Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168124.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_368, 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: 30656
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Found at i:460 original size:143 final size:142
Alignment explanation
Indices: 255--518 Score: 316
Period size: 143 Copynumber: 1.9 Consensus size: 142
245 ATTAATAATA
* * * * *
255 GATTTGAAATAGATATTTGTTCAAATGGCCATGACTATTTAAGCTAATTCGATAAAATGATTTAT
1 GATTTGAAAAAGATAATTGTTCAAATAGCCATAACTATTTAAACTAATTCGATAAAATGATTTAT
* *
320 GTTTTAAATCTCCAACTTCTTAA-TTTTTGAAATATTAATAAAGTAATATTATTTTATGATAAAA
66 -TTTTAAATCTCCAACTTATTAATTTTTTG-AATATTAATAAAATAATATTATTTTATGATAAAA
384 TAAAAGGTCATAAC
129 TAAAAGGTCATAAC
* * * * * *
398 GATTTTAAAAAGATAATTGTTTAAATAGTCATAACTATTTAAACTAGTTTGGTAAACA-GATTTA
1 GATTTGAAAAAGATAATTGTTCAAATAGCCATAACTATTTAAACTAATTCGATAAA-ATGATTTA
* * *** *
462 TTTTTTAATTTCTTGCTTATTAATTTTTTGAATGTTAATAAAATAATATTATTTTAT
65 TTTTTAAATCTCCAACTTATTAATTTTTTGAATATTAATAAAATAATATTATTTTAT
519 TTTGAATAAG
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
142 41 0.41
143 58 0.58
144 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (142 bp):
GATTTGAAAAAGATAATTGTTCAAATAGCCATAACTATTTAAACTAATTCGATAAAATGATTTAT
TTTTAAATCTCCAACTTATTAATTTTTTGAATATTAATAAAATAATATTATTTTATGATAAAATA
AAAGGTCATAAC
Found at i:1361 original size:13 final size:13
Alignment explanation
Indices: 1310--1361 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
1300 TTTAAATTAA
*
1310 ATTAATTT-TATT
1 ATTAATTTATAAT
*
1322 ATTAATAATATAAT
1 ATTAAT-TTATAAT
*
1336 ATTATTTTATAAT
1 ATTAATTTATAAT
*
1349 ATTAATTTGTAAT
1 ATTAATTTATAAT
1362 TACAGTACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 6 0.19
13 18 0.56
14 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATTAATTTATAAT
Found at i:1636 original size:32 final size:32
Alignment explanation
Indices: 1600--1661 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1590 ATAATTTTGA
* *
1600 TTTAAA-ATATAATATATATATATATATTATAT
1 TTTAAATAGATAATATAT-TATAAATATTATAT
*
1632 TTTAAATAGATAATTTATTATAAATATTAT
1 TTTAAATAGATAATATATTATAAATATTAT
1662 CTAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (32 bp):
TTTAAATAGATAATATATTATAAATATTATAT
Found at i:1802 original size:21 final size:20
Alignment explanation
Indices: 1756--1794 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1746 ATCTCAATTT
*
1756 ATAATTATAATATAGTTACA
1 ATAATTATAATATAATTACA
1776 ACTAATTATAATATAATTA
1 A-TAATTATAATATAATTA
1795 TTAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
ATAATTATAATATAATTACA
Found at i:1858 original size:35 final size:35
Alignment explanation
Indices: 1778--1856 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
1768 TAGTTACAAC
* *
1778 TAATTATAATATAATTATTAATAATAACTATAAAT
1 TAATTATATTATAATAATTAATAATAACTATAAAT
1813 TAATTATATTATAATAATTAAT-A-AACTATATAA-
1 TAATTATATTATAATAATTAATAATAACTATA-AAT
1846 TAATT-TATTAT
1 TAATTATATTAT
1857 TACATTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
32 6 0.15
33 12 0.29
34 3 0.07
35 20 0.49
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TAATTATATTATAATAATTAATAATAACTATAAAT
Found at i:2453 original size:21 final size:21
Alignment explanation
Indices: 2414--2453 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2404 TATATTGTAA
*
2414 TTATAATTTATAATATAATAT
1 TTATAATATATAATATAATAT
2435 TTATAATATATTAAT-TAAT
1 TTATAATATA-TAATATAAT
2454 TTGTGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATATATAATATAATAT
Found at i:2665 original size:31 final size:30
Alignment explanation
Indices: 2596--2665 Score: 72
Period size: 31 Copynumber: 2.2 Consensus size: 30
2586 TAATAATTTA
2596 TATATAATTATAAATAATTTTGGAATTTAAT
1 TATAT-ATTATAAATAATTTTGGAATTTAAT
*
2627 TATTATATTAT-AATAATATTT-GATATTATATT
1 TA-TATATTATAAATAAT-TTTGGA-ATT-TAAT
2659 TATATAT
1 TATATAT
2666 AGTTAAACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
30 8 0.24
31 18 0.53
32 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (30 bp):
TATATATTATAAATAATTTTGGAATTTAAT
Found at i:3177 original size:15 final size:16
Alignment explanation
Indices: 3157--3208 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
3147 ATTATTTTAT
3157 ATTATAA-TTATTATTA
1 ATTATAAGTTA-TATTA
3173 A-TATAAGTTATATTA
1 ATTATAAGTTATATTA
*
3188 ATTATAACTTA-ATTA
1 ATTATAAGTTATATTA
3203 ATTATA
1 ATTATA
3209 TCAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
ATTATAAGTTATATTA
Found at i:3578 original size:20 final size:19
Alignment explanation
Indices: 3551--3590 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
3541 ATTTTTCAAT
*
3551 TTAATAATTTATTATTAAA
1 TTAATAATTTAATATTAAA
3570 TTAATTAATTTAATATTAAA
1 TTAA-TAATTTAATATTAAA
3590 T
1 T
3591 CTATTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATAATTTAATATTAAA
Found at i:4150 original size:16 final size:16
Alignment explanation
Indices: 4108--4155 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
4098 ATTTTTTAAA
4108 ATATATCTAATAATTAT
1 ATATAT-TAATAATTAT
4125 ATAAACTATTAATAATTAT
1 AT--A-TATTAATAATTAT
4144 ATATATTAATAA
1 ATATATTAATAA
4156 AAAATTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.32
17 3 0.11
19 13 0.46
20 3 0.11
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATTAATAATTAT
Found at i:4309 original size:27 final size:29
Alignment explanation
Indices: 4232--4310 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 29
4222 GATAAATACT
4232 ATTATAATATAATTTAATTAAATTATAAATAGA
1 ATTAT-ATAT-ATTTAATTAAATTAT--ATAGA
* * *
4265 ATTAAATATTTTTCATTAAATTAT-TA-A
1 ATTATATATATTTAATTAAATTATATAGA
*
4292 CTTATATATATTTAATTAA
1 ATTATATATATTTAATTAA
4311 TTTTTGATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
27 16 0.41
28 2 0.05
31 13 0.33
32 4 0.10
33 4 0.10
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
ATTATATATATTTAATTAAATTATATAGA
Found at i:4440 original size:21 final size:21
Alignment explanation
Indices: 4402--4451 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
4392 AGTATAACTA
*
4402 ATAATATTACTAACTATATAT
1 ATAATATTACTAACTATAAAT
* * *
4423 ATAATATTATTTATTATAAAT
1 ATAATATTACTAACTATAAAT
*
4444 TTAATATT
1 ATAATATT
4452 TAATAGTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATATTACTAACTATAAAT
Found at i:4479 original size:24 final size:25
Alignment explanation
Indices: 4436--4494 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
4426 ATATTATTTA
* *
4436 TTATAAAT-TTAATATTTAATAGTT
1 TTATAAATATTAATATATAATAATT
4460 TTATAAATATTAAT-TATAATAATT
1 TTATAAATATTAATATATAATAATT
*
4484 TATATAGATAT
1 T-TATAAATAT
4495 ATCATTACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (25 bp):
TTATAAATATTAATATATAATAATT
Found at i:4743 original size:17 final size:17
Alignment explanation
Indices: 4717--4761 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
4707 ATTAAAATAA
4717 TAAT-AAATTTA-TTACT
1 TAATAAAATTTAGTTA-T
4733 TAATAAAATTTAGTTAT
1 TAATAAAATTTAGTTAT
4750 T-ATAATAATTTA
1 TAATAA-AATTTA
4762 AATATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.31
17 15 0.58
18 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TAATAAAATTTAGTTAT
Found at i:4987 original size:19 final size:20
Alignment explanation
Indices: 4941--4984 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4931 TTGGCAAACA
* *
4941 TATTTATTTTTTAAATCACT
1 TATTAATTTTTGAAATCACT
4961 TATTAATTTTTGAAAT-AC-
1 TATTAATTTTTGAAATCACT
4979 TATTAA
1 TATTAA
4985 ATTAGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 14 0.64
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTAATTTTTGAAATCACT
Found at i:6129 original size:171 final size:171
Alignment explanation
Indices: 5825--6138 Score: 409
Period size: 171 Copynumber: 1.8 Consensus size: 171
5815 AATTTCTTAA
* * * * *
5825 TTATTAATTTTCATAATATTATTAGATTAGTATTATTTTCTTTCGAATAAGCTTGTATGAACATA
1 TTATTAATTTTCATAATATTAATAAACTAGTATTATTTTCATTCGAATAAGCTTGTATGAACAAA
* * * *
5890 AATAATTGTTTTATGACAAAACAAAATGTTATAATGACTTGAAATATATAATCATTTAAATAGTC
66 AACAATTGTTTTATGACAAAACAAAATGTTAAAATGACTTGAAATAGATAATCATTCAAATAGTC
*
5955 ATAATTATTTGAATTAGTTCAATAAATAGATAATCTCCTAC
131 ATAACTATTTGAATTAGTTCAATAAATAGATAATCTCCTAC
* * * **
5996 TTATTAATTTTTGA-AATATTAATAAACTAGTATTATTTT-ATTCTAATTAGGCTTGTATGATGA
1 TTATTAA-TTTTCATAATATTAATAAACTAGTATTATTTTCATTCGAA-TAAGCTTGTATGAACA
* ** *
6059 AAAACAATTGTTTTATGACAAAACAAAA-GTTCAAAATGATTTGAAATAGATAATTGTTCAAATG
64 AAAACAATTGTTTTATGACAAAACAAAATGTT-AAAATGACTTGAAATAGATAATCATTCAAATA
6123 GTCATAACTATTTGAA
128 GTCATAACTATTTGAA
6139 CTGATTCGAT
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
170 8 0.07
171 108 0.89
172 5 0.04
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (171 bp):
TTATTAATTTTCATAATATTAATAAACTAGTATTATTTTCATTCGAATAAGCTTGTATGAACAAA
AACAATTGTTTTATGACAAAACAAAATGTTAAAATGACTTGAAATAGATAATCATTCAAATAGTC
ATAACTATTTGAATTAGTTCAATAAATAGATAATCTCCTAC
Found at i:6327 original size:33 final size:32
Alignment explanation
Indices: 6243--6328 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 32
6233 TTAAATTATT
6243 TAAATTATTATTATTAATA-ATATAATAGTATA
1 TAAA-TATTATTATTAATATATATAATAGTATA
*
6275 TAAATATATATTAAATAATATAT-TAAT-GCTATA
1 TAAATAT-TATT-ATTAATATATATAATAG-TATA
6308 TAATCATATTATTATTAATAT
1 TAA--ATATTATTATTAATAT
6329 TTATTAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
31 3 0.07
32 9 0.20
33 24 0.52
34 6 0.13
35 4 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (32 bp):
TAAATATTATTATTAATATATATAATAGTATA
Found at i:6396 original size:8 final size:8
Alignment explanation
Indices: 6385--6434 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
6375 ATGTTCAAAT
6385 TAATATTA
1 TAATATTA
6393 TAATATTA
1 TAATATTA
6401 TAA-ATCATA
1 TAATAT--TA
6410 TAATATTA
1 TAATATTA
6418 TAAT-TT-
1 TAATATTA
6424 TAA-ATTA
1 TAATATTA
6431 TAAT
1 TAAT
6435 TAAAAAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
6 5 0.14
7 7 0.19
8 17 0.47
9 5 0.14
10 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
TAATATTA
Found at i:6548 original size:26 final size:25
Alignment explanation
Indices: 6512--6569 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
6502 TGTATGTTAT
* *
6512 ATTATATTTAAATATAATATATTTTA
1 ATTATAATTAAA-ATAATATATATTA
*
6538 ATTATAATTAAAATAGTATATATTA
1 ATTATAATTAAAATAATATATATTA
6563 ATATATA
1 AT-TATA
6570 TTATTAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTATAATTAAAATAATATATATTA
Found at i:6583 original size:12 final size:12
Alignment explanation
Indices: 6549--6623 Score: 89
Period size: 12 Copynumber: 6.1 Consensus size: 12
6539 TTATAATTAA
6549 AATAGTATATATT
1 AATAGTAT-TATT
*
6562 AATATATATTATT
1 AATA-GTATTATT
6575 AATAGTATTAATT
1 AATAGTATT-ATT
* *
6588 AGTAATATTATT
1 AATAGTATTATT
6600 AATAGTATTATT
1 AATAGTATTATT
6612 AATAG-ATTATT
1 AATAGTATTATT
6623 A
1 A
6624 TACATTAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
11 7 0.13
12 22 0.41
13 22 0.41
14 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATAGTATTATT
Found at i:6585 original size:37 final size:39
Alignment explanation
Indices: 6528--6620 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 39
6518 TTTAAATATA
6528 ATATATT-TTAATTA-TAATTAAAATAGT-ATA-TATTAAT
1 ATATATTATTAA-TAGT-ATTAAAATAGTAATATTATTAAT
*
6565 ATATATTATTAATAGTATT-AATTAGTAATATTATTAAT
1 ATATATTATTAATAGTATTAAAATAGTAATATTATTAAT
*
6603 A-GTATTATTAATAG-ATTA
1 ATATATTATTAATAGTATTA
6621 TTATACATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
36 9 0.18
37 27 0.55
38 13 0.27
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (39 bp):
ATATATTATTAATAGTATTAAAATAGTAATATTATTAAT
Found at i:6593 original size:16 final size:16
Alignment explanation
Indices: 6569--6606 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6559 ATTAATATAT
*
6569 ATTATTAATAGTATTA
1 ATTAGTAATAGTATTA
*
6585 ATTAGTAATATTATTA
1 ATTAGTAATAGTATTA
6601 A-TAGTA
1 ATTAGTA
6607 TTATTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (16 bp):
ATTAGTAATAGTATTA
Found at i:6595 original size:25 final size:27
Alignment explanation
Indices: 6549--6610 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 27
6539 TTATAATTAA
6549 AATAGTA-TATATTAATATATATTATT
1 AATAGTATTATATTAATATATATTATT
*
6575 AATAGTATTA-ATTAGTA-ATATTATT
1 AATAGTATTATATTAATATATATTATT
6600 AATAGTATTAT
1 AATAGTATTAT
6611 TAATAGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 18 0.55
26 13 0.39
27 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (27 bp):
AATAGTATTATATTAATATATATTATT
Found at i:6679 original size:27 final size:27
Alignment explanation
Indices: 6629--6758 Score: 81
Period size: 28 Copynumber: 4.7 Consensus size: 27
6619 TATTATACAT
*
6629 TAATAATTTAAATTTTAA-TGATTATTAA
1 TAATAA-TTAAA-TTTAATTAATTATTAA
* *
6657 TAATAACTAAATTTAATTAATTATTTATT
1 TAATAATTAAATTTAATTAATTA-TTA-A
* *
6686 TAAT-ATTAAATTTATTTATTATATTAA
1 TAATAATTAAATTTAATTAAT-TATTAA
* * * *
6713 T-ATAATTTAATATAAAATAATTA-TAT
1 TAATAATTAAAT-TTAATTAATTATTAA
6739 TAATAA-TAATATTTAATTAA
1 TAATAATTAA-ATTTAATTAA
6759 AATAATTATT
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
26 18 0.23
27 24 0.31
28 30 0.38
29 6 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (27 bp):
TAATAATTAAATTTAATTAATTATTAA
Found at i:6744 original size:17 final size:16
Alignment explanation
Indices: 6724--6768 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
6714 ATAATTTAAT
6724 ATAAAATAATTATATTA
1 ATAAAATAATTAT-TTA
6741 AT--AATAA-TATTTA
1 ATAAAATAATTATTTA
6754 ATTAAAATAATTATT
1 A-TAAAATAATTATT
6769 AATTATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 4 0.17
14 4 0.17
15 5 0.21
16 5 0.21
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATAATTATTTA
Found at i:7169 original size:14 final size:15
Alignment explanation
Indices: 7152--7194 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
7142 TTTAATTAGC
7152 TATAA-ATTATTATA
1 TATAATATTATTATA
7166 TATATTATATTATTAT-
1 TATA--ATATTATTATA
7182 TATAATATTATTA
1 TATAATATTATTA
7195 AAATAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.50
16 5 0.19
17 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATATTATTATA
Found at i:7184 original size:11 final size:10
Alignment explanation
Indices: 7152--7194 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
7142 TTTAATTAGC
*
7152 TATAAATTAT
1 TATATATTAT
7162 TATATA-TAT
1 TATATATTAT
7171 TATATTATTAT
1 TATA-TATTAT
7182 TATAATATTAT
1 TAT-ATATTAT
7193 TA
1 TA
7195 AAATAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 7 0.24
10 7 0.24
11 14 0.48
12 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATATTAT
Found at i:7261 original size:31 final size:32
Alignment explanation
Indices: 7181--7262 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 32
7171 TATATTATTA
* *
7181 TTATAATATT-ATTAAAA-TAAATTTAATATAT
1 TTAT-ATATTAATTAAAATTATATATAATATAT
* * *
7212 TGATATATCAATT-TAATTATATATAATA-AT
1 TTATATATTAATTAAAATTATATATAATATAT
7242 TTATATATTAATTAAAATTAT
1 TTATATATTAATTAAAATTAT
7263 TAACTGTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
30 19 0.47
31 21 0.52
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
TTATATATTAATTAAAATTATATATAATATAT
Found at i:7517 original size:117 final size:118
Alignment explanation
Indices: 7349--7580 Score: 439
Period size: 117 Copynumber: 2.0 Consensus size: 118
7339 TTTATATTAA
7349 ATATTTAAAATAATAATTGTATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
1 ATATTTAAAATAATAATTGTATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
**
7414 TGTTTAAATTTTATTGGCAATTATGTTTTATAATTATCGATTAGTTTCCTTGT
66 TGTTTAAATTTTATCAGCAATTATGTTTTATAATTATCGATTAGTTTCCTTGT
7467 ATATTTAAAATAATAATTGTATGA-TTTATTATAAATGTTATATTATAATATAATAAAGAACATA
1 ATATTTAAAATAATAATTGTATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
7531 TGTTTAAATTTTATCAGCAATTATGTTTTATAATTATCGATTAGTTTCCT
66 TGTTTAAATTTTATCAGCAATTATGTTTTATAATTATCGATTAGTTTCCT
7581 CGTACTAAAC
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
117 88 0.79
118 24 0.21
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (118 bp):
ATATTTAAAATAATAATTGTATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
TGTTTAAATTTTATCAGCAATTATGTTTTATAATTATCGATTAGTTTCCTTGT
Found at i:7670 original size:6 final size:6
Alignment explanation
Indices: 7648--7682 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
7638 ATATTATAAT
*
7648 ATTATA ATATTTA ATTATA ATTATA ATTATA ATTA
1 ATTATA AT-TATA ATTATA ATTATA ATTATA ATTA
7683 ATAAATGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:7686 original size:19 final size:20
Alignment explanation
Indices: 7644--7686 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
7634 TAAAATATTA
*
7644 TAAT-ATTATAATATTTAAT
1 TAATAATTATAATATATAAT
7663 T-ATAATTATAAT-TATAAT
1 TAATAATTATAATATATAAT
7681 TAATAA
1 TAATAA
7687 ATGTTCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATTATAATATATAAT
Found at i:7820 original size:22 final size:21
Alignment explanation
Indices: 7789--7829 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7779 TTAAAATATT
7789 ATAAACATTAATAATATAATTG
1 ATAAACATTAAT-ATATAATTG
*
7811 ATAAATATTAATATATAAT
1 ATAAACATTAATATATAAT
7830 AATTAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAACATTAATATATAATTG
Found at i:7838 original size:22 final size:21
Alignment explanation
Indices: 7786--7838 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
7776 TATTTAAAAT
*
7786 ATTATAAACATTAATAATATA
1 ATTATAAATATTAATAATATA
7807 ATTGATAAATATTAATATATAATA
1 ATT-ATAAATATTAATA-AT-ATA
7831 ATTA-AAAT
1 ATTATAAAT
7839 CATTGTGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 3 0.11
24 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTATAAATATTAATAATATA
Found at i:8358 original size:164 final size:165
Alignment explanation
Indices: 8105--8545 Score: 407
Period size: 164 Copynumber: 2.7 Consensus size: 165
8095 ATCATGATTG
* * * * *
8105 TTTGAACAGTTATTTATTTCCAATAGTTATGATCTTTTGTTTTGTCCTAAAACAATTATTTCTAT
1 TTTGAACAATTATTTATTTCAAATA-TTATGA-CTTTTATTTTGTCATAAAACAATTGTTTCTAT
* *** * *
8170 TCATACAAGTTTATTTGGAATAAAATAAT-CTAAT-TGATT-A-ATGGTAGGAGATT-TAACAAA
64 TCATACAAGATTATTCCAAATAAAATAATACTAATCT-ATTAATATGGTA-AAAATTATAA-AAA
* *
8230 -TAAATCTATTTGTC-AAACAAGTTCAAATAGTCATGTCCA
126 TTAAATCTATTTATCGAAAC-AGTTCAAATAGTCATGACCA
* * *
8269 TTTGAACAATTATTTATTTTAAATCATTATGACCTTTTATTTTGTCATAAACCAATTGTTTCTGT
1 TTTGAACAATTATTTATTTCAAAT-ATTATGA-CTTTTATTTTGTCATAAAACAATTGTTTCTAT
**
8334 TCACGTA-AA-ATTATTCCAAATAAAATAATACTAATCTATTAATATTTTAAAAATTAATAAAAA
64 TCA--TACAAGATTATTCCAAATAAAATAATACTAATCTATTAATATGGTAAAAATT-ATAAAAA
* * * *
8397 TTAAATTTATTTATCGAAACAGTTTAAATAGTTATGACTA
126 TTAAATCTATTTATCGAAACAGTTCAAATAGTCATGACCA
* * * * * *
8437 TTTGAATAATTATCTATATCAAATTGTTATGATTTTTATTTTGTCATAAAACAATTGTTTCTTTT
1 TTTGAACAATTATTTATTTCAAA-TATTATGACTTTTATTTTGTCATAAAACAATTGTTTCTATT
* * * *
8502 CATACAAGCTTATT-CATATTAAAATAATACTAATTTAATAATAT
65 CATACAAGATTATTCCA-AATAAAATAATACTAATCTATTAATAT
8546 TCCAAAAATT
Statistics
Matches: 227, Mismatches: 35, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
164 73 0.32
165 13 0.06
166 12 0.05
167 68 0.30
168 56 0.25
169 5 0.02
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (165 bp):
TTTGAACAATTATTTATTTCAAATATTATGACTTTTATTTTGTCATAAAACAATTGTTTCTATTC
ATACAAGATTATTCCAAATAAAATAATACTAATCTATTAATATGGTAAAAATTATAAAAATTAAA
TCTATTTATCGAAACAGTTCAAATAGTCATGACCA
Found at i:8483 original size:167 final size:168
Alignment explanation
Indices: 8230--8556 Score: 394
Period size: 167 Copynumber: 2.0 Consensus size: 168
8220 ATTTAACAAA
* * * * *
8230 TAAATCTATTTGTCAAACAAGTTCAAATAGTCATGTCCATTTGAACAATTATTTATTTTAAATCA
1 TAAATCTATTTATCAAACAAGTTCAAATAGTCATGACCATTTGAACAATTATCTATATCAAATCA
*
8295 TTATGACCTTTTATTTTGTCATAAACCAATTGTTTCTGTTCACGTA-AA-ATTATTCCA-AATAA
66 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTGTTCA--TACAAGATTATT-CATAATAA
* **
8357 AATAATACTAATCTATTAATATTTTAAAAATTAATAAAAAT
128 AATAATACTAATCTAATAATATTCCAAAAATTAATAAAAAT
* * * * * *
8398 TAAATTTATTTATCGAAAC-AGTTTAAATAGTTATGACTATTTGAATAATTATCTATATCAAATT
1 TAAATCTATTTATC-AAACAAGTTCAAATAGTCATGACCATTTGAACAATTATCTATATCAAATC
* * * * *
8462 GTTATGA-TTTTTATTTTGTCATAAAACAATTGTTTCTTTTCATACAAGCTTATTCATATTAAAA
65 ATTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTGTTCATACAAGATTATTCATAATAAAA
*
8526 TAATACTAATTTAATAATATTCCAAAAATTA
130 TAATACTAATCTAATAATATTCCAAAAATTA
8557 GTAAGTAAGA
Statistics
Matches: 134, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
165 2 0.01
166 4 0.03
167 70 0.52
168 54 0.40
169 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (168 bp):
TAAATCTATTTATCAAACAAGTTCAAATAGTCATGACCATTTGAACAATTATCTATATCAAATCA
TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTGTTCATACAAGATTATTCATAATAAAAT
AATACTAATCTAATAATATTCCAAAAATTAATAAAAAT
Found at i:8643 original size:139 final size:137
Alignment explanation
Indices: 8475--8733 Score: 330
Period size: 139 Copynumber: 1.9 Consensus size: 137
8465 ATGATTTTTA
* * *
8475 TTTTGTCATAAAACAATTGTTTCTTTTCATACAAGCTTATTC-ATATTAAAATAATACTAATTTA
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-AATAAAATAATACTAA-TCA
* *
8539 A-TAATATTCCAAAAATTAGTAAG-T-AAGAGATTTAAAAAAGAAATGTGTTTACCAAACCAGTT
64 ATTAATATTACAAAAATTAATAAGTTGAAGA-ATTTAAAAAA-AAAT-TGTTTACCAAACCAGTT
8601 CAAATAGTTAGG
126 CAAATAGTTAGG
* * *
8613 TTTTGTCATAAAA-ACTTATGTTTCTATTCATACAAGTTTATTCGAAATAAAGTAATACTAATCA
1 TTTTGTCATAAAACA-AT-TGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATCA
* *
8677 ATTAATATTATAAAAATTAATAAGTTGAAGATTTTAAAAAAAAATTGTTTACCAAAC
64 ATTAATATTACAAAAATTAATAAGTTGAAGAATTTAAAAAAAAATTGTTTACCAAAC
8734 AAATTTAAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
137 1 0.01
138 29 0.28
139 60 0.57
140 11 0.10
141 4 0.04
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (137 bp):
TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATCAAT
TAATATTACAAAAATTAATAAGTTGAAGAATTTAAAAAAAAATTGTTTACCAAACCAGTTCAAAT
AGTTAGG
Found at i:8942 original size:181 final size:179
Alignment explanation
Indices: 8612--9808 Score: 999
Period size: 181 Copynumber: 6.6 Consensus size: 179
8602 AAATAGTTAG
* * *
8612 GTTTTGTCATAAAA-ACTTATGTTTCTATTCATACAAGTTTATTC-GAAATAAAGTAATACTAAT
1 GTTTTGTCATAAAACA-AT-TGTTTCTATTCATACAAGCTTATTCTG-AATAAAATAATACTAAT
** * * * *
8675 CAATTAATATTAT-AAAAATTAATAAGTTGAAGATTTTAAAAA-AAAATTGTTTACCAAACAAAT
63 TTATTAATATT-TCAAAAATTAATAAG-TAAAGATTTTAAAAATAAATTTGTTTACTAAACAAGT
* * * * *
8738 TTAAATAGTCATGTCCATTTGAACTATTATCTATTTCAAATTGTTATGACATTTT
126 TCAAATAGTCATGACC-TTTGAACAATTATTTATTTCAAATAGTTATGACATTTT
* * *
8793 GTTTTGGTCCTAAAACAATTGTTTCTATTCAAACAAGCTTATTCTGAGTAAAATAATA-TAAATT
1 GTTTT-GTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCTGAATAAAATAATACT-AATT
* * * *
8857 TATTAATATTTCAAAAATTAATAAGTAAAAATTTTAAAAATAAATATGTTTTCTAAACATGTTCA
64 TATTAATATTTCAAAAATTAATAAGTAAAGATTTTAAAAATAAATTTGTTTACTAAACAAGTTCA
* * **
8922 AATAGTTATAAACCTTTGAACAATTATTTTATTTCAAATAGTTATGACCCTTT
129 AATAGTCAT-GACCTTTGAACAATTA-TTTATTTCAAATAGTTATGACATTTT
** * * *
8975 GTTTTGTCATAAATTAGTTGTTTCTATTCACACAAGCATATT-TGAAATAAAATAATACTAATTT
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCTG-AATAAAATAATACTAATTT
* * * * *
9039 ATTAATATTTCAAAAATTAATAAGTAAAAAAATTTAAAAATAAATCTGTTTACTGAGCTAA-TTC
65 ATTAATATTTCAAAAATTAATAAGT-AAAGATTTTAAAAATAAATTTGTTTACTAAAC-AAGTTC
* * *
9103 AAATCA-TTATGACTGTTTGAACAATTTTTTATTTCAAATAGTTATGATC-TTTT
128 AAAT-AGTCATGAC-CTTTGAACAATTATTTATTTCAAATAGTTATGA-CATTTT
* * * * *
9156 GTTTTGTCCTAAAACAATTGTTTCTATTCATAGAAGTTTATT-TGGAATAAAATAATAGTAATTG
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCT-GAATAAAATAATACTAATTT
* * * * * * * * *
9220 ATTAATACTTT-GAAAGTTAGTAGGTAGGAGATTTAAAAAATAAATTTATTTACTAAATAAGTCC
65 ATTAATA-TTTCAAAAATTAATAAGTA-AAGATTTTAAAAATAAATTTGTTTACTAAACAAGTTC
* * * *
9284 AAATAGTCATGTCCGTTTGAACAATTATCTATTTCAAATAGTTATAACCTTTT
128 AAATAGTCATGACC-TTTGAACAATTATTTATTTCAAATAGTTATGACATTTT
* * ** * * *
9337 -TTTTGTCATAAAACAATTGTTTCTGTTCATGCAAAATTATTCAGAATAAAATAATACTGATCTA
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCTGAATAAAATAATACTAATTTA
* *
9401 TTAATATTTTAAAAATTAATAAG---AGA-TTTAAAAACTAAATTTATTTACTGAAAC-AGTTCA
66 TTAATATTTCAAAAATTAATAAGTAAAGATTTTAAAAA-TAAATTTGTTTACT-AAACAAGTTCA
* * *
9461 AATAGTCATGACTATTTGAACAATTATTTATATCAAATTGTTATG--ATCTTT
129 AATAGTCATGAC-CTTTGAACAATTATTTATTTCAAATAGTTATGACAT-TTT
* * * * *
9512 ATTTTGTCATAAAACAATTGTTTCTTTTTATATAAGCTTATTCAT-ATTAAAATAATACTAATTT
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTC-TGAATAAAATAATACTAATTT
* * * * * * * *
9576 AATAATATTCCAAAAATTAGTAAGT-AAGATATTTAAAAAATAAATGTGTTTGCCGAACCAA-TG
65 ATTAATATTTCAAAAATTAATAAGTAAAGAT-TTT-AAAAATAAATTTGTTT-ACTAAACAAGTT
* * * * * * * *
9639 CAAATAGTTAAGA-CTATTAGGATAATTATCTATTTCAGATCA-TTTTGACCTTTT
127 CAAATAGTCATGACCT-TT-GAACAATTATTTATTTCAAAT-AGTTATGACATTTT
* * * * * *
9693 GTTTAGTCACAAAACAATTATTTCAATTTATACAAGCTTATT-TAGAAT-AAATTATACTAATTT
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCT-GAATAAAATAATACTAATTT
* * * *
9756 TTTAACA-TTCAAAAAATTAATAAGCATGAGATTTTAAAAAATAAATTTGTTTA
65 ATTAATATTTC-AAAAATTAATAAGTA-AAGATTTT-AAAAATAAATTTGTTTA
9809 TCGAATAAAT
Statistics
Matches: 823, Mismatches: 146, Indels: 95
0.77 0.14 0.09
Matches are distributed among these distances:
174 1 0.00
175 10 0.01
176 132 0.16
177 3 0.00
178 4 0.00
179 8 0.01
180 166 0.20
181 397 0.48
182 99 0.12
183 3 0.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (179 bp):
GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCTGAATAAAATAATACTAATTTA
TTAATATTTCAAAAATTAATAAGTAAAGATTTTAAAAATAAATTTGTTTACTAAACAAGTTCAAA
TAGTCATGACCTTTGAACAATTATTTATTTCAAATAGTTATGACATTTT
Found at i:9794 original size:537 final size:542
Alignment explanation
Indices: 8633--9808 Score: 1242
Period size: 537 Copynumber: 2.2 Consensus size: 542
8623 AAAACTTATG
* * * * ** *
8633 TTTCTATTCATACAAGTTTA-TTCGAAATAAAGTAATACTAATCAATTAATA-TTATAAAAATTA
1 TTTCAATTCATACAAGCTTATTTAG-AATAAAATAATACTAATTGATTAACACTTA-AAAAATTA
* **
8696 ATAAGTTGAAGATTTTAAAAAA-AAA-TTGTTTACCAAACAAATTTAAATAGTCATGTCCATTTG
64 ATAAGATG-AGATTTTAAAAAATAAATTTGTTTACCAAACAAATCCAAATAGTCATGTCCATTTG
* * * *
8759 AACTATTATCTATTTCAAATTGTTATGACATTTTGTTTTGGTCCTAAAACAATTGTTTCTATTCA
128 AACAATTATCTATTTCAAATAGTTATAACATTTTGTTTTGGTCATAAAACAATTGTTTCTATTCA
** * * *
8824 AACAAGCTTATTCTGAGTAAAATAATATAAATTTATTAATATTTCAAAAATTAATAAGTAAAAAT
193 AACAAAATTATTCAGAATAAAATAATATAAATCTATTAATATTTCAAAAATTAATAAG--AAAAT
* * * *
8889 TTTAAAAATAAATATGTTTTCTAAACATGTTCAAATAGTTATAAACCTTTGAACAATTATTTTAT
256 TTTAAAAATAAATATATTTACTAAACATGTTCAAATAGTCATAAACATTTGAACAATTATTTTAT
* * ** * *
8954 TTCAAATAGTTATGACCCTTTGTTTTGTCATAAATTAGTTGTTTCTATTCACACAAGCATATTTG
321 ATCAAATAGTTATGACCCTTTATTTTGTCATAAAACAATTGTTTCTATTCACACAAGCATATTTC
* *
9019 AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAAATTTAAAAATAAAT
386 AAATAAAATAATACTAATTTAATAATATTCCAAAAATTAATAAGTAAAAAAATTTAAAAATAAAT
* * * * * * * * *
9084 CTGTTTACTGAGCTAATTCAAATCATTATGACTGTTTGAACAATTTTTTATTTCAAATAGTTATG
451 CTGTTTACCGAACCAATGCAAATCATTAAGACTATTAGAACAATTATCTATTTCAAATAGTTATG
* * *
9149 ATCTTTTGTTTTGTCCTAAAACAATTG
516 ACCTTTTGTTTAGTCCTAAAACAATTA
* * * * * * ** * *
9176 TTTCTATTCATAGAAGTTTATTTGGAATAAAATAATAGTAATTGATTAATACTTTGAAAGTTAGT
1 TTTCAATTCATACAAGCTTATTTAGAATAAAATAATACTAATTGATTAACACTTAAAAAATTAAT
* * * * * * *
9241 AGGTAGGAGA-TTTAAAAAATAAATTTATTTACTAAATAAGTCCAAATAGTCATGTCCGTTTGAA
66 AAG-ATGAGATTTTAAAAAATAAATTTGTTTACCAAACAAATCCAAATAGTCATGTCCATTTGAA
* * **
9305 CAATTATCTATTTCAAATAGTTATAACCTTTT-TTTT-GTCATAAAACAATTGTTTCTGTTCATG
130 CAATTATCTATTTCAAATAGTTATAACATTTTGTTTTGGTCATAAAACAATTGTTTCTATTCAAA
* * *
9368 CAAAATTATTCAGAATAAAATAATACT-GATCTATTAATATTTTAAAAATTAATAAG-AGA-TTT
195 CAAAATTATTCAGAATAAAATAATA-TAAATCTATTAATATTTCAAAAATTAATAAGAAAATTTT
* *
9430 AAAAACTAAATTTATTTACTGAAACA-GTTCAAATAGTCAT-GACTATTTGAACAATTA-TTTAT
259 AAAAA-TAAATATATTTACT-AAACATGTTCAAATAGTCATAAAC-ATTTGAACAATTATTTTAT
* * * * * * *
9492 ATCAAATTGTTATGA-TCTTTATTTTGTCATAAAACAATTGTTTCTTTTTATATAAGCTTA-TTC
321 ATCAAATAGTTATGACCCTTTATTTTGTCATAAAACAATTGTTTCTATTCACACAAGCATATTTC
* * * *
9555 ATATTAAAATAATACTAATTTAATAATATTCCAAAAATTAGTAAGT-AAGATATTTAAAAAATAA
386 A-AATAAAATAATACTAATTTAATAATATTCCAAAAATTAATAAGTAAAAAAATTT-AAAAATAA
* * * * *
9619 ATGTGTTTGCCGAACCAATGCAAAT-AGTTAAGACTATTAGGATAATTATCTATTTCAGATCA-T
449 ATCTGTTTACCGAACCAATGCAAATCA-TTAAGACTATTAGAACAATTATCTATTTCAAAT-AGT
*
9682 TTTGACCTTTTGTTTAGTCAC-AAAACAATTA
512 TATGACCTTTTGTTTAGTC-CTAAAACAATTA
* * **
9713 TTTCAATTTATACAAGCTTATTTAGAAT-AAATTATACTAATTTTTTAACA-TTCAAAAAATTAA
1 TTTCAATTCATACAAGCTTATTTAGAATAAAATAATACTAATTGATTAACACTT-AAAAAATTAA
9776 TAAGCATGAGATTTTAAAAAATAAATTTGTTTA
65 TAAG-ATGAGATTTTAAAAAATAAATTTGTTTA
9809 TCGAATAAAT
Statistics
Matches: 520, Mismatches: 97, Indels: 38
0.79 0.15 0.06
Matches are distributed among these distances:
535 2 0.00
536 42 0.08
537 196 0.38
538 30 0.06
539 38 0.07
540 5 0.01
542 79 0.15
543 61 0.12
544 67 0.13
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (542 bp):
TTTCAATTCATACAAGCTTATTTAGAATAAAATAATACTAATTGATTAACACTTAAAAAATTAAT
AAGATGAGATTTTAAAAAATAAATTTGTTTACCAAACAAATCCAAATAGTCATGTCCATTTGAAC
AATTATCTATTTCAAATAGTTATAACATTTTGTTTTGGTCATAAAACAATTGTTTCTATTCAAAC
AAAATTATTCAGAATAAAATAATATAAATCTATTAATATTTCAAAAATTAATAAGAAAATTTTAA
AAATAAATATATTTACTAAACATGTTCAAATAGTCATAAACATTTGAACAATTATTTTATATCAA
ATAGTTATGACCCTTTATTTTGTCATAAAACAATTGTTTCTATTCACACAAGCATATTTCAAATA
AAATAATACTAATTTAATAATATTCCAAAAATTAATAAGTAAAAAAATTTAAAAATAAATCTGTT
TACCGAACCAATGCAAATCATTAAGACTATTAGAACAATTATCTATTTCAAATAGTTATGACCTT
TTGTTTAGTCCTAAAACAATTA
Found at i:11220 original size:27 final size:25
Alignment explanation
Indices: 11190--11256 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 25
11180 TAGCACTACT
*
11190 TTATTAATAATATTGTTATTAATTAAA
1 TTATTAATAATATT-TAATT-ATTAAA
* *
11217 TTATAAATGATATTTAATTATTAAA
1 TTATTAATAATATTTAATTATTAAA
*
11242 TAATCTTAATAATAT
1 T--TATTAATAATAT
11257 ATAAGATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 7 0.22
26 4 0.12
27 21 0.66
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (25 bp):
TTATTAATAATATTTAATTATTAAA
Found at i:11356 original size:18 final size:18
Alignment explanation
Indices: 11321--11358 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11311 ATAAATATAA
*
11321 TAATAAAATAGTTTAAAT
1 TAATAAAATAGTTAAAAT
11339 TAATAAAATCA-TTAAAAT
1 TAATAAAAT-AGTTAAAAT
11357 TA
1 TA
11359 TTATTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
TAATAAAATAGTTAAAAT
Found at i:12324 original size:18 final size:19
Alignment explanation
Indices: 12284--12339 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 19
12274 TTAGATTACT
12284 TTATTAATATATAATATAA
1 TTATTAATATATAATATAA
12303 -TATTAATACTAT-AT-TAA
1 TTATTAATA-TATAATATAA
*
12320 TTATT-ATAAATAAT-TAA
1 TTATTAATATATAATATAA
12337 TTA
1 TTA
12340 CAATTATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.06
17 14 0.42
18 14 0.42
19 3 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATTAATATATAATATAA
Found at i:12493 original size:20 final size:20
Alignment explanation
Indices: 12459--12518 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
12449 AATTGATCTT
12459 TTATTATATCT-TATTAATAA
1 TTATTATAT-TATATTAATAA
*
12479 TTATTATATTATATTAA-AC
1 TTATTATATTATATTAATAA
12498 TTAATTAATAATTATATTAAT
1 TT-ATT-AT-ATTATATTAAT
12519 TAATATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 4 0.12
20 18 0.53
21 2 0.06
22 10 0.29
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATATTATATTAATAA
Found at i:12514 original size:27 final size:25
Alignment explanation
Indices: 12472--12521 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
12462 TTATATCTTA
*
12472 TTAATAATTATTATATTATATTAAAC
1 TTAATAATAATTATATTA-ATTAAAC
12498 TTAATTAATAATTATATTAATTAA
1 TTAA-TAATAATTATATTAATTAA
12522 TATAATCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAATAATAATTATATTAATTAAAC
Found at i:12527 original size:5 final size:4
Alignment explanation
Indices: 12471--12544 Score: 55
Period size: 4 Copynumber: 17.5 Consensus size: 4
12461 ATTATATCTT
12471 ATTA A-TA ATT- ATTA TATTA TATTAA ACTTA ATTA A-TA ATTA TATTA
1 ATTA ATTA ATTA ATTA -ATTA -ATT-A A-TTA ATTA ATTA ATTA -ATTA
*
12517 ATTA ATATA ATCA ATTTA ATTA ATTA AT
1 ATTA AT-TA ATTA A-TTA ATTA ATTA AT
12545 ATTAAATATT
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
3 9 0.15
4 25 0.42
5 22 0.37
6 3 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:12532 original size:22 final size:21
Alignment explanation
Indices: 12470--12546 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
12460 TATTATATCT
*
12470 TATTAA-TAAT-TATTATATTA
1 TATTAATTAATATAATA-ATTA
12490 TATTAAACTTAAT-TAATAATTA
1 TATT-AA-TTAATATAATAATTA
12512 TATTAATTAATATAATCAATT-
1 TATTAATTAATATAAT-AATTA
12533 TAATTAATTAATAT
1 T-ATTAATTAATAT
12547 TAAATATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
20 9 0.18
21 9 0.18
22 24 0.48
23 8 0.16
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTAATTAATATAATAATTA
Found at i:12573 original size:21 final size:21
Alignment explanation
Indices: 12549--12589 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12539 ATTAATATTA
12549 AATATTAAAATAAATAAATAG
1 AATATTAAAATAAATAAATAG
* *
12570 AATATTTAAATAATTAAATA
1 AATATTAAAATAAATAAATA
12590 ATATTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AATATTAAAATAAATAAATAG
Found at i:14162 original size:19 final size:19
Alignment explanation
Indices: 14111--14167 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
14101 TTATCTAATT
14111 AATTATTT-ATGATA--AA
1 AATTATTTAATGATATTAA
*
14127 AATTATTAAAT-ATTATTAA
1 AATTATTTAATGA-TATTAA
*
14146 TATTATTTAATGATATTAA
1 AATTATTTAATGATATTAA
14165 AAT
1 AAT
14168 CTATCTGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 8 0.25
17 4 0.12
19 19 0.59
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
AATTATTTAATGATATTAA
Found at i:15591 original size:17 final size:17
Alignment explanation
Indices: 15513--15594 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 17
15503 ATATAATTAA
15513 ATAAACTATTATTAAATTT
1 ATAAA-TATTA-TAAATTT
15532 AT--ATATTAATAATAGTTT
1 ATAAATATT-ATAA-A-TTT
* *
15550 ACTTAATATT-TAAATATA
1 A-TAAATATTATAAAT-TT
*
15568 ATTAATATTATAAATTT
1 ATAAATATTATAAATTT
15585 ATAAATATTA
1 ATAAATATTA
15595 ATAACTGAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
16 7 0.13
17 22 0.42
18 12 0.23
19 6 0.12
21 5 0.10
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (17 bp):
ATAAATATTATAAATTT
Found at i:16025 original size:23 final size:24
Alignment explanation
Indices: 15986--16052 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 24
15976 TAATCTATTT
*
15986 GATTTAAT-TATATAAATAAAT-TA
1 GATTTAATAT-TAAAAATAAATATA
*
16009 GATTTAATATTAAAAATTAATATA
1 GATTTAATATTAAAAATAAATATA
* * *
16033 TATTATAGTATTAAATATAA
1 GATT-TAATATTAAAAATAA
16053 CTAGTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 17 0.49
24 6 0.17
25 12 0.34
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
GATTTAATATTAAAAATAAATATA
Found at i:16098 original size:27 final size:27
Alignment explanation
Indices: 16066--16117 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16056 GTAATTTTAA
16066 TAATTATT-TATAAATTAATTAAATATT
1 TAATTATTAT-TAAATTAATTAAATATT
* *
16093 TAATTATTATTTAATTAATTTAATA
1 TAATTATTATTAAATTAATTAAATA
16118 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TAATTATTATTAAATTAATTAAATATT
Found at i:16099 original size:23 final size:23
Alignment explanation
Indices: 16064--16110 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
16054 TAGTAATTTT
*
16064 AATAATTATTTATAAATTAATTA
1 AATAATTAATTATAAATTAATTA
* * *
16087 AATATTTAATTATTATTTAATTA
1 AATAATTAATTATAAATTAATTA
16110 A
1 A
16111 TTTAATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATAATTAATTATAAATTAATTA
Found at i:16290 original size:23 final size:23
Alignment explanation
Indices: 16261--16351 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 23
16251 ATAAATTAAT
*
16261 TTAAATATATAAATTATTAATTA
1 TTAAATATATAATTTATTAATTA
* *
16284 TTAAATATTTAATTTATTAATGA
1 TTAAATATATAATTTATTAATTA
16307 TT--ATAT-TAATTTATTAA-TA
1 TTAAATATATAATTTATTAATTA
*
16326 TTAATAAATATATATTTATTGAATTA
1 TTAA-ATATATA-ATTTATT-AATTA
16352 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:16302 original size:16 final size:16
Alignment explanation
Indices: 16277--16327 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
16267 ATATAAATTA
16277 TTAA-TTATTAAATAT
1 TTAATTTATTAAATAT
16292 TTAATTTATTAATGATTAT
1 TTAATTTATTAA--A-TAT
16311 ATTAATTTATT-AATAT
1 -TTAATTTATTAAATAT
16327 T
1 T
16328 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:16317 original size:20 final size:19
Alignment explanation
Indices: 16226--16328 Score: 76
Period size: 19 Copynumber: 5.5 Consensus size: 19
16216 ATTGTATTAT
*
16226 TTAATTTTATATTAATTTAA
1 TTAATATTATATTAATTT-A
* *
16246 CTAATA-TAAATTAATTTA
1 TTAATATTATATTAATTTA
16264 --AATA-TATA--AA-TTA
1 TTAATATTATATTAATTTA
16277 TTAATTATTAAATATTTAATTTA
1 TTAA-TATT--ATA-TTAATTTA
16300 TTAATGATTATATTAATTTA
1 TTAAT-ATTATATTAATTTA
16320 TTAATATTA
1 TTAATATTA
16329 ATAAATATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
13 3 0.04
14 2 0.03
15 2 0.03
16 9 0.13
17 1 0.01
18 1 0.01
19 17 0.25
20 17 0.25
21 3 0.04
22 3 0.04
23 10 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TTAATATTATATTAATTTA
Found at i:16853 original size:180 final size:180
Alignment explanation
Indices: 16439--16924 Score: 474
Period size: 180 Copynumber: 2.7 Consensus size: 180
16429 TAATATCATT
* * * * * *
16439 AATAATACTAATTTATTAATATTTAAAAAATTAATCAGTAAGATATTTAAAAAGTAAATCTGCTT
1 AATAATACTAATTTAATAATATTTAAAAAATTAATAACTAAGAAATTTAAAAAATAAATCTGATT
** * * ** * * *
16504 ACCAAACCAT-TTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTTGAATCATTATAACCTT
66 ACCAAACC-TGTTCAAATAGTTAAGACTA-TTCAATAATTATCTATTTCAAATCGTTATGACATT
* * * **
16568 TTATTTGATCATCAAACAATTGGTTCTATTTATACTATTTTATTCAAAATAA
129 TTATTTGATCATAAAACAATTGGTTCTATTCATACAAGCTTATTCAAAATAA
* ** * * * *
16620 AATAAAACTAATTTAATAATATTTTGAAACTTAATAACCAAGAAAATTAAAAAATAAATCTAATT
1 AATAATACTAATTTAATAATATTTAAAAAATTAATAACTAAGAAATTTAAAAAATAAATCTGATT
* * *
16685 GCCAAACCTGTTGAAATAGTTAAGACTATATCAATGATTATCTATTTCAAATCGTTATGACATTT
66 ACCAAACCTGTTCAAATAGTTAAGACTAT-TCAATAATTATCTATTTCAAATCGTTATGACATTT
* * * * *** *
16750 TCTTTTG-TCGTAAAACAATT-GTTTTATTCGTACAAGCTTATTTGGATTAA
130 T-ATTTGATCATAAAACAATTGGTTCTATTCATACAAGCTTATTCAAAATAA
* * * *
16800 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTT
1 AATAATACTAATTTAATAATATTTAAAAAATTAATAACTAAGAAATTTAAAAAATAAATCTGATT
* * * * * *
16865 ACCGAATCAGTTCAAATGGTTAAGACTATTAGAATAATTATTTATTTCAAATCGTTATGA
66 ACCAAACCTGTTCAAATAGTTAAGACTATT-CAATAATTATCTATTTCAAATCGTTATGA
16925 TATTATTAAT
Statistics
Matches: 244, Mismatches: 57, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
179 1 0.00
180 126 0.52
181 113 0.46
182 4 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (180 bp):
AATAATACTAATTTAATAATATTTAAAAAATTAATAACTAAGAAATTTAAAAAATAAATCTGATT
ACCAAACCTGTTCAAATAGTTAAGACTATTCAATAATTATCTATTTCAAATCGTTATGACATTTT
ATTTGATCATAAAACAATTGGTTCTATTCATACAAGCTTATTCAAAATAA
Found at i:17005 original size:24 final size:24
Alignment explanation
Indices: 16946--17033 Score: 65
Period size: 24 Copynumber: 3.6 Consensus size: 24
16936 AAATAATTAA
16946 TATAAATATTATAATTGATTAAAC-AAT
1 TATAAATA--ATAATT--TTAAACTAAT
* *
16973 TAT-ACTAATAA-TTTATAACTATT
1 TATAAATAATAATTTTA-AACTAAT
* *
16996 TATAAATAATTATTTTAAAGTAAT
1 TATAAATAATAATTTTAAACTAAT
*
17020 TATAATTAATAATT
1 TATAAATAATAATT
17034 ATATTAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
21 3 0.06
22 3 0.06
23 6 0.12
24 27 0.55
25 4 0.08
26 3 0.06
27 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (24 bp):
TATAAATAATAATTTTAAACTAAT
Found at i:17072 original size:59 final size:58
Alignment explanation
Indices: 16970--17103 Score: 127
Period size: 59 Copynumber: 2.3 Consensus size: 58
16960 TTGATTAAAC
* * *
16970 AATTATACTAATAATTTATAACTATTTATAAATAATTATTTTAAAGT-AATTATAATTAAT
1 AATTATATTAATTA-TTATAACAATTTATAAATAATTATTTT-AAGTCAA-TATAATTAAT
* **
17030 AATTATATTAATTATTATAACAATTTA-AGCATAATT-TATTTAAGTCAATATCTTTAAT
1 AATTATATTAATTATTATAACAATTTATA-AATAATTAT-TTTAAGTCAATATAATTAAT
17088 -ATTA-ATTAA-TATTATA
1 AATTATATTAATTATTATA
17104 TGATATATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
55 7 0.11
56 5 0.08
57 4 0.06
58 14 0.22
59 23 0.35
60 12 0.18
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (58 bp):
AATTATATTAATTATTATAACAATTTATAAATAATTATTTTAAGTCAATATAATTAAT
Found at i:17762 original size:20 final size:21
Alignment explanation
Indices: 17727--17852 Score: 98
Period size: 20 Copynumber: 5.8 Consensus size: 21
17717 ATTTAAAACA
17727 ATTATATTAGTTATATTATAAAT
1 ATTA-ATTA-TTATATTATAAAT
17750 ATTAA-TATTATATTATAAAT
1 ATTAATTATTATATTATAAAT
17770 ATTAATTATTAT-TTATAATTAT
1 ATTAATTATTATATTATAA--AT
* * **
17792 ATTAGATTATTAGAATAATATTT
1 ATTA-ATTATTA-TATTATAAAT
*
17815 ATAATATTAATTATATTAT--AT
1 ATTA-ATT-ATTATATTATAAAT
*
17836 ATTTATTATTATATTAT
1 ATTAATTATTATATTAT
17853 TTGAATTATT
Statistics
Matches: 85, Mismatches: 11, Indels: 18
0.75 0.10 0.16
Matches are distributed among these distances:
19 10 0.12
20 27 0.32
21 11 0.13
22 7 0.08
23 22 0.26
24 4 0.05
25 4 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTAATTATTATATTATAAAT
Found at i:17803 original size:13 final size:12
Alignment explanation
Indices: 17727--17851 Score: 63
Period size: 11 Copynumber: 10.8 Consensus size: 12
17717 ATTTAAAACA
*
17727 ATTATATTAGTT
1 ATTATATTAATT
*
17739 A-TAT-TATAAAT
1 ATTATAT-TAATT
17750 ATTAATATTATATT
1 ATT-ATATTA-ATT
*
17764 ATAAATATTAATT
1 AT-TATATTAATT
*
17777 ATTAT-TT-ATA
1 ATTATATTAATT
17787 ATTATATTAGATT
1 ATTATATTA-ATT
* *
17800 ATTAGAATAA-T
1 ATTATATTAATT
17811 ATT-TA-TAA-T
1 ATTATATTAATT
17820 ATTA-ATTATATT
1 ATTATATTA-ATT
*
17832 A-TATATTTATT
1 ATTATATTAATT
17843 ATTATATTA
1 ATTATATTA
17852 TTTGAATTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 30
0.67 0.09 0.23
Matches are distributed among these distances:
9 8 0.09
10 11 0.13
11 22 0.26
12 16 0.19
13 18 0.21
14 11 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
ATTATATTAATT
Found at i:17803 original size:50 final size:51
Alignment explanation
Indices: 17753--17858 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
17743 TATAAATATT
*
17753 AATATTATATTATAAATATTAATTATTATT-TATAATTA-TATTAGATTATTAG
1 AATAATAT-TTAT-AATATTAATTA-TATTATATAATTATTATTAGATTATTAG
* * *
17805 AATAATATTTATAATATTAATTATATTATATATTTATTATTATATTATTTG
1 AATAATATTTATAATATTAATTATATTATATAATTATTATTAGATTATTAG
17856 AAT
1 AAT
17859 TATTAACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 4 0.08
50 18 0.38
51 19 0.40
52 7 0.15
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (51 bp):
AATAATATTTATAATATTAATTATATTATATAATTATTATTAGATTATTAG
Found at i:17870 original size:51 final size:48
Alignment explanation
Indices: 17758--17887 Score: 124
Period size: 51 Copynumber: 2.6 Consensus size: 48
17748 ATATTAATAT
*
17758 TATATT-ATAAATATTAATTATTATTTATAATTATATTAGATTATTAGAA
1 TATATTCAT-AATATTAATTA-TATTTATATTTATATTAGATTATTAGAA
* * *
17807 TAATATTTATAATATTAATTATATTATATATTTATTATTATATTATTTGAA
1 T-ATATTCATAATATTAATTATATT-TATATTTA-TATTAGATTATTAGAA
17858 T-TATTAACATAAT-TATAATTA-ATTTATATT
1 TATATT--CATAATAT-TAATTATATTTATATT
17888 CTAAGCGATA
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
49 15 0.21
50 27 0.39
51 28 0.40
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (48 bp):
TATATTCATAATATTAATTATATTTATATTTATATTAGATTATTAGAA
Found at i:18563 original size:15 final size:16
Alignment explanation
Indices: 18545--18575 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
18535 TAAATATTTT
18545 AATTATTGATT-AATA
1 AATTATTGATTCAATA
18560 AATTATTGATTCAATA
1 AATTATTGATTCAATA
18576 GACTATTCAC
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:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AATTATTGATTCAATA
Found at i:18616 original size:16 final size:15
Alignment explanation
Indices: 18587--18621 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
18577 ACTATTCACA
18587 TATACATTTAATTAT
1 TATACATTTAATTAT
*
18602 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
18618 TATA
1 TATA
18622 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:19281 original size:21 final size:21
Alignment explanation
Indices: 19257--19303 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19247 AACTTATTTT
19257 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
19278 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
19299 TTATT
1 TTATT
19304 CAAATATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:19594 original size:21 final size:21
Alignment explanation
Indices: 19556--19595 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19546 TATAGTAATA
*
19556 AATTATTAAATAATTTATTGG
1 AATTATTAAATAACTTATTGG
19577 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
19596 TTTAAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGG
Found at i:20845 original size:25 final size:28
Alignment explanation
Indices: 20817--20869 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 28
20807 TTCCTCATAC
*
20817 TAATATATA-TAT-TAATAT-AAATTAT
1 TAATATATATTATGGAATATGAAATTAT
20842 TAATATATATTATGGAATATGAAATTAT
1 TAATATATATTATGGAATATGAAATTAT
20870 ATTATTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 5 0.21
28 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (28 bp):
TAATATATATTATGGAATATGAAATTAT
Found at i:21587 original size:10 final size:11
Alignment explanation
Indices: 21572--21603 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
21562 AATTAGATCG
21572 TTAT-AATTAA
1 TTATAAATTAA
21582 TTATAAATT-A
1 TTATAAATTAA
21592 TTATAAATTAA
1 TTATAAATTAA
21603 T
1 T
21604 AATTTGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATAAATTAA
Found at i:21949 original size:13 final size:14
Alignment explanation
Indices: 21919--21951 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
21909 GAAATATTAT
21919 TAATATTATCTAATA
1 TAAT-TTATCTAATA
21934 TAATTTATCT-ATA
1 TAATTTATCTAATA
21947 TAATT
1 TAATT
21952 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:22189 original size:52 final size:56
Alignment explanation
Indices: 22133--22244 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 56
22123 TACAATTAAG
* *
22133 TTATATTTTA-ATTAATA-TATCAATAAT-TAAATA-ATT-TT-AATAATATTAATTA
1 TTATATATTATATTAATACTA-C-ATAATATAAATATATTATTGAATAAAATTAATTA
22185 TTATA-ATTATATTAATACTACATAATATAAATATATTATTGAATAAAATTAATTA
1 TTATATATTATATTAATACTACATAATATAAATATATTATTGAATAAAATTAATTA
22240 -TATAT
1 TTATAT
22245 CTAATTATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
51 8 0.16
52 19 0.37
53 5 0.10
54 6 0.12
55 13 0.25
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (56 bp):
TTATATATTATATTAATACTACATAATATAAATATATTATTGAATAAAATTAATTA
Found at i:22277 original size:21 final size:21
Alignment explanation
Indices: 22207--22277 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
22197 TAATACTACA
22207 TAATATAAAT-A-TATTATTG-
1 TAATATAAATAATTA-TATTGC
22226 -AATA-AAATTAATTATATAT-C
1 TAATATAAA-TAATTATAT-TGC
22246 TAAT-TATAATAATTATATTGC
1 TAATATA-AATAATTATATTGC
22267 TAATATAAATA
1 TAATATAAATA
22278 TAATATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
17 3 0.07
18 5 0.12
19 4 0.10
20 4 0.10
21 22 0.52
22 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (21 bp):
TAATATAAATAATTATATTGC
Found at i:22311 original size:17 final size:18
Alignment explanation
Indices: 22276--22313 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22266 CTAATATAAA
*
22276 TATAATATAATTAAGTAT
1 TATAATATAATTAAATAT
*
22294 TATAATAT-GTTAAATAT
1 TATAATATAATTAAATAT
22311 TAT
1 TAT
22314 CTTTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TATAATATAATTAAATAT
Found at i:22358 original size:27 final size:28
Alignment explanation
Indices: 22294--22359 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
22284 AATTAAGTAT
* *
22294 TATAATATG-TT-AAATATTATCTTTAA
1 TATAATATGATTAAAATATGATCTATAA
**
22320 T-TAATACAATTAAAATATGAT-TATAA
1 TATAATATGATTAAAATATGATCTATAA
22346 TATAATATGATTAA
1 TATAATATGATTAA
22360 TACTAATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 5 0.16
26 8 0.26
27 18 0.58
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
TATAATATGATTAAAATATGATCTATAA
Found at i:23077 original size:20 final size:20
Alignment explanation
Indices: 23036--23077 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23026 TATTTGATTC
* *
23036 TAAATAGTAATAATTATAAT
1 TAAATAATAATAACTATAAT
*
23056 TAAATAATAATAACTATTAT
1 TAAATAATAATAACTATAAT
23076 TA
1 TA
23078 TTAATTATTA
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:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAATAATAATAACTATAAT
Found at i:23164 original size:25 final size:25
Alignment explanation
Indices: 23118--23167 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23108 TTTAGAATAG
*
23118 TAATTAAGTATCACAATAAAATTAT
1 TAATTAAATATCACAATAAAATTAT
*
23143 TAATTAAAATATCA-AATTAAATTAT
1 TAATT-AAATATCACAATAAAATTAT
23168 ATTCGATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATTAAATATCACAATAAAATTAT
Found at i:23341 original size:16 final size:16
Alignment explanation
Indices: 23312--23354 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23302 ACATATTTAT
*
23312 TATAT-ATAATTATAA
1 TATATAATAAATATAA
23327 TATATAATAAATATAA
1 TATATAATAAATATAA
*
23343 TAT-TAATTAATA
1 TATATAATAAATA
23355 ATTGTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATAATAAATATAA
Found at i:23407 original size:23 final size:22
Alignment explanation
Indices: 23380--23443 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
23370 AATTAGTAAA
23380 TATAATTAATTAATATTTAATAT
1 TATAATTAATTAATA-TTAATAT
* *
23403 TATAATATTATTAATATTACTAT
1 TATAAT-TAATTAATATTAATAT
*
23426 TATAAATAATT--TATTAAT
1 TATAATTAATTAATATTAAT
23444 GATATTTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.17
22 4 0.11
23 17 0.49
24 8 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATAATTAATTAATATTAATAT
Found at i:23481 original size:24 final size:24
Alignment explanation
Indices: 23445--23491 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23435 TTTATTAATG
*
23445 ATATTTAATCTATAAATTAATTAA
1 ATATTTAATCTATAAATAAATTAA
23469 ATATTT-ATCCTATAAATAAATTA
1 ATATTTAAT-CTATAAATAAATTA
23492 TCAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTTAATCTATAAATAAATTAA
Found at i:24017 original size:21 final size:20
Alignment explanation
Indices: 23983--24021 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23973 TATTTATATT
23983 TATAAAATAATAATAATTAG
1 TATAAAATAATAATAATTAG
*
24003 TATAATAATATTAATAATT
1 TATAA-AATAATAATAATT
24022 TGTTAATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TATAAAATAATAATAATTAG
Found at i:25988 original size:180 final size:179
Alignment explanation
Indices: 25671--26168 Score: 514
Period size: 180 Copynumber: 2.8 Consensus size: 179
25661 TGACTATTTC
* * * * *
25671 AATAATTATTTATTTCAAATCATTATAACCTTTTATTTTATCATCAAACAATTGATTCTATTCAT
1 AATAATTATCTATTTCAAATCATTATGACCTTTT-TTTTATCATAAAACAATTG-TTTTGTTCAT
* ** * ** * *
25736 ACTATTTTATTTAGAATAAAATAATACTAATTTAATAATATTTCGAAACTTAATAACCAAGAAAA
64 ACAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTCGAAAATTAATAAGAAAGAGAT
** * *
25801 TTAAAAAATAAATCTAATTGTTGAACCGGTTCAAATAGTTAAGACTCTA-T-G
129 TTAAAAAATAAATCTAATTACTGAACCAGTTCAAATAGTTAA-AAT-TATTAG
* * * *
25852 AATGATTATCTATTTCAAATCCTTATGACCTTTTCTTTTAACATAAAACAATTGTTTTGTTCGTA
1 AATAATTATCTATTTCAAATCATTATGACCTTTT-TTTTATCATAAAACAATTGTTTTGTTCATA
* * * * *
25917 CAAGCTTATTTGGATTAAAAGAATACTAATTTAATAATATTTTGAAAATTAATAAGTAAGAGATT
65 CAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTCGAAAATTAATAAGAAAGAGATT
* ** * *
25982 TAAAAAATAAATTTGTTTACTGAATCAGTTCAAATGGTTAAAATTATTAG
130 TAAAAAATAAATCTAATTACTGAACCAGTTCAAATAGTTAAAATTATTAG
* * * * * *
26032 AATAATTATCTATTTCATATCATTTTGATCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCAT
1 AATAATTATCTATTTCAAATCATTATGACCTTTTTTTTA-TCATAAAACAATTGTTT-TGTTCAT
* * * * * * * *
26097 ACAAGCTTAGTAAGAATAAATTAATACTAATTTATTAACATTTGGAAAAGTAATATGAAAGAGAT
64 ACAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTCGAAAATTAATAAGAAAGAGAT
26162 TTAAAAA
129 TTAAAAA
26169 TATTTACTTT
Statistics
Matches: 260, Mismatches: 53, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
178 2 0.01
179 7 0.03
180 139 0.53
181 112 0.43
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (179 bp):
AATAATTATCTATTTCAAATCATTATGACCTTTTTTTTATCATAAAACAATTGTTTTGTTCATAC
AAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTCGAAAATTAATAAGAAAGAGATTT
AAAAAATAAATCTAATTACTGAACCAGTTCAAATAGTTAAAATTATTAG
Found at i:27584 original size:32 final size:32
Alignment explanation
Indices: 27540--27600 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
27530 ATAATAATAG
*
27540 TTAATTATTATT-ATAACTTATAA-TAAAATAAC
1 TTAATTACTATTAATAA-TTA-AATTAAAATAAC
27572 TTAATTACTATTAATAATTAAATTAAAAT
1 TTAATTACTATTAATAATTAAATTAAAAT
27601 TTAATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 2 0.08
32 20 0.77
33 4 0.15
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (32 bp):
TTAATTACTATTAATAATTAAATTAAAATAAC
Found at i:27617 original size:29 final size:29
Alignment explanation
Indices: 27549--27634 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
27539 GTTAATTATT
*
27549 ATTATAACTTATAA-TAAA--ATAACTTA
1 ATTATAACTTATAATTAAATTATAATTTA
*
27575 ATTACT-A-TTAATAATTAAATTAAAATTTA
1 ATTA-TAACTT-ATAATTAAATTATAATTTA
27604 ATTATAACTTATAATT-AATTATAATATTA
1 ATTATAACTTATAATTAAATTATAAT-TTA
27633 AT
1 AT
27635 AGTTAATAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
25 2 0.04
26 9 0.18
27 5 0.10
28 9 0.18
29 22 0.45
30 2 0.04
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTATAACTTATAATTAAATTATAATTTA
Found at i:27864 original size:18 final size:19
Alignment explanation
Indices: 27841--27876 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27831 AATTATTATA
27841 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
27859 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
27877 ATGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:28624 original size:22 final size:21
Alignment explanation
Indices: 28583--28625 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
28573 AATTTATTAG
**
28583 TAATTTATTAATAAGTAAAAT
1 TAATTTATTAATAACAAAAAT
28604 TAATATTATTAATAACAAAAAT
1 TAAT-TTATTAATAACAAAAAT
28626 ATTTGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATTTATTAATAACAAAAAT
Found at i:28637 original size:21 final size:21
Alignment explanation
Indices: 28613--28658 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
28603 TTAATATTAT
**
28613 TAATAACAAAAATATTTGTAA
1 TAATAACAAAAATATTAATAA
* *
28634 TAATAATATAAATATTAATAA
1 TAATAACAAAAATATTAATAA
28655 TAAT
1 TAAT
28659 TATTAATAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATAACAAAAATATTAATAA
Found at i:28652 original size:18 final size:18
Alignment explanation
Indices: 28588--28658 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
28578 ATTAGTAATT
* *
28588 TATTAATAAGTAAAATTAA
1 TATTAATAA-TAATATAAA
* * *
28607 TATTATTAATAACAAAAA
1 TATTAATAATAATATAAA
28625 TATTTGTAATAATAATATAAA
1 TA--T-TAATAATAATATAAA
28646 TATTAATAATAAT
1 TATTAATAATAAT
28659 TATTAATAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 18 0.43
19 9 0.21
20 1 0.02
21 14 0.33
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (18 bp):
TATTAATAATAATATAAA
Found at i:29328 original size:16 final size:16
Alignment explanation
Indices: 29307--29374 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
29297 ATATCAAGAT
29307 AATAATAATTTATTTA
1 AATAATAATTTATTTA
*
29323 AATAATAATTCATGATT-
1 AATAATAATTTAT--TTA
*
29340 AATAAATTATTTATTTTA
1 AAT-AATAATTTA-TTTA
* *
29358 AATATTATTTTATTTA
1 AATAATAATTTATTTA
29374 A
1 A
29375 TTTTAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 17 0.41
17 11 0.27
18 12 0.29
19 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (16 bp):
AATAATAATTTATTTA
Found at i:29411 original size:22 final size:20
Alignment explanation
Indices: 29377--29418 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
29367 TTATTTAATT
29377 TTAATAATGAATTTAAAATATA
1 TTAATAATGAA-TT-AAATATA
29399 TTAATAGAT-AATTAAATATA
1 TTAATA-ATGAATTAAATATA
29419 ATACAAGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 8 0.42
23 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
TTAATAATGAATTAAATATA
Found at i:29509 original size:23 final size:23
Alignment explanation
Indices: 29483--29550 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
29473 TGCAATTACT
29483 TAAATTAAAAATAAATAATTAAG
1 TAAATTAAAAATAAATAATTAAG
* * * *
29506 TAAA-TAGATAATCATTAATTAAT
1 TAAATTA-AAAATAAATAATTAAG
* *
29529 TAAATATAAAACTAACTAATTA
1 TAAAT-TAAAAATAAATAATTA
29551 TATTATTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
22 2 0.06
23 20 0.59
24 10 0.29
25 2 0.06
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (23 bp):
TAAATTAAAAATAAATAATTAAG
Found at i:30482 original size:16 final size:16
Alignment explanation
Indices: 30458--30491 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30448 TACAATTTAT
* *
30458 TAATTATTATATATAA
1 TAATAATTATACATAA
30474 TAATAATTATACATAA
1 TAATAATTATACATAA
30490 TA
1 TA
30492 GATTACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAATTATACATAA
Done.