ATT A
1 ATT ATT ATT -AT-T ATT ATT ATT A
39716 CTCATAATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 1 0.02
3 42 0.79
4 9 0.17
5 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:39682 original size:16 final size:16
Alignment explanation
Indices: 39646--39691 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
39636 ATTAAATTAA
* *
39646 ATTAATATTATTAAAT
1 ATTATTATTATTATAT
39662 ATTATTATTATTATAT
1 ATTATTATTATTATAT
*
39678 ATTATTATAATTAT
1 ATTATTATTATTAT
39692 TGTAATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTATTATTATAT
Found at i:39690 original size:22 final size:20
Alignment explanation
Indices: 39651--39715 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 20
39641 ATTAAATTAA
39651 TATTATTAAATATT-AT-TAT
1 TATTATT-AATATTGATATAT
*
39670 TATTATATATTATT-ATA-AT
1 TATTAT-TAATATTGATATAT
*
39689 TATT-GTAATATTGATATAT
1 TATTATTAATATTGATATAT
39708 TATTATTA
1 TATTATTA
39716 CTCATAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 6 0.16
18 3 0.08
19 25 0.68
20 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTATTAATATTGATATAT
Found at i:39822 original size:25 final size:25
Alignment explanation
Indices: 39765--39839 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
39755 TTAATGAAAT
39765 ATTATTAATAATAATTATATAATTACA
1 ATTA-TAATAAT-ATTATATAATTACA
* ** *
39792 AATATAATAATATTATATGTTTATA
1 ATTATAATAATATTATATAATTACA
*
39817 ATTATAATTAATATCATA-AATTA
1 ATTATAA-TAATATTATATAATTA
39840 AAAAAATTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 20 0.51
26 16 0.41
27 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (25 bp):
ATTATAATAATATTATATAATTACA
Found at i:40024 original size:13 final size:12
Alignment explanation
Indices: 40008--40057 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
39998 GAATTGTATA
40008 TAATTAATTAAAT
1 TAATTAA-TAAAT
40021 TAATTAATAAATT
1 TAATTAATAAA-T
40034 TAAAATTAATAAA-
1 T--AATTAATAAAT
40047 T-ATTAATAAAT
1 TAATTAATAAAT
40058 ATATTTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.27
12 4 0.12
13 10 0.30
15 10 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATTAATAAAT
Found at i:40042 original size:15 final size:16
Alignment explanation
Indices: 40022--40052 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
40012 TAATTAAATT
40022 AATTAATAAAT-TTAA
1 AATTAATAAATATTAA
40037 AATTAATAAATATTAA
1 AATTAATAAATATTAA
40053 TAAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAATAAATATTAA
Found at i:40271 original size:16 final size:15
Alignment explanation
Indices: 40251--40291 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
40241 ATTTATAAAA
40251 ATATATATATTAATT
1 ATATATATATTAATT
40266 AT-TATATATTATAATT
1 ATATATATA-T-TAATT
40282 ATATA-ATATT
1 ATATATATATT
40292 TGTATAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 7 0.30
15 4 0.17
16 10 0.43
17 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATATATATTAATT
Found at i:40335 original size:16 final size:18
Alignment explanation
Indices: 40301--40337 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
40291 TTGTATAACT
*
40301 ATTAAATAATAATAGTTA
1 ATTAAATAATAATACTTA
40319 ATTAAAT-A-AATACTTA
1 ATTAAATAATAATACTTA
40335 ATT
1 ATT
40338 TATTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATAATAATACTTA
Found at i:40424 original size:22 final size:25
Alignment explanation
Indices: 40399--40450 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
40389 TTCAATTGTT
40399 TAATAAAATTAAT-AT-T-ATTATA
1 TAATAAAATTAATAATATAATTATA
*
40421 TAATTAAATTAATAATATAATTATA
1 TAATAAAATTAATAATATAATTATA
40446 TAATA
1 TAATA
40451 TTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
24 1 0.04
25 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATAAAATTAATAATATAATTATA
Found at i:40426 original size:8 final size:8
Alignment explanation
Indices: 40405--40500 Score: 56
Period size: 8 Copynumber: 11.8 Consensus size: 8
40395 TGTTTAATAA
40405 AATTAATAT
1 AATT-ATAT
*
40414 TATTATAT
1 AATTATAT
*
40422 AATTAAATT
1 AATTATA-T
*
40431 AATAATAT
1 AATTATAT
40439 AATTATAT
1 AATTATAT
*
40447 AATATTTATT
1 AAT-TATA-T
40457 ATATTATAAT
1 A-ATTAT-AT
* *
40467 AAATATTT
1 AATTATAT
40475 AA-TATAT
1 AATTATAT
40482 AA-TA-AT
1 AATTATAT
40488 -ATTATAT
1 AATTATAT
40495 AATTAT
1 AATTAT
40501 CCCAATAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
5 1 0.01
6 4 0.06
7 10 0.15
8 28 0.41
9 16 0.24
10 6 0.09
11 3 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AATTATAT
Found at i:40427 original size:17 final size:17
Alignment explanation
Indices: 40399--40443 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
40389 TTCAATTGTT
*
40399 TAATAAAATTAATATT-A
1 TAATATAATTAA-ATTAA
*
40416 TTATATAATTAAATTAA
1 TAATATAATTAAATTAA
40433 TAATATAATTA
1 TAATATAATTA
40444 TATAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATAATTAAATTAA
Found at i:40473 original size:21 final size:21
Alignment explanation
Indices: 40433--40488 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
40423 ATTAAATTAA
40433 TAATATAATTAT-AT-AATATT
1 TAATAT-ATTATAATAAATATT
*
40453 TATTATATTATAATAAATATT
1 TAATATATTATAATAAATATT
*
40474 TAATATATAATAATA
1 TAATATATTATAATA
40489 TTATATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 7 0.23
21 19 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATATTATAATAAATATT
Found at i:40528 original size:21 final size:21
Alignment explanation
Indices: 40481--40543 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
40471 ATTTAATATA
40481 TAATAATATTATATAATTATCC
1 TAATAATATTA-ATAATTATCC
* * **
40503 CAATAATATTAATCATTATGT
1 TAATAATATTAATAATTATCC
40524 TAATAATATTAAGTAATTAT
1 TAATAATATTAA-TAATTAT
40544 TAATATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (21 bp):
TAATAATATTAATAATTATCC
Found at i:40549 original size:17 final size:16
Alignment explanation
Indices: 40526--40571 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
40516 CATTATGTTA
40526 ATAATATTAAGTAATT
1 ATAATATTAAGTAATT
*
40542 ATTAATATTAATTAAATT
1 A-TAATATTAAGT-AATT
40560 ATAA-ATTAAGTA
1 ATAATATTAAGTA
40572 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 7 0.27
17 13 0.50
18 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
ATAATATTAAGTAATT
Found at i:40796 original size:20 final size:20
Alignment explanation
Indices: 40757--40821 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
40747 TAATTTATTT
* *
40757 ATATTACTTATTAATAATAA
1 ATATTAATTATTTATAATAA
*
40777 ATATTAATTATTTATTATAA
1 ATATTAATTATTTATAATAA
* * *
40797 GT-TT--TAATTTATCATAA
1 ATATTAATTATTTATAATAA
40814 ATATTAAT
1 ATATTAAT
40822 AATTACTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 12 0.34
18 2 0.06
19 2 0.06
20 19 0.54
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATTAATTATTTATAATAA
Found at i:40824 original size:20 final size:20
Alignment explanation
Indices: 40773--40825 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 20
40763 CTTATTAATA
* *
40773 ATAAATATTAATTATTTATT
1 ATAAATATTAATAATTTATC
*
40793 ATAAGT-TT--TAATTTATC
1 ATAAATATTAATAATTTATC
40810 ATAAATATTAATAATT
1 ATAAATATTAATAATT
40826 ACTATTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 12 0.46
18 2 0.08
19 2 0.08
20 10 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
ATAAATATTAATAATTTATC
Found at i:41000 original size:13 final size:13
Alignment explanation
Indices: 40951--41111 Score: 55
Period size: 13 Copynumber: 11.7 Consensus size: 13
40941 AAATAACTAT
40951 TTTATTA-TAATA
1 TTTATTATTAATA
*
40963 -TTATTATTATCTTA
1 TTTATTATTA--ATA
*
40977 ATTATTATTAATA
1 TTTATTATTAATA
*
40990 TTTATTTTTAATA
1 TTTATTATTAATA
*
41003 TTAAATGTAAATTAAT-
1 TT-TAT-T--ATTAATA
41019 TTATATTATTTAATA
1 TT-TATTA-TTAATA
* * *
41034 -ATATAAATAAT-
1 TTTATTATTAATA
41045 TGTTATATATTAATCTA
1 T-TTAT-TATTAA--TA
41062 TTTATTATATAATA
1 TTTATTAT-TAATA
* *
41076 ATTATTA-TATTTA
1 TTTATTATTA-ATA
41089 TTTATCTATTAATA
1 TTTAT-TATTAATA
*
41103 TTAATTATT
1 TTTATTATT
41112 TTAATTAATA
Statistics
Matches: 111, Mismatches: 18, Indels: 39
0.66 0.11 0.23
Matches are distributed among these distances:
11 6 0.05
12 8 0.07
13 33 0.30
14 29 0.26
15 16 0.14
16 13 0.12
17 6 0.05
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (13 bp):
TTTATTATTAATA
Found at i:41065 original size:35 final size:35
Alignment explanation
Indices: 41025--41102 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
41015 TAATTTATAT
*
41025 TATTTAATAATATAAATAATTGTTATA-TATTAATC
1 TATTTAATAATAT-AATAATTATTATATTATTAATC
* *
41060 TATTT-ATTATATAATAATTATTATATTTATTTATC
1 TATTTAATAATATAATAATTATTATA-TTATTAATC
41095 TA-TTAATA
1 TATTTAATA
41103 TTAATTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
33 12 0.33
34 8 0.22
35 16 0.44
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (35 bp):
TATTTAATAATATAATAATTATTATATTATTAATC
Found at i:41347 original size:26 final size:26
Alignment explanation
Indices: 41280--41348 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
41270 TATTACTTAT
41280 AATTATAAAATAATAAAATTAAATATC
1 AATTAT-AAATAATAAAATTAAATATC
* * * *
41307 AATTATATATTATAAGATTATAATATT
1 AATTATAAATAATAAAATTA-AATATC
*
41334 TATT-TAAATAATAAA
1 AATTATAAATAATAAA
41349 TAATTATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (26 bp):
AATTATAAATAATAAAATTAAATATC
Found at i:41360 original size:17 final size:17
Alignment explanation
Indices: 41338--41374 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
41328 AATATTTATT
*
41338 TAAATAATAAATAATTA
1 TAAATAAGAAATAATTA
*
41355 TAAATAAGGAATAATTA
1 TAAATAAGAAATAATTA
41372 TAA
1 TAA
41375 GTTACTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
TAAATAAGAAATAATTA
Found at i:41704 original size:142 final size:142
Alignment explanation
Indices: 41557--41826 Score: 330
Period size: 142 Copynumber: 1.9 Consensus size: 142
41547 ACTAATCTAA
** * * * * *
41557 TAATATTTTGAAAATTAATAACTAAGAGAATTAAAAATAAGTT-TGTTTA-TTAAACCAGTTTAA
1 TAATATTTCAAAAATTAATAACTAAGAGAATTAAAAA-AAATTCTATTTACCT-AACCAATTCAA
* * * *
41620 ATATTTAAGACTATAAT-AAGAATTATCTATTTCAAATCATTATGGCTTTTTGTTTTATCATAAA
64 ATAATTAAGACTAT-ATGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAA
41684 ATAAAATGAATTTAT
128 ATAAAATGAATTTAT
* *
41699 TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAAAATTCTATTTACCTAACCAATTCAAAT
1 TAATATTTCAAAAATTAATAACTAAGAGAATTAAAAAAAATTCTATTTACCTAACCAATTCAAAT
* * * * *
41764 AATTATGACTATTTGAACAATTATGTATTTTAAATCATTATGACCTTTTGTTTTGTCATAAAA
66 AATTAAGACTATATGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAAA
41827 AAATGTTTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
141 5 0.05
142 101 0.94
143 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (142 bp):
TAATATTTCAAAAATTAATAACTAAGAGAATTAAAAAAAATTCTATTTACCTAACCAATTCAAAT
AATTAAGACTATATGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAAATA
AAATGAATTTAT
Found at i:41944 original size:173 final size:175
Alignment explanation
Indices: 41715--42029 Score: 433
Period size: 173 Copynumber: 1.8 Consensus size: 175
41705 TTCAAAAATT
* *
41715 AATAAGTAAGAGATTTAAAAAAAATTCTATTTACCTAACCAATTCAAATAATTATGACTATTTGA
1 AATAAGTAAGAGATTTAAAAAAAAATCTATTTACCAAACCAATTCAAATAATTATGACTATTT-A
* * *
41780 AC-AATTATGTATTTTAAATCATTATGACCTTTTGTT-TTGTCATAAAA-AAATGTTTTTGTTCA
65 ACAAATTATGTATTTCAAATCATTATGACCTTTTGTTCTTCT-ATAAAATAAATGTTTATGTTCA
* *
41842 TATAAGTTTATTCAGAATAAAGTAATACTAATCTATTAATATTTGAA
129 TACAAGCTTATTCAGAATAAAGTAATACTAATCTATTAATATTTGAA
* * * *
41889 AATAA-TAAGAGATTTAAAAAATAAATCTATTTATCAAATCAGTT-AAATTATTATGACTATTTA
1 AATAAGTAAGAGATTTAAAAAA-AAATCTATTTACCAAACCAATTCAAATAATTATGACTATTTA
* * * *
41952 ACAAATTATTTATTTCAAATCGTTATGACTTTTTGTTCTTCTATAAAATAATTGTTTATGTTCAT
65 ACAAATTATGTATTTCAAATCATTATGACCTTTTGTTCTTCTATAAAATAAATGTTTATGTTCAT
42017 ACAAGCTTATTCA
130 ACAAGCTTATTCA
42030 ATTAATTAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
172 3 0.02
173 69 0.57
174 50 0.41
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (175 bp):
AATAAGTAAGAGATTTAAAAAAAAATCTATTTACCAAACCAATTCAAATAATTATGACTATTTAA
CAAATTATGTATTTCAAATCATTATGACCTTTTGTTCTTCTATAAAATAAATGTTTATGTTCATA
CAAGCTTATTCAGAATAAAGTAATACTAATCTATTAATATTTGAA
Found at i:42398 original size:6 final size:6
Alignment explanation
Indices: 42379--42424 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
42369 AATAATATTG
42379 TATAA- TAT-AT TATAAT TATAAT TATTAATT TATAAT TATAAT TATA
1 TATAAT TATAAT TATAAT TATAAT TA-TAA-T TATAAT TATAAT TATA
42425 TTACTTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
4 1 0.03
5 6 0.16
6 21 0.57
7 6 0.16
8 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATAAT
Found at i:42411 original size:20 final size:20
Alignment explanation
Indices: 42388--42469 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
42378 GTATAATATA
42388 TTATAATTATAATTATTAAT
1 TTATAATTATAATTATTAAT
* *
42408 TTATAATTATAATTATATTAC
1 TTATAATTATAATTAT-TAAT
*
42429 TTATATATTAATAAATATTAAT
1 TTATA-ATT-ATAATTATTAAT
* * *
42451 ATAT-AGTATTATTATTAAT
1 TTATAATTATAATTATTAAT
42470 GACTATAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
19 10 0.20
20 18 0.36
21 7 0.14
22 8 0.16
23 7 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (20 bp):
TTATAATTATAATTATTAAT
Found at i:42440 original size:26 final size:26
Alignment explanation
Indices: 42383--42436 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
42373 ATATTGTATA
42383 ATAT-ATTATAATTATAATTATTAAT
1 ATATAATTATAATTATAATTATTAAT
*
42408 TTATAATTATAATTAT-ATTACTT-AT
1 ATATAATTATAATTATAATTA-TTAAT
42433 ATAT
1 ATAT
42437 TAATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATAATTATAATTATAATTATTAAT
Found at i:42466 original size:29 final size:27
Alignment explanation
Indices: 42389--42478 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 27
42379 TATAATATAT
* *
42389 TATAATTATA--ATTATTAATTTATAAT
1 TATAATTATAGTATTATT-ATTAATAAA
*
42415 TATAATTATATTACTTATATATTAATAAA
1 TATAATTATAGTA-TTAT-TATTAATAAA
* *
42444 TATTAATATATAGTATTATTATTAATGAC
1 TA-TAAT-TATAGTATTATTATTAATAAA
42473 TATAAT
1 TATAAT
42479 AATAATTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.19
28 5 0.09
29 23 0.43
30 9 0.17
31 6 0.11
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TATAATTATAGTATTATTATTAATAAA
Found at i:42724 original size:30 final size:30
Alignment explanation
Indices: 42670--42729 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
42660 ACATTAGTAT
*
42670 AATATTAATTATTAAATTAGTTATAATATA
1 AATATTAATTATTAAATTACTTATAATATA
*
42700 AATATTAATTATTATAA-TACTTATATTATA
1 AATATTAATTATTA-AATTACTTATAATATA
42730 TCTATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (30 bp):
AATATTAATTATTAAATTACTTATAATATA
Found at i:43409 original size:26 final size:26
Alignment explanation
Indices: 43348--43418 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
43338 CTAATTACAT
43348 ATATAATAATATTTATTATAAATTTAA
1 ATATAATAATATTTA-TATAAATTTAA
* *
43375 ATAT-TTAATAGTTATAT-AATATTAA
1 ATATAATAATATTTATATAAAT-TTAA
* *
43400 TTATAATAATTTTTATATA
1 ATATAATAATATTTATATA
43419 TCATTATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
24 3 0.09
25 10 0.29
26 18 0.51
27 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
ATATAATAATATTTATATAAATTTAA
Found at i:44239 original size:22 final size:22
Alignment explanation
Indices: 44213--44255 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44203 AACTAGTAAA
44213 TATATAAGAT-ATATTAATTATT
1 TATAT-AGATAATATTAATTATT
*
44235 TATATATATAATATTAATTAT
1 TATATAGATAATATTAATTAT
44256 ATATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATAGATAATATTAATTATT
Found at i:45544 original size:12 final size:12
Alignment explanation
Indices: 45509--45582 Score: 64
Period size: 12 Copynumber: 6.3 Consensus size: 12
45499 TTACCAATAC
*
45509 TTAATAATAATA
1 TTAATAATATTA
* * *
45521 ATAATATTTATTG
1 TTAATA-ATATTA
45534 TTAATAATATTA
1 TTAATAATATTA
* *
45546 ATAATATTATTA
1 TTAATAATATTA
45558 TTAATAAT-TTA
1 TTAATAATATTA
45569 --AATAATATTA
1 TTAATAATATTA
45579 TTAA
1 TTAA
45583 ATACTTAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
9 6 0.13
10 3 0.06
11 3 0.06
12 27 0.57
13 8 0.17
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (12 bp):
TTAATAATATTA
Found at i:45548 original size:9 final size:9
Alignment explanation
Indices: 45504--45609 Score: 66
Period size: 9 Copynumber: 12.0 Consensus size: 9
45494 ATTTATTACC
45504 AATACTTAAT
1 AATA-TTAAT
*
45514 AATAATAAT
1 AATATTAAT
45523 AATATT--T
1 AATATTAAT
* *
45530 ATTGTTAAT
1 AATATTAAT
45539 AATATTAAT
1 AATATTAAT
45548 AATATT-AT
1 AATATTAAT
45556 --TATTAAT
1 AATATTAAT
45563 AAT-TTAAAT
1 AATATT-AAT
*
45572 AATATTATT
1 AATATTAAT
45581 AAATACTTAA-
1 -AATA-TTAAT
45591 AATTGATT-AT
1 AA-T-ATTAAT
45601 AATATTAAT
1 AATATTAAT
45610 TATAATATTG
Statistics
Matches: 75, Mismatches: 8, Indels: 27
0.68 0.07 0.25
Matches are distributed among these distances:
6 4 0.05
7 7 0.09
8 7 0.09
9 38 0.51
10 15 0.20
11 4 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (9 bp):
AATATTAAT
Found at i:45613 original size:12 final size:12
Alignment explanation
Indices: 45537--45643 Score: 65
Period size: 12 Copynumber: 8.6 Consensus size: 12
45527 TTTATTGTTA
*
45537 ATAATATTAATA
1 ATAATATTAATT
*
45549 ATATTATT-ATT
1 ATAATATTAATT
*
45560 AATAAT-TTAAATA
1 -ATAATATT-AATT
* *
45573 ATATTATTAAAT
1 ATAATATTAATT
* *
45585 ACTTAAAATTGATT
1 A--TAATATTAATT
45599 ATAATATTAATT
1 ATAATATTAATT
45611 ATAATATTGAATTT
1 ATAATATT-AA-TT
*
45625 ATATTATTAATT
1 ATAATATTAATT
*
45637 ATTATAT
1 ATAATAT
45644 AATGATATTG
Statistics
Matches: 71, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
11 4 0.06
12 42 0.59
13 8 0.11
14 17 0.24
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (12 bp):
ATAATATTAATT
Done.