Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168171.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_41, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 255648
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
File 6 of 6
Found at i:231238 original size:15 final size:16
Alignment explanation
Indices: 231208--231258 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
231198 TATACAATTA
*
231208 ATATAATTAA-ATATT
1 ATATATTTAACATATT
231223 A-ATATTTAACATATT
1 ATATATTTAACATATT
*
231238 ATATACTTAACA-ATT
1 ATATATTTAACATATT
231253 ATATAT
1 ATATAT
231259 GTGTGTGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 7 0.23
15 15 0.48
16 9 0.29
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATTTAACATATT
Found at i:231567 original size:21 final size:22
Alignment explanation
Indices: 231541--231590 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
231531 TATAATATAA
*
231541 AATTAATTATATTA-TTATATT
1 AATTAATTATACTATTTATATT
*
231562 AATTAATTATACTATTTATTTT
1 AATTAATTATACTATTTATATT
231584 AATTAAT
1 AATTAAT
231591 AAGTTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTAATTATACTATTTATATT
Found at i:231690 original size:16 final size:14
Alignment explanation
Indices: 231658--231737 Score: 56
Period size: 15 Copynumber: 5.4 Consensus size: 14
231648 ATTTGGATTA
231658 TAATTTAAATATAT
1 TAATTTAAATATAT
*
231672 TAATATTAAACTATTT
1 TAAT-TTAAA-TATAT
231688 TAATTTACAAGTAT-T
1 TAATTTA-AA-TATAT
*
231703 TGATTACTAAATATAT
1 TAATT--TAAATATAT
*
231719 ATTATTTAAAT-TAT
1 -TAATTTAAATATAT
231733 TAATT
1 TAATT
231738 GATTATAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.07
14 7 0.13
15 21 0.39
16 16 0.30
17 6 0.11
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (14 bp):
TAATTTAAATATAT
Found at i:232074 original size:18 final size:17
Alignment explanation
Indices: 232053--232086 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
232043 CATTTATTAA
*
232053 TATAATCTAATTTAATAG
1 TATAATC-AAATTAATAG
232071 TATAATCAAATTAATA
1 TATAATCAAATTAATA
232087 ATCTAATATA
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:232234 original size:19 final size:22
Alignment explanation
Indices: 232174--232238 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 22
232164 ATATTAGGAT
*
232174 TAATATTAAATTATATTATTACTAA
1 TAATAGTAAATTA-A-T-TTACTAA
232199 TAATAGTAAATTAATTTACTAA
1 TAATAGTAAATTAATTTACTAA
232221 TAATAGTAATATTTAATT
1 TAATAGTAA-A-TTAATT
232239 ATTGACAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 16 0.43
23 2 0.05
24 7 0.19
25 12 0.32
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (22 bp):
TAATAGTAAATTAATTTACTAA
Found at i:232506 original size:31 final size:33
Alignment explanation
Indices: 232454--232516 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
232444 ACCAAATTTA
*
232454 TATTATATTAGTATAAATTA-TTTATA-ATTAC
1 TATTATAATAGTATAAATTATTTTATATATTAC
232485 TATTATAATA-TATAAATTTATTTTATATATTA
1 TATTATAATAGTATAAA-TTATTTTATATATTA
232517 TTTATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 6 0.21
31 12 0.43
32 6 0.21
33 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (33 bp):
TATTATAATAGTATAAATTATTTTATATATTAC
Found at i:233212 original size:6 final size:6
Alignment explanation
Indices: 233203--233290 Score: 59
Period size: 6 Copynumber: 15.5 Consensus size: 6
233193 TTATGACAAT
* *
233203 ATTATA ATTATA ATTATA TATT-TA TTTATA GTTATTA A-TAGTA A-TATA
1 ATTATA ATTATA ATTATA -ATTATA ATTATA ATTA-TA ATTA-TA ATTATA
233251 ATTA-A ATTAT- ATTA-A ATTTATA ATTATA A--A-A ATTATA ATT
1 ATTATA ATTATA ATTATA A-TTATA ATTATA ATTATA ATTATA ATT
233291 TAAATTGTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
3 2 0.03
4 1 0.01
5 16 0.24
6 41 0.61
7 7 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:233302 original size:28 final size:25
Alignment explanation
Indices: 233254--233307 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 25
233244 TAATATAATT
233254 AAATTATATTAAATTTATAATTATAA
1 AAATTATATTAAATTTATAATT-TAA
233280 AAATTATAATTTAAATTGT-TAATTTAA
1 AAATTAT-A-TTAAATT-TATAATTTAA
233307 A
1 A
233308 TATAATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 7 0.28
27 5 0.20
28 12 0.48
29 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATTATATTAAATTTATAATTTAA
Found at i:233703 original size:22 final size:22
Alignment explanation
Indices: 233678--233719 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
233668 ATTAATCAGT
*
233678 TTTAATTTATTTAA-TAATATTA
1 TTTAAATTA-TTAATTAATATTA
233700 TTTAAATTATTAATTAATAT
1 TTTAAATTATTAATTAATAT
233720 ATTGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAATTATTAATTAATATTA
Found at i:233761 original size:25 final size:24
Alignment explanation
Indices: 233689--233773 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
233679 TTAATTTATT
* *
233689 TAATAATATTATTTAAATTATTAA
1 TAATAATAATATTTATATTATTAA
* *
233713 T--TAAT-ATATTGATTAATATTAA
1 TAATAATAATATTTA-TATTATTAA
233735 TAATAATAAATATTTATATTATTAA
1 TAATAAT-AATATTTATATTATTAA
*
233760 TATTAATAACTATT
1 TAATAATAA-TATT
233774 AGCAATAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
21 5 0.10
22 12 0.25
24 7 0.15
25 18 0.38
26 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
TAATAATAATATTTATATTATTAA
Found at i:234393 original size:9 final size:9
Alignment explanation
Indices: 234356--234402 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
234346 TATTATTCTA
234356 ATAATGTAAT
1 ATAAT-TAAT
234366 ATAATT-AT
1 ATAATTAAT
234374 A-AA-T-A-
1 ATAATTAAT
234379 ATAATTAAT
1 ATAATTAAT
234388 ATAATTAAT
1 ATAATTAAT
234397 ATAATT
1 ATAATT
234403 GTTTAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
5 1 0.03
6 4 0.12
7 3 0.09
8 4 0.12
9 16 0.48
10 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
ATAATTAAT
Found at i:235521 original size:14 final size:14
Alignment explanation
Indices: 235504--235546 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
235494 TATAACAAAT
235504 TATTT-ATATGTTAA
1 TATTTAATAT-TTAA
235518 TATTTAATATTTAA
1 TATTTAATATTTAA
*
235532 TA-TTAATAATTAA
1 TATTTAATATTTAA
235545 TA
1 TA
235547 GAATATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.44
14 11 0.41
15 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TATTTAATATTTAA
Found at i:235526 original size:7 final size:7
Alignment explanation
Indices: 235504--235546 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
235494 TATAACAAAT
235504 TATTT-A
1 TATTTAA
235510 TATGTTAA
1 TAT-TTAA
235518 TATTTAA
1 TATTTAA
235525 TATTTAA
1 TATTTAA
235532 TA-TTAA
1 TATTTAA
*
235538 TAATTAA
1 TATTTAA
235545 TA
1 TA
235547 GAATATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 9 0.26
7 21 0.62
8 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (7 bp):
TATTTAA
Found at i:235539 original size:20 final size:21
Alignment explanation
Indices: 235504--235546 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
235494 TATAACAAAT
* *
235504 TATTTATATGTTAATATTTAA
1 TATTTATATATTAATAATTAA
235525 TATTTA-ATATTAATAATTAA
1 TATTTATATATTAATAATTAA
235545 TA
1 TA
235547 GAATATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTATATATTAATAATTAA
Found at i:236044 original size:26 final size:26
Alignment explanation
Indices: 236010--236167 Score: 82
Period size: 26 Copynumber: 6.1 Consensus size: 26
236000 CTAATATTTA
*
236010 AATATTATAATTAAATATTAATTAAT
1 AATATTATAATTAAATATTAATTATT
* *
236036 AATAGTAT-ATTAATTATATAATT-TT
1 AATATTATAATTAAATAT-TAATTATT
* *
236061 AA-ATTATAATTACAATACATAAATATT
1 AATATTATAATTA-AATA-TTAATTATT
* *
236088 AATAATATAATT-AATA-TGATT-TT
1 AATATTATAATTAAATATTAATTATT
* * *
236111 ACTATAAT-ATAAAAT-TTAATTATGTT
1 AATATTATAATTAAATATTAATTA--TT
*
236137 AAATATTTATAATT-AATAATTAATTGTT
1 -AATA-TTATAATTAAAT-ATTAATTATT
236165 AAT
1 AAT
236168 TAGGATATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
22 2 0.02
23 14 0.14
24 7 0.07
25 15 0.15
26 25 0.26
27 10 0.10
28 16 0.16
29 2 0.02
30 6 0.06
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (26 bp):
AATATTATAATTAAATATTAATTATT
Found at i:236775 original size:28 final size:27
Alignment explanation
Indices: 236702--236814 Score: 70
Period size: 28 Copynumber: 4.0 Consensus size: 27
236692 GATTATATTT
* *
236702 TATTATTAGTAATTATATATATTACTAAA
1 TATTATTATTAATTATAAAT-TTA-TAAA
* *
236731 TA-AATTATAAAACTTATAAATTTATAAA
1 TATTATTAT-TAA-TTATAAATTTATAAA
**
236759 TATCTATTATTAATTATTTATTTATTTAAA
1 TAT-TATTATTAATTATAAATTTA--TAAA
* *
236789 -ATTATTATTAATTTTCAATTT-TAAA
1 TATTATTATTAATTATAAATTTATAAA
236814 T
1 T
236815 TATATTAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
25 4 0.06
28 35 0.53
29 11 0.17
30 16 0.24
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (27 bp):
TATTATTATTAATTATAAATTTATAAA
Found at i:236845 original size:24 final size:24
Alignment explanation
Indices: 236818--236883 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
236808 TTTAAATTAT
236818 ATTAAATTATTTATAATTTAAAAG
1 ATTAAATTATTTATAATTTAAAAG
* * *
236842 ATTAGATAATTTAATAA-TTAAAAT
1 ATTAAATTATTT-ATAATTTAAAAG
*
236866 A-TAATTTATTT-TAATTTA
1 ATTAAATTATTTATAATTTA
236884 TATAGTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 3 0.09
23 7 0.21
24 17 0.50
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (24 bp):
ATTAAATTATTTATAATTTAAAAG
Found at i:237432 original size:29 final size:27
Alignment explanation
Indices: 237397--237471 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 27
237387 ATATTTAGTA
*
237397 AAATATTATATAAATTAATATTAAATATT
1 AAATATTATATAAATTAAAATT--ATATT
*
237426 AAATATTGTATATAATATAAAATTATATT
1 AAATATTATATA-AAT-TAAAATTATATT
237455 -AATATTATAATAAATTA
1 AAATATTAT-ATAAATTA
237472 GAATAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 2 0.05
28 10 0.25
29 19 0.47
30 3 0.08
31 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
AAATATTATATAAATTAAAATTATATT
Found at i:237463 original size:19 final size:19
Alignment explanation
Indices: 237398--237464 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
237388 TATTTAGTAA
237398 AATATTATATAAATTAATATT
1 AATATTATA-AAATT-ATATT
* *
237419 AAATATTA-AATATTGTA-T
1 -AATATTATAAAATTATATT
*
237437 -ATAATATAAAATTATATT
1 AATATTATAAAATTATATT
237455 AATATTATAA
1 AATATTATAA
237465 TAAATTAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
16 5 0.14
17 7 0.19
18 2 0.06
19 10 0.28
20 4 0.11
21 1 0.03
22 7 0.19
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (19 bp):
AATATTATAAAATTATATT
Found at i:238495 original size:14 final size:15
Alignment explanation
Indices: 238472--238504 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
238462 ATAATTTAAA
*
238472 TAATATTAAT-TTTT
1 TAATAATAATATTTT
238486 TAATAATAATATTTT
1 TAATAATAATATTTT
238501 TAAT
1 TAAT
238505 TATTAGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATAATAATATTTT
Found at i:238855 original size:11 final size:11
Alignment explanation
Indices: 238833--238893 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
238823 ATTAATTGTA
*
238833 ATTATATCAAT
1 ATTATATTAAT
*
238844 ATTACATTAAT
1 ATTATATTAAT
*
238855 AATTATATTATT
1 -ATTATATTAAT
238867 ATTATATT-AT
1 ATTATATTAAT
*
238877 ATTA-ATAATAT
1 ATTATATTA-AT
238888 ATTATA
1 ATTATA
238894 CAAAACAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 2 0.05
10 5 0.12
11 23 0.57
12 10 0.25
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTATATTAAT
Found at i:238864 original size:5 final size:5
Alignment explanation
Indices: 238842--238893 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
238832 AATTATATCA
* *
238842 ATATT ACATT AATAATT ATATT ATTATT ATATT ATATT AATAAT ATATT
1 ATATT ATATT -AT-ATT ATATT A-TATT ATATT ATATT -ATATT ATATT
238891 ATA
1 ATA
238894 CAAAACAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 24 0.62
6 12 0.31
7 3 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (5 bp):
ATATT
Found at i:238877 original size:16 final size:16
Alignment explanation
Indices: 238851--238893 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
238841 AATATTACAT
*
238851 TAATA-ATTATATTAT
1 TAATATATTATATTAA
*
238866 TATTATATTATATTAA
1 TAATATATTATATTAA
238882 TAATATATTATA
1 TAATATATTATA
238894 CAAAACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATATATTATATTAA
Found at i:239388 original size:17 final size:17
Alignment explanation
Indices: 239368--239474 Score: 64
Period size: 17 Copynumber: 6.2 Consensus size: 17
239358 ATAATATATT
239368 TAATTTATTTAATTATA
1 TAATTTATTTAATTATA
*
239385 TAATATTA-TTATTTAT-
1 TAAT-TTATTTAATTATA
* *
239401 TAA-ATATTTAAATTAAA
1 TAATTTATTT-AATTATA
239418 T-ATTTATTATAA-TATAA
1 TAATTTATT-TAATTAT-A
239435 TAAATATTATATT-ATTATA
1 T-AAT-TTAT-TTAATTATA
* *
239454 TTATTAATTTAATTATA
1 TAATTTATTTAATTATA
239471 TAAT
1 TAAT
239475 AATATTAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 26
0.66 0.09 0.25
Matches are distributed among these distances:
14 2 0.03
15 2 0.03
16 12 0.18
17 32 0.47
18 6 0.09
19 5 0.07
20 8 0.12
21 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTTATTTAATTATA
Found at i:239415 original size:13 final size:13
Alignment explanation
Indices: 239399--239423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
239389 ATTATTATTT
239399 ATTAAATATTTAA
1 ATTAAATATTTAA
239412 ATTAAATATTTA
1 ATTAAATATTTA
239424 TTATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATATTTAA
Found at i:239482 original size:17 final size:18
Alignment explanation
Indices: 239443--239491 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
239433 AATAAATATT
*
239443 ATATT-ATTATATTATTA
1 ATATTAATTATATTAATA
239460 AT-TTAATTATA-TAATA
1 ATATTAATTATATTAATA
*
239476 ATATTAATTTTATTAA
1 ATATTAATTATATTAA
239492 ACAATTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 16 0.59
18 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTAATTATATTAATA
Found at i:239483 original size:22 final size:22
Alignment explanation
Indices: 239374--239490 Score: 70
Period size: 22 Copynumber: 5.4 Consensus size: 22
239364 TATTTAATTT
*
239374 ATTTAATTATATAATATTATT-
1 ATTTAATTATATAATAATATTA
* *
239395 ATTT-ATTAAATATTTAA-ATTAA
1 ATTTAATTATATA-ATAATATT-A
*
239417 ATATTTATTATA-ATATAATA--A
1 AT-TTAATTATATA-ATAATATTA
*
239438 ATATTATATTAT-T-ATATTATTA
1 AT-TTA-ATTATATAATAATATTA
239460 ATTTAATTATATAATAATATTA
1 ATTTAATTATATAATAATATTA
*
239482 ATTTTATTA
1 ATTTAATTA
239491 AACAATTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
20 20 0.27
21 16 0.21
22 26 0.35
23 7 0.09
24 6 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTAATTATATAATAATATTA
Found at i:240180 original size:21 final size:22
Alignment explanation
Indices: 240150--240196 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
240140 ATTAAATAAT
240150 TAATTATAAATATTAA-ATTTAC
1 TAATTATAAATA-TAATATTTAC
*
240172 TAATT-TAAATATAATTTTTAC
1 TAATTATAAATATAATATTTAC
240193 TAAT
1 TAAT
240197 AATTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATTATAAATATAATATTTAC
Found at i:240365 original size:19 final size:20
Alignment explanation
Indices: 240341--240382 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
240331 ATACTTATAT
240341 AATAATTGTTAAT-ATTTAA
1 AATAATTGTTAATAATTTAA
*
240360 AATAATTGTTATTAATTTAA
1 AATAATTGTTAATAATTTAA
240380 AAT
1 AAT
240383 GCTATTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
AATAATTGTTAATAATTTAA
Found at i:240480 original size:14 final size:13
Alignment explanation
Indices: 240447--240511 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
240437 AAATTTAATC
*
240447 TATTAACAATTATT
1 TATTAATAATTA-T
240461 TATTAATAATTAT
1 TATTAATAATTAT
240474 TAGTTAATAAGTTAT
1 TA-TTAATAA-TTAT
* *
240489 AATAATACTAATTAT
1 --TATTAATAATTAT
240504 TA-TAATAA
1 TATTAATAA
240512 CTAATTGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 18 0.42
15 8 0.19
16 5 0.12
17 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TATTAATAATTAT
Found at i:240503 original size:15 final size:16
Alignment explanation
Indices: 240485--240517 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
240475 AGTTAATAAG
240485 TTATAATAAT-ACTAA
1 TTATAATAATAACTAA
*
240500 TTATTATAATAACTAA
1 TTATAATAATAACTAA
240516 TT
1 TT
240518 GAAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATAATAATAACTAA
Found at i:240560 original size:11 final size:11
Alignment explanation
Indices: 240544--240569 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
240534 TTAATAATAA
240544 ATTTAGTATAT
1 ATTTAGTATAT
240555 ATTTAGTATAT
1 ATTTAGTATAT
240566 ATTT
1 ATTT
240570 TATAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
ATTTAGTATAT
Found at i:240653 original size:24 final size:23
Alignment explanation
Indices: 240626--240680 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
240616 GTTCATATTA
*
240626 TAATATTATAAATTATAATTCAAT
1 TAATATTATAAATTAGAATT-AAT
240650 TAATATTATAAATTAGAATTAAT
1 TAATATTATAAATTAGAATTAAT
*
240673 TATTATTA
1 TAATATTA
240681 ATATTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATATTATAAATTAGAATTAAT
Found at i:240695 original size:21 final size:22
Alignment explanation
Indices: 240669--240709 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
240659 AAATTAGAAT
* *
240669 TAATTATTATTAAT-ATTTTAA
1 TAATTAATATAAATGATTTTAA
240690 TAATTAATATAAATGATTTT
1 TAATTAATATAAATGATTTT
240710 TACTTATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATTAATATAAATGATTTTAA
Found at i:241385 original size:16 final size:17
Alignment explanation
Indices: 241364--241395 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
241354 TAATAATGAT
241364 TTGAAATA-TATAATTG
1 TTGAAATAGTATAATTG
241380 TTGAAATAGTATAATT
1 TTGAAATAGTATAATT
241396 TTTTAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TTGAAATAGTATAATTG
Found at i:242384 original size:181 final size:179
Alignment explanation
Indices: 242146--243718 Score: 1094
Period size: 181 Copynumber: 8.8 Consensus size: 179
242136 ATAATTTATA
* * **
242146 AATAAAATAAAACTAATCTAATAATATTAT-AAAAATTAATAACAAAGAGATTTAAAAAATAAAA
1 AATAAAATAAAA-TAATTTATTAATATT-TCAAAAATTAATAAGTAA-AGATTTAAAAAAT-AAA
* * ** *
242210 T-TGTTTGCCGAACTAGTTCAAATAGTTAAAACTATATGAATAATTATCTATTTCAAATCATTAT
62 TCTGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTAT
* * *
242274 AACCCTTTGTTTTGTCATAAAATAATAT-TTTCAATTCATACTAGCTTATTTAG
127 GACCTTTTGTTTTGTCATAAAATAAT-TGTTTCTATTCATACTAGCTTATTTAG
* * *
242327 AATAAAATAAAATAAATTTATTAAAATTTCAAAAATTAATAAGTAAGAGAATTAAAAAATAATTC
1 AATAAAATAAAAT-AATTTATTAATATTTCAAAAATTAATAAGTAA-AGATTTAAAAAATAAATC
* * * * * * * **
242392 TATTTACCTAACTAGTTCCAATAATAATGACTATTTGAACAATTATCTATTTCAAATTGTTATGA
64 TGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGA
* * * * * *
242457 CCTTTTGTTTTGTCATAAAACTAA-TGTTTTTGTTCATA-TAAGTTTGTTCAA
129 CCTTTTGTTTTGTCATAAAA-TAATTGTTTCTATTCATACT-AGCTTATTTAG
* * *
242508 AATAAAATAATACTAATATATTAATATTTCAAAAATTAATAA--AAA-TTTTAAAAAATAAATCT
1 AATAAAATAA-AATAATTTATTAATATTTCAAAAATTAATAAGTAAAGATTTAAAAAATAAATCT
* * * * * * *
242570 ATTTATCAAATC-GGTTC-AA-A-TTAAGACTATTT-AAGCAATTATTTATTTCAAATCATTATG
65 GTTTACCGAA-CAAGTTCAAATAGTTATGACTATTTGAA-TAATTATCTATTTCAAATCATTATG
* * * * * * * * *
242630 ACTTTTTGTTCTATTATAAGATAATAGTTTCTATTTATTCAAGCTTATTTAG
128 ACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACTAGCTTATTTAG
* * ** * * *
242682 ATTAAAATAATACA-AATTTGTTAATATTTTGACAATTAATAAGTAAATAATGTAAAAAATTAAA
1 AATAAAATAA-A-ATAATTTATTAATATTTCAAAAATTAATAAGTAAA-GATTTAAAAAA-TAAA
* * * * * ** ** *
242746 TATGTTTACTGAACTAGATT-AAACAGTCATGACCGTTTGAATTGTTATCTATTTCAAATCGTTA
62 TCTGTTTACCGAACAAG-TTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTA
* * * * * *
242810 TGACCTTTTCTTTTGTCATAAAAAAATTATTTCAATTCATA-TAAGCTTATTCAA
126 TGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACT-AGCTTATTTAG
* * * ** * * * *
242864 AATAAAATAATATTAAGTTATAAATATTTTGAAAATTCATAATTAAGAGATTTTCAAAAATGAAT
1 AATAAAATAA-AATAATTTATTAATATTTCAAAAATTAATAAGTAA-AGA-TTTAAAAAATAAAT
* * * * * * * * **
242929 CTGTTTACTGAACAAGTTTAAATAATTATAATTATTTAAACAATTATTTATTGT-AAATCGCTAT
63 CTGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATT-TCAAATCATTAT
* * * ** * * * *
242993 AACCATTTGCTTTGTCATAAAACGATTTTTTCTATTCACACAAGCTTATTTTG
127 GACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACTAGCTTATTTAG
*
243046 AATAAAA-AACATGAATTTATTAA-A-TT-AAGATAATTAATAAGTAAAAGATTT-AAAAATAAA
1 AATAAAATAAAAT-AATTTATTAATATTTCAA-A-AATTAATAAGT-AAAGATTTAAAAAATAAA
** ** * **
243106 TCTGTTTACTAAACAAGTTCAAATCTTTATGACTATTTGAATAATTATTTATTTCAAATTGTTAT
62 TCTGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTAT
* * * **
243171 GACTTTTTGTTTTGTCATAAAATAATTGTTTTTGTTCATACTAGCTTATTCGG
127 GACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACTAGCTTATTTAG
* * * * *
243224 AATAAAATAATATTAATTTATTAATATTTCGACAATTTATAAGTAAAAGATTTAAAAAATAAATA
1 AATAAAATAA-AATAATTTATTAATATTTCAAAAATTAATAAGT-AAAGATTTAAAAAATAAATC
* * * *
243289 TGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAATAATAATCTATTTTAAATCATTATGA
64 TGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGA
* * *
243354 GCTTTTG-TTTGT-ACTAAAATAATTGTTTC-AGCTCATA-TAAGCCTA-TT--
129 CCTTTTGTTTTGTCA-TAAAATAATTGTTTCTA-TTCATACT-AGCTTATTTAG
* * * *
243401 --TAAGAT---A-AA---A-TAATATTCCAAAAATTAA-AGAGTAACAGAATTAAAAAAATGAAT
1 AATAAAATAAAATAATTTATTAATATTTCAAAAATTAATA-AGTAA-AG-ATTTAAAAAATAAAT
* * * * * * * *
243455 -TTTCTTATCGATCAAGCT-GAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACATTAT
63 CTGT-TTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTAT
* * * * * * * **
243518 GACATTTTGTTTTGTCATCAAACAATTGGTTCTATTCATGCAAGCGTATTTTC
127 GACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACTAGCTTATTTAG
* * *
243571 AATAAAATAATATAAATTTATTAATATTTCAAAAATTAATAAGTATAA-TTTTAGAAAATAAAGT
1 AATAAAATAAAAT-AATTTATTAATATTTCAAAAATTAATAAGTA-AAGATTTAAAAAATAAA-T
* ** *
243635 -TATTTTTCGAACACA-TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTAT
63 CTGTTTACCGAACA-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTAT
*
243698 GACCATTTGTTTTGTCATAAA
127 GACCTTTTGTTTTGTCATAAA
243719 CCAATTATTT
Statistics
Matches: 1083, Mismatches: 238, Indels: 143
0.74 0.16 0.10
Matches are distributed among these distances:
165 3 0.00
166 66 0.06
167 50 0.05
168 4 0.00
170 2 0.00
172 5 0.00
173 5 0.00
174 98 0.09
175 7 0.01
176 5 0.00
177 29 0.03
178 120 0.11
179 55 0.05
180 138 0.13
181 281 0.26
182 204 0.19
183 11 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
AATAAAATAAAATAATTTATTAATATTTCAAAAATTAATAAGTAAAGATTTAAAAAATAAATCTG
TTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACC
TTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACTAGCTTATTTAG
Found at i:243188 original size:360 final size:352
Alignment explanation
Indices: 242145--243376 Score: 1031
Period size: 360 Copynumber: 3.4 Consensus size: 352
242135 GATAATTTAT
* * * * * * *
242145 AAATAAAATAAAACTAATCTAATAATATTATAAAAATTAATAACAAAGAGATTTAAAAAATAAAA
1 AAATAAAATAATATTAAT-TATTAATATTTTGAAAATT-ATAATAAAGA-TTTTAAAAAAT-AAA
* * * * * * * * * * *
242210 T-TGTTTGCCGAACTAGTTCAAATAGTTAAAACTATATGAATAATTATCTATTTCAAATCATTAT
62 TCTGTTTACTGAACAAGTTTAAATAATTAAGACTATTTAAACAATTATTTATTTCAAATCACTAT
* * *
242274 AACCCTTTGTTTTGTCATAAAATAATATTTTCAATTCATACTAGCTTATTTAGAATAAAATAAAA
127 AACCATTTG-TTTGTCATAAAATAATATTTTCTATTCATACAAGCTTATTTAGAATAAAATAAAA
* * *
242339 TAAATTTATTAAAATTTCAA-AAATTAATAAGTAAGAGAATTAAAAAATAATTCTATTTACCTAA
191 TAAATTTATT-AAA-TT-AAGAAATTAATAAGTAAAAG-ATTAAAAAATAAATCTGTTTA-CTAA
* * *
242403 CTAGTTCCAATAATAATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTT
251 CTAGTTCAAATCATAATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTT
* *
242468 GTCATAAAACTAATGTTTTTGTTCATATAAGTTTGTTCA
316 GTCATAAAA-TAAT-TTTTTGTTCATATAAGCTTATTCA
* * * *
242507 AAATAAAATAATACTAATATATTAATA-TTTCAAAAAT-TAATAAAAATTTTAAAAAATAAATCT
1 AAATAAAATAATATTAAT-TATTAATATTTTGAAAATTATAATAAAGATTTTAAAAAATAAATCT
* * * * * * * *
242570 ATTTA-TCAA-ATCGGTT-CA-AATTAAGACTATTTAAGCAATTATTTATTTCAAATCATTATGA
65 GTTTACTGAACA-AGTTTAAATAATTAAGACTATTTAAACAATTATTTATTTCAAATCACTATAA
** * * * * * * * * *
242631 CTTTTTGTTCTATTATAAGATAATAGTTTCTATTTATTCAAGCTTATTTAGATTAAAATAATACA
129 CCATTTGTT-TGTCATAAAATAATATTTTCTATTCATACAAGCTTATTTAGAATAAAATAAAATA
* ** *
242696 AATTTGTTAATATTTTGACAATTAATAAGTAAATA-ATGTAAAAAATTAAATATGTTTACTGAAC
193 AATTTATTAA-ATTAAGA-AATTAATAAGTAAA-AGAT-TAAAAAA-TAAATCTGTTTACT-AAC
* ** ** * *
242760 TAGATT-AAA-CAGTCATGACCGTTTGAATTGTTATCTATTTCAAATCGTTATGACCTTTTCTTT
252 TAG-TTCAAATCA-TAATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTT
* **
242823 TGTCATAAAAAAATTATTTCAATTCATATAAGCTTATTCA
315 TGTCATAAAATAATT-TTT-TGTTCATATAAGCTTATTCA
* * *
242863 AAATAAAATAATATTAAGTTATAAATATTTTGAAAATTCATAATTAAGAGATTTTCAAAAATGAA
1 AAATAAAATAATATTAA-TTATTAATATTTTGAAAATT-ATAA-TAA-AGATTTTAAAAAATAAA
* *
242928 TCTGTTTACTGAACAAGTTTAAATAATTATA-ATTATTTAAACAATTATTTATTGT-AAATCGCT
62 TCTGTTTACTGAACAAGTTTAAATAATTA-AGACTATTTAAACAATTATTTATT-TCAAATCACT
** * * *
242991 ATAACCATTTGCTTTGTCATAAAACGATTTTTTCTATTCACACAAGCTTATTTTGAATAAAA-AA
125 ATAACCATTTG-TTTGTCATAAAATAATATTTTCTATTCATACAAGCTTATTTAGAATAAAATAA
* * *
243055 CATGAATTTATTAAATTAAGATAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTACTAAAC
189 AATAAATTTATTAAATTAAGA-AATTAATAAGTAAAAGATTAAAAAATAAATCTGTTTACT-AAC
* * * * *
243120 AAGTTCAAATCTTTATGACTATTTGAATAATTATTTATTTCAAATTGTTATGACTTTTTGTTTTG
252 TAGTTCAAATCATAATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTG
*
243185 TCATAAAATAATTGTTTTTGTTCATACT-AGCTTATTCG
317 TCATAAAATAA-T-TTTTTGTTCATA-TAAGCTTATTCA
* * *
243223 GAATAAAATAATATTAATTTATTAATATTTCGACAATTTATAAGTAAAAGA-TTTAAAAAATAAA
1 AAATAAAATAATATTAA-TTATTAATATTTTGA-AAATTATAA-T-AAAGATTTTAAAAAATAAA
* * * * * * * * * * * * *
243287 TATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAATAATAATCTATTTTAAATCATTAT
62 TCTGTTTACTGAACAAGTTTAAATAATTAAGACTATTTAAACAATTATTTATTTCAAATCACTAT
* * *
243352 GAGCTTTTGTTTGT-ACTAAAATAAT
127 AACCATTTGTTTGTCA-TAAAATAAT
243377 TGTTTCAGCT
Statistics
Matches: 688, Mismatches: 144, Indels: 80
0.75 0.16 0.09
Matches are distributed among these distances:
354 10 0.01
355 121 0.18
356 111 0.16
357 20 0.03
358 27 0.04
359 77 0.11
360 130 0.19
361 47 0.07
362 52 0.08
363 14 0.02
364 75 0.11
365 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (352 bp):
AAATAAAATAATATTAATTATTAATATTTTGAAAATTATAATAAAGATTTTAAAAAATAAATCTG
TTTACTGAACAAGTTTAAATAATTAAGACTATTTAAACAATTATTTATTTCAAATCACTATAACC
ATTTGTTTGTCATAAAATAATATTTTCTATTCATACAAGCTTATTTAGAATAAAATAAAATAAAT
TTATTAAATTAAGAAATTAATAAGTAAAAGATTAAAAAATAAATCTGTTTACTAACTAGTTCAAA
TCATAATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAAT
AATTTTTTGTTCATATAAGCTTATTCA
Found at i:243852 original size:15 final size:15
Alignment explanation
Indices: 243832--243863 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
243822 AATATATCAA
*
243832 TATTCATTAATTAAT
1 TATTCATTAAATAAT
243847 TATTCATTAAATAAT
1 TATTCATTAAATAAT
243862 TA
1 TA
243864 ATGATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTCATTAAATAAT
Found at i:243945 original size:12 final size:12
Alignment explanation
Indices: 243930--243955 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
243920 TTCATATTAA
243930 TAATTTATATAT
1 TAATTTATATAT
243942 TAATTTATATAT
1 TAATTTATATAT
243954 TA
1 TA
243956 TATTGAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTATATAT
Found at i:244331 original size:28 final size:27
Alignment explanation
Indices: 244243--244350 Score: 69
Period size: 28 Copynumber: 3.8 Consensus size: 27
244233 ACAATCCAAT
244243 TTAATATTAA-ATTATAATAATTAAATTA
1 TTAATATTAATATTATAAT-ATTAAA-TA
* *
244271 TTAATTTATGATAATTAGTATAATA-TATTATA
1 TTAA--TAT--TAA-TATTATAATATTA-AATA
244303 TTAATCATTAATATTATAATATTAAATA
1 TTAAT-ATTAATATTATAATATTAAATA
* * *
244331 -TATTATTAATAATCTAATAT
1 TTAATATTAATATTATAATAT
244351 ATTACTCAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
26 14 0.22
27 3 0.05
28 16 0.25
29 5 0.08
30 4 0.06
31 2 0.03
32 11 0.17
33 2 0.03
34 7 0.11
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
TTAATATTAATATTATAATATTAAATA
Found at i:244779 original size:19 final size:20
Alignment explanation
Indices: 244749--244788 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
244739 TATAATTGAC
244749 TATTTAAAAATAATAA-ATAT
1 TATTTAAAAAT-ATAATATAT
244769 TATTT-AAAATATAATATAT
1 TATTTAAAAATATAATATAT
244788 T
1 T
244789 TCACATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTAAAAATATAATATAT
Found at i:245264 original size:15 final size:18
Alignment explanation
Indices: 245210--245259 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
245200 ACAAATACCA
*
245210 TAATAATATAT-ATTATT
1 TAATATTATATAATTATT
*
245227 AGAATATTATATAATTATT
1 -TAATATTATATAATTATT
245246 TAATATTAT-TAATT
1 TAATATTATATAATT
245260 TTAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 17 0.61
19 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAATATTATATAATTATT
Found at i:245535 original size:16 final size:17
Alignment explanation
Indices: 245516--245550 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
245506 AAATATTATT
245516 TATAAATAA-TAGTATA
1 TATAAATAACTAGTATA
*
245532 TATAAATAACTATTATA
1 TATAAATAACTAGTATA
245549 TA
1 TA
245551 AGTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
TATAAATAACTAGTATA
Found at i:245574 original size:15 final size:15
Alignment explanation
Indices: 245556--245627 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
245546 ATATAAGTTA
245556 TTATTTTAATAATAG
1 TTATTTTAATAATAG
*
245571 TTATATTAGATAACTA-
1 TTATTTTA-ATAA-TAG
245587 TTATTTT-ATAAATAG
1 TTATTTTAAT-AATAG
* *
245602 TTAATTT-ATATTAAG
1 TTATTTTAATAAT-AG
*
245617 TTAATTTAATA
1 TTATTTTAATA
245628 TATTAATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
14 6 0.13
15 26 0.55
16 13 0.28
17 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (15 bp):
TTATTTTAATAATAG
Found at i:245956 original size:22 final size:23
Alignment explanation
Indices: 245926--245970 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
245916 TTTCGAATAA
*
245926 GCTTGTATGATAAAA-AAACAATT
1 GCTTGTATGACAAAACAAA-AATT
245949 GCTT-TATGACAAAACAAAAATT
1 GCTTGTATGACAAAACAAAAATT
245971 CATTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (23 bp):
GCTTGTATGACAAAACAAAAATT
Found at i:246049 original size:30 final size:28
Alignment explanation
Indices: 246014--246128 Score: 83
Period size: 30 Copynumber: 3.9 Consensus size: 28
246004 CTAACTAATA
246014 ATTATTTAATTATATATAATTAAATAA-ACT
1 ATTATTTAATT-TATAT-ATT-AATAATACT
* *
246044 ATTATTAAATTTATATATTAATAATAGT
1 ATTATTTAATTTATATATTAATAATACT
* *
246072 -TTATTTAATATTTAAATATT-ATAAGTAAAT
1 ATTATTT-A-ATTTATATATTAATAA-T-ACT
246102 ATTATATTAATTTATAAATATTAATAA
1 ATTAT-TTAATTTAT--ATATTAATAA
246129 CTAAATTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
27 10 0.14
28 10 0.14
29 16 0.23
30 17 0.25
31 5 0.07
32 7 0.10
33 4 0.06
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTATTTAATTTATATATTAATAATACT
Found at i:246120 original size:32 final size:32
Alignment explanation
Indices: 246038--246151 Score: 93
Period size: 31 Copynumber: 3.7 Consensus size: 32
246028 TATAATTAAA
*
246038 TAAACTATTA-TTAA-ATTTATATATTAATAA-
1 TAAA-TATTATTTAATATTTAAATATTAATAAC
* *
246068 T-AGT-TTATTTAATATTTAAATATT-ATAAG
1 TAAATATTATTTAATATTTAAATATTAATAAC
246097 TAAATATTATATTAAT-TTATAAATATTAATAAC
1 TAAATATTAT-TTAATATT-TAAATATTAATAAC
*
246130 TAAAT-TAATTTAAT-TGTTAAAT
1 TAAATATTATTTAATAT-TTAAAT
246152 TAAATATTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
27 3 0.04
28 9 0.13
29 12 0.17
30 3 0.04
31 17 0.24
32 17 0.24
33 9 0.13
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
TAAATATTATTTAATATTTAAATATTAATAAC
Found at i:246151 original size:31 final size:29
Alignment explanation
Indices: 246015--246151 Score: 95
Period size: 29 Copynumber: 4.6 Consensus size: 29
246005 TAACTAATAA
* *
246015 TTATTTAATTATATATAATT-A-AATAAACT
1 TTATTTAATTTTAAAT-ATTAATAATAAA-T
* * *
246044 ATTA-TTAAATTTATATATTAATAAT-AGT
1 -TTATTTAATTTTAAATATTAATAATAAAT
246072 TTATTTAATATTTAAATATT-ATAAGTAAAT
1 TTATTTAAT-TTTAAATATTAATAA-TAAAT
246102 ATTATATTAATTTATAAATATTAATAACTAAAT
1 -TTAT-TTAATTT-TAAATATTAATAA-TAAAT
*
246135 TAATTTAATTGTTAAAT
1 TTATTTAATT-TTAAAT
246152 TAAATATTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
27 3 0.03
28 12 0.14
29 22 0.25
30 8 0.09
31 17 0.19
32 17 0.19
33 9 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (29 bp):
TTATTTAATTTTAAATATTAATAATAAAT
Found at i:246519 original size:23 final size:24
Alignment explanation
Indices: 246480--246546 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 24
246470 TAATCTATTT
*
246480 GATTTAAT-TATATAAATAAAT-TA
1 GATTTAATATTTA-AAATAAATATA
*
246503 GATTTAATATTTAAAATTAATATA
1 GATTTAATATTTAAAATAAATATA
*
246527 TATTATAATA-TTAAATATAA
1 GATT-TAATATTTAAA-ATAA
246547 CTAGTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 15 0.42
24 13 0.36
25 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
GATTTAATATTTAAAATAAATATA
Found at i:246592 original size:37 final size:35
Alignment explanation
Indices: 246482--246592 Score: 82
Period size: 37 Copynumber: 3.0 Consensus size: 35
246472 ATCTATTTGA
* * *
246482 TTTAAT-TATATAAATAAATTAGATTTAATATTTAAA
1 TTTAATATATAT-TATAAATTA-ATTAAATATTTAAT
* * *
246518 ATTAATATATATTATAATATTAAATATAACTA-GTAAT
1 TTTAATATATATTATAA-ATT-AAT-TAAATATTTAAT
*
246555 TTTAATAATTATTTTATAAATTAATTAAATATTTAAT
1 TTTAAT-A-TATATTATAAATTAATTAAATATTTAAT
246592 T
1 T
246593 ATTATGTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
36 14 0.24
37 26 0.45
38 9 0.16
39 9 0.16
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (35 bp):
TTTAATATATATTATAAATTAATTAAATATTTAAT
Found at i:246593 original size:28 final size:27
Alignment explanation
Indices: 246560--246612 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
246550 GTAATTTTAA
*
246560 TAATTATTTTATAAATTAATTAAATATT
1 TAATTATTATAT-AATTAATTAAATATT
* *
246588 TAATTATTATGTAATTAATTTAATA
1 TAATTATTATATAATTAATTAAATA
246613 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TAATTATTATATAATTAATTAAATATT
Found at i:246770 original size:19 final size:19
Alignment explanation
Indices: 246732--246767 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
246722 TAATTTTATA
*
246732 TTAATTTAACTAATATAAT
1 TTAATTTAAATAATATAAT
246751 TTAATTTAAAT-ATATAA
1 TTAATTTAAATAATATAA
246768 ATTATTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATTTAAATAATATAAT
Found at i:246784 original size:23 final size:23
Alignment explanation
Indices: 246756--246846 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 23
246746 ATAATTTAAT
*
246756 TTAAATATATAAATTATTAATTA
1 TTAAATATATAATTTATTAATTA
* *
246779 TTAAATATTTAATTTATTAATGA
1 TTAAATATATAATTTATTAATTA
246802 TT--ATAT-TAATTTATTAA-TA
1 TTAAATATATAATTTATTAATTA
*
246821 TTAATAAATATATATTTATTGAATTA
1 TTAA-ATATATA-ATTTATT-AATTA
246847 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:246797 original size:16 final size:16
Alignment explanation
Indices: 246772--246822 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
246762 ATATAAATTA
246772 TTAA-TTATTAAATAT
1 TTAATTTATTAAATAT
246787 TTAATTTATTAATGATTAT
1 TTAATTTATTAA--A-TAT
246806 ATTAATTTATT-AATAT
1 -TTAATTTATTAAATAT
246822 T
1 T
246823 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:246812 original size:20 final size:19
Alignment explanation
Indices: 246721--246823 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 19
246711 ACTGCATTAT
*
246721 TTAATTTTATATTAATTTAA
1 TTAATATTATATTAATTT-A
* *
246741 CTAATATAAT-TTAATTTA
1 TTAATATTATATTAATTTA
246759 --AATA-TATA--AA-TTA
1 TTAATATTATATTAATTTA
246772 TTAATTATTAAATATTTAATTTA
1 TTAA-TATT--ATA-TTAATTTA
246795 TTAATGATTATATTAATTTA
1 TTAAT-ATTATATTAATTTA
246815 TTAATATTA
1 TTAATATTA
246824 ATAAATATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 25
0.70 0.04 0.26
Matches are distributed among these distances:
13 3 0.04
14 2 0.03
15 4 0.06
16 6 0.09
17 1 0.01
18 1 0.01
19 14 0.21
20 20 0.30
21 3 0.04
22 3 0.04
23 10 0.15
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (19 bp):
TTAATATTATATTAATTTA
Found at i:247571 original size:181 final size:180
Alignment explanation
Indices: 247177--247582 Score: 467
Period size: 181 Copynumber: 2.2 Consensus size: 180
247167 GGACTAGTTG
* * * * * * *
247177 AAATAGTTAAGACTATATGAATGATTATCTATTTCAAATCGTTATGACCTTTTCTTTTGTCGTAA
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTATTTGGTCATAA
* * * * *
247242 AATAATTATTTTGTTCATACAAGCTTATTTGGATTAAAATAATACTAATTTAATAATATTTCAAA
66 AACAATTATTTTGTTCATAAAAGCTTATTTAGAATAAAATAATACTAATTTAATAACATTTCAAA
* * * * * * *
247307 AATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTATCGAATCAGTTC
131 AATTAATAACAAAGAGATTAAAAAAATAAATCTATTTATCCAAACAGTAC
* * * *
247357 AAATATTTAAGACTATTAGAATAATTATCTATTTCAAATCATTCTGACATTTTATTTGGTTATAA
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTATTTGGTCATAA
* * * *
247422 AACAATTGTTTTAGTTCATAAAAGGTTATTTAGAATAAATTAATACTAATTTAGTAACA-TTCAA
66 AACAATTATTTT-GTTCATAAAAGCTTATTTAGAATAAAATAATACTAATTTAATAACATTTC-A
247486 AAAATTAATAA-AAATGAGATTAAAAAAATAAATCTATTTA-CCAAACAAGTAC
129 AAAATTAATAACAAA-GAGATTAAAAAAATAAATCTATTTATCCAAAC-AGTAC
** * * *
247538 AAATAGTTATTACTATTTGAACAATTGTCTATTTTAAATCATTAT
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCATTAT
247583 AACCAATTAT
Statistics
Matches: 187, Mismatches: 35, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
180 73 0.39
181 114 0.61
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (180 bp):
AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTATTTGGTCATAA
AACAATTATTTTGTTCATAAAAGCTTATTTAGAATAAAATAATACTAATTTAATAACATTTCAAA
AATTAATAACAAAGAGATTAAAAAAATAAATCTATTTATCCAAACAGTAC
Found at i:248294 original size:15 final size:16
Alignment explanation
Indices: 248276--248308 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
248266 ATAATATTTC
*
248276 AAAAA-TTAATAAATA
1 AAAAATTTAAAAAATA
248291 AAAAATTTAAAAAATA
1 AAAAATTTAAAAAATA
248307 AA
1 AA
248309 TATGCTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTTAAAAAATA
Found at i:248877 original size:183 final size:181
Alignment explanation
Indices: 248506--248878 Score: 399
Period size: 183 Copynumber: 2.0 Consensus size: 181
248496 TTAACATTCG
* * * *
248506 CAATTGTTTCAGTTCATAGAAGCTTATCCAAAATAAAATAATACTAATTTCTTAATATTTCAAAA
1 CAATTGTTTCAATTCATAGAAGCTTATCCAAAAAAAAAAAATACTAATTTATTAATATTTCAAAA
* * * * *
248571 GTTTGTAAGCAAGAGTTTAAAAAAATAAATTTGTTTACAAAACAAATTCAAATAGTTATGACTAT
66 ATCTATAAGCAAGAGTTTAAAAAAATAAATTTGTTTACAAAACAAATTCAAATAATTATGACAAT
* * * * * * *
248636 TTGAATAATTGTCTATTTAAAATTATTATGACCTTTTGTTTTGTCATAAAA
131 CTCAACAATTATCTATTTAAAATCATTATGACCTTTTCTTTAGTCATAAAA
* **
248687 CAATTGTTTCAATTCATATAAGCTTATTTAGAATAAAAAAAAATACTAATTTATTAATATTTCAA
1 CAATTGTTTCAATTCATAGAAGCTTATCCA-AA-AAAAAAAAATACTAATTTATTAATATTTCAA
* * * * * * * *
248752 AAATCTATAAGTAAGTGATTT-AAAAAGTGAATTTGTTTACCGAATC-AATTTAAATAATTATGG
64 AAATCTATAAGCAAGAG-TTTAAAAAAATAAATTTGTTTA-CAAAACAAATTCAAATAATTATGA
* * * * *
248815 CAATCTCAACAATTATCTGTTTCAAATCATTATTATCTTTTCTTTAGTCATATAA
127 CAATCTCAACAATTATCTATTTAAAATCATTATGACCTTTTCTTTAGTCATAAAA
*
248870 TAATTGTTT
1 CAATTGTTT
248879 TTTTATCATA
Statistics
Matches: 155, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
181 26 0.17
182 2 0.01
183 120 0.77
184 7 0.05
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (181 bp):
CAATTGTTTCAATTCATAGAAGCTTATCCAAAAAAAAAAAATACTAATTTATTAATATTTCAAAA
ATCTATAAGCAAGAGTTTAAAAAAATAAATTTGTTTACAAAACAAATTCAAATAATTATGACAAT
CTCAACAATTATCTATTTAAAATCATTATGACCTTTTCTTTAGTCATAAAA
Found at i:249598 original size:20 final size:20
Alignment explanation
Indices: 249505--249610 Score: 64
Period size: 20 Copynumber: 5.3 Consensus size: 20
249495 ATACTATTTT
249505 ATTAT-TAT-ATTATATAAA
1 ATTATATATAATTATATAAA
**
249523 A-TATA-ATAATTATATTTA
1 ATTATATATAATTATATAAA
249541 ATCTATAT-TAAATTAGTATAATCTA
1 AT-TATATAT-AATTA-TATAA---A
249566 ATTA-AGTAT-ATTATATAAA
1 ATTATA-TATAATTATATAAA
* *
249585 ATTATATATAATTATGTATA
1 ATTATATATAATTATATAAA
249605 ATTATA
1 ATTATA
249611 ATTTTCAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
17 5 0.07
18 10 0.15
19 8 0.12
20 20 0.29
21 5 0.07
22 8 0.12
23 5 0.07
24 3 0.04
25 4 0.06
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTATATATAATTATATAAA
Found at i:249705 original size:22 final size:24
Alignment explanation
Indices: 249673--249727 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
249663 AATTGTACTA
* *
249673 AATTATAAATTTATATAATT-AAT
1 AATTATTAATTTATAAAATTGAAT
249696 -ATTATTAA-TTATAAAATTGAAT
1 AATTATTAATTTATAAAATTGAAT
249718 AATTA-TAATT
1 AATTATTAATT
249728 AAATTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.33
22 13 0.48
23 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AATTATTAATTTATAAAATTGAAT
Found at i:249728 original size:29 final size:28
Alignment explanation
Indices: 249671--249736 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
249661 AAAATTGTAC
*
249671 TAAATTAT-AAATTTATATAATTAATAT
1 TAAATTATAAAATTGATATAATTAATAT
249698 TATTAATTATAAAATTGA-ATAATT-ATAAT
1 TA--AATTATAAAATTGATATAATTAAT-AT
249727 TAAATTATAA
1 TAAATTATAA
249737 TATCTATCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 10 0.29
28 2 0.06
29 16 0.47
30 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAATTATAAAATTGATATAATTAATAT
Found at i:250072 original size:180 final size:178
Alignment explanation
Indices: 249760--250508 Score: 615
Period size: 181 Copynumber: 4.2 Consensus size: 178
249750 TTGTTATGAT
* * * ** * * * *
249760 TTTTGTTTTGTCCTAAAACATTTAATTTCTGTTCA-ACAAGCTTATTCAGAGTAAAATATTGCTA
1 TTTTGTTTAGTCATAAAACAATT-ATTTC-AATCATACAAGCTTATTCAAAATAAAATAATACTA
* * * * * * * * *
249824 AATTAATAATATTCTAAACATTAATAAGTAAG-GATTTAAAAAATAAATGTGTTT-GCTGAATTA
64 ATTTATTAATATT-AAAAAATTGATAAGTAAGAGATTT-AAAAATAAATCTATTTATC-GAATCA
* * *
249887 GTTCAAATAATTAAGACTATTAGAACAATTATCTATTTCAAATCGTTTTGACC
126 GTTCAAATAATTATGACTATTAGAACAATTATCTATTTCAAATCATTATGACC
* * *
249940 TTTTGTTTAGTCATAAAATAATTACTTCAACTCATACATGCTTATTCAAAATAAAATAATACTAA
1 TTTTGTTTAGTCATAAAACAATTATTTCAA-TCATACAAGCTTATTCAAAATAAAATAATACTAA
* * * * *
250005 TTTATTAACATTCAGAAAATTGTTAAAGTAAGA-AATTAGAAAA-AAATCTATTTACCGAA-CAA
65 TTTATTAATATT-AAAAAATTGAT-AAGTAAGAGATTTA-AAAATAAATCTATTTATCGAATC-A
* * * * *
250067 GTTCAAATATTTTTGACTATTTGAACAATTATCTATTTAAAATCGTTATGACC
126 GTTCAAATAATTATGACTATTAGAACAATTATCTATTTCAAATCATTATGACC
* * * * *
250120 TTATAT-TTTA-TCATAAAACAATTGTTTCAGTTCATAAAACCTTA-TCTAAAATAAAATAATAT
1 TT-T-TGTTTAGTCATAAAACAATTATTTCA-ATCATACAAGCTTATTC-AAAATAAAATAATAC
* * *
250182 TACTTTATTAATATTATAAAAATTGATAAGTTAGATATTTAAAACATAAATC-AGTTTATCGAAT
62 TAATTTATTAATATTA-AAAAATTGATAAGTAAGAGATTTAAAA-ATAAATCTA-TTTATCGAAT
* * * * * *
250246 CAGTTTAAATAACTATGGCCATTTA-AACAATTATTTATTTCAAATCATTATGAAC
124 CAGTTCAAATAATTATGACTA-TTAGAACAATTATCTATTTCAAATCATTATGACC
* * * * *
250301 TTTAGTTTTGTCATAAAACAATTGTTTTTC-ATCATACAAGCCTATTCAGAATAAAATAATACTA
1 TTTTGTTTAGTCATAAAACAA-T-TATTTCAATCATACAAGCTTATTCAAAATAAAATAATACTA
* * * *
250365 ATTTATTAATATTTAAAAAATTAATAAGTAGGAGATTTAAAAAATAAATTTGTTTATCGAATCAG
64 ATTTATTAATA-TTAAAAAATTGATAAGTAAGAGATTT-AAAAATAAATCTATTTATCGAATCAG
* * * * * *
250430 TTTATATAGTTATGACTATTTGAACAATTATATATTTTC-AATCATTATAACC
127 TTCAAATAATTATGACTATTAGAACAATTATCTA-TTTCAAATCATTATGACC
* *
250482 TCTTGTTTTGTCATAAAACAATTATTT
1 TTTTGTTTAGTCATAAAACAATTATTT
250509 ATCTTCATAA
Statistics
Matches: 456, Mismatches: 85, Indels: 57
0.76 0.14 0.10
Matches are distributed among these distances:
179 24 0.05
180 196 0.43
181 213 0.47
182 18 0.04
183 5 0.01
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (178 bp):
TTTTGTTTAGTCATAAAACAATTATTTCAATCATACAAGCTTATTCAAAATAAAATAATACTAAT
TTATTAATATTAAAAAATTGATAAGTAAGAGATTTAAAAATAAATCTATTTATCGAATCAGTTCA
AATAATTATGACTATTAGAACAATTATCTATTTCAAATCATTATGACC
Found at i:251109 original size:18 final size:19
Alignment explanation
Indices: 251084--251132 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
251074 ATTATTAAAC
251084 TAAA-AATAATTAAT-ATT
1 TAAATAATAATTAATAATT
** *
251101 TTTATAAT-ATTAGTAATT
1 TAAATAATAATTAATAATT
251119 TAAATAATAATTAA
1 TAAATAATAATTAA
251133 AAAATATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAATAATAATTAATAATT
Found at i:251755 original size:9 final size:9
Alignment explanation
Indices: 251741--251789 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
251731 GTTTAAATTT
251741 TAATTAATA
1 TAATTAATA
251750 TAATT-AT-
1 TAATTAATA
251757 TAATT-ATA
1 TAATTAATA
251765 TAA-TAATA
1 TAATTAATA
*
251773 TTAATTCATA
1 -TAATTAATA
251783 TAATTAA
1 TAATTAA
251790 ATACTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 8 0.24
8 8 0.24
9 14 0.41
10 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (9 bp):
TAATTAATA
Found at i:251765 original size:15 final size:16
Alignment explanation
Indices: 251736--251788 Score: 65
Period size: 15 Copynumber: 3.3 Consensus size: 16
251726 AACTAGTTTA
251736 AATT-TTAATTAATAT
1 AATTATTAATTAATAT
251751 AATTATTAATT-ATAT
1 AATTATTAATTAATAT
*
251766 AATAATATTAATTCATAT
1 AAT--TATTAATTAATAT
251784 AATTA
1 AATTA
251789 AATACTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.32
16 8 0.24
17 8 0.24
18 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTATTAATTAATAT
Found at i:251792 original size:20 final size:18
Alignment explanation
Indices: 251734--251816 Score: 82
Period size: 18 Copynumber: 4.6 Consensus size: 18
251724 TAAACTAGTT
*
251734 TAAATTTTAATTA-AT-A
1 TAAATATTAATTATATAA
*
251750 TAATTATTAATTATATAA
1 TAAATATTAATTATATAA
251768 T-AATATTAATTCATATAA
1 TAAATATTAATT-ATATAA
* *
251786 TTAAATACTAAATTATATTA
1 -TAAATA-TTAATTATATAA
251806 TAAATATTAAT
1 TAAATATTAAT
251817 AAATAAAAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
16 11 0.20
17 11 0.20
18 12 0.22
19 7 0.13
20 9 0.16
21 5 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATATTAATTATATAA
Found at i:252835 original size:15 final size:16
Alignment explanation
Indices: 252810--252840 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
252800 AATATATTTA
252810 TTAATATTTATTAATT
1 TTAATATTTATTAATT
252826 TTAA-ATTTATTAATT
1 TTAATATTTATTAATT
252841 AATTAATTTA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATATTTATTAATT
Found at i:252838 original size:9 final size:8
Alignment explanation
Indices: 252805--252857 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
252795 GATAAAATAT
252805 ATTTATTAA
1 ATTTATT-A
252814 TATTTATTA
1 -ATTTATTA
*
252823 ATTT-TAA
1 ATTTATTA
252830 ATTTATTA
1 ATTTATTA
*
252838 ATTAATTA
1 ATTTATTA
252846 ATTTAATTA
1 ATTT-ATTA
252855 ATT
1 ATT
252858 ATATACAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 6 0.16
8 16 0.43
9 8 0.22
10 7 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTTATTA
Found at i:253274 original size:19 final size:19
Alignment explanation
Indices: 253246--253286 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
253236 ATAATTTTCA
* *
253246 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
253265 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
253284 AAA
1 AAA
253287 CAACAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:253830 original size:22 final size:22
Alignment explanation
Indices: 253780--253846 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
253770 TAATCAATAA
253780 TATACTAAT-ATAA-TATTA-T
1 TATACTAATAATAATTATTAGT
*
253799 TATAAATAATAATAATTATTAGT
1 TAT-ACTAATAATAATTATTAGT
*
253822 TATACTAATAAAAATCTA-TAGT
1 TATACTAATAATAAT-TATTAGT
253844 TAT
1 TAT
253847 TATTAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 3 0.08
20 5 0.12
21 4 0.10
22 22 0.55
23 6 0.15
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (22 bp):
TATACTAATAATAATTATTAGT
Found at i:254235 original size:26 final size:25
Alignment explanation
Indices: 254160--254235 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
254150 ATCATATGAT
*
254160 AATTT-ATATTAAATTAGATTATACT-
1 AATTTAATATT-AATTA-ATTATATTA
*
254185 AATTTAATATTAATT-GTTATAATTA
1 AATTTAATATTAATTAATTAT-ATTA
*
254210 AATATTATTATTAATTAATTATATTA
1 AAT-TTAATATTAATTAATTATATTA
254236 TAAATAGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
23 4 0.10
24 2 0.05
25 12 0.29
26 20 0.48
27 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (25 bp):
AATTTAATATTAATTAATTATATTA
Found at i:254538 original size:19 final size:18
Alignment explanation
Indices: 254512--254560 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
254502 CAAATTATAA
*
254512 AAATTATTAATAATCATT
1 AAATTATTAATAATAATT
* *
254530 AATATTATTATTAGTAATT
1 AA-ATTATTAATAATAATT
254549 AAATTA-TAATAA
1 AAATTATTAATAA
254561 ATATATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 15 0.60
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATTATTAATAATAATT
Done.