Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167950.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_210, 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: 50706
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
File 1 of 2
Found at i:220 original size:45 final size:43
Alignment explanation
Indices: 164--289 Score: 112
Period size: 46 Copynumber: 2.8 Consensus size: 43
154 CAAATAGAGG
164 AAAAAGATATAAAA-TATGAAAGATGAAAAATAAAATAAAAGTTAAT
1 AAAAAGATATAAAATTAT-AAAGA--AAAAATAAAA-AAAAGTTAAT
* *
210 AAAAA-ATATAAAATTATAAAGAAGAAATAAAAAAAAGTGTGAAC
1 AAAAAGATATAAAATTATAAAGAAAAAATAAAAAAAAGT-T-AAT
* ** **
254 AAAAAGATTTAAGAAAAAGCAAGAAAAAATAAAAAA
1 AAAAAGATATAA-AATTATAAAGAAAAAATAAAAAA
290 CGAAAATACA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 6 0.09
43 10 0.15
44 7 0.10
45 18 0.27
46 26 0.39
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (43 bp):
AAAAAGATATAAAATTATAAAGAAAAAATAAAAAAAAGTTAAT
Found at i:239 original size:19 final size:19
Alignment explanation
Indices: 190--241 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
180 TGAAAGATGA
190 AAAATAAAATAAAAGTTAAT
1 AAAA-AAAATAAAAGTTAAT
*
210 AAAAAATATAAAA-TT-AT
1 AAAAAAAATAAAAGTTAAT
227 AAAGAAGAAATAAAA
1 AAA-AA-AAATAAAA
242 AAAAGTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 5 0.18
18 4 0.14
19 15 0.54
20 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (19 bp):
AAAAAAAATAAAAGTTAAT
Found at i:594 original size:17 final size:17
Alignment explanation
Indices: 568--611 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
558 TTATGAAACT
568 ATAAATAAAGAAAGAAA-
1 ATAAATAAAGAAA-AAAG
*
585 ATAAAAAAAGAAAAAAG
1 ATAAATAAAGAAAAAAG
602 ATAAATAAAG
1 ATAAATAAAG
612 CACAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
ATAAATAAAGAAAAAAG
Found at i:606 original size:30 final size:29
Alignment explanation
Indices: 572--628 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
562 GAAACTATAA
572 ATAAAGAAAGAAAATAAAAAAAGAAAAAAG
1 ATAAAGAAAGAAAA-AAAAAAAGAAAAAAG
* * * *
602 ATAAATAAAGCACAAAAAAAGGAAAAA
1 ATAAAGAAAGAAAAAAAAAAAGAAAAA
629 GTAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.77, C:0.04, G:0.12, T:0.07
Consensus pattern (29 bp):
ATAAAGAAAGAAAAAAAAAAAGAAAAAAG
Found at i:2176 original size:24 final size:22
Alignment explanation
Indices: 2148--2202 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 22
2138 TTACAAGTAG
2148 AAAAAATGCAAAAAAAATAAGAAAT
1 AAAAAATGC--AAAAAATAA-AAAT
*
2173 AAAAGAATTCAAAAAATAAAAAT
1 AAAA-AATGCAAAAAATAAAAAT
2196 AAAAAAT
1 AAAAAAT
2203 TTTGAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.11
23 8 0.29
24 9 0.32
25 4 0.14
26 4 0.14
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (22 bp):
AAAAAATGCAAAAAATAAAAAT
Found at i:2186 original size:23 final size:22
Alignment explanation
Indices: 2159--2203 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
2149 AAAAATGCAA
2159 AAAAAATAAGAAATAAAAGAATTC
1 AAAAAATAA-AAATAAAA-AATTC
2183 AAAAAATAAAAATAAAAAATT
1 AAAAAATAAAAATAAAAAATT
2204 TTGAACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (22 bp):
AAAAAATAAAAATAAAAAATTC
Found at i:2479 original size:45 final size:44
Alignment explanation
Indices: 2384--2481 Score: 103
Period size: 45 Copynumber: 2.2 Consensus size: 44
2374 CAAATAGAGG
* *
2384 AAAAAGATATAAAATATGAAAGATGAAAAATAAAATTAAAGTTAA
1 AAAAAAATATAAAATATGAAAGAAGAAAAATAAAA-TAAAGTTAA
*
2429 TAAAAAATATAAAATAT-AAAGAAGAAATAA-AAAA-AAAGTCTGAA
1 AAAAAAATATAAAATATGAAAGAAGAAA-AATAAAATAAAGT-T-AA
2473 CAAAAAAAT
1 -AAAAAAAT
2482 TTAAGAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
42 5 0.11
43 1 0.02
44 15 0.33
45 24 0.53
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.19
Consensus pattern (44 bp):
AAAAAAATATAAAATATGAAAGAAGAAAAATAAAATAAAGTTAA
Found at i:2555 original size:19 final size:19
Alignment explanation
Indices: 2518--2570 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
2508 CAAAATATAT
**
2518 AAAATAAAATTTG-AGAAA
1 AAAATAAAAAATGAAGAAA
*
2536 AAAATGAAAAA-GAAGAAA
1 AAAATAAAAAATGAAGAAA
2554 AAAATAAAAAATGAAGA
1 AAAATAAAAAATGAAGA
2571 GGCAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 1 0.03
18 23 0.79
19 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAATGAAGAAA
Found at i:3215 original size:23 final size:23
Alignment explanation
Indices: 3189--3359 Score: 60
Period size: 23 Copynumber: 7.7 Consensus size: 23
3179 AAATGAAAGC
3189 ATATTATAATATTAATAAATATT
1 ATATTATAATATTAATAAATATT
* * * *
3212 ATATAAT-ATATAAATAACTATA
1 ATATTATAATATTAATAAATATT
* * *
3234 ATAATATTATTATTATTATAA-ATT
1 ATATTA-TAATATTAATA-AATATT
* * * *
3258 AGATTATTAT-TTAATTATAACAAT
1 ATATTATAATATTAA-TA-AATATT
* *
3282 -TATT-TAATTTTAATTAAT-TT
1 ATATTATAATATTAATAAATATT
*
3302 A-ATTAT-ATA-AAAT-AA-ATT
1 ATATTATAATATTAATAAATATT
* * *
3320 AGATT-TAATATTTAATTAATAAT
1 ATATTATAATA-TTAATAAATATT
3343 ATATTATAATATTAATA
1 ATATTATAATATTAATA
3360 TAACTAGTAA
Statistics
Matches: 104, Mismatches: 28, Indels: 32
0.63 0.17 0.20
Matches are distributed among these distances:
18 6 0.06
19 9 0.09
20 6 0.06
21 6 0.06
22 25 0.24
23 32 0.31
24 19 0.18
25 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATTATAATATTAATAAATATT
Found at i:3218 original size:20 final size:21
Alignment explanation
Indices: 3193--3242 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3183 GAAAGCATAT
*
3193 TATAATATTAATAAAT-ATTA
1 TATAATATTAATAAATAACTA
3213 TATAATA-T-ATAAATAACTA
1 TATAATATTAATAAATAACTA
3232 TAATAATATTA
1 T-ATAATATTA
3243 TTATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 5 0.20
20 13 0.52
21 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TATAATATTAATAAATAACTA
Found at i:3645 original size:17 final size:17
Alignment explanation
Indices: 3625--3657 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3615 ATAAATTAGT
3625 TTTAATAAT-TTAATTAA
1 TTTAA-AATATTAATTAA
3642 TTTAAAATATTAATTA
1 TTTAAAATATTAATTA
3658 GAACAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAAAATATTAATTAA
Found at i:4619 original size:16 final size:15
Alignment explanation
Indices: 4533--4625 Score: 59
Period size: 16 Copynumber: 6.1 Consensus size: 15
4523 AACTATAATA
4533 TATTATA-AATATAT
1 TATTATATAATATAT
* * *
4547 TTTTCTATAA-ATAAG
1 TATTATATAATAT-AT
*
4562 T-TTATCTAATAT-T
1 TATTATATAATATAT
*
4575 TAATTATATAATTATAA
1 T-ATTATATAA-TATAT
4592 TATTACTATAATATAT
1 TATTA-TATAATATAT
*
4608 TATTATACTAATAAAT
1 TATTATA-TAATATAT
4624 TA
1 TA
4626 GGTAATTATT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
13 1 0.02
14 13 0.22
15 15 0.25
16 25 0.42
17 6 0.10
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (15 bp):
TATTATATAATATAT
Found at i:5066 original size:13 final size:13
Alignment explanation
Indices: 5036--5100 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
5026 TTATATCAAG
*
5036 TTATATAATATAAT
1 TTATATTATAT-AT
5050 TTATATTATATAT
1 TTATATTATATAT
*
5063 TTATAATTCATATTT
1 TTAT-ATT-ATATAT
*
5078 TTAATATTAAATAGT
1 TT-ATATTATATA-T
5093 TT-TATTAT
1 TTATATTAT
5101 TTGTTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 11 0.26
14 16 0.38
15 13 0.31
16 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (13 bp):
TTATATTATATAT
Found at i:5357 original size:17 final size:18
Alignment explanation
Indices: 5331--5389 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
5321 GAGTAAATTT
*
5331 ATTTAATTATCTAT-TAA
1 ATTTATTTATCTATATAA
*
5348 ATTTATTTATCTTTATAA
1 ATTTATTTATCTATATAA
*
5366 ATTATATTATAACTAGTATAA
1 ATT-TATT-TATCTA-TATAA
5387 ATT
1 ATT
5390 AATAGTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 12 0.35
18 6 0.18
19 4 0.12
20 4 0.12
21 8 0.24
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTATTTATCTATATAA
Found at i:5693 original size:19 final size:19
Alignment explanation
Indices: 5665--5716 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
5655 TATTCAATTA
*
5665 TTAA-AATTATTTATCTAT
1 TTAATAATTATTAATCTAT
* *
5683 TTATTAATTATTAATTTAT
1 TTAATAATTATTAATCTAT
*
5702 TTAATAATTAATAAT
1 TTAATAATTATTAAT
5717 TAATACATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 3 0.11
19 25 0.89
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATAATTATTAATCTAT
Found at i:6526 original size:17 final size:17
Alignment explanation
Indices: 6504--6555 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
6494 ATAAAATTAA
6504 TATTATTATATAATATT
1 TATTATTATATAATATT
6521 TATTATATTATAATAAATATT
1 TA-T-TATTAT-AT-AATATT
*
6542 TAATATTATATAAT
1 TATTATTATATAAT
6556 TAAATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 5 0.17
18 3 0.10
19 12 0.40
20 2 0.07
21 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTATTATATAATATT
Found at i:6540 original size:26 final size:25
Alignment explanation
Indices: 6514--6564 Score: 59
Period size: 28 Copynumber: 1.9 Consensus size: 25
6504 TATTATTATA
6514 TAATATT-TATTATATTATAATAAATATT
1 TAATATTATA-TA-ATTA-AATAAATA-T
6542 TAATATTATATAATTAAATAAAT
1 TAATATTATATAATTAAATAAAT
6565 TAAATATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.32
27 4 0.18
28 9 0.41
29 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATATTATATAATTAAATAAATAT
Found at i:6632 original size:14 final size:14
Alignment explanation
Indices: 6596--6633 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6586 CATTTACTTA
6596 TTAATTATTATAAT
1 TTAATTATTATAAT
*
6610 TTAACTATTAT-AT
1 TTAATTATTATAAT
6623 TTAATTTATTA
1 TTAA-TTATTA
6634 ACATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATTATTATAAT
Found at i:7121 original size:18 final size:17
Alignment explanation
Indices: 7079--7117 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
7069 TATTATAAGG
7079 ATTTTAATTTTAATATT
1 ATTTTAATTTTAATATT
7096 ATTTTAATTATTAAT-TT
1 ATTTTAATT-TTAATATT
7113 ATTTT
1 ATTTT
7118 TAATATGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTAATTTTAATATT
Found at i:8273 original size:29 final size:27
Alignment explanation
Indices: 8232--8287 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
8222 AATATTTGTT
**
8232 TATAAATCTAATAAGTAATTTATAATTAC
1 TATAAATAAAATAA-TAA-TTATAATTAC
*
8261 TATAAATAAAATAATAATTATATTTAC
1 TATAAATAAAATAATAATTATAATTAC
8288 AAATAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 3 0.12
29 12 0.50
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (27 bp):
TATAAATAAAATAATAATTATAATTAC
Found at i:8369 original size:16 final size:16
Alignment explanation
Indices: 8344--8401 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
8334 CAATTACTAA
*
8344 ATATAGTTTATAATAT
1 ATATAATTTATAATAT
8360 ATATAATTTAATAAATATT
1 ATATAATTT-AT-AATA-T
*
8379 ATATAATATATAA-AT
1 ATATAATTTATAATAT
8394 ACTATAAT
1 A-TATAAT
8402 AATATTACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.06
16 15 0.42
17 4 0.11
18 6 0.17
19 9 0.25
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
ATATAATTTATAATAT
Found at i:8371 original size:14 final size:14
Alignment explanation
Indices: 8352--8394 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8342 AAATATAGTT
8352 TATAATATATATAA
1 TATAATATATATAA
* * *
8366 TTTAATAAATATTA
1 TATAATATATATAA
8380 TATAATATATA-AA
1 TATAATATATATAA
8393 TA
1 TA
8395 CTATAATAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAATATATATAA
Found at i:8383 original size:19 final size:17
Alignment explanation
Indices: 8355--8406 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
8345 TATAGTTTAT
*
8355 AATATATATAATTTAATA
1 AATATATATAATAT-ATA
8373 AATATTATATAATATATA
1 AATA-TATATAATATATA
8391 AATACTATAATAATAT
1 AATA-TAT-ATAATAT
8407 TACATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATATATAATATATA
Found at i:8428 original size:15 final size:16
Alignment explanation
Indices: 8400--8432 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8390 AAATACTATA
8400 ATAATATTACATTATT
1 ATAATATTACATTATT
*
8416 ATAA-ATTAGATTATT
1 ATAATATTACATTATT
8431 AT
1 AT
8433 TTAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (16 bp):
ATAATATTACATTATT
Found at i:8449 original size:35 final size:34
Alignment explanation
Indices: 8410--8475 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
8400 ATAATATTAC
*
8410 ATTATTATAA-ATTAGATTATTATTTAATTATAACA
1 ATTATTATAATATTA-ATTAAT-TTTAATTATAACA
* *
8445 ATTATTTTAATTTTAATTAATTTTAATTATA
1 ATTATTATAATATTAATTAATTTTAATTATA
8476 TAAATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 10 0.37
35 14 0.52
36 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (34 bp):
ATTATTATAATATTAATTAATTTTAATTATAACA
Found at i:8503 original size:23 final size:24
Alignment explanation
Indices: 8477--8530 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
8467 TTAATTATAT
8477 AAATAAAT-TAGATT-TAATATTTA
1 AAATAAATATAGATTATAATA-TTA
* *
8500 AAATTAATATATATTATAATATTA
1 AAATAAATATAGATTATAATATTA
8524 AATATAA
1 AA-ATAA
8531 CTAGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 7 0.28
24 10 0.40
25 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATAAATATAGATTATAATATTA
Found at i:8555 original size:25 final size:24
Alignment explanation
Indices: 8518--8578 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
8508 ATATATTATA
8518 ATATTAAATATAACTAGTAAAAAT
1 ATATTAAATATAACTAGTAAAAAT
* * *
8542 ATATTTAATAATAATTATTAAAATAT
1 ATATTAAAT-ATAACTAGTAAAA-AT
* *
8568 TTGTTAAATAT
1 ATATTAAATAT
8579 TTTGAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 8 0.28
25 13 0.45
26 8 0.28
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (24 bp):
ATATTAAATATAACTAGTAAAAAT
Found at i:9208 original size:16 final size:17
Alignment explanation
Indices: 9176--9209 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9166 TAAAAATGTC
9176 ATAATAATTCGAAATGG
1 ATAATAATTCGAAATGG
*
9193 ATAATAGTTC-AAATGG
1 ATAATAATTCGAAATGG
9209 A
1 A
9210 CATGACTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (17 bp):
ATAATAATTCGAAATGG
Found at i:10495 original size:17 final size:17
Alignment explanation
Indices: 10437--10502 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 17
10427 TATTAATATA
*
10437 AATTAA-AATAAT-TTT
1 AATTAATAATATTATTT
*
10452 AATT-TTAATATTA--T
1 AATTAATAATATTATTT
* *
10466 AATTTAATTATATTGTTT
1 AA-TTAATAATATTATTT
10484 AATTAATAATATTATTT
1 AATTAATAATATTATTT
10501 AA
1 AA
10503 ATAAAATAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
14 3 0.08
15 11 0.29
16 6 0.16
17 15 0.39
18 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTAATAATATTATTT
Found at i:10893 original size:180 final size:181
Alignment explanation
Indices: 10515--10940 Score: 445
Period size: 180 Copynumber: 2.4 Consensus size: 181
10505 AAAATAATTT
* * ** * *
10515 AAACAATTTTTTTATGACAAAACAAAAATTCATAATGATTTGAAATAGATAATTGTTTAAATGGC
1 AAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTTAAATAGT
* * * **
10580 CATAACTATTTGAATTGATTCGATAAACTGATTTATGTTTTAAATCTCTAACTTATTAATTTTTA
66 AAAAAATATTTGAATTGATTCGATAAACTGATTTATGTTTTAAATCTCTAACTTAACAATTTTTA
* *
10645 TAATATTAATAAAGTAATATTATTTTATTTCAGATAAACTTTTATGAACTG
131 TAATATTAATAAAGTAATATTATTTTATTTCAGATAAACATGTATGAACTG
* * *
10696 AAACAATTATTTTATGATAAAATATAAGGTCATAATGATTTTAAATAGATAATTGTTTAAATAGT
1 AAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTTAAATAGT
* * *
10761 AAAAAATATTTGAACTTG-TTC-AGTAAA-TAGATTT-T-TTTTCTAATTTCTTACTTAACAATT
66 AAAAAATATTTGAA-TTGATTCGA-TAAACT-GATTTATGTTTT-AAATCTCTAACTTAACAATT
* * * * * * **
10821 TTT-TGAATGTTAATAAATTAGTGTTATTTTATTT-TGAATAAGCATGTATGAGTTG
127 TTTAT-AATATTAATAAAGTAATATTATTTTATTTCAG-ATAAACATGTATGAACTG
* * * * *
10876 AAGCAATTATTTTATGATTAAACAAAAGGTCAAAACGATTTGAAATGGATAATTGTTCT-AATAG
1 AAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTT-TAAATAG
10940 T
65 T
10941 CTTAATTATT
Statistics
Matches: 203, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
179 6 0.03
180 114 0.56
181 80 0.39
182 3 0.01
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (181 bp):
AAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTTAAATAGT
AAAAAATATTTGAATTGATTCGATAAACTGATTTATGTTTTAAATCTCTAACTTAACAATTTTTA
TAATATTAATAAAGTAATATTATTTTATTTCAGATAAACATGTATGAACTG
Found at i:11006 original size:13 final size:12
Alignment explanation
Indices: 10979--11011 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
10969 AATAATTATA
10979 ATTAT-TAAATT
1 ATTATATAAATT
10990 ATTATATAAATTT
1 ATTATATAAA-TT
11003 ATTATATAA
1 ATTATATAA
11012 TAACATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATATAAATT
Found at i:11135 original size:11 final size:10
Alignment explanation
Indices: 11118--11175 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 10
11108 AATTTTTATT
11118 ATTATAATAA
1 ATTATAATAA
*
11128 ACTTATAATTAT
1 A-TTATAA-TAA
11140 ATTATAATAA
1 ATTATAATAA
11150 ATTAATAATGAA
1 ATT-ATAAT-AA
11162 ATTA-ATATAA
1 ATTATA-ATAA
11172 ATTA
1 ATTA
11176 ATTATTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 13 0.32
11 20 0.49
12 8 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (10 bp):
ATTATAATAA
Found at i:11142 original size:22 final size:22
Alignment explanation
Indices: 11094--11195 Score: 86
Period size: 22 Copynumber: 4.6 Consensus size: 22
11084 ATTTTATTAG
**
11094 TATATT-TAAT-AATTAATTTT
1 TATATTATAATAAATTAATAAT
11114 TATTATTATAATAAACTT-ATAAT
1 TA-TATTATAATAAA-TTAATAAT
11137 TATATTATAATAAATTAATAAT
1 TATATTATAATAAATTAATAAT
* * *
11159 GAAATTA-ATATAAATTAATTAT
1 TATATTATA-ATAAATTAATAAT
11181 TATAATTAATAATAA
1 TAT-ATT-ATAATAA
11196 TATAATATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.03
21 7 0.11
22 39 0.59
23 10 0.15
24 7 0.11
25 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (22 bp):
TATATTATAATAAATTAATAAT
Found at i:11638 original size:6 final size:6
Alignment explanation
Indices: 11603--11696 Score: 52
Period size: 6 Copynumber: 15.2 Consensus size: 6
11593 TAATATTTAG
** * *
11603 TATAAT TATCGT TATAAT TAATATT ATATAAT TATAAT TA-ACT GTATAAT
1 TATAAT TATAAT TATAAT T-ATAAT -TATAAT TATAAT TATAAT -TATAAT
*
11653 TAATAAAT T-TAAT TATTAAT T-TAAA T-TAAT TATAAT TATTAAT T
1 T-AT-AAT TATAAT TA-TAAT TATAAT TATAAT TATAAT TA-TAAT T
11697 TAACTAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
5 14 0.21
6 27 0.40
7 22 0.32
8 5 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
TATAAT
Found at i:11679 original size:18 final size:18
Alignment explanation
Indices: 11629--11699 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 18
11619 ATTAATATTA
11629 TATAATTAT-AA-TTAACT
1 TATAATTATAAATTTAA-T
11646 GTATAATTAATAAATTTAAT
1 -TATAATT-ATAAATTTAAT
11666 TATTAATT-TAAA-TTAAT
1 TA-TAATTATAAATTTAAT
*
11683 TATAATTATTAATTTAA
1 TATAATTATAAATTTAA
11700 CTAATTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
16 5 0.11
17 10 0.22
18 15 0.33
19 4 0.09
20 8 0.17
21 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TATAATTATAAATTTAAT
Found at i:11683 original size:17 final size:17
Alignment explanation
Indices: 11656--11712 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
11646 GTATAATTAA
11656 TAAATTTAATTATTAATT
1 TAAATTTAATTA-TAATT
11674 TAAA-TTAATTATAATT
1 TAAATTTAATTATAATT
* * *
11690 ATTAATTTAACTA-ATTT
1 -TAAATTTAATTATAATT
11707 TAAATT
1 TAAATT
11713 GTTTATATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 10 0.30
17 13 0.39
18 10 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTTAATTATAATT
Found at i:11712 original size:23 final size:23
Alignment explanation
Indices: 11658--11705 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
11648 ATAATTAATA
*
11658 AATT-TAATTATTAATTTAAATT
1 AATTATAATTATTAATTTAAACT
11680 AATTATAATTATTAATTT-AACT
1 AATTATAATTATTAATTTAAACT
11702 AATT
1 AATT
11706 TTAAATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATAATTATTAATTTAAACT
Found at i:11904 original size:23 final size:21
Alignment explanation
Indices: 11857--11909 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
11847 TTAAGTTAAC
11857 TTAAAT-ATATAAATTTATAA
1 TTAAATAATATAAATTTATAA
* *
11877 GTAAATAATATTAGAATTTATAT
1 TTAAATAATA-TA-AATTTATAA
11900 TTAAAATAAT
1 TT-AAATAAT
11910 TGATATTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 2 0.08
23 9 0.35
24 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
TTAAATAATATAAATTTATAA
Found at i:12629 original size:25 final size:25
Alignment explanation
Indices: 12584--12631 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
12574 TATTAATCAA
12584 ATATAATTAGTTAATATAATAATTT
1 ATATAATTAGTTAATATAATAATTT
* *
12609 ATATTATTA-TTATTATCAATAAT
1 ATATAATTAGTTAATAT-AATAAT
12632 AATTAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
ATATAATTAGTTAATATAATAATTT
Found at i:12690 original size:15 final size:16
Alignment explanation
Indices: 12665--12703 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
12655 TATTATTTGA
12665 AATAGTTATTAATA-TT
1 AATA-TTATTAATAGTT
12681 AATATTATTAATAGTT
1 AATATTATTAATAGTT
12697 AA-ATTAT
1 AATATTAT
12704 ATATTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
AATATTATTAATAGTT
Found at i:12698 original size:22 final size:21
Alignment explanation
Indices: 12673--12714 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
12663 GAAATAGTTA
12673 TTAATATTA-ATATTATTAATAG
1 TTAA-ATTATATATTA-TAATAG
12695 TTAAATTATATATTATAATA
1 TTAAATTATATATTATAATA
12715 AAATTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAAATTATATATTATAATAG
Found at i:12912 original size:25 final size:24
Alignment explanation
Indices: 12850--12917 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
12840 TAATTTATCA
* *
12850 TTAATTT-TATAATATTAATTAAT
1 TTAATTTATATTATAATAATTAAT
*
12873 TATAAAATTAT-TTATAATAATTATAT
1 T-T-AATTTATATTATAATAATTA-AT
*
12899 TTAATTTATATTATTATAA
1 TTAATTTATATTATAATAA
12918 GATATTAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.20
25 23 0.66
26 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTAATTTATATTATAATAATTAAT
Found at i:13124 original size:18 final size:17
Alignment explanation
Indices: 13103--13136 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13093 CATTTATTAA
*
13103 TATAATCTAATTTAATAG
1 TATAATC-AAATTAATAG
13121 TATAATCAAATTAATA
1 TATAATCAAATTAATA
13137 ATCTGATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAATCAAATTAATAG
Found at i:13225 original size:9 final size:9
Alignment explanation
Indices: 13183--13240 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
13173 ATATAACAAT
13183 TATTAATAA
1 TATTAATAA
*
13192 TA-T-ATAG
1 TATTAATAA
13199 TATTATATATA
1 TATTA-ATA-A
*
13210 AATTAATAA
1 TATTAATAA
13219 TATTAATAA
1 TATTAATAA
13228 TA-TAATTAA
1 TATTAA-TAA
13237 TATT
1 TATT
13241 TGATTGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
7 5 0.13
8 5 0.13
9 18 0.46
10 7 0.18
11 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (9 bp):
TATTAATAA
Found at i:14146 original size:20 final size:20
Alignment explanation
Indices: 14123--14176 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
14113 CATGTATATT
*
14123 ATATTATATTTA-AATATAAA
1 ATATTATAATTATAAT-TAAA
*
14143 ATATTTTAATTATAATTAAA
1 ATATTATAATTATAATTAAA
*
14163 ATAATATAAATTAT
1 ATATTAT-AATTAT
14177 TACTATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTATAATTATAATTAAA
Found at i:14386 original size:13 final size:13
Alignment explanation
Indices: 14370--14493 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
14360 TTACAAATAA
14370 ATATAATATAATT
1 ATATAATATAATT
*
14383 ATAT-A-ACAATT
1 ATATAATATAATT
**
14394 ATATGACA-ATTGTT
1 ATAT-A-ATATAATT
* *
14408 ATCTAATGTAATT
1 ATATAATATAATT
*
14421 ATA-ATATTTAATT
1 ATATA-ATATAATT
14434 ATAGTAATA-AATT
1 ATA-TAATATAATT
**
14447 ATATTCTATAATTT
1 ATATAATATAA-TT
* *
14461 AAATATTATAATT
1 ATATAATATAATT
14474 -TATAATA-AATT
1 ATATAATATAATT
14485 ATA-AATATA
1 ATATAATATA
14494 TAAATTTTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
11 17 0.21
12 14 0.17
13 31 0.38
14 19 0.23
15 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:14495 original size:25 final size:25
Alignment explanation
Indices: 14454--14510 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
14444 ATTATATTCT
14454 ATAATT-TAAATATTAT-AATTTATA
1 ATAATTATAAATATTATAAATTT-TA
14478 ATAAATTATAAATA-TATAAATTTTA
1 AT-AATTATAAATATTATAAATTTTA
14503 ATAATTAT
1 ATAATTAT
14511 TATTTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 8 0.27
25 11 0.37
26 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAATTATAAATATTATAAATTTTA
Found at i:14503 original size:41 final size:38
Alignment explanation
Indices: 14416--14516 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 38
14406 TTATCTAATG
* *
14416 TAATTATAATATT-TAATTATAGTAATAAATTATATTCTA
1 TAATT-TAATATTATAATT-TAGTAATAAATTATAATATA
14455 TAATTTAAATATTATAATTTA-TAATAAATTATAAATATA
1 TAATTT-AATATTATAATTTAGTAATAAATTAT-AATATA
*
14494 TAAATTTTAATAATTATTATTTA
1 T-AA-TTTAAT-ATTATAATTTA
14517 ATAAACCAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
38 12 0.23
39 18 0.34
40 10 0.19
41 13 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (38 bp):
TAATTTAATATTATAATTTAGTAATAAATTATAATATA
Found at i:14628 original size:22 final size:22
Alignment explanation
Indices: 14603--14657 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
14593 CACAAACTAG
14603 TTAATTAATTAGTA-TATAAATA
1 TTAATTAATTA-TAGTATAAATA
*
14625 TTAATTAATTATAGTATTAATA
1 TTAATTAATTATAGTATAAATA
* *
14647 ATAATTTATTA
1 TTAATTAATTA
14658 ATTCAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TTAATTAATTATAGTATAAATA
Found at i:15671 original size:22 final size:22
Alignment explanation
Indices: 15629--15673 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
15619 TTAATTATTG
*
15629 TTATTAATTAATATTAGTTAAT
1 TTATTAATTAACATTAGTTAAT
15651 TTATTAATTAACATTTA-TTAAT
1 TTATTAATTAACA-TTAGTTAAT
15673 T
1 T
15674 AGTAAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAATTAACATTAGTTAAT
Found at i:15782 original size:62 final size:62
Alignment explanation
Indices: 15652--15784 Score: 139
Period size: 62 Copynumber: 2.1 Consensus size: 62
15642 TTAGTTAATT
* * *
15652 TATTAATTAACATTTATTAATTAGTAAATGTAATTAATTAATTATATACTATTTGATAATAA
1 TATTAATTAACATTTATTAATTAGAAAATGTAAATAATTAATTATATACTATATGATAATAA
* * * *
15714 TTTTAATTAATATTTTATT-ATTA-AAATATTTAAATAATTAATATTTATACTATAAT-ATAA-A
1 TATTAATTAACA-TTTATTAATTAGAAA-ATGTAAATAATTAAT-TATATACTAT-ATGATAATA
15775 A
62 A
15776 TATTAATTA
1 TATTAATTA
15785 TGTTAAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
61 2 0.03
62 37 0.63
63 19 0.32
64 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (62 bp):
TATTAATTAACATTTATTAATTAGAAAATGTAAATAATTAATTATATACTATATGATAATAA
Found at i:15783 original size:31 final size:31
Alignment explanation
Indices: 15684--15784 Score: 75
Period size: 31 Copynumber: 3.3 Consensus size: 31
15674 AGTAAATGTA
* *
15684 ATTAATTAAT-TATATACTAT-TTGATAATAAT
1 ATTAATTAATATTTATACTATAAT-ATAA-AAT
* * * **
15715 TTTAATTAATATTTTATTATTAAAATATTTAA-
1 ATTAATTAATA-TTTA-TACTATAATATAAAAT
15747 A-TAATTAATATTTATACTATAATATAAAAT
1 ATTAATTAATATTTATACTATAATATAAAAT
15777 ATTAATTA
1 ATTAATTA
15785 TGTTAAATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
29 11 0.21
30 5 0.10
31 24 0.46
33 5 0.10
34 6 0.12
35 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (31 bp):
ATTAATTAATATTTATACTATAATATAAAAT
Found at i:16529 original size:23 final size:25
Alignment explanation
Indices: 16503--16561 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
16493 TTTAAATATT
16503 AAATTATATTTATTTCA-AATT-AA
1 AAATTATATTTATTTCATAATTCAA
* *
16526 AAATAATATTTATTTGATAATTCAA
1 AAATTATATTTATTTCATAATTCAA
*
16551 AAATTAAATTT
1 AAATTATATTT
16562 GTTGATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 15 0.50
24 4 0.13
25 11 0.37
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATTATATTTATTTCATAATTCAA
Found at i:16880 original size:11 final size:10
Alignment explanation
Indices: 16854--16913 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
16844 AATTAATACT
16854 ATTAT-AAT-
1 ATTATAAATA
*
16862 ATTTTAAATA
1 ATTATAAATA
16872 ACTTATAAATA
1 A-TTATAAATA
* *
16883 GTTTTAAATA
1 ATTATAAATA
*
16893 ATTTATAAATT
1 A-TTATAAATA
16904 ATTATAAATA
1 ATTATAAATA
16914 TTAATATTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
10 17 0.43
11 16 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (10 bp):
ATTATAAATA
Found at i:16889 original size:21 final size:20
Alignment explanation
Indices: 16855--16913 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
16845 ATTAATACTA
16855 TTAT-AATATTTTAAATAAC
1 TTATAAATATTTTAAATAAC
*
16874 TTATAAATAGTTTTAAATAAT
1 TTATAAATA-TTTTAAATAAC
*
16895 TTATAAATTATTATAAATA
1 TTATAAA-TATTTTAAATA
16914 TTAATATTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 25 0.71
22 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TTATAAATATTTTAAATAAC
Found at i:17174 original size:26 final size:26
Alignment explanation
Indices: 17119--17175 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
17109 TATATTTTAG
17119 ATATTAAATATAAATATATTTAAAAT
1 ATATTAAATATAAATATATTTAAAAT
*
17145 ATATCTAATTATAAA-ATATTTAACAA-
1 ATAT-TAAATATAAATATATTTAA-AAT
17171 ATATT
1 ATATT
17176 TTAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.04
26 16 0.57
27 11 0.39
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATTAAATATAAATATATTTAAAAT
Found at i:17180 original size:27 final size:27
Alignment explanation
Indices: 17122--17185 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
17112 ATTTTAGATA
*
17122 TTAAATATAAATATATTTAAAATATAT
1 TTAATTATAAATATATTTAAAATATAT
*
17149 CTAATTATAAA-ATATTTAACAA-ATATT
1 TTAATTATAAATATATTTAA-AATATA-T
*
17176 TTAATAATAA
1 TTAATTATAA
17186 TTATCAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAATTATAAATATATTTAAAATATAT
Found at i:17284 original size:21 final size:21
Alignment explanation
Indices: 17255--17296 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17245 TTAAGTCTCA
*
17255 TTTATTTATATAA-TTAAAATT
1 TTTACTTAT-TAATTTAAAATT
17276 TTTACTTATTAATTTAAAATT
1 TTTACTTATTAATTTAAAATT
17297 AAAATAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTACTTATTAATTTAAAATT
Found at i:17351 original size:22 final size:23
Alignment explanation
Indices: 17310--17363 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
17300 ATAATTGTTA
*
17310 TAATTA-AAT-AATAATTTAATT
1 TAATTATAATAAATAATATAATT
17331 TAATTATAATAAATAA-ATAATT
1 TAATTATAATAAATAATATAATT
* *
17353 AAAATATAATA
1 TAATTATAATA
17364 TTAATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 17 0.61
23 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTATAATAAATAATATAATT
Found at i:17692 original size:14 final size:14
Alignment explanation
Indices: 17669--17705 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17659 TTATCCAAAA
17669 TAAA-AATAATTAT
1 TAAATAATAATTAT
*
17682 TTAATAATAATTAT
1 TAAATAATAATTAT
17696 TAAAT-ATAAT
1 TAAATAATAAT
17706 AAACATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATAATTAT
Found at i:19498 original size:18 final size:18
Alignment explanation
Indices: 19477--19562 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
19467 AATATATTTT
*
19477 TTAATATTATTAATTATA
1 TTAATATTATTAATAATA
19495 TTAATATT-TTAAATAATA
1 TTAATATTATT-AATAATA
*
19513 TGT-ATAATATTAATAATA
1 T-TAATATTATTAATAATA
*
19531 TT-ATA--ATTAATTAAAA
1 TTAATATTATTAA-TAATA
*
19547 TTAATAATATATAATA
1 TTAATATTAT-TAATA
19563 TCAAAATGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
15 5 0.09
16 6 0.11
17 9 0.16
18 27 0.47
19 7 0.12
20 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
TTAATATTATTAATAATA
Found at i:19568 original size:22 final size:25
Alignment explanation
Indices: 19521--19569 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
19511 TATGTATAAT
*
19521 ATTAATAATATTATAATTAATTAAA
1 ATTAATAATATTATAATTAATCAAA
19546 ATTAATAATA-TATAA-T-ATCAAA
1 ATTAATAATATTATAATTAATCAAA
19568 AT
1 AT
19570 GATTTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 1 0.04
24 5 0.22
25 10 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTAATAATATTATAATTAATCAAA
Found at i:20198 original size:22 final size:23
Alignment explanation
Indices: 20127--20198 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 23
20117 GAATGTTAAT
20127 AAAATTATATTATATTATT-TCATC
1 AAAATTATATTA-ATTATTAT-ATC
20151 AAAATTATTATATAATTAAATATATATC
1 AAAATTA-TAT-TAATT--AT-TATATC
20179 AAAATTATATTAATT-TTATA
1 AAAATTATATTAATTATTATA
20199 ATATATTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
22 4 0.10
23 1 0.02
24 7 0.17
25 6 0.14
26 7 0.17
27 5 0.12
28 11 0.26
29 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATTATATTAATTATTATATC
Found at i:21082 original size:27 final size:27
Alignment explanation
Indices: 21026--21102 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
21016 ATAGATCTAA
* *
21026 AAAATAAATATTTAAAATATTTAAATT
1 AAAATAAATATTTAAAATAATTAAAAT
* *
21053 AAAATCAATA-TTAAGATAATTAATAAT
1 AAAATAAATATTTAAAATAATTAA-AAT
* *
21080 AAATTATAAGTATTTATAATAAT
1 AAA--ATAAATATTTAAAATAAT
21103 AATAATTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
26 11 0.29
27 14 0.37
29 5 0.13
30 8 0.21
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (27 bp):
AAAATAAATATTTAAAATAATTAAAAT
Found at i:21238 original size:16 final size:15
Alignment explanation
Indices: 21219--21261 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
21209 TTATTAATTA
21219 TAAATTAATTGATAAT
1 TAAATTAATT-ATAAT
*
21235 TAAATTTATT-TAAT
1 TAAATTAATTATAAT
21249 T-AATTAATTATAA
1 TAAATTAATTATAA
21262 CTGTATAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 7 0.29
14 8 0.33
16 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TAAATTAATTATAAT
Found at i:21504 original size:19 final size:19
Alignment explanation
Indices: 21480--21549 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
21470 ATTTATAATT
21480 ATTTATTAATTATGAATAA
1 ATTTATTAATTATGAATAA
****
21499 ATTTATTAGATTGCCTATAA
1 ATTTATTA-ATTATGAATAA
21519 ATTTATATAATTATGTAATATA
1 ATTTAT-TAATTATG-AATA-A
21541 ATTATATTA
1 ATT-TATTA
21550 CATAACAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 8 0.21
20 16 0.42
21 5 0.13
22 6 0.16
23 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (19 bp):
ATTTATTAATTATGAATAA
Found at i:21596 original size:18 final size:18
Alignment explanation
Indices: 21557--21598 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
21547 TTACATAACA
* *
21557 AATAGTTTATTTTTTATT
1 AATAATTTATTTTTAATT
21575 -ATAATTTATTTTTAATT
1 AATAATTTATTTTTAATT
21592 AATAATT
1 AATAATT
21599 AATATTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATAATTTATTTTTAATT
Found at i:22534 original size:19 final size:19
Alignment explanation
Indices: 22471--22541 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
22461 TTATAGTTAC
* *
22471 ATTAATTTAATTAATATTT
1 ATTAATTTAATTAAAATTA
* * *
22490 ATTAATTAAAGATAATGAATAGA
1 ATTAATTTAA-TTAA--AAT-TA
22513 ATTAATTTAATTAAAATTA
1 ATTAATTTAATTAAAATTA
*
22532 ATTAAATTAA
1 ATTAATTTAA
22542 ATGTATTGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
19 19 0.49
20 6 0.15
22 5 0.13
23 9 0.23
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
ATTAATTTAATTAAAATTA
Found at i:22732 original size:16 final size:15
Alignment explanation
Indices: 22684--22733 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
22674 TTATTAAATC
*
22684 TTATAATATATTAAA
1 TTATAATATATTTAA
22699 TTAT-ATAT-TCATTAA
1 TTATAATATAT--TTAA
22714 TTATAATATATTTATA
1 TTATAATATATTTA-A
22730 TTAT
1 TTAT
22734 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 14 0.48
16 9 0.31
17 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAATATATTTAA
Found at i:24475 original size:42 final size:40
Alignment explanation
Indices: 24393--24494 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 40
24383 TAATAATTTA
24393 AATTACTTATTAATAATT-ATTATATATTAATAATTTTTAATT
1 AATT-CTTATTAAT-ATTAATTATATATTAATAATTTTTAA-T
*
24435 AATTGTT-TTAATATTAATTATATA-TAATAAGATTTATTAAT
1 AATTCTTATTAATATTAATTATATATTAAT-A-ATTT-TTAAT
*
24476 AATTCTTATGAATATTAAT
1 AATTCTTATTAATATTAAT
24495 AATTTCAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
39 7 0.13
40 14 0.27
41 13 0.25
42 18 0.35
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (40 bp):
AATTCTTATTAATATTAATTATATATTAATAATTTTTAAT
Found at i:25306 original size:7 final size:7
Alignment explanation
Indices: 25294--25499 Score: 64
Period size: 7 Copynumber: 30.1 Consensus size: 7
25284 AACTATTTAT
25294 ATTATTA
1 ATTATTA
25301 ATTATTA
1 ATTATTA
*
25308 ATAATTAA
1 ATTATT-A
25316 ATGT-TTA
1 AT-TATTA
*
25323 TTTAATT-
1 ATT-ATTA
*
25330 ATTAATA
1 ATTATTA
25337 ATTATTA
1 ATTATTA
*
25344 ATAATTA
1 ATTATTA
25351 ATTA-T-
1 ATTATTA
25356 ATT-TT-
1 ATTATTA
*
25361 ATTTTTA
1 ATTATTA
* *
25368 A-CA-AA
1 ATTATTA
*
25373 ACTATTTA
1 ATTA-TTA
25381 TATTATTA
1 -ATTATTA
*
25389 ATAATT-
1 ATTATTA
*
25395 ATTAATA
1 ATTATTA
25402 ATTATTA
1 ATTATTA
* *
25409 A-CA-AA
1 ATTATTA
*
25414 ACTATTTA
1 ATTA-TTA
25422 TATTATTA
1 -ATTATTA
25430 ATTATTA
1 ATTATTA
*
25437 ATAATTA
1 ATTATTA
25444 A-TA-TA
1 ATTATTA
25449 ATTAATT-
1 ATT-ATTA
*
25456 ATTAATA
1 ATTATTA
25463 ATTATTA
1 ATTATTA
*
25470 ATAATTAA
1 ATTATT-A
25478 ATCT-TTA
1 AT-TATTA
25485 ATTATTA
1 ATTATTA
*
25492 ATAATTA
1 ATTATTA
25499 A
1 A
25500 AGTTTAATAT
Statistics
Matches: 145, Mismatches: 30, Indels: 48
0.65 0.13 0.22
Matches are distributed among these distances:
5 14 0.10
6 18 0.12
7 86 0.59
8 21 0.14
9 6 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.50
Consensus pattern (7 bp):
ATTATTA
Found at i:25312 original size:10 final size:10
Alignment explanation
Indices: 25293--25498 Score: 114
Period size: 10 Copynumber: 21.2 Consensus size: 10
25283 AAACTATTTA
*
25293 TATTATTAAT
1 TATTAATAAT
25303 TATTAATAAT
1 TATTAATAAT
**
25313 TA--AATGTT
1 TATTAATAAT
25321 TATT--TAAT
1 TATTAATAAT
25329 TATTAATAAT
1 TATTAATAAT
25339 TATTAATAAT
1 TATTAATAAT
25349 TAATT-AT-AT
1 T-ATTAATAAT
**
25358 T-TT-ATTTT
1 TATTAATAAT
** *
25366 TAACAA-AAC
1 TATTAATAAT
*
25375 TATTTAT-AT
1 TATTAATAAT
25384 TATTAATAAT
1 TATTAATAAT
25394 TATTAATAAT
1 TATTAATAAT
*
25404 TATTAACAA-
1 TATTAATAAT
* * * *
25413 AACTATTTA-
1 TATTAATAAT
*
25422 TATTATTAAT
1 TATTAATAAT
25432 TATTAATAAT
1 TATTAATAAT
25442 TAATATAATTAAT
1 T-AT-TAA-TAAT
25455 TATTAATAAT
1 TATTAATAAT
25465 TATTAATAAT
1 TATTAATAAT
*
25475 TAAATCT-TTAAT
1 T--AT-TAATAAT
25487 TATTAATAAT
1 TATTAATAAT
25497 TA
1 TA
25499 AAGTTTAATA
Statistics
Matches: 150, Mismatches: 28, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
7 4 0.03
8 14 0.09
9 24 0.16
10 82 0.55
11 8 0.05
12 12 0.08
13 6 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTAATAAT
Found at i:25389 original size:21 final size:21
Alignment explanation
Indices: 25355--25430 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
25345 TAATTAATTA
*
25355 TATTT-TATTTTTAACAAAAC
1 TATTTATATTATTAACAAAAC
* *
25375 TATTTATATTATT-A-ATAAT
1 TATTTATATTATTAACAAAAC
*
25394 TATTAATAATTATTAACAAAAC
1 TATTTAT-ATTATTAACAAAAC
25416 TATTTATATTATTAA
1 TATTTATATTATTAA
25431 TTATTAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.20
20 12 0.27
21 15 0.33
22 9 0.20
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTATATTATTAACAAAAC
Found at i:25447 original size:23 final size:23
Alignment explanation
Indices: 25335--25494 Score: 89
Period size: 23 Copynumber: 6.8 Consensus size: 23
25325 TAATTATTAA
*
25335 TAATTATTAATAATTAATTATATT
1 TAATTATTAATAATTAA-TATAAT
* * *
25359 TTATTTTTAACAA--AACTAT--T
1 TAATTATTAATAATTAA-TATAAT
*
25379 TATATTATTAATAATTATTAATAAT
1 TA-ATTATTAATAATTAAT-ATAAT
** * * *
25404 T-ATTAACAAAACTATTTATATTAT
1 TAATTATTAATA--ATTAATATAAT
25428 TAATTATTAATAATTAATATAAT
1 TAATTATTAATAATTAATATAAT
*
25451 TAATTATTAATAATTATTAATAAT
1 TAATTATTAATAATTAAT-ATAAT
*
25475 TAAATCT-TTAATTATTAATA
1 T-AAT-TATTAATAATTAATA
25495 ATTAAAGTTT
Statistics
Matches: 102, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
20 2 0.02
21 9 0.09
22 6 0.06
23 36 0.35
24 22 0.22
25 26 0.25
26 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATTATTAATAATTAATATAAT
Found at i:25919 original size:21 final size:21
Alignment explanation
Indices: 25886--25960 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
25876 TATATTATTA
*
25886 ATTT-TATTTTTAACAAAACT
1 ATTTATATTATTAACAAAACT
* *
25906 ATTTATATTATT-A-ATAATT
1 ATTTATATTATTAACAAAACT
*
25925 ATTAATAATTATTAACAAAACT
1 ATTTAT-ATTATTAACAAAACT
25947 ATTTATATTATTAA
1 ATTTATATTATTAA
25961 TTATTAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.20
20 11 0.25
21 15 0.34
22 9 0.20
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTATATTATTAACAAAACT
Found at i:25927 original size:10 final size:10
Alignment explanation
Indices: 25912--26029 Score: 89
Period size: 10 Copynumber: 11.4 Consensus size: 10
25902 AACTATTTAT
25912 ATTATTAATA
1 ATTATTAATA
25922 ATTATTAATA
1 ATTATTAATA
*
25932 ATTATTAACAAA
1 ATTATT-A-ATA
* *
25944 ACTATTTAT-
1 ATTATTAATA
*
25953 ATTATTAATT
1 ATTATTAATA
*
25963 ATTAATAATTA
1 ATTATTAA-TA
*
25974 A-TAATAATTA
1 ATTATTAA-TA
25984 ATTATTAATA
1 ATTATTAATA
25994 ATTATTAATA
1 ATTATTAATA
*
26004 ATTAAATCT-TTA
1 ATT--AT-TAATA
26016 ATTATTAATA
1 ATTATTAATA
26026 ATTA
1 ATTA
26030 AAGTTTAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
9 8 0.09
10 57 0.65
11 8 0.09
12 14 0.16
13 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTATTAATA
Found at i:25944 original size:41 final size:41
Alignment explanation
Indices: 25895--26007 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
25885 AATTTTATTT
25895 TTAACAAAACTATTTATATTATTAATAATTATTAATAATTA
1 TTAACAAAACTATTTATATTATTAATAATTATTAATAATTA
25936 TTAACAAAACTATTTATATTA-T--TAATTATTAATAATTA
1 TTAACAAAACTATTTATATTATTAATAATTATTAATAATTA
* * * *
25974 ATAATAATTAATTATTAATAATTATTAATAATTA
1 TTAACAA--AACTATTTAT-ATTATTAATAATTA
26008 AATCTTTAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
38 21 0.34
40 9 0.15
41 25 0.40
42 1 0.02
44 6 0.10
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.47
Consensus pattern (41 bp):
TTAACAAAACTATTTATATTATTAATAATTATTAATAATTA
Found at i:25965 original size:7 final size:7
Alignment explanation
Indices: 25953--26030 Score: 63
Period size: 7 Copynumber: 11.1 Consensus size: 7
25943 AACTATTTAT
25953 ATTATTA
1 ATTATTA
25960 ATTATTA
1 ATTATTA
*
25967 ATAATTA
1 ATTATTA
*
25974 A-TAATA
1 ATTATTA
25980 ATTAATT-
1 ATT-ATTA
*
25987 ATTAATA
1 ATTATTA
25994 ATTATTA
1 ATTATTA
*
26001 ATAATTAA
1 ATTATT-A
26009 ATCT-TTA
1 AT-TATTA
26016 ATTATTA
1 ATTATTA
*
26023 ATAATTA
1 ATTATTA
26030 A
1 A
26031 AGTTTAATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
6 7 0.12
7 42 0.75
8 7 0.12
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (7 bp):
ATTATTA
Found at i:25965 original size:38 final size:38
Alignment explanation
Indices: 25872--25973 Score: 142
Period size: 41 Copynumber: 2.7 Consensus size: 38
25862 GTATAAATTT
25872 TATTTATATTATTAATT-TT-AT--TT-TTAACAAAAC
1 TATTTATATTATTAATTATTAATAATTATTAACAAAAC
25905 TATTTATATTATTAATAATTATTAATAATTATTAACAAAAC
1 TATTTATATTA-T--TAATTATTAATAATTATTAACAAAAC
25946 TATTTATATTATTAATTATTAATAATTA
1 TATTTATATTATTAATTATTAATAATTA
25974 ATAATAATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
33 11 0.18
34 1 0.02
36 5 0.08
37 2 0.03
38 18 0.30
40 3 0.05
41 21 0.34
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (38 bp):
TATTTATATTATTAATTATTAATAATTATTAACAAAAC
Found at i:26379 original size:180 final size:177
Alignment explanation
Indices: 26112--26966 Score: 682
Period size: 180 Copynumber: 4.8 Consensus size: 177
26102 TAATTGTTCA
* ** * * * *
26112 AATAGTCATAACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTA
1 AATAGTCTTAACTATTTGAAC-TGTTCAGTAAACATATTTA-TTTTTTAAATCT-CTTCTTATTA
*
26177 ATCTTTCAAAA-GTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAA
63 AT-TTTCAAAATATTAATAAATTAGTATTATTTT-TATTGAATAAGCTTGTATGAACTGAAACAA
* *
26241 TTATTTTATGATTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTCT
126 TTGTTTTATGACTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATT-T
* * *
26294 AATAATCTTAACTATTTGAACTGATCAGTAAACACATTTATTTTTTAAATCTCTTACTTATTAAT
1 AATAGTCTTAACTATTTGAACTGTTCAGTAAACATATTTATTTTTTAAATCTCTT-CTTATTAAT
* * * ** *
26359 TTTCAAAATATTATTAAATTAGTATTATTTTTATCTGAATCAGCTTATATGATA-AAAAATAATT
65 TTTCAAAATATTAATAAATTAGTATTATTTTTAT-TGAATAAGCTTGTATGA-ACTGAAACAATT
* * * * * * * * * *
26423 ATTTTATGACAAAAC-AAAGATCATAACGACTTGAGATTAATATTTGTTT
128 GTTTTATGACTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTT
* * * * * *
26472 AAATACT-TATAACTATTAGAATTGCTT-TG-AAAAATAGCTTTAGTTTTTAAATCTCTTGCTTA
1 -AATAGTCT-TAACTATTTGAACTG-TTCAGTAAACATA--TTTATTTTTTAAATCTCTT-CTTA
* ** * * * * * **
26534 ATAATTTTTGAAATATTAATAAAGTAGTATTA-TTTTATTTTAGATAAGTTTTTATTAACCAAAA
60 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTA-TTGA-ATAAGCTTGTATGAACTGAAA
** * * * *
26598 CAATTGTTTTATGAC--AACAAAATCTCAAAATAATTTTAAATAGATAATTATTT
123 CAATTGTTTTATGACTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTT
* * * * *
26651 AAATAGTCATATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAATCTCTTGTT-TTA
1 -AATAGTCTTAACTATTTG-AACTGTTCAGTAAACATATTTA-TTTTTTAAATCTCTTCTTATTA
* * * *
26715 ATTTTTC-GAATGTTAATAAATTAGTATTA-TTTTATTCCAAATAAGCTTGTATGAACTGAAATA
63 A-TTTTCAAAATATTAATAAATTAGTATTATTTTTATT--GAATAAGCTTGTATGAACTGAAACA
*
26778 ATTGTTTTATGACTAAACAAAAGGAT-AGAATGATTTGAAATAGATAATTATTAT
125 ATTGTTTTATGACTAAACAAAAGG-TCAGAATGATTTGAAATAAATAATTATT-T
* * *
26832 GATAGTCTTAACTATTTGAACTAGTTCGGCT-ACCATATTTATTTTTTAAA--TC-TCTTATTAA
1 AATAGTCTTAACTATTTGAACT-GTTCAG-TAAACATATTTATTTTTTAAATCTCTTCTTATTAA
* * * * * * **
26893 TTTTTAAAATACTATTAAATTAATATCATTTTAATCTGAATAAGCTTGTATGAAAGGAAACAATT
64 TTTTCAAAATATTAATAAATTAGTATTATTTTTAT-TGAATAAGCTTGTATGAACTGAAACAATT
*
26958 GTTGTATGA
128 GTTTTATGA
26967 AAAAATAAAG
Statistics
Matches: 535, Mismatches: 107, Indels: 67
0.75 0.15 0.09
Matches are distributed among these distances:
176 7 0.01
177 56 0.10
178 72 0.13
179 127 0.24
180 230 0.43
181 24 0.04
182 19 0.04
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (177 bp):
AATAGTCTTAACTATTTGAACTGTTCAGTAAACATATTTATTTTTTAAATCTCTTCTTATTAATT
TTCAAAATATTAATAAATTAGTATTATTTTTATTGAATAAGCTTGTATGAACTGAAACAATTGTT
TTATGACTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTT
Found at i:26779 original size:358 final size:360
Alignment explanation
Indices: 26149--26798 Score: 798
Period size: 358 Copynumber: 1.8 Consensus size: 360
26139 GGTAAACAAA
* * *
26149 TTTAGTTTTTCAAATATCCTGCTTATTAATCTTTCAAAAGTTAATAAATTAGTATTATTTTCTAT
1 TTTAGTTTTTCAAATATCCTGCTTAATAATCTTTCAAAAGTTAATAAAGTAGTATTATTTTATAT
** * * *
26214 TGAATAAGCTTGTATGAACTGAAACAATTATTTTATGATTAAACAAAAGGTCAGAATGATTTGAA
66 TGAATAAGCTTGTATGAACCAAAACAATTATTTTATGA-TAAACAAAAGCTCAAAATAATTTGAA
*
26279 ATAAATAATTATTCTAATAATCTTAACTATTTGAACTGATCAGTAAACACATTTATTTTTTAAAT
130 ATAAATAATTATTCTAATAATCATAACTATTTGAACTGATCAGTAAACACATTTATTTTTTAAAT
* ** *
26344 CTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTTATCTGAATCAGCTTATAT
195 CTCTTACTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCCAAATAAGCTTATAT
26409 GATAAAAAATAATTATTTTATGACAAAACAAAGATCATAACGACTTGAGATTAATATTTGTTTAA
260 GATAAAAAATAATTATTTTATGACAAAACAAAGATCATAACGACTTGAGATTAATATTTGTTTAA
26474 ATACTTATAACTATTAGAATTGCTTTGAAAAATAGC
325 ATACTTATAACTATTAGAATTGCTTTGAAAAATAGC
* * * *
26510 TTTAGTTTTT-AAATCTCTTGCTTAATAATTTTTGAAATA-TTAATAAAGTAGTATTATTTTAT-
1 TTTAGTTTTTCAAATATCCTGCTTAATAATCTTTCAAA-AGTTAATAAAGTAGTATTATTTTATA
* * * * * * * *
26572 TTTAGATAAGTTTTTATTAACCAAAACAATTGTTTTATGA-CAACAAAATCTCAAAATAATTTTA
65 TTGA-ATAAGCTTGTATGAACCAAAACAATTATTTTATGATAAACAAAAGCTCAAAATAATTTGA
* * * * * *
26636 AATAGATAATTATT-TAAATAGTCATATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTT
129 AATAAATAATTATTCT-AATAATCATAACTATTTG-AACTGATCAGTAAACACATTTA-TTTTTT
* * *
26700 AAATCTCTT-GTT-TTAATTTTTC-GAATGTTAATAAATTAGTATTA-TTTTATTCCAAATAAGC
191 AAATCTCTTACTTATTAA-TTTTCAAAATATTAATAAATTAGTATTATTTTTA-TCCAAATAAGC
* ** * *
26761 TTGTATGA-ACTGAAATAATTGTTTTATGACTAAACAAA
254 TTATATGATA-AAAAATAATTATTTTATGACAAAACAAA
26799 AGGATAGAAT
Statistics
Matches: 242, Mismatches: 39, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
357 7 0.03
358 108 0.45
359 29 0.12
360 87 0.36
361 11 0.05
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (360 bp):
TTTAGTTTTTCAAATATCCTGCTTAATAATCTTTCAAAAGTTAATAAAGTAGTATTATTTTATAT
TGAATAAGCTTGTATGAACCAAAACAATTATTTTATGATAAACAAAAGCTCAAAATAATTTGAAA
TAAATAATTATTCTAATAATCATAACTATTTGAACTGATCAGTAAACACATTTATTTTTTAAATC
TCTTACTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCCAAATAAGCTTATATG
ATAAAAAATAATTATTTTATGACAAAACAAAGATCATAACGACTTGAGATTAATATTTGTTTAAA
TACTTATAACTATTAGAATTGCTTTGAAAAATAGC
Found at i:27465 original size:20 final size:21
Alignment explanation
Indices: 27429--27472 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
27419 TTTAATATAG
*
27429 TTTAATTAATATTATAA-TTA
1 TTTAATTAATATAATAACTTA
27449 TTTAATTAA-ATAAATAACTTA
1 TTTAATTAATAT-AATAACTTA
27470 TTT
1 TTT
27473 TTTGTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATATAATAACTTA
Found at i:27972 original size:16 final size:15
Alignment explanation
Indices: 27947--27990 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
27937 CACGTAAAAT
*
27947 AATAAGAAAAAATATA
1 AATAATAAAAAATA-A
*
27963 AATAATAAAATATAA
1 AATAATAAAAAATAA
27978 AAT-ATAAAAAATA
1 AATAATAAAAAATA
27991 CCAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.36
15 4 0.16
16 12 0.48
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
AATAATAAAAAATAA
Found at i:29140 original size:43 final size:43
Alignment explanation
Indices: 29087--29255 Score: 182
Period size: 43 Copynumber: 3.9 Consensus size: 43
29077 ATCCATATTT
* * *
29087 AAAGATTCTCATTTGAATTTTGGAGATTCATATCCAAAAGTTC
1 AAAGCTTCTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
* *
29130 AAAGCTTCTCATTCAAGTTAAATTTGG-GGTTCACATCCAAAAAGTT-
1 AAAGCTTCTCATTC--G--AATTTTGGAGATTCACATCC-AAAAGTTC
* *
29176 TAAGCTTTTTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
1 AAAGC-TTCTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
* *
29220 AAAGCTTCTCATTCG-AGTTTGAAGATTCACATCCAA
1 AAAGCTTCTCATTCGAATTTTGGAGATTCACATCCAA
29256 TAAATTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
42 19 0.18
43 35 0.33
44 14 0.13
45 2 0.02
46 13 0.12
47 22 0.21
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (43 bp):
AAAGCTTCTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
Found at i:29328 original size:22 final size:22
Alignment explanation
Indices: 29277--29410 Score: 130
Period size: 22 Copynumber: 6.0 Consensus size: 22
29267 ATTTCACATC
*
29277 TCAAAAATTCTCATTTGAA-ACT
1 TCAAAGATTCTCATTTGAAGA-T
29299 T-AAAGATTCTCATTTGAAGAT
1 TCAAAGATTCTCATTTGAAGAT
* * *
29320 TCAAAGATTTTCATTTGAGGAC
1 TCAAAGATTCTCATTTGAAGAT
* *
29342 TCAAAAATTCTCATTTGAGGATT
1 TCAAAGATTCTCATTTGAAGA-T
* *
29365 TCTTAAAGATTCTCATTT-ATGAC
1 TC--AAAGATTCTCATTTGAAGAT
*
29388 TCAAAGATTTTCATTTGAAGAT
1 TCAAAGATTCTCATTTGAAGAT
29410 T
1 T
29411 TATTAATTAT
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
21 31 0.33
22 42 0.45
23 4 0.04
24 3 0.03
25 13 0.14
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAGAT
Found at i:29402 original size:46 final size:46
Alignment explanation
Indices: 29283--29416 Score: 159
Period size: 46 Copynumber: 3.0 Consensus size: 46
29273 CATCTCAAAA
* *
29283 ATTCTCATTTGAAACTTAAAGATTCTCATTTGAAGA-TTC--AAAG
1 ATTCTCATTTGAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAG
* * *
29326 ATTTTCATTTGAGGACTCAAAAATTCTCATTTGAGGATTTCTTAAAG
1 ATTCTCATTTGA-GACTCAAAGATTCTCATTTGAAGATTTCTTAAAG
* *
29373 ATTCTCATTT-ATGACTCAAAGATTTTCATTTGAAGATTTATTAA
1 ATTCTCATTTGA-GACTCAAAGATTCTCATTTGAAGATTTCTTAA
29417 TTATATTTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
43 11 0.14
44 20 0.26
45 3 0.04
46 29 0.38
47 13 0.17
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (46 bp):
ATTCTCATTTGAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAG
Found at i:30476 original size:15 final size:16
Alignment explanation
Indices: 30456--30498 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
30446 AATTATATAA
30456 TATTATTATAA-AACT
1 TATTATTATAATAACT
*
30471 TATTATTTTAATAACT
1 TATTATTATAATAACT
30487 TA-TATTA-AATAA
1 TATTATTATAATAA
30499 TATTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTATTATAATAACT
Found at i:30490 original size:38 final size:38
Alignment explanation
Indices: 30412--30491 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
30402 ATTAATTTAA
** *
30412 ATATAATATTATAACTATTACTTCTTAGTTTATAAATT
1 ATATAATATTATAACTAAAACTTATTAGTTTATAAATT
* * *
30450 ATATAATATTATTA-TAAAACTTATTATTTTAATAACTT
1 ATATAATATTATAACTAAAACTTATTAGTTT-ATAAATT
30488 ATAT
1 ATAT
30492 TAAATAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 12 0.34
38 23 0.66
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.50
Consensus pattern (38 bp):
ATATAATATTATAACTAAAACTTATTAGTTTATAAATT
Found at i:30759 original size:9 final size:10
Alignment explanation
Indices: 30745--30777 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
30735 TAAACTAAAG
30745 TTATAATTA-
1 TTATAATTAT
30754 TTATAATTAT
1 TTATAATTAT
30764 TTATAA-TAT
1 TTATAATTAT
30773 TTATA
1 TTATA
30778 TATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATAATTAT
Found at i:30975 original size:19 final size:18
Alignment explanation
Indices: 30953--30991 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
30943 TAAAATACTA
*
30953 TAATATAGTATCTTCTTAT
1 TAATATAGTAT-TTATTAT
30972 TAATATAGTATTTATTAT
1 TAATATAGTATTTATTAT
30990 TA
1 TA
30992 CACTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
TAATATAGTATTTATTAT
Found at i:31119 original size:15 final size:15
Alignment explanation
Indices: 31079--31121 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
31069 TTAAGATAAT
*
31079 TATATTATTTA-TAA
1 TATATTATTAATTAA
31093 TATATT-TATAATTAA
1 TATATTAT-TAATTAA
31108 TATATTATTAATTA
1 TATATTATTAATTA
31122 TAGTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 8 0.32
15 15 0.60
16 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTATTAATTAA
Found at i:31231 original size:13 final size:12
Alignment explanation
Indices: 31166--31251 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 12
31156 ATTTGAAATA
31166 ATATTA-ATAAT
1 ATATTATATAAT
*
31177 TTATTTAATATAAT
1 ATA-TT-ATATAAT
31191 A-A-T-TATAAT
1 ATATTATATAAT
* *
31200 ATACTATTTAA-
1 ATATTATATAAT
31211 AT-TTATATAAT
1 ATATTATATAAT
31222 ATAATTATATGAAT
1 AT-ATTATAT-AAT
31236 ATATTA-ATAAT
1 ATATTATATAAT
31247 -TATTA
1 ATATTA
31252 AATTAATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
9 7 0.12
10 12 0.20
11 11 0.18
12 8 0.13
13 12 0.20
14 10 0.17
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
ATATTATATAAT
Found at i:31339 original size:22 final size:20
Alignment explanation
Indices: 31294--31331 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31284 ATTAAGATAT
*
31294 ATAAATTTTTAAGTATATTA
1 ATAAAGTTTTAAGTATATTA
31314 ATAAAGTTTTAAGTATAT
1 ATAAAGTTTTAAGTATAT
31332 ATACATAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
ATAAAGTTTTAAGTATATTA
Found at i:31495 original size:24 final size:23
Alignment explanation
Indices: 31446--31500 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
31436 TAAAATTATG
*
31446 TATATTAATAAATATTTAAATAA
1 TATATTAATAAATAGTTAAATAA
*
31469 TATACTTAAT-AATAGTT-AATAT
1 TATA-TTAATAAATAGTTAAATAA
*
31491 TATATAAATA
1 TATATTAATA
31501 TAATTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
23 10 0.37
24 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TATATTAATAAATAGTTAAATAA
Found at i:31678 original size:18 final size:17
Alignment explanation
Indices: 31653--31686 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31643 TGACAAAATA
31653 AAATGTTATAATTATTC
1 AAATGTTATAATTATTC
*
31670 AAATAGTTATGATTATT
1 AAAT-GTTATAATTATT
31687 TAATCTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (17 bp):
AAATGTTATAATTATTC
Found at i:32382 original size:19 final size:18
Alignment explanation
Indices: 32350--32388 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
32340 ACGTTATTTT
32350 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
*
32368 ATTAAAATATTAATTATTA
1 ATTAAAA-ATAAATTATTA
32387 AT
1 AT
32389 ATTAATAAGT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:32704 original size:27 final size:25
Alignment explanation
Indices: 32669--32719 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
32659 GGATAACAAA
32669 ATTACTAATATTATAAAAATATTAATT
1 ATTACTAATATTAT--AAATATTAATT
*
32696 ATTAGTAATATTATAAATATTAAT
1 ATTACTAATATTATAAATATTAAT
32720 AAATTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
27 13 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTACTAATATTATAAATATTAATT
Found at i:32833 original size:19 final size:20
Alignment explanation
Indices: 32802--32840 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
32792 TTAAACTGTT
32802 AATAATAAATAATCA-TAAA
1 AATAATAAATAATCAGTAAA
32821 AATAA-AAATTAATCAGTAAA
1 AATAATAAA-TAATCAGTAAA
32841 TAATTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 11 0.61
20 4 0.22
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAATAAATAATCAGTAAA
Found at i:35232 original size:182 final size:182
Alignment explanation
Indices: 34903--35242 Score: 409
Period size: 182 Copynumber: 1.9 Consensus size: 182
34893 TATAATATAA
*
34903 ATAGTCATAACTATTTGAACTTGCTTGGTAAATAGATTCATTTTTTAAATCTCTTACTCATTAAG
1 ATAGTCATAACTATTTGAACTTGCTTGGTAAACAGATTCATTTTTTAAATCTCTTACTCATTAAG
* * * * * * * *** *
34968 TTTTGGAATAGTAATAAGTTAGTATTTTTTTTATTTCGAATAAGCCTATATGAATTGATATAATT
66 TTTTGAAATAGTAATAAATTAATATTTATTTTAATCCGAAAAAGCCTATATGAACAAAAATAATT
* *
35033 ATTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAG
131 ATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAG
* * * * * * *
35085 ATAGTTATTACTATTTGAACTTG-TTCGGTAAACATATTTATTTTTTTAAATCTTTTGCTTATTA
1 ATAGTCATAACTATTTGAACTTGCTT-GGTAAACAGATTCA-TTTTTTAAATCTCTTACTCATTA
*
35149 A-TTGTTGAAATATTAATAAATTAATA-TTATTTTAATCCGAAAAAG-CTAATATGAACAAAAAT
64 AGTT-TTGAAATAGTAATAAATTAATATTTATTTTAATCCGAAAAAGCCT-ATATGAACAAAAAT
*
35211 AATTGTTTTATGACAAAACAAAAGGTCATAAC
127 AATTATTTTATGACAAAACAAAAGGTCATAAC
35243 TATTCAAAAT
Statistics
Matches: 131, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
181 4 0.03
182 88 0.67
183 39 0.30
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (182 bp):
ATAGTCATAACTATTTGAACTTGCTTGGTAAACAGATTCATTTTTTAAATCTCTTACTCATTAAG
TTTTGAAATAGTAATAAATTAATATTTATTTTAATCCGAAAAAGCCTATATGAACAAAAATAATT
ATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAG
Found at i:35796 original size:180 final size:177
Alignment explanation
Indices: 35387--35853 Score: 476
Period size: 180 Copynumber: 2.6 Consensus size: 177
35377 CAGTAAATAA
* * * *
35387 ATTTATTTTTTAAATCTCTCACTTATTAATTTTTGGAATATTAATAAATTAGAATTATGTTA-AT
1 ATTTATTTTTTAAATCTTTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTAT-TTATTT
* *
35451 CTAAATAAGCTTGTATGAACAAAACAATTGTTT-TGTAAGAAAACAAAAAGTCATAACGATTTGA
65 C-AAATAAGCTTATATGAACAAAACAATTGTTTATG--ACAAAACAAAAAGTCATAACGATTTGA
* ** * ** *
35515 AATAGATAATTGTTTAATAGTCATAATTGTTTGCACTGGACAAGCCAAAAG
127 AATAAATAATTGTCAAATAGTCATAACTAATTGAACTGGACAAGCCAAAAG
** * * * *
35566 ATACATTTTCTAAATCCTTTACTTATTAATTTTTAAAATATTAATAAATTAGCATTACTTTATTT
1 ATTTATTTTTTAAATCTTTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTA-TTTATTT
* * * * *
35631 CGAATAAGATAATATGAACAGAAACAATTGTTTATGATAAAACAAAAGGTCATAACGATTTGAAA
65 CAAATAAGCTTATATGAACA-AAACAATTGTTTATGACAAAACAAAAAGTCATAACGATTTGAAA
* * * * ** *
35696 TAAATATTTGATCAAATAGTTATAACTAATTGAACTGG-TATGGTAAACAT
129 TAAATAATTG-TCAAATAGTCATAACTAATTGAACTGGACAAGCCAAA-AG
35746 ATTTATTTTTTAAATCTTTTA-TGTATTAATTTTTGAAATATTAATAAATTA-ATATTATTTTAT
1 ATTTATTTTTTAAATCTTTTACT-TATTAATTTTTGAAATATTAATAAATTAGA-ATTA-TTTAT
* * *
35809 TCCAAACAAGCTTATATGAACAAAAACATTTGTTTTATGACAAAA
63 TTCAAATAAGCTTATATGAAC-AAAACAATTG-TTTATGACAAAA
35854 TTGATATTAT
Statistics
Matches: 234, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
179 107 0.46
180 113 0.48
181 14 0.06
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (177 bp):
ATTTATTTTTTAAATCTTTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTATTTC
AAATAAGCTTATATGAACAAAACAATTGTTTATGACAAAACAAAAAGTCATAACGATTTGAAATA
AATAATTGTCAAATAGTCATAACTAATTGAACTGGACAAGCCAAAAG
Found at i:36220 original size:19 final size:20
Alignment explanation
Indices: 36196--36239 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
36186 AAAAATGATA
36196 AATTAT-TATCTATTTATT-T
1 AATTATGTAT-TATTTATTAT
36215 AATTATGTATTATTTATTAT
1 AATTATGTATTATTTATTAT
36235 AATTA
1 AATTA
36240 ATATAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
AATTATGTATTATTTATTAT
Found at i:36552 original size:18 final size:18
Alignment explanation
Indices: 36521--36555 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36511 TACTAATTTG
*
36521 TATATAATAGAATTAATA
1 TATATAATACAATTAATA
*
36539 TATATAATTCAATTAAT
1 TATATAATACAATTAAT
36556 TATGAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TATATAATACAATTAATA
Found at i:36692 original size:29 final size:30
Alignment explanation
Indices: 36617--36692 Score: 77
Period size: 33 Copynumber: 2.5 Consensus size: 30
36607 TCCAAACATT
*
36617 TTAATTA--TAATAGTTAATTAAATAAATAC
1 TTAATTATTTAATA-TTAAATAAATAAATAC
*
36646 TTAATTTATTTAATATATTAAATAAATTAATA-
1 TTAA-TTATTT-A-ATATTAAATAAATAAATAC
36678 TTAATTATTTAATAT
1 TTAATTATTTAATAT
36693 AATAGAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
29 8 0.20
30 4 0.10
31 6 0.15
32 5 0.12
33 14 0.35
34 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TTAATTATTTAATATTAAATAAATAAATAC
Found at i:36714 original size:32 final size:30
Alignment explanation
Indices: 36641--36706 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
36631 TAATTAAATA
*
36641 AATACTTAATTTATTTAATATATTAAATAAATT
1 AATA-TTAA-TTATTTAATATAATAAAT-AATT
36674 AATATTAATTATTTAATATAATAGAAT-ATT
1 AATATTAATTATTTAATATAATA-AATAATT
36704 AAT
1 AAT
36707 TGATTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 6 0.19
31 14 0.45
32 7 0.23
33 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATATTAATTATTTAATATAATAAATAATT
Found at i:36817 original size:25 final size:22
Alignment explanation
Indices: 36773--36838 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
36763 TTCAATTGTT
36773 TAATAAAATTAATAATATTATA
1 TAATAAAATTAATAATATTATA
*
36795 TAATAAAATTAATAATATAAT-
1 TAATAAAATTAATAATATTATA
* * *
36816 TATATAATATTTATTATATTATA
1 TA-ATAAAATTAATAATATTATA
36839 ATAAATATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAAATTAATAATATTATA
Found at i:36914 original size:21 final size:21
Alignment explanation
Indices: 36872--36930 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
36862 AATATATAAA
36872 AATATTATATAATTATCCTAAT
1 AATATTA-ATAATTATCCTAAT
* **
36894 AATATTAATCATTATGTTAAT
1 AATATTAATAATTATCCTAAT
36915 AATATTAAGTAATTAT
1 AATATTAA-TAATTAT
36931 TAATATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AATATTAATAATTATCCTAAT
Found at i:36936 original size:17 final size:16
Alignment explanation
Indices: 36913--36958 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
36903 CATTATGTTA
36913 ATAATATTAAGTAATT
1 ATAATATTAAGTAATT
*
36929 ATTAATATTAATTAAATT
1 A-TAATATTAAGT-AATT
36947 ATAA-ATTAAGTA
1 ATAATATTAAGTA
36959 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:37054 original size:13 final size:13
Alignment explanation
Indices: 37036--37061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37026 AATAATTATC
37036 AATTATATGAATA
1 AATTATATGAATA
37049 AATTATATGAATA
1 AATTATATGAATA
37062 TTATAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AATTATATGAATA
Found at i:37202 original size:13 final size:13
Alignment explanation
Indices: 37186--37219 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37176 TTATATTACT
37186 TATTAATAATAAA
1 TATTAATAATAAA
* *
37199 TATTAATAATTAC
1 TATTAATAATAAA
37212 TATTAATA
1 TATTAATA
37220 TTTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAATAATAAA
Found at i:37234 original size:26 final size:27
Alignment explanation
Indices: 37161--37234 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
37151 TTTATTAAGC
* *
37161 TAATAGTTAATTTATTTATATTACTTAT
1 TAATAATTAATTTAATTA-ATTACTTAT
*
37189 TAATAATAAATATTAA-TAATTAC-TAT
1 TAATAATTAAT-TTAATTAATTACTTAT
* *
37215 TAATATTTAATTCAATTAAT
1 TAATAATTAATTTAATTAAT
37235 ATAATATAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.08
26 16 0.42
27 5 0.13
28 11 0.29
29 3 0.08
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (27 bp):
TAATAATTAATTTAATTAATTACTTAT
Found at i:37299 original size:23 final size:22
Alignment explanation
Indices: 37264--37313 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
37254 TTAACCTAAA
*
37264 AATAATTAATATTTTATAATATT
1 AATAATTAATATTCTA-AATATT
** *
37287 AATAATTTCTATTCTAATTATT
1 AATAATTAATATTCTAAATATT
37309 AATAA
1 AATAA
37314 AGTTTATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAATTAATATTCTAAATATT
Found at i:37468 original size:23 final size:24
Alignment explanation
Indices: 37442--37490 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
37432 ATATTTATAT
*
37442 ATTAATCTATTTA-TTATACGATA
1 ATTAATATATTTATTTATACGATA
* *
37465 ATTATTATATTTATTTATACTATA
1 ATTAATATATTTATTTATACGATA
37489 AT
1 AT
37491 ATTAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTAATATATTTATTTATACGATA
Found at i:37493 original size:23 final size:23
Alignment explanation
Indices: 37449--37494 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
37439 TATATTAATC
37449 TATTTATTATACGATAATTATTA
1 TATTTATTATACGATAATTATTA
*
37472 TATTTATTTATACTATAA-TATTA
1 TATTTA-TTATACGATAATTATTA
37495 ATAATTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTTATTATACGATAATTATTA
Found at i:37653 original size:41 final size:43
Alignment explanation
Indices: 37631--37730 Score: 96
Period size: 46 Copynumber: 2.2 Consensus size: 43
37621 AATTATTTTA
* *
37631 ATAATTAATATAATAATATAATTAAATTATATAATAATTTATTACTT
1 ATAATT-ATAAAATAATAAAATTAAA-TATATAATAATTTATTA--T
* *
37678 ATAATTATAAAATAATAAAATT-AATATATCAATTATATATTAT
1 ATAATTATAAAATAATAAAATTAAATATAT-AATAATTTATTAT
37721 A-AGATTATAA
1 ATA-ATTATAA
37731 TATTTATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
42 1 0.02
43 9 0.19
44 5 0.11
45 12 0.26
46 14 0.30
47 6 0.13
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (43 bp):
ATAATTATAAAATAATAAAATTAAATATATAATAATTTATTAT
Found at i:37673 original size:46 final size:45
Alignment explanation
Indices: 37603--37701 Score: 107
Period size: 46 Copynumber: 2.2 Consensus size: 45
37593 ATTATTAAGA
*
37603 ATAATT-AATTATTATATCAATTATT-TTAATAATTAATATAATAAT
1 ATAATTAAATTATTATATCAATTATTATT-ATAATT-ATAAAATAAT
37648 ATAATTAAATTA-TATAAT-AATTTATTACTTATAATTATAAAATAAT
1 ATAATTAAATTATTAT-ATCAA-TTATTA-TTATAATTATAAAATAAT
*
37694 AAAATTAA
1 ATAATTAA
37702 TATATCAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
45 11 0.23
46 28 0.60
47 6 0.13
48 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (45 bp):
ATAATTAAATTATTATATCAATTATTATTATAATTATAAAATAAT
Found at i:38708 original size:17 final size:17
Alignment explanation
Indices: 38688--38794 Score: 57
Period size: 17 Copynumber: 6.2 Consensus size: 17
38678 ATAATATATT
38688 TAATTTATTTAATTATA
1 TAATTTATTTAATTATA
38705 TAATATTA-TT-A-TATA
1 TAAT-TTATTTAATTATA
* *
38720 TTAA-ATATTTAAATTAAA
1 -TAATTTATTT-AATTATA
38738 T-ATTTATTATAA-TATAA
1 TAATTTATT-TAATTAT-A
*
38755 TAAATATTATATAATTATA
1 T-AAT-TTATTTAATTATA
*
38774 TTAA-TAATTTAATTATA
1 -TAATTTATTTAATTATA
38791 TAAT
1 TAAT
38795 AATATTAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 30
0.65 0.07 0.29
Matches are distributed among these distances:
14 2 0.03
15 6 0.09
16 10 0.15
17 27 0.40
18 7 0.10
19 8 0.12
20 8 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTTATTTAATTATA
Found at i:38713 original size:34 final size:33
Alignment explanation
Indices: 38675--38779 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 33
38665 AATGTTTATC
38675 ATTATAATATATTTAATTTATTTAATTATATAAT
1 ATTATAATATA-TTAATTTATTTAATTATATAAT
* * * *
38709 ATTATTATATATTAA-ATATTTAAATTAAATATTT
1 ATTATAATATATTAATTTATTT-AATTATATA-AT
* *
38743 ATTATAATATAATAAATATTATATAATTATATTAAT
1 ATTATAATAT-ATTAAT-TTATTTAATTATA-TAAT
38779 A
1 A
38780 ATTTAATTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
32 5 0.09
33 12 0.22
34 20 0.36
35 4 0.07
36 8 0.15
37 6 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
ATTATAATATATTAATTTATTTAATTATATAAT
Found at i:38717 original size:13 final size:13
Alignment explanation
Indices: 38699--38801 Score: 51
Period size: 13 Copynumber: 8.3 Consensus size: 13
38689 AATTTATTTA
38699 ATTATATAATATT
1 ATTATATAATATT
*
38712 ATTATAT-AT-TA
1 ATTATATAATATT
* *
38723 AATATTTAA-ATT
1 ATTATATAATATT
* *
38735 A-AATAT-TTATT
1 ATTATATAATATT
* *
38746 ATAATATAATAAAT
1 ATTATATAAT-ATT
38760 ATTATATAAT-TAT
1 ATTATATAATAT-T
38773 ATTA-ATAAT-TT
1 ATTATATAATATT
*
38784 AATTATATAATAAT
1 -ATTATATAATATT
38798 ATTA
1 ATTA
38802 ATTTTATTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
11 14 0.21
12 20 0.29
13 22 0.32
14 12 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATATAATATT
Found at i:38728 original size:41 final size:42
Alignment explanation
Indices: 38677--38801 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 42
38667 TGTTTATCAT
38677 TATAATATATTTAATTTATTTAATTATATAATATTATTATA-TA
1 TATAA-ATATTTAA-TTATTTAATTATATAATATTATTATATTA
** * * *
38720 T-TAAATATTTAAATTAAATATTTATTATAATATAATAAATATTA
1 TATAAATATTT-AATTATTTAATTA-TATAATATTAT-TATATTA
* * *
38764 TATAATTATATTAATAATTTAATTATATAATAATATTA
1 TATAAATAT-TTAATTATTTAATTATATAATATTATTA
38802 ATTTTATTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
41 14 0.22
42 15 0.24
43 5 0.08
44 12 0.19
45 15 0.24
46 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (42 bp):
TATAAATATTTAATTATTTAATTATATAATATTATTATATTA
Found at i:38771 original size:25 final size:25
Alignment explanation
Indices: 38743--38803 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
38733 TTAAATATTT
38743 ATTATAATATAATAA-AT-ATTATATA
1 ATTAT-AT-TAATAATATAATTATATA
*
38768 ATTATATTAATAATTTAATTATATA
1 ATTATATTAATAATATAATTATATA
*
38793 ATAATATTAAT
1 ATTATATTAAT
38804 TTTATTAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 6 0.19
24 3 0.09
25 23 0.72
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATATTAATAATATAATTATATA
Done.