Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001563.1 Hibiscus syriacus cultivar Beakdansim tig00003096_pilon, 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: 849978
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:466 original size:8 final size:8
Alignment explanation
Indices: 453--546 Score: 52
Period size: 8 Copynumber: 11.9 Consensus size: 8
443 TTGATATGTT
453 TTTTTTTC
1 TTTTTTTC
461 TTTTTTTC
1 TTTTTTTC
**
469 TTTTCCTC
1 TTTTTTTC
477 TTTTGCTTTC
1 TTTT--TTTC
* * *
487 TTTATATA
1 TTTTTTTC
495 TATTTTTT-
1 T-TTTTTTC
* *
503 TATCTTTC
1 TTTTTTTC
* *
511 TTTCTCTC
1 TTTTTTTC
519 TTTTTTT-
1 TTTTTTTC
526 TTTTTTT-
1 TTTTTTTC
533 TTTTTTT-
1 TTTTTTTC
540 TTTTTTT
1 TTTTTTT
547 ATGCTATATC
Statistics
Matches: 67, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
7 25 0.37
8 33 0.49
9 4 0.06
10 5 0.07
ACGTcount: A:0.05, C:0.13, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:561 original size:1 final size:1
Alignment explanation
Indices: 519--546 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
509 TCTTTCTCTC
519 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
547 ATGCTATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4611 original size:286 final size:281
Alignment explanation
Indices: 4313--4870 Score: 962
Period size: 287 Copynumber: 2.0 Consensus size: 281
4303 ATGTAAATAA
4313 AATAAATTAAAGTTCCTAAAATCCAAACAAAAAAAAATGTTATAGCAAGAC-AAAAAAGGAACAA
1 AATAAATTAAAGTTCCTAAAATCCAAACAAAAAAAAATGTTATAGCAAGACAAAAAAAGGAACAA
4377 AATAAAATAAACAGAATGTAAGGTACTATAATTAAAGGACTGAAATTAAAGTACTAAAAGATAAT
66 AATAAAATAAACAGAATGTAAGGTACTATAATTAAAGGACTGAAATTAAAGTACTAAAAGATAAT
*
4442 GAACCGAAATAAAAAAAACAGAAAATTAAAACAATGAAACTTAAGGACTGAAATT-AATAAAT-A
131 GAACCGAAAT----AAAA-A-AAAA-T-AAACAATGAAACTTAAAGACTGAAATTAAATAAATAA
*
4505 AAAGTAAAGGTTAGAAATTTAAATATGCATAAAATTAAATAATAAAAATAAAATAATAATAAAAT
188 AAAGTAAAGGTTAGAAATTTAAATATGCATAAAATT-AATAATAAAAATAAAAGAATAATAAAAT
4570 AAATGTTAGTGTTAA-TAAAATAAAAGAAT
252 AAATGTTAGTGTTAATTAAAATAAAAGAAT
*
4599 AATAAATTAAAGTTCCTAAAATCCAAACAACAAAAAATGTTATAGCAAGACAAAAAAAGGAACAA
1 AATAAATTAAAGTTCCTAAAATCCAAACAAAAAAAAATGTTATAGCAAGACAAAAAAAGGAACAA
* *
4664 AATAAAATAAACAGAATGTAAGGTGCTATAATTAAAGGACTGAAATTAAAGTACTGAAAGATAAT
66 AATAAAATAAACAGAATGTAAGGTACTATAATTAAAGGACTGAAATTAAAGTACTAAAAGATAAT
4729 GAACCGAAATAAAAAAAAATAAACAATGAAACTTAAAGACTGAAATTAAATAAATAAAAAGTAAA
131 GAACCGAAATAAAAAAAAATAAACAATGAAACTTAAAGACTGAAATTAAATAAATAAAAAGTAAA
4794 GGTTAGAAATTTAAATATGCATAAAATTAATAATAAAAATAAAAGAATAATAAAATAAATGTTAG
196 GGTTAGAAATTTAAATATGCATAAAATTAATAATAAAAATAAAAGAATAATAAAATAAATGTTAG
4859 TGTTAATTAAAA
261 TGTTAATTAAAA
4871 AAACATAAAT
Statistics
Matches: 263, Mismatches: 5, Indels: 13
0.94 0.02 0.05
Matches are distributed among these distances:
279 26 0.10
280 50 0.19
281 46 0.17
282 1 0.00
283 4 0.02
286 50 0.19
287 86 0.33
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (281 bp):
AATAAATTAAAGTTCCTAAAATCCAAACAAAAAAAAATGTTATAGCAAGACAAAAAAAGGAACAA
AATAAAATAAACAGAATGTAAGGTACTATAATTAAAGGACTGAAATTAAAGTACTAAAAGATAAT
GAACCGAAATAAAAAAAAATAAACAATGAAACTTAAAGACTGAAATTAAATAAATAAAAAGTAAA
GGTTAGAAATTTAAATATGCATAAAATTAATAATAAAAATAAAAGAATAATAAAATAAATGTTAG
TGTTAATTAAAATAAAAGAAT
Found at i:4712 original size:14 final size:14
Alignment explanation
Indices: 4693--4722 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4683 AAGGTGCTAT
4693 AATTAAAGGACTGA
1 AATTAAAGGACTGA
*
4707 AATTAAAGTACTGA
1 AATTAAAGGACTGA
4721 AA
1 AA
4723 GATAATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (14 bp):
AATTAAAGGACTGA
Found at i:6285 original size:19 final size:19
Alignment explanation
Indices: 6263--6315 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
6253 GTTATGATCT
*
6263 TGAAAATAAGTTATGAATA
1 TGAAAATAAATTATGAATA
* *
6282 TGAAATTAAATTATGAATC
1 TGAAAATAAATTATGAATA
*
6301 TG-AAATAATTTATGA
1 TGAAAATAAATTATGA
6316 GTCTGGAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (19 bp):
TGAAAATAAATTATGAATA
Found at i:6315 original size:18 final size:18
Alignment explanation
Indices: 6266--6320 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
6256 ATGATCTTGA
* *
6266 AAATAAGTTATGAATATG
1 AAATAAATTATGAATCTG
6284 AAATTAAATTATGAATCTG
1 AAA-TAAATTATGAATCTG
* *
6303 AAATAATTTATGAGTCTG
1 AAATAAATTATGAATCTG
6321 GAAACAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (18 bp):
AAATAAATTATGAATCTG
Found at i:6382 original size:28 final size:28
Alignment explanation
Indices: 6351--6442 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
6341 GAATGAGTTT
6351 TGAAATGTGAAAGTACGAATTATGAAAA
1 TGAAATGTGAAAGTACGAATTATGAAAA
*
6379 TGAAATGTGAAAGAACGAATTATG-AAA
1 TGAAATGTGAAAGTACGAATTATGAAAA
*
6406 TGAAATGTGAAAGT--GAA-TATGAAAG
1 TGAAATGTGAAAGTACGAATTATGAAAA
*
6431 TGAAAGGTGAAA
1 TGAAATGTGAAA
6443 ATGAGTTATG
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
24 4 0.07
25 16 0.27
27 16 0.27
28 23 0.39
ACGTcount: A:0.50, C:0.02, G:0.25, T:0.23
Consensus pattern (28 bp):
TGAAATGTGAAAGTACGAATTATGAAAA
Found at i:6429 original size:19 final size:18
Alignment explanation
Indices: 6401--6442 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6391 GAACGAATTA
6401 TGAAATGAAATGTGAAA-G
1 TGAAATGAAA-GTGAAAGG
6419 TGAATATGAAAGTGAAAGG
1 TGAA-ATGAAAGTGAAAGG
6438 TGAAA
1 TGAAA
6443 ATGAGTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (18 bp):
TGAAATGAAAGTGAAAGG
Found at i:6446 original size:19 final size:19
Alignment explanation
Indices: 6403--6446 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6393 ACGAATTATG
6403 AAATGAAATGTGAAAGTGA
1 AAATGAAATGTGAAAGTGA
*
6422 ATATGAAA-GTGAAAGGTGA
1 AAATGAAATGTGAAA-GTGA
6441 AAATGA
1 AAATGA
6447 GTTATGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.20
Consensus pattern (19 bp):
AAATGAAATGTGAAAGTGA
Found at i:6505 original size:18 final size:18
Alignment explanation
Indices: 6482--6546 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
6472 TGAAAAAGAA
6482 TATGATATGACTATTATG
1 TATGATATGACTATTATG
** *
6500 TATGATATTGTTTATCATGG
1 TATGATA-TGACTATTAT-G
*
6520 TTTTGATATGACTATTATG
1 -TATGATATGACTATTATG
6539 TATGATAT
1 TATGATAT
6547 TGTTTATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 14 0.39
19 8 0.22
20 8 0.22
21 6 0.17
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (18 bp):
TATGATATGACTATTATG
Found at i:6529 original size:39 final size:38
Alignment explanation
Indices: 6484--6565 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 38
6474 AAAAAGAATA
6484 TGATATGACTATTATGTATGATATTGTTTATCATGGTTT
1 TGATATGACTATTATGTATGATATTGTTTATCATGG-TT
6523 TGATATGACTATTATGTATGATATTGTTTATCATGGTT
1 TGATATGACTATTATGTATGATATTGTTTATCATGGTT
6561 TGATA
1 TGATA
6566 AAATCATGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 7 0.16
39 36 0.84
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (38 bp):
TGATATGACTATTATGTATGATATTGTTTATCATGGTT
Found at i:8402 original size:17 final size:15
Alignment explanation
Indices: 8367--8397 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8357 ATAAATAATT
8367 TTAAAGGTGAATATA
1 TTAAAGGTGAATATA
8382 TTAAAGGTGAATATA
1 TTAAAGGTGAATATA
8397 T
1 T
8398 ATTAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TTAAAGGTGAATATA
Found at i:8693 original size:20 final size:18
Alignment explanation
Indices: 8656--8696 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
8646 AGATATTTTT
8656 TTTAATTTTCTGTTAAAA
1 TTTAATTTTCTGTTAAAA
*
8674 TTTATATTTGTCTTTTAAAA
1 TTTA-ATTT-TCTGTTAAAA
8694 TTT
1 TTT
8697 TATAACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTAATTTTCTGTTAAAA
Found at i:9306 original size:2 final size:2
Alignment explanation
Indices: 9301--9367 Score: 80
Period size: 2 Copynumber: 33.5 Consensus size: 2
9291 TATATATATA
* * * * *
9301 AG AG AG AG AG AG AG GG AG AG AG AG GG GG AG AG AG GG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
9343 AG GG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
9368 ATTATAATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9367 original size:10 final size:10
Alignment explanation
Indices: 9301--9364 Score: 92
Period size: 10 Copynumber: 6.4 Consensus size: 10
9291 TATATATATA
*
9301 AGAGAGAGAG
1 AGAGGGAGAG
9311 AGAGGGAGAG
1 AGAGGGAGAG
*
9321 AGAGGGGGAG
1 AGAGGGAGAG
*
9331 AGAGGGGGAG
1 AGAGGGAGAG
9341 AGAGGGAGAG
1 AGAGGGAGAG
*
9351 AGAGAGAGAG
1 AGAGGGAGAG
9361 AGAG
1 AGAG
9365 AGAATTATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 50 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (10 bp):
AGAGGGAGAG
Found at i:10876 original size:2 final size:2
Alignment explanation
Indices: 10869--10916 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
10859 GCTAAAATTG
10869 TA TA TA TA TA 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 TA TA TA TA TA
10911 TA TA TA
1 TA TA TA
10917 ATTAATACAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12613 original size:30 final size:29
Alignment explanation
Indices: 12557--12613 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
12547 ACTAAATTAT
* *
12557 AAATTGTATAAGTTGTGAGTTTGAAATGG
1 AAATTGTATAAGTTATGAGTTAGAAATGG
12586 AAATTGGTATAAGTTAATGAG-TAGAAAT
1 AAATT-GTATAAGTT-ATGAGTTAGAAAT
12614 TGAACATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 15 0.62
31 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (29 bp):
AAATTGTATAAGTTATGAGTTAGAAATGG
Found at i:16022 original size:89 final size:88
Alignment explanation
Indices: 15830--16068 Score: 301
Period size: 89 Copynumber: 2.7 Consensus size: 88
15820 TATTTGAAAC
** * * * *
15830 TTATCCATAAAGTTGGGGCTATTAACCAATTGCTCTAGAGGG--A--C-AGCTTTATCGCATATA
1 TTATCCATAAAGTCAGGGCGATTAACCAATTGCTTTAGAGGGAAACTCAAGCTTTATTGTATAT-
*
15890 ATAGTATAACAGGCTAGCTGAATA
65 ATAATATAACAGGCTAGCTGAATA
* *
15914 TTATCCATAAAGCCCGGGCGATTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATAT
1 TTATCCATAAAGTCAGGGCGATTAACCAATTGCTTTAGAGGGA-AACTCAAGCTTTATTGTATAT
*
15979 ATAATA-ATATAGGCTAGCTGAATA
65 ATAATATA-ACAGGCTAGCTGAATA
*
16003 TTATCCATAAAGTCAGGGCGATTAACCAATTGCTTTAGGGGGATAACTCAAGCTTTATTGTATAT
1 TTATCCATAAAGTCAGGGCGATTAACCAATTGCTTTAGAGGGA-AACTCAAGCTTTATTGTATAT
16068 A
65 A
16069 ATAGTAGTAT
Statistics
Matches: 135, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
84 37 0.27
87 1 0.01
88 1 0.01
89 83 0.61
90 13 0.10
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (88 bp):
TTATCCATAAAGTCAGGGCGATTAACCAATTGCTTTAGAGGGAAACTCAAGCTTTATTGTATATA
TAATATAACAGGCTAGCTGAATA
Found at i:17561 original size:6 final size:6
Alignment explanation
Indices: 17550--17574 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17540 AAAAGTAAAG
17550 ATGCAA ATGCAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA A
17575 GATGTGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGCAA
Found at i:17584 original size:26 final size:27
Alignment explanation
Indices: 17546--17601 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
17536 ATACAAAAGT
* *
17546 AAAGATGCAAATG-CAAATGCAAATGC
1 AAAGATGCAAATGTAAAATGAAAATGC
**
17572 AAAGATGTGAATGTAAAATGAAAATGC
1 AAAGATGCAAATGTAAAATGAAAATGC
17599 AAA
1 AAA
17602 AAATATAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.18
Consensus pattern (27 bp):
AAAGATGCAAATGTAAAATGAAAATGC
Found at i:18420 original size:19 final size:19
Alignment explanation
Indices: 18396--18434 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18386 TCGAATGCAT
18396 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
18415 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
18434 T
1 T
18435 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:18559 original size:64 final size:65
Alignment explanation
Indices: 18382--18544 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
18372 GAATTAATTG
* * * *
18382 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
18447 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
18510 A
65 A
18511 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
18545 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:25929 original size:19 final size:19
Alignment explanation
Indices: 25905--25943 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25895 TCGAATGCTT
25905 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
25924 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
25943 T
1 T
25944 AAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:28466 original size:66 final size:66
Alignment explanation
Indices: 28360--28519 Score: 232
Period size: 66 Copynumber: 2.4 Consensus size: 66
28350 TCACCATGTT
** *
28360 TGACATGGAGAATAAATCCTCATGAAGACATAGGGTATATGAAACC-CAAAAACTACTTTTTAGG
1 TGACATGGAGAATAAATCCTCACAAAGACATAGGGTATATG-AACCTCAAAAACTACTTGTTAGG
28424 TC
65 TC
* *
28426 TGACATGGAGAATAAATCCTCACAAAGACATAGGGTATATGAACCTCGAAAGCTACTTGTTAGGT
1 TGACATGGAGAATAAATCCTCACAAAGACATAGGGTATATGAACCTCAAAAACTACTTGTTAGGT
*
28491 T
66 C
* *
28492 TGACACGGAGAATAAATTCTCACAAAGA
1 TGACATGGAGAATAAATCCTCACAAAGA
28520 TGTCACTTTC
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
65 4 0.05
66 81 0.95
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.24
Consensus pattern (66 bp):
TGACATGGAGAATAAATCCTCACAAAGACATAGGGTATATGAACCTCAAAAACTACTTGTTAGGT
C
Found at i:30691 original size:3 final size:3
Alignment explanation
Indices: 30683--30776 Score: 117
Period size: 3 Copynumber: 33.0 Consensus size: 3
30673 TTCGGGCCTG
*
30683 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
30729 TAA TAA TAT TAA TAA -AA TAA TAA -AT TAA TAA TAA TAA TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30774 TAA
1 TAA
30777 AATGGGATAA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
2 9 0.12
3 69 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:30720 original size:31 final size:29
Alignment explanation
Indices: 30684--30776 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 29
30674 TCGGGCCTGT
30684 AATAATAATAATAATAATAATAATAATATA
1 AATAATAATAATAATAATAATAATAATA-A
* *
30714 ATATAATAATAATATTAATAATATTAATAA
1 A-ATAATAATAATAATAATAATAATAATAA
* *
30744 AATAATAA-ATTAATAATAATAATATTAA
1 AATAATAATAATAATAATAATAATAATAA
30772 AATAA
1 AATAA
30777 AATGGGATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.38
29 7 0.12
30 3 0.05
31 25 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AATAATAATAATAATAATAATAATAATAA
Found at i:30726 original size:34 final size:34
Alignment explanation
Indices: 30683--30779 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
30673 TTCGGGCCTG
*
30683 TAATAATAATAATAATAATAATAATAATATAATA
1 TAATAATAATAATAATAATAATAATAAAATAATA
* *
30717 TAATAATAATATTAATAATATTAATAAAATAATA
1 TAATAATAATAATAATAATAATAATAAAATAATA
*
30751 -AATTAATAATAATAATATTAA-AATAAAAT
1 TAA-TAATAATAATAATAATAATAATAAAAT
30780 GGGATAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 10 0.18
34 46 0.82
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (34 bp):
TAATAATAATAATAATAATAATAATAAAATAATA
Found at i:37258 original size:2 final size:2
Alignment explanation
Indices: 37251--37277 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37241 TAACTTTCAA
37251 TC 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 TC T
37278 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37282 original size:2 final size:2
Alignment explanation
Indices: 37277--37319 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
37267 TCTCTCTCTC
37277 TA TA TA TA TA 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 TA TA TA TA TA
37319 T
1 T
37320 CAAACATTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38189 original size:30 final size:29
Alignment explanation
Indices: 38155--38477 Score: 146
Period size: 30 Copynumber: 11.1 Consensus size: 29
38145 ATTTTACATC
38155 TTAACATTAAAAATATATTTTATTTTTATA
1 TTAAC-TTAAAAATATATTTTATTTTTATA
* * *
38185 TTAACTTATTAAATATATTTTATTCTCT-TC
1 TTAACTTA-AAAATATATTTTATT-TTTATA
* * * *
38215 TTAACCTAAAAATATAGTTTATTCTTATT
1 TTAACTTAAAAATATATTTTATTTTTATA
** * *
38244 TTAACTTAAAAATATATTTTATACTCATC
1 TTAACTTAAAAATATATTTTATTTTTATA
* * * * * *
38273 TTAACTTATTACAGAAATTATATTATTA-A
1 TTAACTTA-AAAATATATTTTATTTTTATA
* * * **
38302 CTTGAA-TTATTAAATATATTCTATTATTACC
1 -TT-AACTTA-AAAATATATTTTATTTTTATA
* * * ** * *
38333 TTAAATTATTAAATATAATAAATTCTTATT
1 TTAACTTA-AAAATATATTTTATTTTTATA
* * *
38363 TTAACTTAAAACATATCTTTTATTATTATC
1 TTAACTTAAAA-ATATATTTTATTTTTATA
38393 TTAACTTAAAAATATATTTT-TATTTTA-A
1 TTAACTTAAAAATATATTTTAT-TTTTATA
*
38421 TT-A--TAAAAATATA---TATTTTTATC
1 TTAACTTAAAAATATATTTTATTTTTATA
* * *
38444 TTAACTAAAAAAATATATTATATTTTTATC
1 TTAACT-TAAAAATATATTTTATTTTTATA
38474 TTAA
1 TTAA
38478 ATTTAAGATA
Statistics
Matches: 227, Mismatches: 47, Indels: 38
0.73 0.15 0.12
Matches are distributed among these distances:
22 6 0.03
23 3 0.01
24 1 0.00
25 10 0.04
27 10 0.04
28 4 0.02
29 65 0.29
30 124 0.55
31 4 0.02
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (29 bp):
TTAACTTAAAAATATATTTTATTTTTATA
Found at i:38236 original size:59 final size:59
Alignment explanation
Indices: 38151--38277 Score: 175
Period size: 59 Copynumber: 2.2 Consensus size: 59
38141 ATTAATTTTA
* * * * *
38151 CATCTTAACATTAAAAATATATTTTATTTTTATATTAACTTATTAAATATATTTTATTCT
1 CATCTTAACACTAAAAATATAGTTTATTCTTATATTAACTTA-AAAATATATTTTATACT
* *
38211 CTTCTTAAC-CTAAAAATATAGTTTATTCTTATTTTAACTTAAAAATATATTTTATACT
1 CATCTTAACACTAAAAATATAGTTTATTCTTATATTAACTTAAAAATATATTTTATACT
38269 CATCTTAAC
1 CATCTTAAC
38278 TTATTACAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
58 23 0.39
59 28 0.47
60 8 0.14
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.50
Consensus pattern (59 bp):
CATCTTAACACTAAAAATATAGTTTATTCTTATATTAACTTAAAAATATATTTTATACT
Found at i:38237 original size:29 final size:29
Alignment explanation
Indices: 38153--38277 Score: 110
Period size: 29 Copynumber: 4.2 Consensus size: 29
38143 TAATTTTACA
* *
38153 TCTTAACATTAAAAATATATTTTATT-TTT
1 TCTTAAC-CTAAAAATATATTTTATTCTCT
* * *
38182 ATATTAACTTATTAAATATATTTTATTCTCT
1 -TCTTAACCTA-AAAATATATTTTATTCTCT
*
38213 TCTTAACCTAAAAATATAGTTTATTCT-T
1 TCTTAACCTAAAAATATATTTTATTCTCT
* * * *
38241 ATTTTAACTTAAAAATATATTTTATACTCA
1 -TCTTAACCTAAAAATATATTTTATTCTCT
38271 TCTTAAC
1 TCTTAAC
38278 TTATTACAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.01
29 47 0.60
30 28 0.36
31 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (29 bp):
TCTTAACCTAAAAATATATTTTATTCTCT
Found at i:38278 original size:29 final size:29
Alignment explanation
Indices: 38151--38412 Score: 157
Period size: 30 Copynumber: 8.8 Consensus size: 29
38141 ATTAATTTTA
*
38151 CATCTTAACATTAAAAATATATTTTATTTT
1 CATCTTAAC-TTAAAAATATATTTTATTCT
* * *
38181 TATATTAACTTATTAAATATATTTTATTCT
1 CATCTTAACTTA-AAAATATATTTTATTCT
* * *
38211 CTTCTTAACCTAAAAATATAGTTTATTCT
1 CATCTTAACTTAAAAATATATTTTATTCT
* * *
38240 TATTTTAACTTAAAAATATATTTTATACT
1 CATCTTAACTTAAAAATATATTTTATTCT
* * * * * *
38269 CATCTTAACTTATTACAGAAATTATATTAT
1 CATCTTAACTTA-AAAATATATTTTATTCT
* * * * *
38299 TAACTTGAA-TTATTAAATATATTCTATTAT
1 CATCTT-AACTTA-AAAATATATTTTATTCT
* * * * * **
38329 TACCTTAAATTATTAAATATAATAAATTCT
1 CATCTTAACTTA-AAAATATATTTTATTCT
* * * *
38359 TATTTTAACTTAAAACATATCTTTTATTAT
1 CATCTTAACTTAAAA-ATATATTTTATTCT
*
38389 TATCTTAACTTAAAAATATATTTT
1 CATCTTAACTTAAAAATATATTTT
38413 TATTTTAATT
Statistics
Matches: 180, Mismatches: 47, Indels: 11
0.76 0.20 0.05
Matches are distributed among these distances:
29 63 0.35
30 115 0.64
31 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (29 bp):
CATCTTAACTTAAAAATATATTTTATTCT
Found at i:38388 original size:27 final size:25
Alignment explanation
Indices: 38358--38459 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 25
38348 TAATAAATTC
*
38358 TTATTTTAACTTAAAACATATCTTTT
1 TTATTTTAACTTAAAAAATAT-TTTT
*
38384 ATTATTATCTTAACTT-AAAAATATATTT
1 -TTA-T-T-TTAACTTAAAAAATATTTTT
38412 TTATTTTAA-TTATAAAAATATATATTT
1 TTATTTTAACTTA-AAAAATAT-T-TTT
* *
38439 TTATCTTAACTAAAAAAATAT
1 TTATTTTAACTTAAAAAATAT
38460 ATTATATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
23 2 0.03
24 4 0.06
25 9 0.15
26 1 0.02
27 25 0.40
28 6 0.10
29 8 0.13
30 7 0.11
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (25 bp):
TTATTTTAACTTAAAAAATATTTTT
Found at i:38433 original size:25 final size:25
Alignment explanation
Indices: 38383--38462 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 25
38373 ACATATCTTT
*
38383 TATTATTATCTTAACT-TAAAAATA
1 TATTTTTATCTTAACTATAAAAATA
* *
38407 TATTTTTATTTTAATTATAAAAATATA
1 TATTTTTATCTTAACTAT-AAAA-ATA
*
38434 TATTTTTATCTTAACTAAAAAAATA
1 TATTTTTATCTTAACTATAAAAATA
38459 TATT
1 TATT
38463 ATATTTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
24 13 0.28
25 8 0.17
26 8 0.17
27 18 0.38
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTTTTATCTTAACTATAAAAATA
Found at i:38460 original size:27 final size:26
Alignment explanation
Indices: 38383--38477 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 26
38373 ACATATCTTT
* *
38383 TATTATTATCTTAACT-TAAAA-ATA
1 TATTTTTATCTTAACTAAAAAATATA
* *
38407 TATTTTTATTTTAATTATAAAAATATA
1 TATTTTTATCTTAACTA-AAAAATATA
38434 TATTTTTATCTTAACTAAAAAAATATATTA
1 TATTTTTATCTTAACT--AAAAA-ATA-TA
38464 TATTTTTATCTTAA
1 TATTTTTATCTTAA
38478 ATTTAAGATA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
24 13 0.22
26 4 0.07
27 17 0.29
28 4 0.07
29 4 0.07
30 16 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTTTATCTTAACTAAAAAATATA
Found at i:38600 original size:29 final size:28
Alignment explanation
Indices: 38500--38600 Score: 78
Period size: 29 Copynumber: 3.5 Consensus size: 28
38490 ATCATAATAA
* * * *
38500 AAAATAAATATTTAAGTTAAGATAAGAAT
1 AAAATATATTTTTAAATTAAAATAA-AAT
* * * *
38529 AAATTATATTTTTCAATTTAAAATATGATT
1 AAAATATATTTTT-AAATTAAAATA-AAAT
*
38559 AAAA-ATAATTTTAAATTAAAATTAAAAT
1 AAAATATATTTTTAAATTAAAA-TAAAAT
38587 AAAATATATTTTTA
1 AAAATATATTTTTA
38601 GGTTACAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
28 14 0.25
29 27 0.49
30 14 0.25
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (28 bp):
AAAATATATTTTTAAATTAAAATAAAAT
Found at i:38680 original size:18 final size:19
Alignment explanation
Indices: 38644--38696 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
38634 TAAGATAAAA
38644 AAAATTAATGTTAAGATGT
1 AAAATTAATGTTAAGATGT
* *
38663 AAAATTAGT-TTAATATGT
1 AAAATTAATGTTAAGATGT
* *
38681 -GAATTTATGTTAAGAT
1 AAAATTAATGTTAAGAT
38697 ATATAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.19
18 14 0.52
19 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (19 bp):
AAAATTAATGTTAAGATGT
Found at i:38990 original size:31 final size:31
Alignment explanation
Indices: 38947--39013 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
38937 AGGGGAATGA
38947 TCCCTAACATTATCGATCCATTTGATTTTAG
1 TCCCTAACATTATCGATCCATTTGATTTTAG
*
38978 TCCCTAATATTATCGATCCATTTGATTTTAG
1 TCCCTAACATTATCGATCCATTTGATTTTAG
39009 TCCCT
1 TCCCT
39014 CGACTTAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (31 bp):
TCCCTAACATTATCGATCCATTTGATTTTAG
Found at i:39212 original size:16 final size:16
Alignment explanation
Indices: 39191--39225 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39181 TAGTTTACCC
* *
39191 AAAAATATATTAAATT
1 AAAAATAAATTAAAAT
39207 AAAAATAAATTAAAAT
1 AAAAATAAATTAAAAT
39223 AAA
1 AAA
39226 TTTAGTCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAATTAAAAT
Found at i:39839 original size:17 final size:16
Alignment explanation
Indices: 39808--39857 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 16
39798 AAATATTTAA
39808 TTATTTTTAAA-AATT
1 TTATTTTTAAATAATT
39823 TTAATTTTTAAATAATT
1 TT-ATTTTTAAATAATT
39840 TTATTTTATAAAATAATT
1 TTATTTT-T-AAATAATT
39858 GACAAGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.06
16 14 0.45
17 7 0.23
18 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTTTTAAATAATT
Found at i:40897 original size:16 final size:18
Alignment explanation
Indices: 40875--40916 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
40865 GTAAAATATA
*
40875 AAATATAATCGAT-CATT
1 AAATATAATCAATACATT
*
40892 -AATATATTCAATACATT
1 AAATATAATCAATACATT
40909 AAATATAA
1 AAATATAA
40917 AAATACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 10 0.50
17 4 0.20
18 6 0.30
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATATAATCAATACATT
Found at i:44706 original size:17 final size:18
Alignment explanation
Indices: 44667--44705 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44657 AATTAGAAAG
44667 AAAATAAATAAACAAGAT
1 AAAATAAATAAACAAGAT
*
44685 AAAATAAA-AATCAAGACT
1 AAAATAAATAAACAAGA-T
44703 AAA
1 AAA
44706 TTGTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAATAAATAAACAAGAT
Found at i:46112 original size:24 final size:23
Alignment explanation
Indices: 46060--46118 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
46050 GATCAAACCT
* *
46060 AAAAATAAAAGTAATAATAATAA
1 AAAAATAAAAGTAAAAATAAGAA
46083 ATAAAATAAAA-TAAAAATTAAGAGA
1 A-AAAATAAAAGTAAAAA-TAAGA-A
*
46108 AAAAAGAAAAG
1 AAAAATAAAAG
46119 AGAAAAGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 6 0.21
24 21 0.72
25 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (23 bp):
AAAAATAAAAGTAAAAATAAGAA
Found at i:46117 original size:7 final size:7
Alignment explanation
Indices: 46102--46173 Score: 135
Period size: 7 Copynumber: 10.3 Consensus size: 7
46092 AATAAAAATT
46102 AAGAGAA
1 AAGAGAA
*
46109 AAAAGAA
1 AAGAGAA
46116 AAGAGAA
1 AAGAGAA
46123 AAGAGAA
1 AAGAGAA
46130 AAGAGAA
1 AAGAGAA
46137 AAGAGAA
1 AAGAGAA
46144 AAGAGAA
1 AAGAGAA
46151 AAGAGAA
1 AAGAGAA
46158 AAGAGAA
1 AAGAGAA
46165 AAGAGAA
1 AAGAGAA
46172 AA
1 AA
46174 ATAAATAATG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 63 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAGAGAA
Found at i:46254 original size:29 final size:26
Alignment explanation
Indices: 46170--46341 Score: 116
Period size: 26 Copynumber: 6.8 Consensus size: 26
46160 GAGAAAAGAG
* *
46170 AAAAA-TAAATAATGTATATATTATT-
1 AAAAACTATATAATATATATATT-TTC
46195 AAAAACTATATAATATATATATTTTC
1 AAAAACTATATAATATATATATTTTC
46221 AAAAACTATATAATATATATTATATTTTC
1 AAAAACTATAT-A-ATATA-TATATTTTC
*
46250 AAAAAC----T-ATA-ATATGTTTTC
1 AAAAACTATATAATATATATATTTTC
* * * *
46270 AAAAATTATATATGTTATAAATGTTTTC
1 AAAAACTATATA--ATATATATATTTTC
46298 AAAAAC--TAT-AT-TATATATTTTC
1 AAAAACTATATAATATATATATTTTC
* * *
46320 TAAAACTATATATTCTATATAT
1 AAAAACTATATAATATATATAT
46342 GCCATATATA
Statistics
Matches: 118, Mismatches: 12, Indels: 33
0.72 0.07 0.20
Matches are distributed among these distances:
20 13 0.11
21 1 0.01
22 17 0.14
23 1 0.01
24 4 0.03
25 9 0.08
26 36 0.31
27 3 0.03
28 19 0.16
29 15 0.13
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAAACTATATAATATATATATTTTC
Found at i:46274 original size:49 final size:50
Alignment explanation
Indices: 46207--46331 Score: 157
Period size: 49 Copynumber: 2.5 Consensus size: 50
46197 AAACTATATA
*
46207 ATATATATATTTTCAAAAACTATATAATA-TATATTATATTTTCAAAAACT
1 ATATATATATTTTCAAAAACTATATAATATTATA-AATATTTTCAAAAACT
* * * *
46257 ATA-ATATGTTTTCAAAAATTATAT-ATGTTATAAATGTTTTCAAAAACT
1 ATATATATATTTTCAAAAACTATATAATATTATAAATATTTTCAAAAACT
*
46305 ATATTATATATTTTCTAAAACTATATA
1 ATA-TATATATTTTCAAAAACTATATA
46332 TTCTATATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 19 0.30
49 23 0.37
50 21 0.33
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (50 bp):
ATATATATATTTTCAAAAACTATATAATATTATAAATATTTTCAAAAACT
Found at i:46282 original size:19 final size:20
Alignment explanation
Indices: 46245--46285 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
46235 ATATATTATA
46245 TTTTCAAAAACTATAATATG
1 TTTTCAAAAACTATAATATG
*
46265 TTTTCAAAAATTAT-ATATG
1 TTTTCAAAAACTATAATATG
46284 TT
1 TT
46286 ATAAATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTCAAAAACTATAATATG
Found at i:46330 original size:48 final size:50
Alignment explanation
Indices: 46207--46340 Score: 157
Period size: 50 Copynumber: 2.7 Consensus size: 50
46197 AAACTATATA
*
46207 ATATATATATTTTCAAAAACTATATAATATATATTATATTTTCAAAAACT
1 ATATATATATTTTCAAAAACTATATAATATATATAATATTTTCAAAAACT
* * * *
46257 ATA-ATATGTTTTCAAAAATTATAT-ATGT-TATAAATGTTTTCAAAAACT
1 ATATATATATTTTCAAAAACTATATAATATATAT-AATATTTTCAAAAACT
* * *
46305 ATATTATATATTTTCTAAAACTATATATTCTATATA
1 ATA-TATATATTTTCAAAAACTATATAATATATATA
46341 TGCCATATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
47 3 0.04
48 20 0.29
49 19 0.28
50 21 0.30
51 3 0.04
52 3 0.04
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (50 bp):
ATATATATATTTTCAAAAACTATATAATATATATAATATTTTCAAAAACT
Found at i:47127 original size:224 final size:225
Alignment explanation
Indices: 46720--47194 Score: 526
Period size: 224 Copynumber: 2.1 Consensus size: 225
46710 CCGACTTTAG
* * * * *
46720 AAGATGTGACTGAAAGATGGCTCCTCGTCACTGAGTTAAGCCAAATTGCAATCAATTTGTGGATG
1 AAGATTTGACTGAAA-ATGGCTCCTTGTCACTGAGTTAAGCCAAAATACAATCAATTAGTGGATG
* * * * ** ** *
46785 TGTTTTTTAGACAATAATCCTCCATCATGAAGTTGAAATTTTGCCTGAAAACTTTAACTGGAAAA
65 AGTTTATGAGACAAGAATCCTCCATCATGAAGTTGAAACCTAACCTGAAAACTTTAACTGAAAAA
* * * **** *
46850 TAGCTCAACGCCACTAAGTTAAGGTAGACTGCAGTTTATTCTAGATTGGTTTTCGAACCTAATAT
130 TAGCTCAACACCACTAAGTTAAGCTAGAATGCAACCAATTCTAGATTGGTTTTCAAACCTAATAT
* *
46915 TCTAT-ATCATGGAGTTGAGAATGACTTCAAA
195 CCT-TCATCATGGAATTGAGAATGACTTCAAA
*
46946 AAGATTT-ACTGGAAAATGGCTCCTTGTCACTGAGTTAAGCCAAAATACAGTCAA-TAGTGGATG
1 AAGATTTGACT-GAAAATGGCTCCTTGTCACTGAGTTAAGCCAAAATACAATCAATTAGTGGATG
** * * * *
47009 AGTTTATGAGTTAAGAATCCTCCGTCGTGAAGTTGAGACCTAACTTGAAAACTTTAACT-AAAAA
65 AGTTTATGAGACAAGAATCCTCCATCATGAAGTTGAAACCTAACCTGAAAACTTTAACTGAAAAA
** * *
47073 GTAGCTCCTCACCACTGAGTTAAGCTAGAATGCAACCAATTCTGGATTGGTTTTCAAACCTAATA
130 -TAGCTCAACACCACTAAGTTAAGCTAGAATGCAACCAATTCTAGATTGGTTTTCAAACCTAATA
* * *
47138 TCCTTCGTCGTGGAATTGAGAATGACTTCGAA
194 TCCTTCATCATGGAATTGAGAATGACTTCAAA
* *
47170 TAGATTTGACTGAAAGTGGCTCCTT
1 AAGATTTGACTGAAAATGGCTCCTT
47195 TCTGCTATGC
Statistics
Matches: 205, Mismatches: 40, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
223 5 0.02
224 149 0.73
225 41 0.20
226 10 0.05
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (225 bp):
AAGATTTGACTGAAAATGGCTCCTTGTCACTGAGTTAAGCCAAAATACAATCAATTAGTGGATGA
GTTTATGAGACAAGAATCCTCCATCATGAAGTTGAAACCTAACCTGAAAACTTTAACTGAAAAAT
AGCTCAACACCACTAAGTTAAGCTAGAATGCAACCAATTCTAGATTGGTTTTCAAACCTAATATC
CTTCATCATGGAATTGAGAATGACTTCAAA
Found at i:47285 original size:19 final size:19
Alignment explanation
Indices: 47261--47301 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
47251 CCTCCGTCAT
47261 AAAGTTGA-GACCTGGCCTG
1 AAAGTTGATG-CCTGGCCTG
47280 AAAGTTGATGCCTGGCCTG
1 AAAGTTGATGCCTGGCCTG
47299 AAA
1 AAA
47302 ACTTTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (19 bp):
AAAGTTGATGCCTGGCCTG
Found at i:52507 original size:20 final size:18
Alignment explanation
Indices: 52469--52508 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
52459 GATGATAATC
*
52469 AATAAAAAGTAAAAAAAG
1 AATAAAAAATAAAAAAAG
52487 AATAAAGAAATAAACAAAAG
1 AATAAA-AAATAAA-AAAAG
52507 AA
1 AA
52509 AATAAGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (18 bp):
AATAAAAAATAAAAAAAG
Found at i:52749 original size:32 final size:32
Alignment explanation
Indices: 52709--52773 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
52699 ATAAAGTAAC
52709 AACATCCTAGGTTTTGCATGAGGTTTAGGGAT
1 AACATCCTAGGTTTTGCATGAGGTTTAGGGAT
52741 AACATCCTAGGTTTTGCATGAGGTTTAGGGAT
1 AACATCCTAGGTTTTGCATGAGGTTTAGGGAT
52773 A
1 A
52774 GGCTCTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (32 bp):
AACATCCTAGGTTTTGCATGAGGTTTAGGGAT
Found at i:55510 original size:3 final size:3
Alignment explanation
Indices: 55502--55538 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
55492 AAAAAAGAGA
55502 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
55539 TGTATATGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55606 original size:20 final size:21
Alignment explanation
Indices: 55572--55622 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
55562 AACTATATAA
*
55572 TATATATTATATTTTCAAAAAC
1 TATATA-TATGTTTTCAAAAAC
*
55594 TATA-ATATGTTTTCAAAAAT
1 TATATATATGTTTTCAAAAAC
55614 TATATATAT
1 TATATATAT
55623 TATATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 17 0.65
21 5 0.19
22 4 0.15
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (21 bp):
TATATATATGTTTTCAAAAAC
Found at i:55645 original size:48 final size:48
Alignment explanation
Indices: 55559--55665 Score: 146
Period size: 47 Copynumber: 2.2 Consensus size: 48
55549 TATATTTCTT
*
55559 AAAAACTATATAATATATATTATATTTTCAAAAACTATAATATGTTTTC
1 AAAAACTATATAATATATATTATATTTTCAAAAACTAT-ATATGTTTTA
* * *
55608 AAAAATTATAT-ATAT-TATATATATTTTCAAAACCTATATATTTTTTA
1 AAAAACTATATAATATATAT-TATATTTTCAAAAACTATATATGTTTTA
55655 AAAAACTATAT
1 AAAAACTATAT
55666 CTATGATGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
47 21 0.40
48 21 0.40
49 10 0.19
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (48 bp):
AAAAACTATATAATATATATTATATTTTCAAAAACTATATATGTTTTA
Found at i:55647 original size:19 final size:19
Alignment explanation
Indices: 55623--55665 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
55613 TTATATATAT
* *
55623 TATATATATTTTCAAAACC
1 TATATATATTTTAAAAAAC
*
55642 TATATATTTTTTAAAAAAC
1 TATATATATTTTAAAAAAC
55661 TATAT
1 TATAT
55666 CTATGATGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATATTTTAAAAAAC
Found at i:55665 original size:47 final size:47
Alignment explanation
Indices: 55548--55694 Score: 151
Period size: 48 Copynumber: 3.1 Consensus size: 47
55538 ATGTATATGC
*
55548 ATATATTTCTTAAAAACTATATAATATATATTATATTTTCAAAAACT
1 ATATATTTTTTAAAAACTATATAATATATATTATATTTTCAAAAACT
* * *
55595 ATAATATGTTTTCAAAAATTATAT-ATAT-TATATATATTTTCAAAACCT
1 AT-ATAT-TTTTTAAAAACTATATAATATATAT-TATATTTTCAAAAACT
* * * *
55643 ATATATTTTTTAAAAAACTATAT-CTAT-GA-TGTGTTTTCAAAAACT
1 ATATATTTTTT-AAAAACTATATAATATATATTATATTTTCAAAAACT
55688 ATATATT
1 ATATATT
55695 ATATTTATGT
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
45 20 0.24
46 4 0.05
47 23 0.27
48 25 0.29
49 13 0.15
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (47 bp):
ATATATTTTTTAAAAACTATATAATATATATTATATTTTCAAAAACT
Found at i:56490 original size:21 final size:21
Alignment explanation
Indices: 56474--56522 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
56464 ATTGCGGTTG
56474 TCGCGGGCACTATTGCGGCCA
1 TCGCGGGCACTATTGCGGCCA
* *
56495 TCGCGGGCGCTATTGTGGCCA
1 TCGCGGGCACTATTGCGGCCA
56516 TCGCGGG
1 TCGCGGG
56523 TAACTCGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.10, C:0.31, G:0.39, T:0.20
Consensus pattern (21 bp):
TCGCGGGCACTATTGCGGCCA
Found at i:59476 original size:14 final size:15
Alignment explanation
Indices: 59448--59481 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
59438 GATGATATTG
59448 CTTGTATACGCCTTT
1 CTTGTATACGCCTTT
59463 CTTGTATA-GCCTTT
1 CTTGTATACGCCTTT
59477 CTTGT
1 CTTGT
59482 TTGCATCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.12, C:0.24, G:0.15, T:0.50
Consensus pattern (15 bp):
CTTGTATACGCCTTT
Found at i:61199 original size:20 final size:20
Alignment explanation
Indices: 61156--61201 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
61146 TATTTTGTAG
61156 AGAAAACATCCCCAAATGGCT
1 AGAAAACATCCCCAAA-GGCT
*
61177 AGAAATCATCCCCAACA-GCT
1 AGAAAACATCCCCAA-AGGCT
61197 AGAAA
1 AGAAA
61202 CGACCACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 14 0.61
22 1 0.04
ACGTcount: A:0.46, C:0.28, G:0.13, T:0.13
Consensus pattern (20 bp):
AGAAAACATCCCCAAAGGCT
Found at i:65630 original size:18 final size:18
Alignment explanation
Indices: 65603--65639 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
65593 AACGGTTCAA
*
65603 CGGGTCAACGGGTCGGGT
1 CGGGTAAACGGGTCGGGT
65621 CGGGTAAACGGGTCGGGT
1 CGGGTAAACGGGTCGGGT
65639 C
1 C
65640 AGGTTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (18 bp):
CGGGTAAACGGGTCGGGT
Found at i:66537 original size:20 final size:20
Alignment explanation
Indices: 66512--66568 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
66502 AATAACGTAT
*
66512 TATATTACTAATATAATAAA
1 TATATTATTAATATAATAAA
* *
66532 TATATTATTAA-ATATATGAG
1 TATATTATTAATATA-ATAAA
66552 TATA-TATTAATATAATA
1 TATATTATTAATATAATA
66569 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
TATATTATTAATATAATAAA
Found at i:66580 original size:16 final size:16
Alignment explanation
Indices: 66561--66595 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
66551 GTATATATTA
66561 ATATAATATTAAAAAT
1 ATATAATATTAAAAAT
* *
66577 ATATATTATTAAAATT
1 ATATAATATTAAAAAT
66593 ATA
1 ATA
66596 CTATATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAATATTAAAAAT
Found at i:66885 original size:41 final size:41
Alignment explanation
Indices: 66799--66885 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
66789 TTACATTGGA
* * * *
66799 AAAATCAATTACAACTATCAAACACTAGAAAATGTTTTTCGT
1 AAAACCAATTACAACTATCAAACACGAAAAAATATTTTTC-T
66841 AAAACCAATTACAACTATCAAACATCGAAAAAATATTTTT-T
1 AAAACCAATTACAACTATCAAACA-CGAAAAAATATTTTTCT
66882 AAAA
1 AAAA
66886 AATATTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 5 0.12
42 23 0.57
43 12 0.30
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.29
Consensus pattern (41 bp):
AAAACCAATTACAACTATCAAACACGAAAAAATATTTTTCT
Found at i:66887 original size:14 final size:14
Alignment explanation
Indices: 66868--66894 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66858 TCAAACATCG
66868 AAAAAATATTTTTT
1 AAAAAATATTTTTT
66882 AAAAAATATTTTT
1 AAAAAATATTTTT
66895 CAACAATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAAAATATTTTTT
Found at i:70128 original size:40 final size:40
Alignment explanation
Indices: 70073--70187 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
70063 GATTAAGCAT
70073 TTCGGTGCATATGGTGGGCACAACCTTATGTGTAATGCAC
1 TTCGGTGCATATGGTGGGCACAACCTTATGTGTAATGCAC
**
70113 TTCGGTGCATATGGTGGGCATGACCTTATGTGTAATGCAC
1 TTCGGTGCATATGGTGGGCACAACCTTATGTGTAATGCAC
70153 TTCGGTGCATATGGTGGGCACGAA-CTTATGTGTAA
1 TTCGGTGCATATGGTGGGCAC-AACCTTATGTGTAA
70188 ACACTACGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 69 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (40 bp):
TTCGGTGCATATGGTGGGCACAACCTTATGTGTAATGCAC
Found at i:76823 original size:39 final size:40
Alignment explanation
Indices: 76690--76823 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 40
76680 TATCGATTAA
* * *
76690 GCACTTC-GTGCATATGGTAGGCGCGACCTTATCTGTAAT
1 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
* * *
76729 GCACTTCAGTGCATATGGTGGACACGACTTTATGTGTAAT
1 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
* *
76769 GCACTTTGGTGCATATGGTGGGCACGACCTTATGTTTAA-
1 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
*
76808 GCACTACGGTGCATAT
1 GCACTTCGGTGCATAT
76824 ATTTGACTCG
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
39 21 0.26
40 61 0.74
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
Found at i:77581 original size:2 final size:2
Alignment explanation
Indices: 77574--77671 Score: 50
Period size: 2 Copynumber: 53.0 Consensus size: 2
77564 AAATAATTAT
* *
77574 TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA AA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
77613 AA TT TA AA T- TA AA AA TA TA TA TA TA -A TA -A T- TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
77651 TA -A TT TA AA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
77672 CCTGACCCGA
Statistics
Matches: 70, Mismatches: 18, Indels: 16
0.67 0.17 0.15
Matches are distributed among these distances:
1 8 0.11
2 62 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:77631 original size:34 final size:35
Alignment explanation
Indices: 77593--77671 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 35
77583 ATATATATAT
77593 ATATAATAT-TAATAAATT-TAAATTTAAATTAAAA
1 ATATAATATATAAT-AATTATAAATTTAAATTAAAA
* * *
77627 ATAT-ATATATAATAATTATATATTTAATTTAAAT
1 ATATAATATATAATAATTATAAATTTAAATTAAAA
77661 ATAT-ATATATA
1 ATATAATATATA
77672 CCTGACCCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 8 0.20
34 32 0.80
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
ATATAATATATAATAATTATAAATTTAAATTAAAA
Found at i:78627 original size:24 final size:24
Alignment explanation
Indices: 78600--78711 Score: 170
Period size: 24 Copynumber: 4.7 Consensus size: 24
78590 ATCAAAACAT
* * *
78600 AATCCAGGTCAAGTATCAGGTCAA
1 AATCCAGGTCAAGTATCCGATCAG
* *
78624 AATCCAGGTCAAATATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
78648 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
78672 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
78696 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
78712 TATAATAGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:82711 original size:23 final size:23
Alignment explanation
Indices: 82681--82758 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
82671 CAACTACTTC
82681 CAAAGCCACGCGTATGGCTCACT
1 CAAAGCCACGCGTATGGCTCACT
*
82704 CAAAGCCACACGTATGGCTCACT
1 CAAAGCCACGCGTATGGCTCACT
* *
82727 CAAAACCACGTGTATGGCTCACT
1 CAAAGCCACGCGTATGGCTCACT
82750 CAAAGCCAC
1 CAAAGCCAC
82759 TAGTGTGGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.31, C:0.35, G:0.18, T:0.17
Consensus pattern (23 bp):
CAAAGCCACGCGTATGGCTCACT
Found at i:83153 original size:22 final size:21
Alignment explanation
Indices: 83109--83166 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 21
83099 ACCGATTCAG
83109 AAAAAAAA-GA-AGAAAAAAT
1 AAAAAAAAGGAGAGAAAAAAT
83128 AAAAAAAAGGAGAGAAACACAA-
1 AAAAAAAAGGAGAGAAA-A-AAT
83150 AAAAACAAAGAGAGAGA
1 AAAAA-AAAG-GAGAGA
83167 GTTTACCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
19 8 0.24
20 2 0.06
21 5 0.15
22 6 0.18
23 6 0.18
24 6 0.18
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGGAGAGAAAAAAT
Found at i:85955 original size:2 final size:2
Alignment explanation
Indices: 85948--85987 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
85938 TATTTTTACT
85948 TA TA TA TA 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 TA TA TA TA
85988 AAGATAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87639 original size:16 final size:16
Alignment explanation
Indices: 87618--87657 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
87608 GATTGGTACC
87618 AAAAGCATTTTATGGT
1 AAAAGCATTTTATGGT
87634 AAAAGCATTTTATGGT
1 AAAAGCATTTTATGGT
*
87650 AAGAGCAT
1 AAAAGCAT
87658 CAATTGAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (16 bp):
AAAAGCATTTTATGGT
Found at i:93411 original size:6 final size:6
Alignment explanation
Indices: 93400--93478 Score: 59
Period size: 6 Copynumber: 13.2 Consensus size: 6
93390 AGAGTAGTGA
* * * * * *
93400 AGCAAG AGCAAG AACAAG AGCAAT AACAAG AGAAAG AACAAG AGCAAA
1 AGCAAG AGCAAG AGCAAG AGCAAG AGCAAG AGCAAG AGCAAG AGCAAG
* * * * *
93448 AGCAAT AACAAG TGTAAA AGCAAG AGCAAG A
1 AGCAAG AGCAAG AGCAAG AGCAAG AGCAAG A
93479 TAAAAATTTG
Statistics
Matches: 52, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.58, C:0.14, G:0.23, T:0.05
Consensus pattern (6 bp):
AGCAAG
Found at i:93419 original size:12 final size:12
Alignment explanation
Indices: 93402--93446 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
93392 AGTAGTGAAG
93402 CAAGAGCAAGAA
1 CAAGAGCAAGAA
*
93414 CAAGAGCAATAA
1 CAAGAGCAAGAA
*
93426 CAAGAGAAAGAA
1 CAAGAGCAAGAA
93438 CAAGAGCAA
1 CAAGAGCAA
93447 AAGCAATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.60, C:0.16, G:0.22, T:0.02
Consensus pattern (12 bp):
CAAGAGCAAGAA
Found at i:93452 original size:30 final size:31
Alignment explanation
Indices: 93403--93476 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
93393 GTAGTGAAGC
* *
93403 AAGAGCAAGAACAAGAGCAATAACAAGAG-A
1 AAGAGCAAGAGCAAAAGCAATAACAAGAGTA
* *
93433 AAGAACAAGAGCAAAAGCAATAACAAGTGTA
1 AAGAGCAAGAGCAAAAGCAATAACAAGAGTA
93464 AA-AGCAAGAGCAA
1 AAGAGCAAGAGCAA
93477 GATAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 35 0.92
31 3 0.08
ACGTcount: A:0.59, C:0.14, G:0.22, T:0.05
Consensus pattern (31 bp):
AAGAGCAAGAGCAAAAGCAATAACAAGAGTA
Found at i:95191 original size:15 final size:15
Alignment explanation
Indices: 95144--95199 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
95134 AATTAGGTTA
95144 ATTAATT-TTATTATT
1 ATTAATTATTA-TATT
* *
95159 -TTATTTATT-TAATC
1 ATTAATTATTAT-ATT
95173 ATTAATTATTATATT
1 ATTAATTATTATATT
95188 ATTAATTATTAT
1 ATTAATTATTAT
95200 TAGTATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 1 0.03
14 7 0.21
15 24 0.73
16 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTAATTATTATATT
Found at i:96782 original size:17 final size:17
Alignment explanation
Indices: 96760--96804 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
96750 TTTACTTTTG
96760 CATCCTCATGACATCTA
1 CATCCTCATGACATCTA
96777 CATCCTCATGACATCTA
1 CATCCTCATGACATCTA
* *
96794 TATCATCATGA
1 CATCCTCATGA
96805 TATAAAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (17 bp):
CATCCTCATGACATCTA
Found at i:102293 original size:129 final size:131
Alignment explanation
Indices: 102047--102356 Score: 301
Period size: 129 Copynumber: 2.4 Consensus size: 131
102037 ATTTGATTTG
* *
102047 CATGTCTGATCTTCCCTAAAGAGTAGCGAAGCAGATCTCCTTTTCCAGATTCGATCTTCACTAAA
1 CATGTCTAATCTTCACTAAAGAGTAGCGAAGCAGATCTCCTTTTCCAGATTCGATCTTCACTAAA
* * * ** **
102112 GAGTAGTGAAGCAAATCAACCCCGATTATATCTTCCTTAAAGATTAGTGAAGTGAATCAAAGTTT
66 GAGTAATGAAGCAAATCAACACCAATTATATCTTCCTTAAAGAGCAAAGAAGTGAATCAAAGTTT
102177 A
131 A
* * * * * * * *
102178 CATGTCTAATCTTCACTAAAGAGTAGTGAAGTATAT-T-TTTTTCTAGATTTGATCTTCCCTTAA
1 CATGTCTAATCTTCACTAAAGAGTAGCGAAGCAGATCTCCTTTTCCAGATTCGATCTTCACTAAA
* *
102241 GAGTAATGAAGCAAATCAACACTAATTCA-ATCTTTCC-TAAGGAGCAAAGAAGTGAATCAAAGT
66 GAGTAATGAAGCAAATCAACACCAATT-ATATC-TTCCTTAAAGAGCAAAGAAGTGAATCAAAGT
*
102304 TTT
129 TTA
* * * * * *
102307 CA-GATATGACCTTCTA-TAAAGAGTAGTGAAGCAGATC-CCATTTCTAGATT
1 CATG-TCTAATCTTC-ACTAAAGAGTAGCGAAGCAGATCTCCTTTTCCAGATT
102357 TGATTTTCTC
Statistics
Matches: 146, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
128 1 0.01
129 97 0.66
130 17 0.12
131 31 0.21
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (131 bp):
CATGTCTAATCTTCACTAAAGAGTAGCGAAGCAGATCTCCTTTTCCAGATTCGATCTTCACTAAA
GAGTAATGAAGCAAATCAACACCAATTATATCTTCCTTAAAGAGCAAAGAAGTGAATCAAAGTTT
A
Found at i:102946 original size:40 final size:41
Alignment explanation
Indices: 102902--102981 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
102892 GTATAATTTG
*
102902 TAGTTAT-ATATAAAGTA-TACTATATA-TATATAGTATTTTT
1 TAGTTATAAAATAAA-TAGTACTATATATTATATAGT-TTTTT
* *
102942 TAGTTTTAAAATAAATAGTAGTATATATTATATAGTTTTT
1 TAGTTATAAAATAAATAGTACTATATATTATATAGTTTTT
102982 AAAATAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 8 0.24
41 18 0.53
42 8 0.24
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (41 bp):
TAGTTATAAAATAAATAGTACTATATATTATATAGTTTTTT
Found at i:102999 original size:32 final size:30
Alignment explanation
Indices: 102922--102999 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 30
102912 TAAAGTATAC
* *
102922 TATATATATATAGTATTTTTTAGTTTTAAAA
1 TATATATATATA-TATTATATAGTTTTAAAA
*
102953 TAAATAGTAGTATATATTATATAGTTTTTAAAA
1 TATATA-TA-TATATATTATATAG-TTTTAAAA
102986 TAGTATATATATAT
1 TA-TATATATATAT
103000 TTTTGAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 5 0.13
32 15 0.38
33 16 0.41
34 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (30 bp):
TATATATATATATATTATATAGTTTTAAAA
Found at i:103003 original size:23 final size:25
Alignment explanation
Indices: 102960--103040 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 25
102950 AAATAAATAG
*
102960 TAGTATATATTATATAGTTTTTAAAA
1 TAGTATATATTATATA-TTTTGAAAA
102986 TAGTATATA-TATAT-TTTTGAAAAA
1 TAGTATATATTATATATTTTG-AAAA
* *
103010 TAAATATATTATTTATATAATTTGGAAAA
1 T-AGTATA-TA-TTATAT-ATTTTGAAAA
103039 TA
1 TA
103041 AATATTAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 10 0.22
26 11 0.24
28 6 0.13
29 5 0.11
30 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (25 bp):
TAGTATATATTATATATTTTGAAAA
Found at i:103013 original size:29 final size:30
Alignment explanation
Indices: 102981--103061 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
102971 ATATAGTTTT
*
102981 TAAA-ATAGTATATATATATTTTTGAAAAA
1 TAAATATAGTATTTATATATTTTTGAAAAA
* * *
103010 TAAATATATTATTTATATA-ATTTGGAAAA
1 TAAATATAGTATTTATATATTTTTGAAAAA
103039 TAAATATTAGTATGTTATATATT
1 TAAATA-TAGTAT-TTATATATT
103062 ATGTTTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
29 18 0.43
30 17 0.40
31 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (30 bp):
TAAATATAGTATTTATATATTTTTGAAAAA
Found at i:103016 original size:21 final size:22
Alignment explanation
Indices: 102970--103023 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
102960 TAGTATATAT
*
102970 TATATAGTTTTTAAAATAGTATA
1 TATATA-TTTTTAAAATAGTAAA
102993 TATATATTTTTGAAAA-A-TAAA
1 TATATATTTTT-AAAATAGTAAA
103014 TATATTATTT
1 TATA-TATTT
103024 ATATAATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 7 0.25
22 11 0.39
23 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
TATATATTTTTAAAATAGTAAA
Found at i:104611 original size:207 final size:212
Alignment explanation
Indices: 104072--104766 Score: 1116
Period size: 207 Copynumber: 3.2 Consensus size: 212
104062 AAATTTAAGA
*
104072 ATTAAATTGAACAAATATGAAATTAAAAATAAAAAATTAAATAAATTAAACAACACACATTGATG
1 ATTAAATTGAAC-AATAT--AATT-AAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
*
104137 AGGGATAAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAGTACTAAATTAT
62 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT
*
104201 ACCCATTTAAAAAGTTATGAGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTA
127 ACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTA
*
104266 GATGCAAATAAAATTTGGATG
192 GATGCAAATAAAATTTGGAGG
*
104287 ACTAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
1 ATTAAATTGAAC-AATAT--AATT-AAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
104352 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT
62 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT
* * * *
104417 ACCCATTTTAAAAA-TTATGGGCCAATTAAATAATATAAATAAGTAATAAGTATGGATCAATTTC
127 ACCCA-TTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTT
104481 AGATGCAAATAAAATTTGGAGG
191 AGATGCAAATAAAATTTGGAGG
104503 ATTAAATTGAAC-AT-T-A-T-AAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGG
1 ATTAAATTGAACAATATAATTAAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGG
104563 ATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
66 ATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
* *
104628 ATTTAAAAAGTTATAGGCCAATTAAAAAATAGAAACAAGTAATAAGTATGGGTCAATTTTAGATG
131 ATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGATG
*
104693 CAAATAAATTTTGGAGG
196 CAAATAAAATTTGGAGG
104710 ATTAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACA
1 ATTAAATTGAAC-AATAT--AATT-AAAATAAAAATTTAAATAAATTAAACAACACA
104767 AAGGGATCAA
Statistics
Matches: 451, Mismatches: 17, Indels: 23
0.92 0.03 0.05
Matches are distributed among these distances:
206 8 0.02
207 186 0.41
209 3 0.01
210 2 0.00
213 2 0.00
214 3 0.01
215 109 0.24
216 130 0.29
217 8 0.02
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (212 bp):
ATTAAATTGAACAATATAATTAAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGG
ATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
ATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGATG
CAAATAAAATTTGGAGG
Found at i:104980 original size:11 final size:11
Alignment explanation
Indices: 104966--105003 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
104956 ACTACATAGT
104966 TTATATATAAA
1 TTATATATAAA
*
104977 TTATATATGAA
1 TTATATATAAA
104988 TTATATATAAA
1 TTATATATAAA
*
104999 CTATA
1 TTATA
105004 CAATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:105029 original size:17 final size:17
Alignment explanation
Indices: 105009--105062 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
104999 CTATACAATT
* *
105009 TATATTTATATATTATG
1 TATATTTATAAATTATA
*
105026 TATAATTATAAATTATA
1 TATATTTATAAATTATA
105043 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
105061 TA
1 TA
105063 GTTTATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:105032 original size:24 final size:23
Alignment explanation
Indices: 105008--105061 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
104998 ACTATACAAT
105008 TTATATTTATATAT-TATGTATAA
1 TTATATTTATATATAT-TGTATAA
*
105031 TTATAAATTATATATATTGTATAAA
1 TTAT-ATTTATATATATTGTAT-AA
105056 TTATAT
1 TTATAT
105062 AGTTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 15 0.58
25 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTATATTTATATATATTGTATAA
Found at i:105256 original size:24 final size:24
Alignment explanation
Indices: 105229--105337 Score: 76
Period size: 24 Copynumber: 4.2 Consensus size: 24
105219 AAGTAAACTA
105229 TATATATATAGTTTACATATGAAC
1 TATATATATAGTTTACATATGAAC
* * * * *
105253 TATATGTATAAACTATATATATAAAC
1 TATA--TATATAGTTTACATATGAAC
*
105279 TATGTAAACTATATAGTTTACATATGACC
1 TA--T--A-TATATAGTTTACATATGAAC
*
105308 TATATATATAGTTTA-TTAGTGAAC
1 TATATATATAGTTTACATA-TGAAC
105332 TATATA
1 TATATA
105338 AACTATTTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
23 2 0.03
24 25 0.39
25 1 0.02
26 17 0.27
27 1 0.02
28 1 0.02
29 16 0.25
30 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (24 bp):
TATATATATAGTTTACATATGAAC
Found at i:105266 original size:13 final size:13
Alignment explanation
Indices: 105222--105281 Score: 66
Period size: 13 Copynumber: 4.6 Consensus size: 13
105212 ATACTATAAG
105222 TAAACTATATATA
1 TAAACTATATATA
* * * *
105235 TATAGTTTACATA
1 TAAACTATATATA
* *
105248 TGAACTATATGTA
1 TAAACTATATATA
105261 TAAACTATATATA
1 TAAACTATATATA
105274 TAAACTAT
1 TAAACTAT
105282 GTAAACTATA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (13 bp):
TAAACTATATATA
Found at i:105380 original size:18 final size:17
Alignment explanation
Indices: 105332--105380 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
105322 ATTAGTGAAC
*
105332 TATATAAACTATTTATA
1 TATATAAACTATATATA
*
105349 TAGTATATACTATATATAA
1 TA-TATAAACTATATAT-A
*
105368 TATATAAATTATA
1 TATATAAACTATA
105381 GTTTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.08
18 21 0.81
19 3 0.12
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (17 bp):
TATATAAACTATATATA
Found at i:105407 original size:27 final size:28
Alignment explanation
Indices: 105377--105453 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 28
105367 ATATATAAAT
105377 TATAGTTTATATTTATATAC-TACATAC
1 TATAGTTTATATTTATATACATACATAC
*
105404 TATAGTTTATATTTATATACTATATATATAC
1 TATAGTTTATATTTATATAC---ATACATAC
*
105435 TATAGTTGATATTTATATA
1 TATAGTTTATATTTATATA
105454 TGAACTATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.45
31 24 0.55
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (28 bp):
TATAGTTTATATTTATATACATACATAC
Found at i:105482 original size:20 final size:20
Alignment explanation
Indices: 105459--105500 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
105449 ATATATGAAC
105459 TATAATTTACATA-TAAACTA
1 TATAATTTACATACT-AACTA
* *
105479 TATAGTTTATATACTAACTA
1 TATAATTTACATACTAACTA
105499 TA
1 TA
105501 GTTTATATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (20 bp):
TATAATTTACATACTAACTA
Found at i:105576 original size:53 final size:53
Alignment explanation
Indices: 105508--105643 Score: 177
Period size: 53 Copynumber: 2.5 Consensus size: 53
105498 ATAGTTTATA
*
105508 TGATATTTACATATGAACTATAGTTTACATATGAACTATATA-TTTACTATAGT
1 TGATATTTACATATGAACTATAGTTTACATATAAACTATATAGTTTA-TATAGT
* *
105561 TGATATTTATATATGAACTATAGTTTACATATAAACTATATAGTTTATATACT
1 TGATATTTACATATGAACTATAGTTTACATATAAACTATATAGTTTATATAGT
*
105614 AACT-ATAGTTTACATATAAACTATAGTTTA
1 ---TGATA-TTTACATATGAACTATAGTTTA
105644 TATTTACATA
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
53 45 0.62
54 4 0.05
55 3 0.04
56 21 0.29
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (53 bp):
TGATATTTACATATGAACTATAGTTTACATATAAACTATATAGTTTATATAGT
Found at i:105653 original size:24 final size:25
Alignment explanation
Indices: 105617--105667 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
105607 ATATACTAAC
105617 TATAGTTTACATATAAACTATAGTT
1 TATAGTTTACATATAAACTATAGTT
* *
105642 TATA-TTTACATATGAACTATATTT
1 TATAGTTTACATATAAACTATAGTT
105666 TA
1 TA
105668 CATATGAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (25 bp):
TATAGTTTACATATAAACTATAGTT
Found at i:105655 original size:80 final size:75
Alignment explanation
Indices: 105553--105705 Score: 216
Period size: 80 Copynumber: 2.0 Consensus size: 75
105543 CTATATATTT
* *
105553 ACTATAGTTGATATTTATATATGAACTATAGTTTACATATAAACTATATAGTTTATATACTAACT
1 ACTATAGTTGATATTTACATATGAACTATAGTTTACATATAAACTATATA---TATAAACT-A-T
105618 ATAGTTTACATATAA
61 ATAGTTTACATATAA
* * *
105633 ACTATAGTTTATATTTACATATGAACTATATTTTACATATGAACTATATATATAAACTATATAGT
1 ACTATAGTTGATATTTACATATGAACTATAGTTTACATATAAACTATATATATAAACTATATAGT
105698 TTACATAT
66 TTACATAT
105706 GACCTATATA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
75 14 0.21
76 1 0.01
77 7 0.10
80 46 0.68
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (75 bp):
ACTATAGTTGATATTTACATATGAACTATAGTTTACATATAAACTATATATATAAACTATATAGT
TTACATATAA
Found at i:105669 original size:18 final size:18
Alignment explanation
Indices: 105446--105681 Score: 136
Period size: 18 Copynumber: 13.0 Consensus size: 18
105436 ATAGTTGATA
* *
105446 TTTATATATGAACTATAA
1 TTTACATATGAACTATAT
*
105464 TTTACATATAAACTATAT
1 TTTACATATGAACTATAT
* *
105482 AGTTTATATACT-AACTATAG
1 --TTTACATA-TGAACTATAT
105502 TTT--ATATG----ATA-
1 TTTACATATGAACTATAT
*
105513 TTTACATATGAACTATAG
1 TTTACATATGAACTATAT
105531 TTTACATATGAACTATAT
1 TTTACATATGAACTATAT
**
105549 ATTTAC-TAT-AGTTGATA-
1 -TTTACATATGAACT-ATAT
* *
105566 TTTATATATGAACTATAG
1 TTTACATATGAACTATAT
*
105584 TTTACATATAAACTATAT
1 TTTACATATGAACTATAT
* *
105602 AGTTTATATACT-AACTATAG
1 --TTTACATA-TGAACTATAT
*
105622 TTTACATATAAACTATAGTTTAT
1 TTTACATATGAAC--TA---TAT
105645 ATTTACATATGAACTATAT
1 -TTTACATATGAACTATAT
105664 TTTACATATGAACTATAT
1 TTTACATATGAACTATAT
105682 ATATAAACTA
Statistics
Matches: 173, Mismatches: 19, Indels: 52
0.71 0.08 0.21
Matches are distributed among these distances:
11 3 0.02
12 3 0.02
13 5 0.03
15 1 0.01
16 7 0.04
17 12 0.07
18 86 0.50
19 8 0.05
20 30 0.17
21 2 0.01
22 2 0.01
23 2 0.01
24 12 0.07
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (18 bp):
TTTACATATGAACTATAT
Found at i:105691 original size:31 final size:32
Alignment explanation
Indices: 105651--105719 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
105641 TTATATTTAC
*
105651 ATATGAACTATAT-TTTACATATGAACTATAT
1 ATATAAACTATATATTTACATATGAACTATAT
*
105682 ATATAAACTATATAGTTTACATATGACCTATAT
1 ATATAAACTATATA-TTTACATATGAACTATAT
105715 ATATA
1 ATATA
105720 GTTTATTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 12 0.35
33 22 0.65
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (32 bp):
ATATAAACTATATATTTACATATGAACTATAT
Found at i:105736 original size:24 final size:24
Alignment explanation
Indices: 105690--105770 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
105680 ATATATAAAC
* *
105690 TATATAGTTTACATA-TGACCTATA
1 TATATAGTTTA-TTAGTGAACTATA
105714 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTATTAGTGAACTATA
* *
105738 TAAACTA-TTTATATAGTATATACTATA
1 TATA-TAGTTTAT-TAGT-GA-ACTATA
105765 TATATA
1 TATATA
105771 AACTATAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 6 0.13
26 3 0.06
27 9 0.19
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (24 bp):
TATATAGTTTATTAGTGAACTATA
Found at i:105762 original size:18 final size:18
Alignment explanation
Indices: 105736--105770 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105726 TAGTGAACTA
*
105736 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
105754 TATATACTATATATATA
1 TATAAACTATATATATA
105771 AACTATAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:105777 original size:20 final size:20
Alignment explanation
Indices: 105675--105777 Score: 50
Period size: 20 Copynumber: 5.0 Consensus size: 20
105665 TTACATATGA
105675 ACTATATATATAAACTATAT
1 ACTATATATATAAACTATAT
* * * * *
105695 AGTTTACATATGACCTATAT
1 ACTATATATATAAACTATAT
*
105715 A-TATAGTTTATTAGTGAACTATAT
1 ACTATA---TA-TA-TAAACTATAT
* *
105739 AAACTAT-T-TATATAGTATAT
1 --ACTATATATATAAACTATAT
105759 ACTATATATATAAACTATA
1 ACTATATATATAAACTATA
105778 GTTTATATTT
Statistics
Matches: 60, Mismatches: 13, Indels: 20
0.65 0.14 0.22
Matches are distributed among these distances:
18 5 0.08
19 4 0.07
20 32 0.53
21 2 0.03
22 1 0.02
23 3 0.05
24 9 0.15
26 1 0.02
27 3 0.05
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (20 bp):
ACTATATATATAAACTATAT
Found at i:105806 original size:27 final size:27
Alignment explanation
Indices: 105773--105876 Score: 181
Period size: 27 Copynumber: 3.9 Consensus size: 27
105763 TATATATAAA
105773 CTATAGTTTATATTTATATACTACATG
1 CTATAGTTTATATTTATATACTACATG
* *
105800 ATGTAGTTTATATTTATATACTACATG
1 CTATAGTTTATATTTATATACTACATG
105827 CTATAGTTTATATTTATATACTACATG
1 CTATAGTTTATATTTATATACTACATG
*
105854 CTATAGGTTATATTTATATACTA
1 CTATAGTTTATATTTATATACTA
105877 TATATCATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.48
Consensus pattern (27 bp):
CTATAGTTTATATTTATATACTACATG
Found at i:105886 original size:20 final size:20
Alignment explanation
Indices: 105863--105901 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
105853 GCTATAGGTT
* *
105863 ATATTTATATACTATATATC
1 ATATATATAAACTATATATC
105883 ATATATATAAACTATATAT
1 ATATATATAAACTATATAT
105902 ACTGTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATATAAACTATATATC
Found at i:105994 original size:21 final size:20
Alignment explanation
Indices: 105970--106025 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 20
105960 TAGTTGATAT
105970 TTATATACTATATAATATAA
1 TTATATACTATATAATATAA
105990 TT-TATACTATAGTAAATATAAA
1 TTATATACTATA-T-AATAT-AA
* *
106012 CTATATATTATATA
1 TTATATACTATATA
106026 GTTCATTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 6 0.20
22 4 0.13
23 8 0.27
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (20 bp):
TTATATACTATATAATATAA
Found at i:106036 original size:33 final size:33
Alignment explanation
Indices: 105999--106253 Score: 192
Period size: 33 Copynumber: 7.8 Consensus size: 33
105989 ATTTATACTA
*
105999 TAGTAAATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
* *
106032 TAGTATATATAAACTATATGGTATATATAAACTATACAT
1 TAGTATATATAAACTATA---TAT-TATATAGT-T-CAT
** * **
106071 TA-TATATAGTTCATTAGTATA-TATA-AACT-AT
1 TAGTATATA-TAAACTA-TATATTATATAGTTCAT
* * *
106102 ATAGTAAATGTAAACTATATATTATATAATTCAT
1 -TAGTATATATAAACTATATATTATATAGTTCAT
* * *
106136 TAGTATATATAACCTATATAGTATATAGTGCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
* *
106169 TAGTATATATAACCTATATAGTATAT-G-----
1 TAGTATATATAAACTATATATTATATAGTTCAT
106196 --GTATATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
*
106227 TAGTATATATAAACTATATAGTATATA
1 TAGTATATATAAACTATATATTATATA
106254 TAAACTATAT
Statistics
Matches: 178, Mismatches: 23, Indels: 42
0.73 0.09 0.17
Matches are distributed among these distances:
25 22 0.12
26 1 0.01
31 6 0.03
32 11 0.06
33 102 0.57
34 3 0.02
35 4 0.02
36 3 0.02
37 8 0.04
38 7 0.04
39 9 0.05
40 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.42
Consensus pattern (33 bp):
TAGTATATATAAACTATATATTATATAGTTCAT
Found at i:106057 original size:18 final size:18
Alignment explanation
Indices: 105997--106264 Score: 170
Period size: 18 Copynumber: 15.2 Consensus size: 18
105987 TAATTTATAC
*
105997 TATAGTAAATATAAACTA
1 TATAGTATATATAAACTA
**
106015 TATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
106031 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
106048 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* * **
106066 TACATTATATAT-AGTTCA
1 TATAGTATATATAAACT-A
106084 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
* *
106101 TATAGTAAATGTAAACTA
1 TATAGTATATATAAACTA
*
106119 TATA-T-TATAT-AATTCA
1 TATAGTATATATAAACT-A
*
106135 T-TAGTATATATAACCTA
1 TATAGTATATATAAACTA
** *
106152 TATAGTATATAGTGCATTA
1 TATAGTATATA-TAAACTA
* *
106171 GTATA-TATAACCTATATAGTA
1 -TATAGTAT-A--TATAAACTA
*
106192 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
**
106210 TATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
106226 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
106243 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
106261 TATA
1 TATA
106265 TTAAAAAGTT
Statistics
Matches: 189, Mismatches: 37, Indels: 48
0.69 0.14 0.18
Matches are distributed among these distances:
15 13 0.07
16 21 0.11
17 36 0.19
18 95 0.50
19 6 0.03
20 9 0.05
21 7 0.04
22 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:106074 original size:51 final size:51
Alignment explanation
Indices: 105997--106162 Score: 251
Period size: 51 Copynumber: 3.2 Consensus size: 51
105987 TAATTTATAC
*
105997 TATAGTAAATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
1 TATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
* *
106048 TATGGTATATATAAACTATACATTATATATAGTTCATTAGTATATATAAACTA
1 TATAGTATATATAAACTATATA-T-TATATAGTTCATTAGTATATATAAACTA
* * * *
106101 TATAGTAAATGTAAACTATATATTATATAATTCATTAGTATATATAACCTA
1 TATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
106152 TATAGTATATA
1 TATAGTATATA
106163 GTGCATTAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
51 54 0.53
52 2 0.02
53 46 0.45
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (51 bp):
TATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
Found at i:106098 original size:53 final size:53
Alignment explanation
Indices: 105997--106162 Score: 250
Period size: 53 Copynumber: 3.2 Consensus size: 53
105987 TAATTTATAC
*
105997 TATAGTAAATATAAACTATATA-T-TATATAGTTCATTAGTATATATAAACTA
1 TATAGTATATATAAACTATATATTATATATAGTTCATTAGTATATATAAACTA
* *
106048 TATGGTATATATAAACTATACATTATATATAGTTCATTAGTATATATAAACTA
1 TATAGTATATATAAACTATATATTATATATAGTTCATTAGTATATATAAACTA
* * *
106101 TATAGTAAATGTAAACTATATATTATATA-A-TTCATTAGTATATATAACCTA
1 TATAGTATATATAAACTATATATTATATATAGTTCATTAGTATATATAAACTA
106152 TATAGTATATA
1 TATAGTATATA
106163 GTGCATTAGT
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
51 48 0.47
52 2 0.02
53 53 0.51
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (53 bp):
TATAGTATATATAAACTATATATTATATATAGTTCATTAGTATATATAAACTA
Found at i:106191 original size:51 final size:51
Alignment explanation
Indices: 106136--106297 Score: 207
Period size: 51 Copynumber: 3.0 Consensus size: 51
106126 TATAATTCAT
* * *
106136 TAGTATATATAACCTATATAGTATATAGTGCATTAGTATATATAACCTATATAGTA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACC----TA-TA
*
106192 TATGGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
1 TA--GTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATA
* *
106245 TAGTATATATAAACTATATATTAAAAAGTTCATTAGTATATATAACCTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATA
106296 TA
1 TA
106298 TTAATTTATT
Statistics
Matches: 97, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
51 48 0.49
53 4 0.04
54 2 0.02
56 2 0.02
58 41 0.42
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (51 bp):
TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATA
Found at i:106200 original size:58 final size:53
Alignment explanation
Indices: 106136--106297 Score: 211
Period size: 58 Copynumber: 3.0 Consensus size: 53
106126 TATAATTCAT
* *
106136 TAGTATATATAACCTATATAGTATATAGTGCATTAGTATATATAACCTATATAG
1 TAGTATATATAA-CTATATATTATATAGTTCATTAGTATATATAACCTATATAG
*
106190 TATATGGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
1 --TA--GTATATAT-AACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
* *
106248 TA-TATATA-AACTATATATTAAAAAGTTCATTAGTATATATAACCTATATA
1 TAGTATATATAACTATATATTATATAGTTCATTAGTATATATAACCTATATA
106298 TTAATTTATT
Statistics
Matches: 97, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
51 39 0.40
53 6 0.06
56 4 0.04
58 46 0.47
59 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (53 bp):
TAGTATATATAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
Found at i:106205 original size:25 final size:25
Alignment explanation
Indices: 106171--106264 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 25
106161 TAGTGCATTA
*
106171 GTATATATAACCTATATAGTATATG
1 GTATATATAAACTATATAGTATATG
* *
106196 GTATATATAAACTATATATTATATA
1 GTATATATAAACTATATAGTATATG
* * * *
106221 GT-TCATTAGTATA-TATAAACTATATA
1 GTAT-A-TA-TAAACTATATAGTATATG
106247 GTATATATAAACTATATA
1 GTATATATAAACTATATA
106265 TTAAAAAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 4 0.07
25 32 0.57
26 16 0.29
27 4 0.07
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.41
Consensus pattern (25 bp):
GTATATATAAACTATATAGTATATG
Found at i:106277 original size:142 final size:137
Alignment explanation
Indices: 105999--106297 Score: 424
Period size: 142 Copynumber: 2.1 Consensus size: 137
105989 ATTTATACTA
* * * *
105999 TAGTAAATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATGGTATATATAAAC
1 TAGTATATATAACCTATATAGTATATAGTGCATTAGTATATATAAACTATATGGTATATATAAAC
* *
106064 TATACATTATATATAGTTCATTAGTATATATAAACTATATAGTAAATGTAAACTATATATTATAT
66 TATACATTATATATAGTTCATTAGTATATATAAACTATATAGTAAATATAAACTATATATTATAA
106129 AATTCAT
131 AATTCAT
*
106136 TAGTATATATAACCTATATAGTATATAGTGCATTAGTATATATAACCTATATAGTATATGGTATA
1 TAGTATATATAACCTATATAGTATATAGTGCATTAG--TATAT-A--TA-A-ACTATATGGTATA
* *
106201 TATAAACTATATA-T-TATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATAT
59 TATAAACTATACATTATATATAGTTCATTAGTATATATAAACTATATAGTAAATATAAACTATAT
106264 ATTA-AAAAGTTCAT
124 ATTATAAAA-TTCAT
106278 TAGTATATATAACCTATATA
1 TAGTATATATAACCTATATA
106298 TTAATTTATT
Statistics
Matches: 145, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
137 32 0.22
139 5 0.03
140 1 0.01
141 3 0.02
142 78 0.54
143 2 0.01
144 24 0.17
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (137 bp):
TAGTATATATAACCTATATAGTATATAGTGCATTAGTATATATAAACTATATGGTATATATAAAC
TATACATTATATATAGTTCATTAGTATATATAAACTATATAGTAAATATAAACTATATATTATAA
AATTCAT
Found at i:106991 original size:113 final size:113
Alignment explanation
Indices: 106851--107070 Score: 277
Period size: 113 Copynumber: 1.9 Consensus size: 113
106841 TCCATCCCAG
*
106851 TTCTTCCCCAAAACCCTCATTTTATCTTCAAAAACACCGAAACACAAA-CTATTTCATGTTTTTT
1 TTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCGAAACACAAATC-ATTTCATG-TTTTT
* * * *
106915 TTCGATCAAACACTCA-AATATTCATTC-GTGTTCATCCTTGTTCATCCAA
64 TTCAATCAAACACCCACAA-ATTCATCCAGTGTTCATCCGTGTTCATCCAA
* ** * *
106964 TTCTTCCCTAAAACCCTTC-TTTGATCTTTGAAAACACCGAAACCCAAATCATTTCGTGTTTTTT
1 TTCTTCCCCAAAACCC-TCATTTGATCTTCAAAAACACCGAAACACAAATCATTTCATGTTTTTT
*
107028 TCAATCAAACACCCACAAATTCATCCATTGTTCATCCGTGTTC
65 TCAATCAAACACCCACAAATTCATCCAGTGTTCATCCGTGTTC
107071 TTTCCCAAAT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
112 26 0.28
113 63 0.68
114 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (113 bp):
TTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCGAAACACAAATCATTTCATGTTTTTTT
CAATCAAACACCCACAAATTCATCCAGTGTTCATCCGTGTTCATCCAA
Found at i:107232 original size:11 final size:11
Alignment explanation
Indices: 107216--107293 Score: 102
Period size: 11 Copynumber: 6.9 Consensus size: 11
107206 CCCTAACCCT
107216 AACCCAAACCA
1 AACCCAAACCA
**
107227 AACCCAAACTG
1 AACCCAAACCA
107238 AACCCAAACCCA
1 AACCCAAA-CCA
*
107250 AACCCAACCCA
1 AACCCAAACCA
*
107261 AACCCAAACAA
1 AACCCAAACCA
107272 AACCCAAACCCA
1 AACCCAAA-CCA
107284 AACCCAAACC
1 AACCCAAACC
107294 TATACCCGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
11 39 0.68
12 18 0.32
ACGTcount: A:0.51, C:0.46, G:0.01, T:0.01
Consensus pattern (11 bp):
AACCCAAACCA
Found at i:107233 original size:6 final size:6
Alignment explanation
Indices: 107204--107310 Score: 114
Period size: 6 Copynumber: 18.5 Consensus size: 6
107194 CCTTAACTCG
* * **
107204 AACCCT AACCCT AACCCA AA-CCA AACCCA AA-CTG AACCCA AACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* *
107250 AACCC- AACCCA AACCCA AA-CAA AACCCA AACCCA AACCCA AACCTA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* *
107296 TACCCG AACCCA AAC
1 AACCCA AACCCA AAC
107311 TATTCGAAAC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
5 17 0.20
6 67 0.80
ACGTcount: A:0.48, C:0.46, G:0.02, T:0.05
Consensus pattern (6 bp):
AACCCA
Found at i:107244 original size:17 final size:17
Alignment explanation
Indices: 107224--107286 Score: 90
Period size: 17 Copynumber: 3.7 Consensus size: 17
107214 CTAACCCAAA
**
107224 CCAAACCCAAACTGAAC
1 CCAAACCCAAACAAAAC
**
107241 CCAAACCCAAACCCAAC
1 CCAAACCCAAACAAAAC
107258 CCAAACCCAAACAAAAC
1 CCAAACCCAAACAAAAC
107275 CCAAACCCAAAC
1 CCAAACCCAAAC
107287 CCAAACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.51, C:0.46, G:0.02, T:0.02
Consensus pattern (17 bp):
CCAAACCCAAACAAAAC
Found at i:107248 original size:34 final size:34
Alignment explanation
Indices: 107198--107293 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 34
107188 TCTAATCCTT
* *
107198 AACTCGAACCCTAACCCTAACCCAAACCAAACCCA
1 AACT-GAACCCAAACCCAAACCCAAACCAAACCCA
*
107233 AACTGAACCCAAACCCAAACCCAACCCAAACCCA
1 AACTGAACCCAAACCCAAACCCAAACCAAACCCA
**
107267 AACAAAACCCAAACCCAAACCCAAACC
1 AACTGAACCCAAACCCAAACCCAAACC
107294 TATACCCGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
34 51 0.93
35 4 0.07
ACGTcount: A:0.48, C:0.46, G:0.02, T:0.04
Consensus pattern (34 bp):
AACTGAACCCAAACCCAAACCCAAACCAAACCCA
Found at i:107535 original size:2 final size:2
Alignment explanation
Indices: 107528--107664 Score: 274
Period size: 2 Copynumber: 68.5 Consensus size: 2
107518 TATATGCTTG
107528 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
107570 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
107612 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
107654 AT AT AT AT AT A
1 AT AT AT AT AT A
107665 CTGGCATAAA
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 135 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.