Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold127
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: 4281254
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 14 of 26
Found at i:2358332 original size:16 final size:17
Alignment explanation
Indices: 2358311--2358343 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2358301 AGTTTTTAAA
2358311 ATTTATATAT-ATTTTT
1 ATTTATATATAATTTTT
*
2358327 ATTTATCTATAATTTTT
1 ATTTATATATAATTTTT
2358344 TTTTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTATATATAATTTTT
Found at i:2365640 original size:21 final size:21
Alignment explanation
Indices: 2365615--2365658 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2365605 AATAAAAATA
*
2365615 AATTATAAATAT-TAAAATTTT
1 AATTA-AAATATAAAAAATTTT
*
2365636 AATTAAATTATAAAAAATTTT
1 AATTAAAATATAAAAAATTTT
2365657 AA
1 AA
2365659 CCCTTTGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAAAATATAAAAAATTTT
Found at i:2365951 original size:3 final size:3
Alignment explanation
Indices: 2365943--2365972 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2365933 ATGGTGATTT
2365943 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2365973 ATTTTTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2366299 original size:28 final size:26
Alignment explanation
Indices: 2366239--2366299 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
2366229 AATATAATTT
2366239 TATATTTAAATTTAGTAATATAAAAA
1 TATATTTAAATTTAGTAATATAAAAA
* * *
2366265 TATTATTTAAGTTTATTTAATTTAAAAAA
1 TA-TATTTAAATTTA-GTAATAT-AAAAA
2366294 TATATT
1 TATATT
2366300 ATTTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 11 0.38
28 9 0.31
29 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
TATATTTAAATTTAGTAATATAAAAA
Found at i:2367423 original size:2 final size:2
Alignment explanation
Indices: 2367418--2367443 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2367408 TATCTTTTAC
2367418 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2367444 TTATGGGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2367577 original size:8 final size:7
Alignment explanation
Indices: 2367534--2367576 Score: 59
Period size: 7 Copynumber: 5.7 Consensus size: 7
2367524 AATTTATAAA
2367534 TAAAATAT
1 TAAAAT-T
2367542 TATAAATTT
1 TA-AAA-TT
2367551 TAAAATT
1 TAAAATT
2367558 TAAAATT
1 TAAAATT
2367565 TAAAATT
1 TAAAATT
2367572 TAAAA
1 TAAAA
2367577 ATGTATTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 21 0.64
8 5 0.15
9 6 0.18
10 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAAAATT
Found at i:2368254 original size:11 final size:11
Alignment explanation
Indices: 2368238--2368263 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2368228 AATTTATAAT
2368238 TTTATTAAATA
1 TTTATTAAATA
2368249 TTTATTAAATA
1 TTTATTAAATA
2368260 TTTA
1 TTTA
2368264 ATTTTTTTTA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTATTAAATA
Found at i:2379164 original size:16 final size:16
Alignment explanation
Indices: 2379112--2379166 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
2379102 TTAAGTTGAA
2379112 TATTT-ATA-TAATAAT
1 TATTTAATATTAA-AAT
*
2379127 TATTTATTATATTTAAATT
1 TATTTA--ATA-TTAAAAT
2379146 TATTTAATATTAAAAT
1 TATTTAATATTAAAAT
2379162 TATTT
1 TATTT
2379167 TTAAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 5 0.15
16 11 0.33
17 3 0.09
18 3 0.09
19 8 0.24
20 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:2381390 original size:20 final size:20
Alignment explanation
Indices: 2381337--2381391 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
2381327 ATTAAAATGA
2381337 ATCAATCACATGTTAAAAGG
1 ATCAATCACATGTTAAAAGG
*
2381357 A-CTAA--AGGATGTTAAAAGG
1 ATC-AATCA-CATGTTAAAAGG
2381376 ATCAATCACATGTTAA
1 ATCAATCACATGTTAA
2381392 CTAGTTCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 11 0.39
21 1 0.04
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (20 bp):
ATCAATCACATGTTAAAAGG
Found at i:2385201 original size:20 final size:20
Alignment explanation
Indices: 2385176--2385237 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
2385166 ATTTAAATTA
2385176 ATTTAATAATTAATTTTATT
1 ATTTAATAATTAATTTTATT
* * *
2385196 ATTTAATAAATAATATTAAT
1 ATTTAATAATTAATTTTATT
* * *
2385216 ATTTTAT-ATTATTTTTGTT
1 ATTTAATAATTAATTTTATT
2385235 ATT
1 ATT
2385238 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 10 0.30
20 23 0.70
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTAATAATTAATTTTATT
Found at i:2385214 original size:38 final size:37
Alignment explanation
Indices: 2385172--2385264 Score: 91
Period size: 38 Copynumber: 2.5 Consensus size: 37
2385162 AAAAATTTAA
2385172 ATTAATTTAATAATTAATTTTATTATTTAATAAATAAT
1 ATTAATTTAATAATTAATTTTATTA-TTAATAAATAAT
* * * *
2385210 ATTAATATT-TTATATTATTTTTGTTATTATTAAATAAT
1 ATTAAT-TTAATA-ATTAATTTTATTATTAATAAATAAT
*
2385248 A-TAATTTGAATTATTAA
1 ATTAATTT-AATAATTAA
2385265 AACCTTTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
36 2 0.05
37 8 0.18
38 21 0.48
39 13 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (37 bp):
ATTAATTTAATAATTAATTTTATTATTAATAAATAAT
Found at i:2385567 original size:2 final size:2
Alignment explanation
Indices: 2385560--2385587 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2385550 CAACAATAGC
2385560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2385588 GGAAAGGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2386027 original size:23 final size:24
Alignment explanation
Indices: 2385983--2386028 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2385973 TATTATCAAA
2385983 ATATTATTTTATATTAATATTTAT
1 ATATTATTTTATATTAATATTTAT
2386007 ATATT-TTTTATAATTAA-ATTTA
1 ATATTATTTTAT-ATTAATATTTA
2386029 AATAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATTATTTTATATTAATATTTAT
Found at i:2387484 original size:27 final size:25
Alignment explanation
Indices: 2387404--2387490 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 25
2387394 ACATATAATA
*
2387404 ATTATATTTAAAATATTTTATATTTAT
1 ATTATATTT-TAATATTTTAT-TTTAT
* *
2387431 A-TAAATTTTAATATCTATTCATGTTAT
1 ATTATATTTTAATAT-T-TT-ATTTTAT
*
2387458 ATTATATTTTAATTATTTTATCTT-T
1 ATTATATTTTAA-TATTTTATTTTAT
2387483 ATTATATT
1 ATTATATT
2387491 CGTATTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
25 14 0.28
26 11 0.22
27 10 0.20
28 12 0.24
29 3 0.06
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTATATTTTAATATTTTATTTTAT
Found at i:2388682 original size:14 final size:14
Alignment explanation
Indices: 2388663--2388693 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2388653 AATATCCAAC
2388663 AATTCATCTAATTT
1 AATTCATCTAATTT
2388677 AATTCATCTAATTT
1 AATTCATCTAATTT
2388691 AAT
1 AAT
2388694 CTTCAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTCATCTAATTT
Found at i:2393660 original size:2 final size:2
Alignment explanation
Indices: 2393653--2393708 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2393643 CATGGACCAC
2393653 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2393695 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
2393709 GTGGCAGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2394378 original size:14 final size:16
Alignment explanation
Indices: 2394352--2394383 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2394342 CTTTTTATCT
2394352 AAATATAAATATT-AA
1 AAATATAAATATTCAA
2394367 AAATAT-AATATTCAA
1 AAATATAAATATTCAA
2394382 AA
1 AA
2394384 GGCATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATATAAATATTCAA
Found at i:2396321 original size:15 final size:16
Alignment explanation
Indices: 2396291--2396339 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
2396281 AAATTTTATT
2396291 TAATAAATAATAATTA
1 TAATAAATAATAATTA
*
2396307 TAATAAAATTAATTATTA
1 TAAT-AAA-TAATAATTA
*
2396325 TAATAAGTAA-AATTA
1 TAATAAATAATAATTA
2396340 AAATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.14
16 7 0.25
17 5 0.18
18 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TAATAAATAATAATTA
Found at i:2396456 original size:37 final size:34
Alignment explanation
Indices: 2396415--2396517 Score: 106
Period size: 37 Copynumber: 3.0 Consensus size: 34
2396405 AAAAAATAAA
2396415 ATAATCATTTAAAATTATTAAATTAAAATGTATATAT
1 ATAATCA-TTAAAATTATTAAATTAAAAT-TATAT-T
* *
2396452 ATAATAAATAAAAATTATTAAAATTAAAATTATATT
1 ATAAT-CATTAAAATTATT-AAATTAAAATTATATT
*
2396488 A-AATCA-TAAAA-TA-TATATTAAAATTATATT
1 ATAATCATTAAAATTATTAAATTAAAATTATATT
2396518 TACTTAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
30 15 0.25
31 1 0.02
32 2 0.03
33 4 0.07
34 1 0.02
35 3 0.05
36 2 0.03
37 20 0.34
38 11 0.19
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (34 bp):
ATAATCATTAAAATTATTAAATTAAAATTATATT
Found at i:2396489 original size:17 final size:18
Alignment explanation
Indices: 2396430--2396513 Score: 70
Period size: 16 Copynumber: 4.6 Consensus size: 18
2396420 CATTTAAAAT
2396430 TATT-AAATTAAAATGTATA
1 TATTAAAATTAAAA--TATA
*
2396449 TATATAATAAATAAAA-AT-
1 TAT-TAA-AATTAAAATATA
2396467 TATTAAAATTAAAAT-TA
1 TATTAAAATTAAAATATA
2396484 TATT-AAATCATAAAATATA
1 TATTAAAAT--TAAAATATA
2396503 TATTAAAATTA
1 TATTAAAATTA
2396514 TATTTACTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
16 12 0.22
17 7 0.13
18 11 0.20
19 11 0.20
20 5 0.09
21 1 0.02
22 7 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (18 bp):
TATTAAAATTAAAATATA
Found at i:2396696 original size:22 final size:23
Alignment explanation
Indices: 2396655--2396697 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2396645 AATGAAGTTT
*
2396655 TTTTATTATATTTATTAAAAATA
1 TTTTATTATATTTATCAAAAATA
*
2396678 TTTTA-TATTTTTATCAAAAA
1 TTTTATTATATTTATCAAAAA
2396698 AAATTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTATTATATTTATCAAAAATA
Found at i:2397312 original size:19 final size:18
Alignment explanation
Indices: 2397271--2397313 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2397261 ATTAAATCAT
2397271 TATTTAAGTAAAATAATA
1 TATTTAAGTAAAATAATA
*
2397289 AATTTAA-TAATAATTAATA
1 TATTTAAGTAA-AA-TAATA
2397308 TATTTA
1 TATTTA
2397314 CTTAATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 8 0.38
19 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TATTTAAGTAAAATAATA
Found at i:2397873 original size:25 final size:24
Alignment explanation
Indices: 2397835--2397934 Score: 75
Period size: 24 Copynumber: 4.1 Consensus size: 24
2397825 TAAAATTAGT
2397835 TTAAAATTTAAAAT-TTATTATTTA
1 TTAAAATTTAAAATATTATT-TTTA
2397859 TTAAAATATTAAAATATTATTTTTATA
1 TTAAAAT-TTAAAATATTA-TTTT-TA
* * *
2397886 TTAATATTT-ATATATT-TTTATAA
1 TTAAAATTTAAAATATTATTT-TTA
*
2397909 TT-AAATTTAAATAAATTA-TTTTA
1 TTAAAATTTAAA-ATATTATTTTTA
2397932 TTA
1 TTA
2397935 TTAATATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
22 5 0.08
23 11 0.18
24 14 0.23
25 13 0.22
26 7 0.12
27 10 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAAAATTTAAAATATTATTTTTA
Found at i:2397879 original size:23 final size:23
Alignment explanation
Indices: 2397835--2397880 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2397825 TAAAATTAGT
2397835 TTAAAATTTAAAATTTATTATTTA
1 TTAAAATTTAAAA-TTATTATTTA
2397859 TTAAAATATTAAAA-TATTATTT
1 TTAAAAT-TTAAAATTATTATTT
2397881 TTATATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 7 0.33
25 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAAAATTTAAAATTATTATTTA
Found at i:2397904 original size:22 final size:22
Alignment explanation
Indices: 2397876--2397917 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2397866 ATTAAAATAT
2397876 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
2397898 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
2397918 AATAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:2398573 original size:27 final size:27
Alignment explanation
Indices: 2398543--2398650 Score: 76
Period size: 27 Copynumber: 3.8 Consensus size: 27
2398533 TTATTTTTTA
*
2398543 TTATA-TTATATTAATATTTAAAATATT
1 TTATATTTATATAAAT-TTTAAAATATT
*
2398570 TTATATTTATATAAATTTTAATATA-T
1 TTATATTTATATAAATTTTAAAATATT
* *
2398596 TAATAATTTATTTATATATTTTATAAAATATT
1 TTAT-ATTTA--TATA-AATTT-TAAAATATT
* *
2398628 TATATTTTTATATTATATTTTAA
1 T-TATATTTATA-TAAATTTTAA
2398651 TTATTTTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
26 4 0.06
27 18 0.29
28 9 0.14
29 7 0.11
30 9 0.14
31 8 0.13
32 6 0.10
33 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTATATTTATATAAATTTTAAAATATT
Found at i:2398584 original size:20 final size:20
Alignment explanation
Indices: 2398561--2398649 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 20
2398551 TATTAATATT
2398561 TAAAATATTTTATATTTATA
1 TAAAATATTTTATATTTATA
*
2398581 T-AAAT-TTTAATATATTA-A
1 TAAAATATTTTATAT-TTATA
**
2398599 TAATTTATTTATATATTT-TA
1 TAAAATATTT-TATATTTATA
*
2398619 TAAAATA-TTTATATTTTTA
1 TAAAATATTTTATATTTATA
**
2398638 TATTATATTTTA
1 TAAAATATTTTA
2398650 ATTATTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
18 16 0.30
19 18 0.33
20 16 0.30
21 4 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAAATATTTTATATTTATA
Found at i:2398627 original size:31 final size:30
Alignment explanation
Indices: 2398573--2398649 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
2398563 AAATATTTTA
* *
2398573 TATTTATATAAATTT-TAATATATTAATAATT
1 TATTTATAT-ATTTTATAAAATATTAAT-ATT
*
2398604 TATTTATATATTTTATAAAATATTTATATT
1 TATTTATATATTTTATAAAATATTAATATT
2398634 T-TTATATTATATTTTA
1 TATT-TA-TATATTTTA
2398650 ATTATTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.05
30 10 0.25
31 28 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTATATATTTTATAAAATATTAATATT
Found at i:2398631 original size:11 final size:11
Alignment explanation
Indices: 2398571--2398656 Score: 64
Period size: 10 Copynumber: 8.6 Consensus size: 11
2398561 TAAAATATTT
2398571 TATATTTAT-A
1 TATATTTATAA
*
2398581 TAAATTT-TAA
1 TATATTTATAA
*
2398591 TATATTAATAA
1 TATATTTATAA
*
2398602 TTTATTTAT-A
1 TATATTTATAA
2398612 TAT-TTTATAA
1 TATATTTATAA
*
2398622 AATATTTAT-A
1 TATATTTATAA
*
2398632 T-T-TTTATAT
1 TATATTTATAA
2398641 TATATTT-TAA
1 TATATTTATAA
2398651 T-TATTT
1 TATATTT
2398657 TTTAAATATT
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
8 5 0.08
9 13 0.22
10 23 0.39
11 18 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTTATAA
Found at i:2398647 original size:19 final size:20
Alignment explanation
Indices: 2398561--2398639 Score: 78
Period size: 20 Copynumber: 4.1 Consensus size: 20
2398551 TATTAATATT
2398561 TAAAATATTT-TATA-TTTA
1 TAAAATATTTATATATTTTA
*
2398579 TATAAAT-TTTA-ATATATTAA
1 TA-AAATATTTATATAT-TTTA
**
2398599 TAATTTATTTATATATTTTA
1 TAAAATATTTATATATTTTA
2398619 TAAAATATTTATAT-TTTTA
1 TAAAATATTTATATATTTTA
2398638 TA
1 TA
2398640 TTATATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 8 0.16
19 13 0.27
20 24 0.49
21 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAAATATTTATATATTTTA
Found at i:2398647 original size:39 final size:39
Alignment explanation
Indices: 2398565--2398649 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 39
2398555 AATATTTAAA
2398565 ATATTTTATATTTATATAAATTTTAATATATTAATAATT
1 ATATTTTATATTTATATAAATTTTAATATATTAATAATT
* *
2398604 -TATTTATATATTT-TATAAAATATTT-ATATTTTTAT-ATT
1 ATATTT-TATATTTATAT-AAAT-TTTAATATATTAATAATT
2398642 ATATTTTA
1 ATATTTTA
2398650 ATTATTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
38 13 0.32
39 24 0.60
40 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (39 bp):
ATATTTTATATTTATATAAATTTTAATATATTAATAATT
Found at i:2398905 original size:5 final size:5
Alignment explanation
Indices: 2398897--2398933 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
2398887 AAATTGATCA
*
2398897 TAAAT TAAAT TAAAT TAAAT TAAAT ATAAAT TTAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT -TAAAT TAAAT T
2398934 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAAAT
Found at i:2398925 original size:26 final size:26
Alignment explanation
Indices: 2398883--2398933 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2398873 AAAAGTATTT
*
2398883 AATTAAATTGATCATAAATTAAATTA
1 AATTAAATTAATCATAAATTAAATTA
*
2398909 AATTAAATTAAAT-ATAAATTTAATT
1 AATTAAATT-AATCATAAATTAAATT
2398934 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AATTAAATTAATCATAAATTAAATTA
Found at i:2398991 original size:10 final size:10
Alignment explanation
Indices: 2398976--2399009 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2398966 ACTGTTATTT
2398976 ATAAATTTAA
1 ATAAATTTAA
2398986 ATAAATTTAA
1 ATAAATTTAA
* *
2398996 TTTAATTTAA
1 ATAAATTTAA
2399006 ATAA
1 ATAA
2399010 TTATTTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAATTTAA
Found at i:2399020 original size:20 final size:19
Alignment explanation
Indices: 2398971--2399034 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
2398961 AATACACTGT
*
2398971 TATTTATAAATTTAAATAA
1 TATTTATTAATTTAAATAA
2398990 -ATTTAATTTAATTTAAATAA
1 TATTT-A-TTAATTTAAATAA
**
2399010 TTATTTATTAATAAAAATAA
1 -TATTTATTAATTTAAATAA
2399030 TATTT
1 TATTT
2399035 TTTTAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 4 0.11
19 6 0.16
20 23 0.61
21 1 0.03
22 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTATTAATTTAAATAA
Found at i:2399039 original size:23 final size:22
Alignment explanation
Indices: 2399004--2399057 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
2398994 AATTTAATTT
* * *
2399004 AAATAATTATTTATTAATAAAA
1 AAATATTTTTTTAATAATAAAA
2399026 ATAATATTTTTTTAATAATAAAA
1 A-AATATTTTTTTAATAATAAAA
2399049 AAATATTTT
1 AAATATTTT
2399058 GGTCCCAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATATTTTTTTAATAATAAAA
Found at i:2399040 original size:20 final size:22
Alignment explanation
Indices: 2399004--2399057 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
2398994 AATTTAATTT
2399004 AAATAAT-TATTTATTAAT-A-A
1 AAATAATAT-TTTATTAATAATA
*
2399024 AAATAATATTTTTTTAATAATA
1 AAATAATATTTTATTAATAATA
*
2399046 AAAAAATATTTT
1 AAATAATATTTT
2399058 GGTCCCAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 15 0.52
21 2 0.07
22 12 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATAATATTTTATTAATAATA
Found at i:2399409 original size:23 final size:23
Alignment explanation
Indices: 2399382--2399442 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
2399372 AATATGATAA
*
2399382 AATATAATTAATATAATATTTTT
1 AATATAATTAATATAATATATTT
*
2399405 AATAT-ATATAATAT-TTATATTT
1 AATATAAT-TAATATAATATATTT
*
2399427 AA-ATAATTTATA-AATA
1 AATATAATTAATATAATA
2399443 AAATAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
21 8 0.26
22 12 0.39
23 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATAATTAATATAATATATTT
Found at i:2399505 original size:8 final size:8
Alignment explanation
Indices: 2399494--2399564 Score: 61
Period size: 8 Copynumber: 8.1 Consensus size: 8
2399484 TAATTTAAAA
2399494 ATTTATAT
1 ATTTATAT
2399502 ATTTATATTAT
1 A-TT-TA-TAT
*
2399513 ATTTATTT
1 ATTTATAT
2399521 ATTTATAT
1 ATTTATAT
2399529 ATTATAATTAT
1 ATT-T-A-TAT
*
2399540 ATTTATAA
1 ATTTATAT
*
2399548 AATTATAT
1 ATTTATAT
2399556 ATTTATAT
1 ATTTATAT
2399564 A
1 A
2399565 AAATTTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 29 0.57
9 6 0.12
10 6 0.12
11 10 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTATAT
Found at i:2399515 original size:11 final size:11
Alignment explanation
Indices: 2399499--2399642 Score: 61
Period size: 11 Copynumber: 13.2 Consensus size: 11
2399489 TAAAAATTTA
2399499 TATATTTATAT
1 TATATTTATAT
2399510 TATATTTAT-T
1 TATATTTATAT
2399520 TAT-TTATATAT
1 TATATT-TATAT
*
2399531 TATAATTATAT
1 TATATTTATAT
* *
2399542 T-TA-TAAAATT
1 TATATTTATA-T
2399552 ATATATTTATAT
1 -TATATTTATAT
* *
2399564 AAAATTTA-AT
1 TATATTTATAT
*
2399574 T-TATTAATAAT
1 TATATTTAT-AT
*
2399585 T-TATTTTTATT
1 TATATTTATA-T
* * *
2399596 TTTATAATATGT
1 TATAT-TTATAT
2399608 TATATTT-TAAT
1 TATATTTAT-AT
*
2399619 TATTTTTATAT
1 TATATTTATAT
*
2399630 AATATTTATAT
1 TATATTTATAT
2399641 TA
1 TA
2399643 CATTGGATTG
Statistics
Matches: 97, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
9 9 0.09
10 14 0.14
11 56 0.58
12 13 0.13
13 5 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
TATATTTATAT
Found at i:2399524 original size:27 final size:27
Alignment explanation
Indices: 2399494--2399642 Score: 109
Period size: 27 Copynumber: 5.7 Consensus size: 27
2399484 TAATTTAAAA
2399494 ATTTATATATTTATATTATATTTATTT
1 ATTTATATATTTATATTATATTTATTT
**
2399521 ATTTATATA-TTATAATTATATTTATAA
1 ATTTATATATTTAT-ATTATATTTATTT
* * *
2399548 AATTATATATTTATATAAAATTTAATTT
1 ATTTATATATTTATATTATATTT-ATTT
* *
2399576 ATTAATA-ATTTAT-TTTTA-TT-TTT
1 ATTTATATATTTATATTATATTTATTT
* *
2399599 A--TA-ATATGTTATATTTTAATTATTT
1 ATTTATATAT-TTATATTATATTTATTT
2399624 -TTATATAATATTTATATTA
1 ATT-TAT-ATATTTATATTA
2399643 CATTGGATTG
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
20 1 0.01
21 3 0.03
22 4 0.04
23 9 0.09
24 2 0.02
25 5 0.05
26 6 0.06
27 43 0.45
28 18 0.19
29 4 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTTATATATTTATATTATATTTATTT
Found at i:2399842 original size:7 final size:7
Alignment explanation
Indices: 2399830--2399862 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
2399820 AATAGAGGCG
2399830 AAATAAA
1 AAATAAA
2399837 AAATAAA
1 AAATAAA
2399844 AAATAAA
1 AAATAAA
2399851 AAATAAA
1 AAATAAA
2399858 AAATA
1 AAATA
2399863 TTAAAAACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:2401811 original size:7 final size:8
Alignment explanation
Indices: 2401794--2401822 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2401784 TTAAGAGCAG
2401794 AAAAAGAA
1 AAAAAGAA
2401802 AAAAAGAA
1 AAAAAGAA
2401810 AAAAAGAA
1 AAAAAGAA
2401818 AAAAA
1 AAAAA
2401823 ACCCTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:2406596 original size:24 final size:23
Alignment explanation
Indices: 2406569--2406631 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
2406559 TTATATCAAT
*
2406569 ATTTATCATAATTAATTTTAATAA
1 ATTTAT-ATAATTAATTATAATAA
2406593 ATTTAT-TATATATAATTATAATAA
1 ATTTATATA-AT-TAATTATAATAA
*
2406617 ATATGATATAATTAA
1 AT-TTATATAATTAA
2406632 AAATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 22 0.67
25 5 0.15
26 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTATATAATTAATTATAATAA
Found at i:2407451 original size:15 final size:15
Alignment explanation
Indices: 2407427--2407461 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2407417 ATGAAAATGG
*
2407427 TTCTTTGAATAAATT
1 TTCTTAGAATAAATT
2407442 TTCTTAGAATAAATT
1 TTCTTAGAATAAATT
2407457 TTCTT
1 TTCTT
2407462 TGAAAGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (15 bp):
TTCTTAGAATAAATT
Found at i:2407800 original size:36 final size:39
Alignment explanation
Indices: 2407760--2407831 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
2407750 AAGTTAACAG
*
2407760 TTAAAATTAT-TAT-TTAA-ATAATAAA-AATATTTTTAT
1 TTAAAATTATAAATATTAATATAA-AAATAATATTTTTAT
*
2407796 TTAAATTTATAAATATTAATATAAAAATAATATTTT
1 TTAAAATTATAAATATTAATATAAAAATAATATTTT
2407832 AACATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
36 9 0.30
37 2 0.07
38 7 0.23
39 12 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
TTAAAATTATAAATATTAATATAAAAATAATATTTTTAT
Found at i:2407812 original size:22 final size:23
Alignment explanation
Indices: 2407761--2407828 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
2407751 AGTTAACAGT
2407761 TAAA-ATTATTATTTAAATAATA
1 TAAATATTATTATTTAAATAATA
* * *
2407783 AAAATATTTTTATTTAAAT-TTA
1 TAAATATTATTATTTAAATAATA
* **
2407805 TAAATATTAATATAAAAATAATA
1 TAAATATTATTATTTAAATAATA
2407828 T
1 T
2407829 TTTAACATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAATATTATTATTTAAATAATA
Found at i:2408894 original size:29 final size:30
Alignment explanation
Indices: 2408839--2408895 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
2408829 TTAATTTATT
* **
2408839 ATTTAATTAATAAAAATATTTTTATTTAAA
1 ATTTAATTAATAAAAATATATAAATTTAAA
2408869 ATTTAATT-ATAAAAATATATAAATTTA
1 ATTTAATTAATAAAAATATATAAATTTA
2408896 CTAGTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTAATTAATAAAAATATATAAATTTAAA
Found at i:2409137 original size:23 final size:21
Alignment explanation
Indices: 2409079--2409140 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
2409069 GTTATGATTT
*
2409079 AAAATAAATTA-TTAACAAATA
1 AAAATAAATAATTTAA-AAATA
*
2409100 AAAATATATAATTTAAAAATA
1 AAAATAAATAATTTAAAAATA
2409121 AAATTATAAATAATTTAAAA
1 AAA--ATAAATAATTTAAAA
2409141 TTTAATTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.49
22 4 0.11
23 14 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATAAATAATTTAAAAATA
Found at i:2409751 original size:22 final size:22
Alignment explanation
Indices: 2409726--2409768 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2409716 TTAGTTCGAA
2409726 TTATATTTAATAATTAAAAATT
1 TTATATTTAATAATTAAAAATT
* * *
2409748 TTATTTTTATTAATTATAAAT
1 TTATATTTAATAATTAAAAAT
2409769 AATAAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATTTAATAATTAAAAATT
Found at i:2410387 original size:16 final size:17
Alignment explanation
Indices: 2410366--2410399 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2410356 ATCATTTGTA
2410366 AATTAAAAAA-TAAATT
1 AATTAAAAAATTAAATT
2410382 AATTAAAAAATTAAATT
1 AATTAAAAAATTAAATT
2410399 A
1 A
2410400 TCTATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTAAAAAATTAAATT
Found at i:2410496 original size:20 final size:20
Alignment explanation
Indices: 2410468--2410523 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2410458 AACTATTTAA
2410468 TAATAAAAAATATTTAA-ATT
1 TAATAAAAAATATTTAATA-T
* *
2410488 TAATTAAAAATATATAATAT
1 TAATAAAAAATATTTAATAT
2410508 TAATAAAAAATTATTT
1 TAATAAAAAA-TATTT
2410524 TTTAAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATAAAAAATATTTAATAT
Found at i:2410896 original size:3 final size:3
Alignment explanation
Indices: 2410888--2410945 Score: 89
Period size: 3 Copynumber: 18.3 Consensus size: 3
2410878 AAGCTACCAT
2410888 TAA TAA TAA TAA TAA TAA TAA TAA TTAA TTAA TTAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA -TAA -TAA TAA TAA TAA TAA
2410936 TAA TAA TAA T
1 TAA TAA TAA T
2410946 TATTATTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.80
4 11 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2411359 original size:19 final size:20
Alignment explanation
Indices: 2411327--2411364 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2411317 AATTTTAGTT
2411327 ATAAATATAAATTTTTAAAA
1 ATAAATATAAATTTTTAAAA
*
2411347 ATAAA-ATATATTTTTAAA
1 ATAAATATAAATTTTTAAA
2411365 TTTTGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAATATAAATTTTTAAAA
Found at i:2412013 original size:11 final size:11
Alignment explanation
Indices: 2411969--2412020 Score: 61
Period size: 11 Copynumber: 4.5 Consensus size: 11
2411959 TAATGTAAAA
2411969 TAATATATATT
1 TAATATATATT
2411980 TAA-ATATAATT
1 TAATATAT-ATT
*
2411991 AATATAATATATT
1 TA-AT-ATATATT
2412004 TAATATATATT
1 TAATATATATT
2412015 TAATAT
1 TAATAT
2412021 TTTTAACATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 4 0.11
11 20 0.57
12 3 0.09
13 4 0.11
14 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATATATATT
Found at i:2412064 original size:13 final size:13
Alignment explanation
Indices: 2412046--2412070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2412036 TTATTATATA
2412046 TTAAAATTTATTC
1 TTAAAATTTATTC
2412059 TTAAAATTTATT
1 TTAAAATTTATT
2412071 TTCATTTTAT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAAATTTATTC
Found at i:2416187 original size:20 final size:21
Alignment explanation
Indices: 2416151--2416189 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2416141 TTTTAAAATA
2416151 AATATAAATAAATTTATTTTT
1 AATATAAATAAATTTATTTTT
2416172 AATA-AAAT-AATATTATTT
1 AATATAAATAAAT-TTATTT
2416190 AATTTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAAATAAATTTATTTTT
Found at i:2418163 original size:8 final size:8
Alignment explanation
Indices: 2418150--2418346 Score: 57
Period size: 8 Copynumber: 25.6 Consensus size: 8
2418140 TATGATGTAA
2418150 ATATTAAT
1 ATATTAAT
2418158 ATATTAAT
1 ATATTAAT
2418166 ATATTAAT
1 ATATTAAT
2418174 AT-TTAATTT
1 ATATTAA--T
2418183 ATATT-AT
1 ATATTAAT
* * *
2418190 TTTTTATT
1 ATATTAAT
**
2418198 ATATTTTT
1 ATATTAAT
2418206 ATTATATAAT
1 A-TAT-TAAT
2418216 CATA-TAAT
1 -ATATTAAT
2418224 AT-TTAA-
1 ATATTAAT
*
2418230 A-ATT-TT
1 ATATTAAT
*
2418236 ATATT-GT
1 ATATTAAT
2418243 AT-TTATAT
1 ATATTA-AT
* *
2418251 ATTTTTAT
1 ATATTAAT
*
2418259 GTATT-AT
1 ATATTAAT
2418266 A-ATT-AT
1 ATATTAAT
*
2418272 AT-TTAAA
1 ATATTAAT
*
2418279 ATGTT-AT
1 ATATTAAT
*
2418286 ATATTTAT
1 ATATTAAT
2418294 ATA-TATAT
1 ATATTA-AT
2418302 ATATTAAT
1 ATATTAAT
2418310 ATATTAAT
1 ATATTAAT
*
2418318 A-ATTTAT
1 ATATTAAT
* *
2418325 ATTATAAAA
1 A-TATTAAT
*
2418334 ATTTTAAT
1 ATATTAAT
2418342 ATATT
1 ATATT
2418347 TTTATATATG
Statistics
Matches: 140, Mismatches: 27, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
6 14 0.10
7 36 0.26
8 68 0.49
9 15 0.11
10 6 0.04
11 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (8 bp):
ATATTAAT
Found at i:2418204 original size:11 final size:11
Alignment explanation
Indices: 2418179--2418212 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2418169 TTAATATTTA
*
2418179 ATTTATATTAT
1 ATTTTTATTAT
2418190 -TTTTTATTAT
1 ATTTTTATTAT
2418200 ATTTTTATTAT
1 ATTTTTATTAT
2418211 AT
1 AT
2418213 AATCATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTTTATTAT
Found at i:2418221 original size:53 final size:55
Alignment explanation
Indices: 2418164--2418295 Score: 120
Period size: 51 Copynumber: 2.5 Consensus size: 55
2418154 TAATATATTA
2418164 ATATATTAATATTT-AATTTATATTATT-T-TTTATTATATTTTTAT-TA-TATAATC
1 ATATATTAATATTTAAATTT-TA-TATTGTATTTA-TATATTTTTATGTATTATAATC
*
2418217 --ATA-TAATATTTAAAATTTTATATTGTATTTATATATTTTTATGTATTATAATT
1 ATATATTAATATTT-AAATTTTATATTGTATTTATATATTTTTATGTATTATAATC
* *
2418270 ATAT-TTAAAATGTTATATATTTATAT
1 ATATATTAATAT-TTAAAT-TTTATAT
2418296 ATATATATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
50 12 0.18
51 17 0.26
52 11 0.17
53 6 0.09
55 10 0.15
56 9 0.14
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (55 bp):
ATATATTAATATTTAAATTTTATATTGTATTTATATATTTTTATGTATTATAATC
Found at i:2418288 original size:37 final size:39
Alignment explanation
Indices: 2418243--2418326 Score: 104
Period size: 37 Copynumber: 2.2 Consensus size: 39
2418233 TTTATATTGT
* *
2418243 ATTTATATATTTTTATGTAT-TATAATT-ATAT-TTAA-A
1 ATTTATATATTTATATATATATAT-ATTAATATATTAATA
2418279 ATGTTATATATTTATATATATATATATTAATATATTAATA
1 AT-TTATATATTTATATATATATATATTAATATATTAATA
2418319 ATTTATAT
1 ATTTATAT
2418327 TATAAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 2 0.05
37 19 0.46
38 7 0.17
39 10 0.24
40 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (39 bp):
ATTTATATATTTATATATATATATATTAATATATTAATA
Found at i:2418408 original size:16 final size:16
Alignment explanation
Indices: 2418389--2418420 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2418379 TTATAATTTA
*
2418389 ATTATTTTTATATAAT
1 ATTAATTTTATATAAT
2418405 ATTAATTTTATATAAT
1 ATTAATTTTATATAAT
2418421 TATACTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTAATTTTATATAAT
Found at i:2418415 original size:22 final size:23
Alignment explanation
Indices: 2418367--2418415 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
2418357 TTTTCATATT
2418367 TTTTATTTTATATTATAATTTAA
1 TTTTATTTTATATTATAATTTAA
2418390 --TTATTTT-TA-TATAATATTAA
1 TTTTATTTTATATTATAAT-TTAA
2418410 TTTTAT
1 TTTTAT
2418416 ATAATTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 7 0.30
22 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATATTATAATTTAA
Found at i:2419281 original size:19 final size:19
Alignment explanation
Indices: 2419243--2419281 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2419233 TTAATTCATA
*
2419243 TATACATATATAAATTATT
1 TATACATATATAAATGATT
* *
2419262 TATATATATATATATGATT
1 TATACATATATAAATGATT
2419281 T
1 T
2419282 CTTGTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (19 bp):
TATACATATATAAATGATT
Found at i:2419464 original size:5 final size:5
Alignment explanation
Indices: 2419454--2419487 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
2419444 ATAATATCAC
*
2419454 ATATT ATATT ATATT GTATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATAT
2419488 AATGTGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:2419630 original size:5 final size:5
Alignment explanation
Indices: 2419609--2419649 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
2419599 AAATCGAAGG
*
2419609 TATTA TAATA TCA-TA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA TATTA T
2419650 GTAATGTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
4 1 0.03
5 31 0.94
6 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:2419645 original size:169 final size:164
Alignment explanation
Indices: 2419363--2419687 Score: 533
Period size: 169 Copynumber: 2.0 Consensus size: 164
2419353 CTCTCTCTAT
*
2419363 ATATATATATATATGTATAGAGGAGAATGCCTATCTTTAGAAAATAAAATTGACCGCATGCAACC
1 ATATATATATATATATATAGAGGAGAATGCCTATCTTTAGAAAATAAAATTGACCGCATGCAACC
*
2419428 TAAAATCCAAGGTATTATAATATCACATATTATATTATATTGTATTATATTATATTATATAATGT
66 TAAAATCCAAGGTATTATAATAT--C--A-TATATTATATTATATTATATTATATTATATAATGT
*
2419493 GATAAATTCAGGAGAATTGATTCCACTGAAATTTATGTA
126 GATAAATTCAGAAGAATTGATTCCACTGAAATTTATGTA
** *
2419532 ATATATATATATATATATAGAGGAGAATTTCTATCTTTAGAAAATAAAATTGACTGCATGCAACC
1 ATATATATATATATATATAGAGGAGAATGCCTATCTTTAGAAAATAAAATTGACCGCATGCAACC
* *
2419597 TAAAATCGAAGGTATTATAATATCATATATTATATTATATTATATTATATTATGTAATGTGATAA
66 TAAAATCCAAGGTATTATAATATCATATATTATATTATATTATATTATATTATATAATGTGATAA
2419662 ATTCAGAAGAATTGATTCCACTGAAA
131 ATTCAGAAGAATTGATTCCACTGAAA
2419688 GAGAAGCTGA
Statistics
Matches: 148, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
164 63 0.43
165 1 0.01
167 1 0.01
169 83 0.56
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (164 bp):
ATATATATATATATATATAGAGGAGAATGCCTATCTTTAGAAAATAAAATTGACCGCATGCAACC
TAAAATCCAAGGTATTATAATATCATATATTATATTATATTATATTATATTATATAATGTGATAA
ATTCAGAAGAATTGATTCCACTGAAATTTATGTA
Found at i:2422146 original size:21 final size:21
Alignment explanation
Indices: 2422121--2422163 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2422111 GACCATCACT
2422121 ATGACCAGGCTAAAACCTGCC
1 ATGACCAGGCTAAAACCTGCC
2422142 ATGACCAGGCTAAAACCTGCC
1 ATGACCAGGCTAAAACCTGCC
2422163 A
1 A
2422164 GAAGTAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.19, T:0.14
Consensus pattern (21 bp):
ATGACCAGGCTAAAACCTGCC
Found at i:2422675 original size:22 final size:21
Alignment explanation
Indices: 2422635--2422680 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
2422625 GGCACACATT
2422635 AAACATAAAAATAGCCAAAAGA
1 AAACATAAAAATAGCC-AAAGA
*
2422657 AAACATACAAAAT-GGCAAAGA
1 AAACATA-AAAATAGCCAAAGA
2422678 AAA
1 AAA
2422681 ATGTAGACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 9 0.41
23 5 0.23
ACGTcount: A:0.67, C:0.13, G:0.11, T:0.09
Consensus pattern (21 bp):
AAACATAAAAATAGCCAAAGA
Found at i:2423479 original size:2 final size:2
Alignment explanation
Indices: 2423474--2423516 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2423464 TGTGTGTGTC
*
2423474 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2423516 T
1 T
2423517 GTCTATGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2430606 original size:31 final size:30
Alignment explanation
Indices: 2430571--2430678 Score: 100
Period size: 31 Copynumber: 3.6 Consensus size: 30
2430561 ATTTAAGTTG
*
2430571 AAATATATAATTTAAATTATTATTTAATAA
1 AAATATATAATTTAAATTATTAATTAATAA
* *
2430601 TAAATATTTTATTTAAA-T-TTAATT-AT-A
1 -AAATATATAATTTAAATTATTAATTAATAA
*
2430628 AAATATATAAATATTAATATTTTTAATTAATAA
1 AAATATAT-AAT-TTAA-ATTATTAATTAATAA
*
2430661 AAATAAATAA-TTAAATTA
1 AAATATATAATTTAAATTA
2430679 ATTTATATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
26 7 0.11
27 3 0.05
28 6 0.10
29 9 0.14
30 6 0.10
31 20 0.32
32 4 0.06
33 8 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AAATATATAATTTAAATTATTAATTAATAA
Found at i:2430680 original size:57 final size:57
Alignment explanation
Indices: 2430571--2430681 Score: 129
Period size: 57 Copynumber: 1.9 Consensus size: 57
2430561 ATTTAAGTTG
* ** *
2430571 AAATATATAATTTAAATTATTATTTAATAATAAATATTTTATTTAAATTTAATTATA
1 AAATATATAATTTAAATTATTAATTAATAATAAATATAATAATTAAATTTAATTATA
*
2430628 AAATATATAAATATTAATATTTTTAATTAATAA-AAATA-AATAATTAAA-TTAATT
1 AAATATAT-AAT-TTAA-ATTATTAATTAATAATAAATATAATAATTAAATTTAATT
2430682 TATATTAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
57 14 0.30
58 10 0.22
59 9 0.20
60 13 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (57 bp):
AAATATATAATTTAAATTATTAATTAATAATAAATATAATAATTAAATTTAATTATA
Found at i:2432901 original size:19 final size:19
Alignment explanation
Indices: 2432877--2432923 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
2432867 AAAAAATTGA
* * *
2432877 TATAATATTTTTAATTAAT
1 TATAATATATTAAATCAAT
2432896 TATAATATATTAAATCAAT
1 TATAATATATTAAATCAAT
*
2432915 AATAATATA
1 TATAATATA
2432924 AAAATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATATATTAAATCAAT
Found at i:2433562 original size:24 final size:21
Alignment explanation
Indices: 2433531--2433574 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
2433521 ATAACATAAA
2433531 TAATTAATATATTAAATATATAT
1 TAATTAATAT-TTAAA-ATATAT
2433554 TAATATAATATTTAAAATATA
1 TAAT-TAATATTTAAAATATA
2433575 ATTATGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 9 0.45
24 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAATATTTAAAATATAT
Found at i:2433967 original size:3 final size:3
Alignment explanation
Indices: 2433959--2434003 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
2433949 TCCCCCGTTG
*
2433959 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2434004 ATTTTTTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2435258 original size:2 final size:2
Alignment explanation
Indices: 2435253--2435287 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2435243 ACACACAAAC
2435253 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2435288 AGGGTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2435729 original size:19 final size:19
Alignment explanation
Indices: 2435697--2435735 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2435687 CTCCCATCTG
2435697 ATTTATTATTTAATAATAA
1 ATTTATTATTTAATAATAA
*
2435716 ATTT-TTATTATAATTATAA
1 ATTTATTATT-TAATAATAA
2435735 A
1 A
2435736 AAATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTATTATTTAATAATAA
Found at i:2436082 original size:11 final size:11
Alignment explanation
Indices: 2436062--2436100 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2436052 AAAATATCAC
*
2436062 ATAAAAATAAT
1 ATAAATATAAT
2436073 ATAAATATAAT
1 ATAAATATAAT
* *
2436084 ATAAATAAAAA
1 ATAAATATAAT
2436095 ATAAAT
1 ATAAAT
2436101 TTTTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:2436149 original size:18 final size:18
Alignment explanation
Indices: 2436097--2436150 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
2436087 AATAAAAAAT
*
2436097 AAATTTTTAATAT-ATTA
1 AAATTTTAAATATAATTA
2436114 AAATTTATATAA-ATAATTA
1 AAATTT-TA-AATATAATTA
*
2436133 ATATTTTAAATATAATTA
1 AAATTTTAAATATAATTA
2436151 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 8 0.26
18 12 0.39
19 11 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATTTTAAATATAATTA
Found at i:2437872 original size:2 final size:2
Alignment explanation
Indices: 2437867--2437895 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2437857 GTGTGTGTGT
2437867 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
2437896 GAAGTAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2439540 original size:14 final size:14
Alignment explanation
Indices: 2439523--2439560 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
2439513 TTATAATTTA
2439523 AAAATATAAAAATT
1 AAAATATAAAAATT
*
2439537 AAAATAT-TAAATT
1 AAAATATAAAAATT
2439550 AATAATATAAA
1 AA-AATATAAA
2439561 TACTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.35
14 12 0.60
15 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:2439567 original size:28 final size:31
Alignment explanation
Indices: 2439511--2439573 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 31
2439501 TTTTTTTATT
*
2439511 TATTATAATTTAAAAATATAAAAA-TTAAAA
1 TATTATAATTTAAAAATATAAAAACTAAAAA
* *
2439541 TATTA-AA-TTAATAATATAAATACTAAAAA
1 TATTATAATTTAAAAATATAAAAACTAAAAA
2439570 TATT
1 TATT
2439574 TTTTTCTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 13 0.45
29 11 0.38
30 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TATTATAATTTAAAAATATAAAAACTAAAAA
Found at i:2441096 original size:19 final size:18
Alignment explanation
Indices: 2441064--2441102 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2441054 TGGTATCATT
2441064 TTGATTTTAAATTTAACAA
1 TTGATTTTAAATTTAA-AA
**
2441083 TTGATTTTCTATTTAAAA
1 TTGATTTTAAATTTAAAA
2441101 TT
1 TT
2441103 TCTTCACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
TTGATTTTAAATTTAAAA
Found at i:2443161 original size:19 final size:17
Alignment explanation
Indices: 2443116--2443149 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2443106 TATTCACATA
2443116 AATTTTTTATATCATTT
1 AATTTTTTATATCATTT
2443133 AATTTTTTATATCATTT
1 AATTTTTTATATCATTT
2443150 TTATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTTTTATATCATTT
Found at i:2443437 original size:23 final size:22
Alignment explanation
Indices: 2443411--2443496 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 22
2443401 AAAAATAATA
2443411 TTTAATATATTTAAATTTTAAAT
1 TTTAATAT-TTTAAATTTTAAAT
* *
2443434 TTTAATATTTATAAGTTTT-TAT
1 TTTAATATTT-TAAATTTTAAAT
2443456 TTTAAATTATTTTTAATATTTATAAAT
1 TTT-AA-TA-TTTTAA-ATTT-TAAAT
2443483 TTT--TATTTTAAATT
1 TTTAATATTTTAAATT
2443497 ATGATCTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
21 3 0.06
22 13 0.25
23 19 0.37
24 5 0.10
25 6 0.12
26 1 0.02
27 5 0.10
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (22 bp):
TTTAATATTTTAAATTTTAAAT
Found at i:2443475 original size:33 final size:33
Alignment explanation
Indices: 2443433--2443498 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2443423 AAATTTTAAA
*
2443433 TTTTAATATTTATAAGTTTTTATTTTAAATTAT
1 TTTTAATATTTATAAATTTTTATTTTAAATTAT
2443466 TTTTAATATTTATAAATTTTTATTTTAAATTAT
1 TTTTAATATTTATAAATTTTTATTTTAAATTAT
2443499 GATCTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (33 bp):
TTTTAATATTTATAAATTTTTATTTTAAATTAT
Found at i:2448346 original size:20 final size:21
Alignment explanation
Indices: 2448307--2448346 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2448297 AGATCCTCGG
*
2448307 CTTTCCTCGTCGCTTCTCCCA
1 CTTTCCTCGTCGCATCTCCCA
2448328 CTTTCCTCGTC-CATCTCCC
1 CTTTCCTCGTCGCATCTCCC
2448347 TAAGACATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.05, C:0.50, G:0.07, T:0.38
Consensus pattern (21 bp):
CTTTCCTCGTCGCATCTCCCA
Found at i:2449087 original size:7 final size:7
Alignment explanation
Indices: 2449075--2449105 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
2449065 GAAAGAAAAT
2449075 TTTATTA
1 TTTATTA
2449082 TTTATTA
1 TTTATTA
2449089 TTTATT-
1 TTTATTA
2449095 TTTATTA
1 TTTATTA
2449102 TTTA
1 TTTA
2449106 AAACATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:2449100 original size:13 final size:14
Alignment explanation
Indices: 2449075--2449105 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
2449065 GAAAGAAAAT
2449075 TTTATTATTTATTA
1 TTTATTATTTATTA
2449089 TTTATT-TTTATTA
1 TTTATTATTTATTA
2449102 TTTA
1 TTTA
2449106 AAACATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTATTTATTA
Found at i:2449134 original size:18 final size:18
Alignment explanation
Indices: 2449111--2449187 Score: 72
Period size: 17 Copynumber: 4.4 Consensus size: 18
2449101 ATTTAAAACA
*
2449111 TTATAATTTATATAATAT
1 TTATAATTTATATTATAT
2449129 TTATAATTT-T-TTATAT
1 TTATAATTTATATTATAT
* *
2449145 TTTTATATTCATATTATAT
1 TTATA-ATTTATATTATAT
* *
2449164 TTAT-TTTTATATTTTAT
1 TTATAATTTATATTATAT
2449181 TT-TAATT
1 TTATAATT
2449188 AATTTTTAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
16 10 0.21
17 18 0.38
18 10 0.21
19 9 0.19
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATAATTTATATTATAT
Found at i:2449149 original size:29 final size:31
Alignment explanation
Indices: 2449117--2449186 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
2449107 AACATTATAA
2449117 TTTATA-TAATATT-TATA-ATTTTTTATATT
1 TTTATATTAATATTATATATA-TTTTTATATT
* *
2449146 TTTATATTCATATTATATTTATTTTTATA-T
1 TTTATATTAATATTATATATATTTTTATATT
*
2449176 TTTATTTTAAT
1 TTTATATTAAT
2449187 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.18
30 16 0.47
31 11 0.32
32 1 0.03
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTATATTAATATTATATATATTTTTATATT
Found at i:2449169 original size:23 final size:23
Alignment explanation
Indices: 2449142--2449223 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
2449132 TAATTTTTTA
2449142 TATTTTTATATTCATATTATATT
1 TATTTTTATATTCATATTATATT
* *
2449165 TATTTTTATATT-TTATTTTAATT
1 TATTTTTATATTCATATTAT-ATT
* *
2449188 AATTTTTAATATTACGT-TTATA-T
1 TATTTTT-ATATT-CATATTATATT
2449211 TATTTTTTATATT
1 TA-TTTTTATATT
2449224 TAAAATATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
22 5 0.10
23 28 0.58
24 11 0.23
25 3 0.06
26 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (23 bp):
TATTTTTATATTCATATTATATT
Found at i:2449626 original size:10 final size:10
Alignment explanation
Indices: 2449599--2449643 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
2449589 ATAATTAATA
2449599 TTATGTATAT
1 TTATGTATAT
2449609 TT-TGGTATAT
1 TTAT-GTATAT
2449619 TTATGTAT-T
1 TTATGTATAT
2449628 TATAT-TATAT
1 T-TATGTATAT
2449638 TTATGT
1 TTATGT
2449644 TTTTTATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
9 9 0.30
10 20 0.67
11 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (10 bp):
TTATGTATAT
Found at i:2450099 original size:17 final size:18
Alignment explanation
Indices: 2450077--2450114 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2450067 CTTCAAATTC
2450077 AATTACATAAA-AT-TTTA
1 AATTACA-AAATATATTTA
2450094 AATTACAAAATATATTTA
1 AATTACAAAATATATTTA
2450112 AAT
1 AAT
2450115 AAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 9 0.47
18 7 0.37
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTACAAAATATATTTA
Found at i:2450166 original size:22 final size:21
Alignment explanation
Indices: 2450126--2450176 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
2450116 AATAATAATT
2450126 ATTTAATATAATTTAATTTAA
1 ATTTAATATAATTTAATTTAA
2450147 ATTT-ATATAATTATTAATTT-A
1 ATTTAATATAA-T-TTAATTTAA
*
2450168 ATTAAATAT
1 ATTTAATAT
2450177 TTATAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAATATAATTTAATTTAA
Found at i:2450181 original size:26 final size:27
Alignment explanation
Indices: 2450129--2450189 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
2450119 AATAATTATT
2450129 TAATATAATTTAATTTAAATTTATATAA
1 TAAT-TAATTTAATTTAAATTTATATAA
*
2450157 TTATTAATTTAA-TTAAATATT-TATAA
1 TAATTAATTTAATTTAAAT-TTATATAA
2450183 TAATTAA
1 TAATTAA
2450190 AAATCTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 17 0.57
27 10 0.33
28 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATTAATTTAATTTAAATTTATATAA
Found at i:2451846 original size:2 final size:2
Alignment explanation
Indices: 2451837--2451865 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2451827 AAAACAACAG
2451837 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2451866 CTCTGCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2457091 original size:30 final size:28
Alignment explanation
Indices: 2457055--2457136 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
2457045 CTAATGTATG
2457055 TTAAAAATTTATCTAAATATAAATTAAAAA
1 TTAAAAATTTATCTAAATAT-AA-TAAAAA
* * *
2457085 TTAAAAATTTATTTGAATATAATGAAAA
1 TTAAAAATTTATCTAAATATAATAAAAA
* *
2457113 -TATAAAACTTATCTAAATAGAATA
1 TTA-AAAATTTATCTAAATATAATA
2457137 GTAAAGCTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.05
28 21 0.49
29 2 0.05
30 18 0.42
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (28 bp):
TTAAAAATTTATCTAAATATAATAAAAA
Found at i:2457118 original size:29 final size:30
Alignment explanation
Indices: 2457055--2457131 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
2457045 CTAATGTATG
*
2457055 TTAAAAATTTATCTAAATATAAATTAAAAA
1 TTAAAAATTTATCTAAATATAAATGAAAAA
* *
2457085 TTAAAAATTTATTTGAATAT-AATG-AAAA
1 TTAAAAATTTATCTAAATATAAATGAAAAA
*
2457113 -TATAAAACTTATCTAAATA
1 TTA-AAAATTTATCTAAATA
2457132 GAATAGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 2 0.05
28 17 0.43
29 3 0.08
30 18 0.45
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAAAAATTTATCTAAATATAAATGAAAAA
Found at i:2458091 original size:23 final size:24
Alignment explanation
Indices: 2458065--2458112 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
2458055 GATTATATAG
* *
2458065 ATTTATTATTATATTTAAT-ATTT
1 ATTTATTATTAAAATTAATAATTT
2458088 ATTTATTATTAAAATTAATAATTT
1 ATTTATTATTAAAATTAATAATTT
2458112 A
1 A
2458113 ATTGATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTATTATTAAAATTAATAATTT
Found at i:2458111 original size:20 final size:21
Alignment explanation
Indices: 2458056--2458112 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
2458046 AATTTAATTG
* *
2458056 ATTATATAGATTTATTATTATA
1 ATTA-ATATATTTATTATTAAA
*
2458078 TTTAATATTTATTTATTATTAAA
1 ATTAATA--TATTTATTATTAAA
2458101 ATTAATA-ATTTA
1 ATTAATATATTTA
2458113 ATTGATTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 5 0.17
21 3 0.10
22 3 0.10
23 18 0.62
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTAATATATTTATTATTAAA
Found at i:2458158 original size:25 final size:24
Alignment explanation
Indices: 2458130--2458176 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
2458120 TGATCGATTG
*
2458130 ATTTTATTAA-AATATTAAATATTTA
1 ATTTTAATAATAA-ATT-AATATTTA
2458155 ATTTTAATAATAAATTAATATT
1 ATTTTAATAATAAATTAATATT
2458177 AAATATAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTTAATAATAAATTAATATTTA
Found at i:2459216 original size:10 final size:9
Alignment explanation
Indices: 2459188--2459274 Score: 51
Period size: 8 Copynumber: 9.9 Consensus size: 9
2459178 TATAACATTT
2459188 TATATTTTA
1 TATATTTTA
* *
2459197 -AAATATTA
1 TATATTTTA
2459205 TATATTTATA
1 TATATTT-TA
*
2459215 TAAATTTTA
1 TATATTTTA
2459224 -ATATATTTA
1 TATAT-TTTA
2459233 TAT-TTTATAA
1 TATATTT-T-A
2459243 TATATTTTA
1 TATATTTTA
*
2459252 T-TATATTA
1 TATATTTTA
*
2459260 TAT-TTTAA
1 TATATTTTA
2459268 T-TATTTT
1 TATATTTT
2459275 TTACCGTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
7 1 0.02
8 25 0.42
9 15 0.25
10 15 0.25
11 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATATTTTA
Found at i:2459221 original size:27 final size:28
Alignment explanation
Indices: 2459191--2459266 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
2459181 AACATTTTAT
*
2459191 ATTTTAAAATATTATATATTTAT-ATAA
1 ATTTTAATATATTATATATTTATAATAA
*
2459218 ATTTTAATATATT-TATATTTTATAATAT
1 ATTTTAATATATTATATA-TTTATAATAA
*
2459246 ATTTTATTATATTATAT-TTTA
1 ATTTTAATATATTATATATTTA
2459267 ATTATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
26 4 0.09
27 21 0.49
28 15 0.35
29 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTAATATATTATATATTTATAATAA
Found at i:2459227 original size:20 final size:19
Alignment explanation
Indices: 2459171--2459235 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
2459161 ATATTTATGT
2459171 TATTTATTATAACAT-TT-TA
1 TATTTA-TATAA-ATATTATA
2459190 TATTT-TA-AAATATTATA
1 TATTTATATAAATATTATA
*
2459207 TATTTATATAAATTTTAATA
1 TATTTATATAAATATT-ATA
2459227 TATTTATAT
1 TATTTATAT
2459236 TTTATAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 2 0.05
16 4 0.10
17 9 0.22
18 2 0.05
19 11 0.28
20 12 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTATATAAATATTATA
Found at i:2459236 original size:43 final size:42
Alignment explanation
Indices: 2459186--2459273 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 42
2459176 ATTATAACAT
2459186 TTTATATTTTA-AA-ATATTATATATT-TATATAAATTTTAATATA
1 TTTATATTTTATAATATATT-T-TATTATAT-TAAATTTTAAT-TA
*
2459229 TTTATATTTTATAATATATTTTATTATATTATATTTTAATTA
1 TTTATATTTTATAATATATTTTATTATATTAAATTTTAATTA
2459271 TTT
1 TTT
2459274 TTTACCGTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
42 5 0.12
43 25 0.61
44 6 0.15
45 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (42 bp):
TTTATATTTTATAATATATTTTATTATATTAAATTTTAATTA
Found at i:2459260 original size:20 final size:20
Alignment explanation
Indices: 2459203--2459261 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
2459193 TTTAAAATAT
* *
2459203 TATATATTTATATAAATTTTAA
1 TATAT-TTTAT-TATATTATAA
*
2459225 TATA-TTTA-TATTTTATAA
1 TATATTTTATTATATTATAA
2459243 TATATTTTATTATATTATA
1 TATATTTTATTATATTATA
2459262 TTTTAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 11 0.35
19 4 0.13
20 12 0.39
22 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTTTATTATATTATAA
Found at i:2460632 original size:24 final size:24
Alignment explanation
Indices: 2460584--2460632 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
2460574 ATGGCTCAAG
*
2460584 CACCAACATCTCCTCCATCATCTT
1 CACCAACATCTCCTCCATCAGCTT
*
2460608 CACCTACATCTCCTCCGA-CAGCTT
1 CACCAACATCTCCTCC-ATCAGCTT
2460632 C
1 C
2460633 GCCGCCGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.22, C:0.47, G:0.04, T:0.27
Consensus pattern (24 bp):
CACCAACATCTCCTCCATCAGCTT
Found at i:2461603 original size:19 final size:19
Alignment explanation
Indices: 2461565--2461605 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2461555 TATGATAAAA
*
2461565 TATATGAAATATATTAATT
1 TATATGAAATATAATAATT
*
2461584 TATATGAATATATAATATTT
1 TATATGAA-ATATAATAATT
2461604 TA
1 TA
2461606 AATATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TATATGAAATATAATAATT
Found at i:2461931 original size:20 final size:21
Alignment explanation
Indices: 2461892--2461941 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
2461882 TATACTTAAA
*
2461892 AAATA-ATATAAATTTAATAT
1 AAATATATAAAAATTTAATAT
2461912 AAATATATAAAAATTT-ATAT
1 AAATATATAAAAATTTAATAT
2461932 AAATATATAA
1 AAATATATAA
2461942 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATATAAAAATTTAATAT
Found at i:2461948 original size:20 final size:20
Alignment explanation
Indices: 2461892--2461966 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
2461882 TATACTTAAA
*
2461892 AAATAATATAA-ATTTAATAT
1 AAAT-ATATAATATTTTATAT
* *
2461912 AAATATATAAAAATTTATAT
1 AAATATATAATATTTTATAT
*
2461932 AAATATATAATATTTTAAATT
1 AAATATATAATATTTTATA-T
*
2461953 TAAT-TATAATATTT
1 AAATATATAATATTT
2461967 AAAAATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.13
20 37 0.79
21 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATATAATATTTTATAT
Found at i:2461978 original size:20 final size:20
Alignment explanation
Indices: 2461887--2461975 Score: 53
Period size: 20 Copynumber: 4.5 Consensus size: 20
2461877 TGAAATATAC
*
2461887 TTAAAAAATAA-TATAA-AT
1 TTAAAATATAATTATAATAT
* *
2461905 TTAATATA-AATATATAAAAAT
1 TTAAAATATAAT-TAT-AATAT
*
2461926 TT-ATATA-AATATATAATAT
1 TTAAAATATAAT-TATAATAT
* *
2461945 TTTAAATTTAATTATAATAT
1 TTAAAATATAATTATAATAT
2461965 TTAAAAATATA
1 TT-AAAATATA
2461976 TTAAAAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
17 2 0.04
18 6 0.11
19 9 0.16
20 27 0.47
21 13 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAATATAATTATAATAT
Found at i:2462689 original size:2 final size:2
Alignment explanation
Indices: 2462684--2462708 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2462674 TAGGTGATGT
2462684 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2462709 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2465902 original size:18 final size:18
Alignment explanation
Indices: 2465881--2465915 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2465871 TATATATTTG
*
2465881 AAGATTAATTGAATATAT
1 AAGATTAATTAAATATAT
2465899 AAGATTAATTAAATATA
1 AAGATTAATTAAATATA
2465916 AAATTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGATTAATTAAATATAT
Found at i:2466141 original size:18 final size:19
Alignment explanation
Indices: 2466120--2466184 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 19
2466110 ATAAATAAAT
2466120 TAATTTTACATATT-TTAA
1 TAATTTTACATATTATTAA
**
2466138 TAATTTTTTATATTATTAA
1 TAATTTTACATATTATTAA
*
2466157 T-ATTTTAACAAATTAATTAA
1 TAATTTT-ACATATT-ATTAA
*
2466177 TAAATTTA
1 TAATTTTA
2466185 ATAATATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 17 0.46
19 9 0.24
20 7 0.19
21 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATTTTACATATTATTAA
Found at i:2467693 original size:17 final size:16
Alignment explanation
Indices: 2467649--2467701 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
2467639 TAATGAAAAA
2467649 TATAATTATATTATTGAT
1 TATAATTAT-TTATT-AT
*
2467667 ACATAATTATTTATTAT
1 -TATAATTATTTATTAT
*
2467684 TATAATTTATTTTTTAT
1 TATAA-TTATTTATTAT
2467701 T
1 T
2467702 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 4 0.13
17 13 0.43
18 5 0.17
19 8 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATAATTATTTATTAT
Found at i:2468098 original size:32 final size:35
Alignment explanation
Indices: 2468062--2468135 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 35
2468052 ATTAATAAAA
2468062 TTATTATTAATAAAAATA-TAAAT-TTT-AATTAT
1 TTATTATTAATAAAAATATTAAATATTTAAATTAT
* * *
2468094 TTATTA-TATTATAAATATTAAATAATTTAAATTTT
1 TTATTATTAATAAAAATATTAAAT-ATTTAAATTAT
2468129 TTATTAT
1 TTATTAT
2468136 ATATTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 9 0.26
32 11 0.32
34 3 0.09
35 11 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (35 bp):
TTATTATTAATAAAAATATTAAATATTTAAATTAT
Found at i:2475299 original size:2 final size:2
Alignment explanation
Indices: 2475292--2475328 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2475282 TCTTGTAACC
*
2475292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2475329 CAAGTATCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2480058 original size:2 final size:2
Alignment explanation
Indices: 2480051--2480082 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2480041 TATTCTCATA
2480051 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2480083 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2480087 original size:2 final size:2
Alignment explanation
Indices: 2480082--2480113 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2480072 TCTCTCTCTC
2480082 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2480114 CACTCTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.