Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 51 of 171
Found at i:21099427 original size:14 final size:15
Alignment explanation
Indices: 21099408--21099442 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21099398 TGGGTTGGAC
*
21099408 TTGGTTC-AATTGGT
1 TTGGTTCAAATGGGT
21099422 TTGGTTCAAATGGGT
1 TTGGTTCAAATGGGT
21099437 TTGGTT
1 TTGGTT
21099443 AGGTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.31, T:0.49
Consensus pattern (15 bp):
TTGGTTCAAATGGGT
Found at i:21099440 original size:20 final size:20
Alignment explanation
Indices: 21099417--21099523 Score: 133
Period size: 20 Copynumber: 5.2 Consensus size: 20
21099407 CTTGGTTCAA
*
21099417 TTGGTTTGGTTCAAATGGGT
1 TTGGTTTGGTTTAAATGGGT
*
21099437 TTGGTTAGGTTTAAATGGGT
1 TTGGTTTGGTTTAAATGGGT
**
21099457 TTGGTTTGGTTTAAATGAAT
1 TTGGTTTGGTTTAAATGGGT
**
21099477 TTGGATTTGGTTTAAATGAAT
1 TTGG-TTTGGTTTAAATGGGT
21099498 TTGGATTTGGTTTAAATGGGAT
1 TTGG-TTTGGTTTAAATGGG-T
21099520 TTGG
1 TTGG
21099524 GCTTGATGGG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 39 0.50
21 34 0.44
22 5 0.06
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (20 bp):
TTGGTTTGGTTTAAATGGGT
Found at i:21101834 original size:24 final size:24
Alignment explanation
Indices: 21101770--21101834 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
21101760 TGAGAAATAA
*
21101770 TATTTTAGTTAAACTCTGTTTATT
1 TATTTCAGTTAAACTCTGTTTATT
* * *
21101794 TGTTTCAATTAAGCTCTGTTTATT
1 TATTTCAGTTAAACTCTGTTTATT
* *
21101818 TATTTGAGTCAAACTCT
1 TATTTCAGTTAAACTCT
21101835 TGTTAGTCTA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (24 bp):
TATTTCAGTTAAACTCTGTTTATT
Found at i:21105045 original size:20 final size:19
Alignment explanation
Indices: 21105020--21105067 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
21105010 AATGAGAGGA
*
21105020 AAAAAAAAAGGGAAATAGAG
1 AAAAAAAAAGGGAAA-AAAG
*
21105040 AAAAAATAA-GGAAAAAAG
1 AAAAAAAAAGGGAAAAAAG
*
21105058 AAAAGAAAAG
1 AAAAAAAAAG
21105068 AAAAGAAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 10 0.43
19 5 0.22
20 8 0.35
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAGGGAAAAAAG
Found at i:21117827 original size:21 final size:21
Alignment explanation
Indices: 21117784--21117824 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21117774 TCTTTAATTG
*
21117784 TTTATATTTTTGTCAATTTAA
1 TTTATATTTTTGTCAATTAAA
*
21117805 TTTATATTTTT-TTAATTAAA
1 TTTATATTTTTGTCAATTAAA
21117825 ATTACTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTATATTTTTGTCAATTAAA
Found at i:21118447 original size:26 final size:27
Alignment explanation
Indices: 21118418--21118477 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
21118408 GGAGGGTTAA
*
21118418 ATTTAATATTATTCATAT-ATTTATT-T
1 ATTTAACATT-TTCATATAATTTATTAT
21118444 ATTTAAACATTTTCATATAATTTATTAT
1 ATTT-AACATTTTCATATAATTTATTAT
21118472 ATTTAA
1 ATTTAA
21118478 GTTGAGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 11 0.37
27 14 0.47
28 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTAACATTTTCATATAATTTATTAT
Found at i:21128279 original size:21 final size:22
Alignment explanation
Indices: 21128253--21128296 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
21128243 TTTGCAGTCT
21128253 TCTAATATCCAAGAAAA-TCAA
1 TCTAATATCCAAGAAAACTCAA
**
21128274 TCTAATATTGAAGAAAACTCAA
1 TCTAATATCCAAGAAAACTCAA
21128296 T
1 T
21128297 TCCCTTGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (22 bp):
TCTAATATCCAAGAAAACTCAA
Found at i:21132391 original size:2 final size:2
Alignment explanation
Indices: 21132384--21132411 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21132374 TAAATATTAC
21132384 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
21132412 GAATTGTCAT
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:21132996 original size:19 final size:20
Alignment explanation
Indices: 21132951--21132996 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
21132941 GAATATTTGC
* *
21132951 AAATATTATTTTGTGAATTT
1 AAATATTATATTGCGAATTT
*
21132971 TAA-ATTATATT-CGAATTT
1 AAATATTATATTGCGAATTT
21132989 AAATATTA
1 AAATATTA
21132997 AAATTATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 8 0.38
19 11 0.52
20 2 0.10
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (20 bp):
AAATATTATATTGCGAATTT
Found at i:21134475 original size:87 final size:90
Alignment explanation
Indices: 21134337--21134534 Score: 258
Period size: 87 Copynumber: 2.2 Consensus size: 90
21134327 AACTTTTTCA
** * * * *
21134337 AAAAAAAAATAATTAAGCCCCTCCTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTTAAATTT
1 AAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATG
** * *
21134402 TTTCAAAAAGGCCCTCAAACTTCTT
66 AATCAAAAAGACCCTCAAAATTCTT
*
21134427 -AAAAAAAGCAATTAAGCCCCTAC-TTTTTTTT-CACTCAATTGAGTACTTGAACTTTCAAAATG
1 AAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATG
*
21134489 AATCAAAAAGACCCTCAAAATTTTT
66 AATCAAAAAGACCCTCAAAATTCTT
21134514 CAAAAAAAAGCAATTAAGCCC
1 -AAAAAAAAGCAATTAAGCCC
21134535 TTGCTCTTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
87 47 0.50
88 8 0.09
89 39 0.41
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (90 bp):
AAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATG
AATCAAAAAGACCCTCAAAATTCTT
Found at i:21135367 original size:19 final size:20
Alignment explanation
Indices: 21135325--21135369 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
21135315 TATTTTTTTT
*
21135325 AAAATGTAGAAAAAACTATA
1 AAAATGTAGAAAAAACAATA
21135345 AAAAT-TAGAAAAAA-AATA
1 AAAATGTAGAAAAAACAATA
21135363 GAAAATG
1 -AAAATG
21135370 ATAAAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 5 0.23
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAATGTAGAAAAAACAATA
Found at i:21135367 original size:20 final size:20
Alignment explanation
Indices: 21135325--21135367 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
21135315 TATTTTTTTT
* *
21135325 AAAATGTAGAAAAAACTATA
1 AAAATGTAGAAAAAAATAGA
21135345 AAAAT-TAGAAAAAAAATAGA
1 AAAATGTAG-AAAAAAATAGA
21135365 AAA
1 AAA
21135368 TGATAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (20 bp):
AAAATGTAGAAAAAAATAGA
Found at i:21135543 original size:2 final size:2
Alignment explanation
Indices: 21135536--21135571 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
21135526 TATTAAAAAT
21135536 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21135572 GAAAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21135559 original size:13 final size:12
Alignment explanation
Indices: 21135536--21135571 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
21135526 TATTAAAAAT
21135536 TATATATATATA
1 TATATATATATA
21135548 TATATA-ATATA
1 TATATATATATA
21135559 TATATAT-TATA
1 TATATATATATA
21135570 TA
1 TA
21135572 GAAAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATATATATA
Found at i:21135706 original size:21 final size:23
Alignment explanation
Indices: 21135662--21135706 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
21135652 TCGACTAAGG
* *
21135662 GTTTGAGAAACAATAAGTTTAGT
1 GTTTGAGAAACAATAAGGTGAGT
21135685 GTTTGA-AAAC-ATAAGGTGAGT
1 GTTTGAGAAACAATAAGGTGAGT
21135706 G
1 G
21135707 ATTATTAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 4 0.20
23 6 0.30
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (23 bp):
GTTTGAGAAACAATAAGGTGAGT
Found at i:21139589 original size:31 final size:29
Alignment explanation
Indices: 21139517--21139591 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
21139507 GGATTGGATC
*
21139517 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAA-TTCATGTATAAAATTACACA
* *
21139547 AAATAAAAATTCATGTATATAATTACACA
1 AAATCAAAATTCATGTATAAAATTACACA
*
21139576 TTAAATCATAATTCAT
1 --AAATCAAAATTCAT
21139592 ATAGTTTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 18 0.47
30 8 0.21
31 12 0.32
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTACACA
Found at i:21170665 original size:20 final size:20
Alignment explanation
Indices: 21170628--21170666 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21170618 AAAAATTTAT
* *
21170628 TAAAAAATATTAAGAAATTG
1 TAAAAAATATAAAAAAATTG
*
21170648 TAAAAAGTATAAAAAAATT
1 TAAAAAATATAAAAAAATT
21170667 ATATGATACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
TAAAAAATATAAAAAAATTG
Found at i:21171412 original size:6 final size:6
Alignment explanation
Indices: 21171401--21171462 Score: 69
Period size: 6 Copynumber: 11.0 Consensus size: 6
21171391 ACCCAAACGG
* * *
21171401 AATTTA AATTTA AATTT- ATTTTA AATTTA AATTT- ATTTTA AGTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
21171447 AATTT- -ATTTA AATTTA
1 AATTTA AATTTA AATTTA
21171463 TTAATGTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
4 4 0.09
5 8 0.17
6 35 0.74
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (6 bp):
AATTTA
Found at i:21171425 original size:11 final size:11
Alignment explanation
Indices: 21171409--21171464 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
21171399 GGAATTTAAA
21171409 TTTAAATTTAT
1 TTTAAATTTAT
*
21171420 TTTAAATTTAAA
1 TTTAAATTT-AT
* *
21171432 TTT-ATTTTAAG
1 TTTAAATTT-AT
21171443 TTTAAATTTA-
1 TTTAAATTTAT
21171453 TTTAAATTTAT
1 TTTAAATTTAT
21171464 T
1 T
21171465 AATGTCCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
10 10 0.26
11 20 0.53
12 8 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:21171425 original size:17 final size:17
Alignment explanation
Indices: 21171403--21171462 Score: 104
Period size: 17 Copynumber: 3.6 Consensus size: 17
21171393 CCAAACGGAA
21171403 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
21171420 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
21171437 TTTAAGTTTAAATTTA-
1 TTTAAATTTAAATTTAT
21171453 TTTAAATTTA
1 TTTAAATTTA
21171463 TTAATGTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
16 9 0.22
17 32 0.78
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:21171429 original size:23 final size:23
Alignment explanation
Indices: 21171401--21171464 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
21171391 ACCCAAACGG
21171401 AATTTAAATTTAAATTTATTTTA
1 AATTTAAATTTAAATTTATTTTA
* *
21171424 AATTTAAATTT-ATTTTAAGTTTA
1 AATTTAAATTTAAATTT-ATTTTA
21171447 AATTT--ATTTAAATTTATT
1 AATTTAAATTTAAATTTATT
21171465 AATGTCCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 6 0.17
22 8 0.23
23 21 0.60
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AATTTAAATTTAAATTTATTTTA
Found at i:21173123 original size:28 final size:29
Alignment explanation
Indices: 21173072--21173257 Score: 200
Period size: 28 Copynumber: 6.4 Consensus size: 29
21173062 AAAAGGTCCC
* *
21173072 CAAACTTTCAAAAATTACATTTTTACCC-
1 CAAACTTCCAAAAATCACATTTTTACCCT
*
21173100 CTAAACTTCCAAAAATCACA-TTTTACCCC
1 C-AAACTTCCAAAAATCACATTTTTACCCT
* *
21173129 CGAACTTTC-AAAATCACATTTTTACCCT
1 CAAACTTCCAAAAATCACATTTTTACCCT
21173157 CAAACTTCC-AAAATCACATTTTTACCCT
1 CAAACTTCCAAAAATCACATTTTTACCCT
* ** *
21173185 CGAACTTCTCCGAAATTACATTTTTACCCT
1 CAAACTTC-CAAAAATCACATTTTTACCCT
* * *
21173215 CAAATTTCCAAAAATCACATTTTCAACCT
1 CAAACTTCCAAAAATCACATTTTTACCCT
*
21173244 CAAATTTTCCAAAA
1 CAAA-CTTCCAAAA
21173258 GTTCAATTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
27 9 0.07
28 56 0.41
29 38 0.28
30 32 0.24
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.33
Consensus pattern (29 bp):
CAAACTTCCAAAAATCACATTTTTACCCT
Found at i:21173162 original size:56 final size:56
Alignment explanation
Indices: 21173069--21173237 Score: 234
Period size: 56 Copynumber: 3.0 Consensus size: 56
21173059 CCCAAAAGGT
*
21173069 CCCCAAACTTTCAAAAATTACATTTTTACCC-CTAAACTTCCAAAAATCACATTTTAC
1 CCCCGAACTTTC-AAAATTACATTTTTACCCTC-AAACTTCCAAAAATCACATTTTAC
*
21173126 CCCCGAACTTTCAAAATCACATTTTTACCCTCAAACTTCC-AAAATCACATTTTTAC
1 CCCCGAACTTTCAAAATTACATTTTTACCCTCAAACTTCCAAAAATCACA-TTTTAC
* * *
21173182 CCTCGAACTTCTCCGAAATTACATTTTTACCCTCAAATTTCCAAAAATCACATTTT
1 CCCCGAACTT-T-CAAAATTACATTTTTACCCTCAAACTTCCAAAAATCACATTTT
21173238 CAACCTCAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
55 9 0.09
56 40 0.40
57 13 0.13
58 30 0.30
59 9 0.09
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (56 bp):
CCCCGAACTTTCAAAATTACATTTTTACCCTCAAACTTCCAAAAATCACATTTTAC
Found at i:21173276 original size:29 final size:28
Alignment explanation
Indices: 21173215--21173309 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 28
21173205 TTTTTACCCT
*
21173215 CAAA-TTTCCAAAAATCACATTTTCAA-CC
1 CAAATTTTCCAAAATTCA-ATTTT-AATCC
21173243 TCAAATTTTCCAAAAGTTCAATTTTAATCC
1 -CAAATTTTCCAAAA-TTCAATTTTAATCC
* *
21173273 CAAATTTTTCAAAAATTTCAATTTTGATCC
1 CAAA-TTTTCCAAAA-TTCAATTTTAATCC
21173303 CTAAATT
1 C-AAATT
21173310 CCTCAGAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.18
30 41 0.72
31 6 0.11
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (28 bp):
CAAATTTTCCAAAATTCAATTTTAATCC
Found at i:21173293 original size:30 final size:30
Alignment explanation
Indices: 21173244--21173309 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
21173234 TTTTCAACCT
*
21173244 CAAA-TTTTCCAAAAGTTCAATTTTAATCC
1 CAAATTTTTCAAAAAGTTCAATTTTAATCC
* *
21173273 CAAATTTTTCAAAAATTTCAATTTTGATCC
1 CAAATTTTTCAAAAAGTTCAATTTTAATCC
21173303 CTAAATT
1 C-AAATT
21173310 CCTCAGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 4 0.12
30 23 0.72
31 5 0.16
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (30 bp):
CAAATTTTTCAAAAAGTTCAATTTTAATCC
Found at i:21176531 original size:17 final size:17
Alignment explanation
Indices: 21176481--21176538 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 17
21176471 GATAAAAGTA
*
21176481 ATTGTGTTAGTTTAGAT
1 ATTGTGTTAGTTTATAT
21176498 ATT-TGTAATAGTATTATAT
1 ATTGTGT--TAGT-TTATAT
21176517 ATTGTGTTAGTTTATAT
1 ATTGTGTTAGTTTATAT
21176534 ATTGT
1 ATTGT
21176539 AATAGTACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 3 0.08
17 14 0.39
18 8 0.22
19 8 0.22
20 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (17 bp):
ATTGTGTTAGTTTATAT
Found at i:21176544 original size:17 final size:17
Alignment explanation
Indices: 21176488--21176544 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
21176478 GTAATTGTGT
*
21176488 TAGTTTAGATATTTGTAA
1 TAGTTTATATA-TTGTAA
**
21176506 TAGTATTATATATTGTGT
1 TAGT-TTATATATTGTAA
21176524 TAGTTTATATATTGTAA
1 TAGTTTATATATTGTAA
21176541 TAGT
1 TAGT
21176545 ACTAAGCGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 15 0.45
18 12 0.36
19 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (17 bp):
TAGTTTATATATTGTAA
Found at i:21177491 original size:16 final size:15
Alignment explanation
Indices: 21177466--21177495 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21177456 TAAAAAGAAC
21177466 TTTTTATTTTAGGAG
1 TTTTTATTTTAGGAG
21177481 TTTTCTATTTTAGGA
1 TTTT-TATTTTAGGA
21177496 CTTGATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.03, G:0.17, T:0.60
Consensus pattern (15 bp):
TTTTTATTTTAGGAG
Found at i:21180096 original size:18 final size:17
Alignment explanation
Indices: 21180073--21180119 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
21180063 GTTTTGAACA
21180073 AAATTTAAATTCATG-GTT
1 AAATTTAAATT--TGCGTT
*
21180091 AAATTTAAATTTGCTTT
1 AAATTTAAATTTGCGTT
21180108 AAATTTAAATTT
1 AAATTTAAATTT
21180120 AATTAAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.07
17 14 0.52
18 11 0.41
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (17 bp):
AAATTTAAATTTGCGTT
Found at i:21180138 original size:16 final size:16
Alignment explanation
Indices: 21180089--21180135 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
21180079 AAATTCATGG
**
21180089 TTAAATTTAAATTTGCT
1 TTAAATTTAAATTT-AA
21180106 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAA
21180122 TTAAGATTTAAATT
1 TTAA-ATTTAAATT
21180136 AATAAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
TTAAATTTAAATTTAA
Found at i:21180846 original size:24 final size:24
Alignment explanation
Indices: 21180816--21180871 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
21180806 TAAGGATGGT
*
21180816 TAATAATAGT-ATCATTAATAACAA
1 TAATAATAGTGAT-AATAATAACAA
*
21180840 TAATAATAGTGATAATAATAACAG
1 TAATAATAGTGATAATAATAACAA
21180864 TAATAATA
1 TAATAATA
21180872 ATAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (24 bp):
TAATAATAGTGATAATAATAACAA
Found at i:21180858 original size:15 final size:15
Alignment explanation
Indices: 21180838--21180875 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
21180828 CATTAATAAC
* *
21180838 AATAATAATAGTGAT
1 AATAATAACAGTAAT
21180853 AATAATAACAGTAAT
1 AATAATAACAGTAAT
21180868 AATAATAA
1 AATAATAA
21180876 ATATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (15 bp):
AATAATAACAGTAAT
Found at i:21182076 original size:30 final size:30
Alignment explanation
Indices: 21182029--21182253 Score: 369
Period size: 30 Copynumber: 7.4 Consensus size: 30
21182019 GTCTAAAAAA
* *
21182029 ATATTTCGACCCTAAAACTTTTCCAAAATT
1 ATATTTTGACCCCAAAACTTTTCCAAAATT
*
21182059 ACATTTTGACCCCAAAACTTTTCCAAAATT
1 ATATTTTGACCCCAAAACTTTTCCAAAATT
21182089 ATATTTTGACCCTCCAAAACTTTTCCAAAATT
1 ATATTTTGA-CC-CCAAAACTTTTCCAAAATT
*
21182121 ACATTTTGACCCCAAAACTTTTCCAAAATT
1 ATATTTTGACCCCAAAACTTTTCCAAAATT
*
21182151 ATATTTTGACTCCAAAACTTTTCCAAAATT
1 ATATTTTGACCCCAAAACTTTTCCAAAATT
*
21182181 ATATTTTGACCCCAAAACTTTTCTAAAATT
1 ATATTTTGACCCCAAAACTTTTCCAAAATT
*
21182211 ATATTTTAACCCCAAAACTTTTCCAAAATT
1 ATATTTTGACCCCAAAACTTTTCCAAAATT
21182241 ATATTTTGACCCC
1 ATATTTTGACCCC
21182254 CGAAGCTTCT
Statistics
Matches: 181, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
30 150 0.83
31 4 0.02
32 27 0.15
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (30 bp):
ATATTTTGACCCCAAAACTTTTCCAAAATT
Found at i:21182278 original size:60 final size:59
Alignment explanation
Indices: 21182037--21182283 Score: 277
Period size: 60 Copynumber: 4.1 Consensus size: 59
21182027 AAATATTTCG
* *
21182037 ACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATT-ATATTTTGA
1 ACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAAC-TTTCTAAAATTCAT-TTTT-A
* * *
21182098 CCCTCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATT-ATATTTTG
1 ACC-CCAAAACTTTTCCAAAATTACATTTTGACCCCAAAAC-TTTCTAAAATTCAT-TTTTA
* *
21182159 ACTCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCTAAAATT-ATATTTTA
1 ACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAAC-TTTCTAAAATTCAT-TTTTA
* * * *
21182219 ACCCCAAAACTTTTCCAAAATTATATTTTGACCCCCGAAGC-TTCTAAAATTCCGTTTTTA
1 ACCCCAAAACTTTTCCAAAATTACATTTTGA-CCCCAAAACTTTCTAAAATT-CATTTTTA
21182279 ACCCC
1 ACCCC
21182284 GATTTCACCG
Statistics
Matches: 170, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
59 10 0.06
60 94 0.55
61 11 0.06
62 55 0.32
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (59 bp):
ACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCTAAAATTCATTTTTA
Found at i:21182312 original size:59 final size:59
Alignment explanation
Indices: 21182235--21182549 Score: 427
Period size: 59 Copynumber: 5.3 Consensus size: 59
21182225 AAACTTTTCC
* *
21182235 AAAATTA-TATTTTGACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTT-ACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* *
21182294 AAAATTACCATTTTACCCCCCGAAGCTTCTAAAATTCTATTTTTAACCCCGATTTCACCT
1 AAAATTACCATTTTA-CCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
**
21182354 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCTAATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * * * * * *
21182413 AAGATTTCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAACCCGATTACACTG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * * * * *
21182472 AAGATTTCCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTACACC-
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
21182530 AAAATTACCATTTTACCCCC
1 AAAATTACCATTTTACCCCC
21182550 CGGGTATCCA
Statistics
Matches: 231, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
58 17 0.07
59 153 0.66
60 61 0.26
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:21182544 original size:29 final size:28
Alignment explanation
Indices: 21182264--21182549 Score: 82
Period size: 30 Copynumber: 9.7 Consensus size: 28
21182254 CGAAGCTTCT
* *
21182264 AAAATTCCGTTTTTAACCCCGATTTCACC
1 AAAATTCC-ATTTTAACCCCGATTACACC
* * *
21182293 GAAAATTACCATTTTACCCCCCGA--AGCTTCT
1 -AAAATT-CCATTTTA-ACCCCGATTA-C-ACC
* *
21182324 AAAATTCTATTTTTAACCCCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTACACC
* * *
21182353 TAAAATTACCATTTTACCCCCGA--AGCTTCT
1 -AAAATT-CCATTTTAACCCCGATTA-C-ACC
** *
21182383 AAAATTCCATTTTTAACCCTAATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTACACC
* * * ***
21182412 GAAGATTTCCATTTTACCCCCGAAT-CTTTT
1 -AA-AATTCCATTTTAACCCCGATTAC-ACC
* *
21182442 AAAATTCCATTTTTAAACCCGATTACACTG
1 AAAATTCCA-TTTTAACCCCGATTACAC-C
* * ***
21182472 AAGATTTCCATTTT-ACCCCTGAAT-CTTTT
1 AA-AATTCCATTTTAACCCC-GATTAC-ACC
21182501 AAAATTCCATTTTTAACCCCGATTACACC
1 AAAATTCCA-TTTTAACCCCGATTACACC
*
21182530 AAAATTACCATTTTACCCCC
1 AAAATT-CCATTTTAACCCC
21182550 CGGGTATCCA
Statistics
Matches: 181, Mismatches: 48, Indels: 55
0.64 0.17 0.19
Matches are distributed among these distances:
28 15 0.08
29 69 0.38
30 74 0.41
31 23 0.13
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (28 bp):
AAAATTCCATTTTAACCCCGATTACACC
Found at i:21182570 original size:59 final size:59
Alignment explanation
Indices: 21182261--21182586 Score: 276
Period size: 59 Copynumber: 5.5 Consensus size: 59
21182251 CCCCGAAGCT
* *
21182261 TCTA-AAATTCCGTTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCCGAAGCT-
1 TCTATAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTA-CCCCCG--GGTA
* * *
21182321 TCTA-AAATTCTATTTTTAACCCCGATTTCACCTAAAATTACCATTTTACCCCCGAAGCT-
1 TCTATAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCG--GGTA
** * * *
21182380 TCTA-AAATTCCATTTTTAACCCTAATTTCACCGAAGATTTCCATTTTACCCCC--GAA
1 TCTATAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGGGTA
* * * * * * * *
21182436 TCTTTTAAAATTCCATTTTTAAACCCGATTACACTGAAGATTTCCATTTTA-CCCC-TGAA
1 TC-TAT-AAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGGGTA
* *
21182495 TCTTTTAAAATTCCATTTTTAACCCCGATTACACC-AAAATTACCATTTTACCCCCCGGGTA
1 TC-TAT-AAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTA-CCCCCGGGTA
* * * *
21182556 TCCATAAGTCCCATTTTTCACCCCGATTTCA
1 TCTATAAATTCCATTTTTAACCCCGATTTCA
21182587 TCATTCAATA
Statistics
Matches: 229, Mismatches: 29, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
56 2 0.01
57 1 0.00
58 17 0.07
59 155 0.68
60 50 0.22
61 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (59 bp):
TCTATAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGGGTA
Found at i:21190886 original size:68 final size:68
Alignment explanation
Indices: 21190793--21191519 Score: 1127
Period size: 68 Copynumber: 10.5 Consensus size: 68
21190783 TGCAGGTCAC
* * * * *
21190793 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTTTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACATGTCTTCATCTCTGAAATTGAAGTA
* *
21190858 ACAC
65 AGAG
21190862 CAACGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21190926 GAG
66 GAG
*
21190929 CAACGTCAACCCC-TGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21190993 GAG
66 GAG
*
21190996 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATATCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21191061 GAG
66 GAG
*
21191064 CAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21191129 GAG
66 GAG
*
21191132 CAACGTCGTCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGTGAAAT
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTC--------TGAAAT
21191197 TGAAGTAAGTAAGAG
58 T---G-AAGTAAGAG
*
21191212 CAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21191277 GAG
66 GAG
*
21191280 CAACGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21191344 GAG
66 GAG
* *
21191347 CAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21191412 GAG
66 GAG
* * *
21191415 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTACCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
21191480 GAG
66 GAG
* *
21191483 CAACGTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATA
21191520 GCAAAGTCTT
Statistics
Matches: 618, Mismatches: 24, Indels: 32
0.92 0.04 0.05
Matches are distributed among these distances:
67 170 0.28
68 359 0.58
69 16 0.03
72 7 0.01
76 7 0.01
79 1 0.00
80 58 0.09
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
GAG
Found at i:21191217 original size:80 final size:80
Alignment explanation
Indices: 21191123--21191270 Score: 278
Period size: 80 Copynumber: 1.9 Consensus size: 80
21191113 TCTGAAATTG
* *
21191123 AAGTAAGAGCAACGTCGTCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAA
1 AAGTAAGAGCAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACATGTCTTCATCTCTGAAA
21191188 TTGTGAAATTGAAGT
66 TTGTGAAATTGAAGT
21191203 AAGTAAGAGCAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACATGTCTTCATCTCTGAAA
1 AAGTAAGAGCAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACATGTCTTCATCTCTGAAA
21191268 TTG
66 TTG
21191271 AAGTAAGAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (80 bp):
AAGTAAGAGCAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACATGTCTTCATCTCTGAAA
TTGTGAAATTGAAGT
Found at i:21191345 original size:283 final size:279
Alignment explanation
Indices: 21190793--21191473 Score: 1076
Period size: 283 Copynumber: 2.5 Consensus size: 279
21190783 TGCAGGTCAC
* * * *
21190793 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTTTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTA
* *
21190858 ACACCAACGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTC--------TG
65 AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGTG
*
21190914 AAATTGAAGTAAGAGCAACGTCAACCCCTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTC
130 AAATTGAAGTAAGAGCAACGTCAACCCCTGAAATTGAAATAGAGTGGATAACATGTCTTCATCTC
*
21190979 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCAT
195 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCAT
21191044 ATCTGAAATTGAAGTAAGAG
260 ATCTGAAATTGAAGTAAGAG
* *
21191064 CAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAA
*
21191129 GAGCAACGTCGTCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGTGA
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGTGA
*
21191194 AATTGAAGTAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACATGTCTTCA
131 AATT---G-AAGTAAGAGCAACGTCAACCCC-TGAAATTGAAATAGAGTGGATAACATGTCTTCA
21191259 TCTCTGAAATTGAAGTAAGAGCAACGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
191 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
21191323 TCATCTCTGAAATTGAAGTAAGAG
256 TCATATCTGAAATTGAAGTAAGAG
* *
21191347 CAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAA
* * *
21191412 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTACCTCTGAAATTG
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTG
21191474 AAGTAAGAGC
Statistics
Matches: 376, Mismatches: 20, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
270 40 0.11
271 69 0.18
279 7 0.02
282 1 0.00
283 197 0.52
284 62 0.16
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (279 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAA
GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGTGA
AATTGAAGTAAGAGCAACGTCAACCCCTGAAATTGAAATAGAGTGGATAACATGTCTTCATCTCT
GAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATA
TCTGAAATTGAAGTAAGAG
Found at i:21191856 original size:18 final size:17
Alignment explanation
Indices: 21191833--21191877 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
21191823 GGTTTTGAAC
21191833 AAATTTAAATTCATGGTT
1 AAATTTAAATTCAT-GTT
* *
21191851 AAATTTAAATTTATTTT
1 AAATTTAAATTCATGTT
21191868 AAATTTAAAT
1 AAATTTAAAT
21191878 GTAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
AAATTTAAATTCATGTT
Found at i:21191858 original size:6 final size:6
Alignment explanation
Indices: 21191849--21191926 Score: 65
Period size: 6 Copynumber: 13.2 Consensus size: 6
21191839 AAATTCATGG
* * **
21191849 TTAAAT TTAAAT TT-ATT TTAAAT TTAAAT GTAAAAAT TTAAAT TT-GCT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -T-TAAAT TTAAAT TTAAAT
21191897 TTAAAT TTAAAT TT-AA- TTAAGAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT T
21191927 AATAAAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
4 2 0.04
5 10 0.18
6 35 0.61
7 6 0.11
8 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:21191871 original size:17 final size:16
Alignment explanation
Indices: 21191833--21191926 Score: 84
Period size: 17 Copynumber: 5.7 Consensus size: 16
21191823 GGTTTTGAAC
*
21191833 AAATTTAAATTCATGGTT
1 AAATTTAAATTTAT--TT
21191851 AAATTTAAATTTATTTT
1 AAATTTAAATTTA-TTT
* *
21191868 AAATTTAAATGTA--A
1 AAATTTAAATTTATTT
*
21191882 AAATTTAAATTTGCTTT
1 AAATTTAAATTT-ATTT
*
21191899 AAATTTAAATTTAATT
1 AAATTTAAATTTATTT
21191915 AAGATTTAAATT
1 AA-ATTTAAATT
21191927 AATAAAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
14 11 0.17
16 4 0.06
17 35 0.56
18 12 0.19
19 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (16 bp):
AAATTTAAATTTATTT
Found at i:21191889 original size:31 final size:32
Alignment explanation
Indices: 21191850--21191926 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
21191840 AATTCATGGT
*
21191850 TAAATTTAAATTTATTTTAAATTTAAATGTAA
1 TAAATTTAAATTTACTTTAAATTTAAATGTAA
* *
21191882 -AAATTTAAATTTGCTTTAAATTTAAATTTAA
1 TAAATTTAAATTTACTTTAAATTTAAATGTAA
21191913 TTAAGATTTAAATT
1 -TAA-ATTTAAATT
21191927 AATAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 28 0.72
33 2 0.05
34 9 0.23
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (32 bp):
TAAATTTAAATTTACTTTAAATTTAAATGTAA
Found at i:21192643 original size:24 final size:24
Alignment explanation
Indices: 21192613--21192668 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
21192603 TAAGGATGGT
*
21192613 TAATAATAGT-ATCATTAATAACAA
1 TAATAATAGTGAT-AATAATAACAA
**
21192637 TAATAATAGTGATAATAATAACTG
1 TAATAATAGTGATAATAATAACAA
21192661 TAATAATA
1 TAATAATA
21192669 ATAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (24 bp):
TAATAATAGTGATAATAATAACAA
Found at i:21192655 original size:15 final size:15
Alignment explanation
Indices: 21192635--21192672 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21192625 CATTAATAAC
*
21192635 AATAATAA-TAGTGAT
1 AATAATAACT-GTAAT
21192650 AATAATAACTGTAAT
1 AATAATAACTGTAAT
21192665 AATAATAA
1 AATAATAA
21192673 ATATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (15 bp):
AATAATAACTGTAAT
Found at i:21193594 original size:161 final size:161
Alignment explanation
Indices: 21193418--21193733 Score: 433
Period size: 161 Copynumber: 2.0 Consensus size: 161
21193408 GATTATAATT
**
21193418 TAGTCCTTTGACTGTTTGACTGTGCCAGAGGTTGCCACGTGTC-ATGTATTGGATTATTTCTGCA
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCAAT-TATTGGATTATTTCTGCA
* * * * * *
21193482 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCC-CAAATCAGCT-TTATTTTAATTACG
65 TTTAGTCCCTTATATTTTTAA-TTATTTTAATTTAATCCTCAAATCAACTCTTA-GTTAATTACA
*
21193545 AAATTGGCCCAATAA-TTTTTCAAGGTTTATAAAC
128 AAATTGGCCCAA-AATTTTTTCAAAGTTTATAAAC
* *
21193579 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCAATTTTTGGCTTATTTCTGCAT
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCAATTATTGGATTATTTCTGCAT
* * *
21193644 TTAGTCCCTTATATTTTTAATTATTTTAATTTAGTCCTTAAATTAACTCTTAGTTAATTACAAAA
66 TTAGTCCCTTATATTTTTAATTATTTTAATTTAATCCTCAAATCAACTCTTAGTTAATTACAAAA
*
21193709 TTGGTCCAAAATTTTTTCAAAGTTT
131 TTGGCCCAAAATTTTTTCAAAGTTT
21193734 TCGAATTAGT
Statistics
Matches: 136, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
160 17 0.12
161 114 0.84
162 5 0.04
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (161 bp):
TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCAATTATTGGATTATTTCTGCAT
TTAGTCCCTTATATTTTTAATTATTTTAATTTAATCCTCAAATCAACTCTTAGTTAATTACAAAA
TTGGCCCAAAATTTTTTCAAAGTTTATAAAC
Found at i:21193861 original size:30 final size:30
Alignment explanation
Indices: 21193835--21194083 Score: 392
Period size: 30 Copynumber: 8.3 Consensus size: 30
21193825 AAAAAATAAT
* *
21193835 ATTTCGACCCTAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
21193865 ATTTTAACCCCAAAACTTTTCTAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
21193895 ATTTTAACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
21193925 ATTTTGACCCCAAAACTTTTCCAAAATTAT
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
21193955 ATTTTGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
21193985 ATTTTGACCCCAAAACTTTTCCAAGATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
21194015 A-TTTGACCCTAAAACTTTTCCAAAATTAT
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
21194044 ATTTTGACTCCAAAACTTTTCCAAAATTAT
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
21194074 ATTTTGACCC
1 ATTTTGACCC
21194084 TCGAAGCTTC
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
29 26 0.13
30 177 0.87
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
ATTTTGACCCCAAAACTTTTCCAAAATTAC
Found at i:21194129 original size:59 final size:58
Alignment explanation
Indices: 21194066--21194436 Score: 523
Period size: 59 Copynumber: 6.4 Consensus size: 58
21194056 AAACTTTTCC
* *
21194066 AAAATTA-TATTTTGACCCTCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTT-ACCCCCGAAGCTTCTAAAATTCCATTTTTAA-CCCGATTTCACCG
* * *
21194125 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCGATTTCATCA
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCGATTTCACCG
*
21194183 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCATCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAA-CCCGATTTCACCG
*
21194242 AAAATTACCATTTTACCCCCAAAGCTTCTAAAATTCCATTTTTTAACCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCA-TTTTTAACCCGATTTCACCG
* * * *
21194301 AAAATTACCATTTTACCCCCGAAGCTTTTAAAATTTC-GTTTTAACCCTAATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCC-GATTTCACCG
* * * * *
21194359 AAGATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCGATTACACC-
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCGATTTCACCG
*
21194416 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
21194437 GGTATCCATA
Statistics
Matches: 283, Mismatches: 24, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
57 27 0.10
58 104 0.37
59 140 0.49
60 12 0.04
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCGATTTCACCG
Found at i:21194218 original size:117 final size:116
Alignment explanation
Indices: 21194066--21194436 Score: 530
Period size: 117 Copynumber: 3.2 Consensus size: 116
21194056 AAACTTTTCC
* *
21194066 AAAATTA-TATTTTGACCCTCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAAT
1 AAAATTACCATTTT-ACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAAT
*
21194130 TACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCGATTTCATCA
65 TACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCGATTTCA-CA
*
21194183 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCATCGAAAATT
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAATT
* *
21194248 ACCATTTTACCCCCAAAGCTTCTAAAATTCCATTTTTTAACCCGATTTCACCG
66 ACCATTTTACCCCCGAAGCTTCTAAAATTCCA-TTTTTAACCCGATTTCA-CA
* * * ** *
21194301 AAAATTACCATTTTACCCCCGAAGCTTTTAAAATTTC-GTTTTAACCCTAATTTCACCGAAGATT
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAATT
* * * * *
21194365 GCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCGATTACACC
66 ACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCGATTTCACA
*
21194416 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
21194437 GGTATCCATA
Statistics
Matches: 231, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
115 21 0.09
116 16 0.07
117 136 0.59
118 58 0.25
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (116 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAATT
ACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCGATTTCACA
Found at i:21202557 original size:12 final size:12
Alignment explanation
Indices: 21202540--21202579 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
21202530 TAGTTGAGCC
21202540 TTCTTATGTATT
1 TTCTTATGTATT
* *
21202552 TTCTTAAGCA-T
1 TTCTTATGTATT
21202563 TTCTTATGTATT
1 TTCTTATGTATT
21202575 TTCTT
1 TTCTT
21202580 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.17, C:0.12, G:0.07, T:0.62
Consensus pattern (12 bp):
TTCTTATGTATT
Found at i:21208552 original size:27 final size:26
Alignment explanation
Indices: 21208508--21208562 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
21208498 TGCTGTCATC
21208508 ATATTTAAAAATGAAAAAATTACAAA
1 ATATTTAAAAATGAAAAAATTACAAA
*
21208534 ATATTTAAAAAAT-ATAAAAATTATAAA
1 ATATTT-AAAAATGA-AAAAATTACAAA
21208561 AT
1 AT
21208563 TACCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
ATATTTAAAAATGAAAAAATTACAAA
Found at i:21208562 original size:35 final size:35
Alignment explanation
Indices: 21208513--21208615 Score: 99
Period size: 35 Copynumber: 3.0 Consensus size: 35
21208503 TCATCATATT
* *
21208513 TAAAAATGAAAAAATTACAAAATATTTAAAAAATA
1 TAAAAATTATAAAATTACAAAATATTTAAAAAATA
21208548 TAAAAATTATAAAATTACCAAAA-A---AAAAAACTA
1 TAAAAATTATAAAATTA-CAAAATATTTAAAAAA-TA
* *
21208581 TAAGAAATTACTAAAATTTC-AAATATTTAATAAAT
1 TAA-AAATTA-TAAAATTACAAAATATTTAAAAAAT
21208616 TCAAACATCC
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
32 6 0.11
33 8 0.14
34 8 0.14
35 23 0.41
36 6 0.11
37 5 0.09
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (35 bp):
TAAAAATTATAAAATTACAAAATATTTAAAAAATA
Found at i:21216328 original size:25 final size:25
Alignment explanation
Indices: 21216300--21216350 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
21216290 TAAACACTAA
*
21216300 ATTCTCTAAAAGTGTTAGAAGTTCT
1 ATTCTCCAAAAGTGTTAGAAGTTCT
*
21216325 ATTCTCCAAAAGTGTTAGGAGTTCT
1 ATTCTCCAAAAGTGTTAGAAGTTCT
21216350 A
1 A
21216351 AATTCTATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (25 bp):
ATTCTCCAAAAGTGTTAGAAGTTCT
Found at i:21216465 original size:24 final size:24
Alignment explanation
Indices: 21216426--21216484 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
21216416 CTAATTAAAA
*
21216426 TTTAATTAAAATAAATAAACAAAG
1 TTTAATTAAAACAAATAAACAAAG
* *
21216450 TTTAATTGAAACAAATAAACAGAG
1 TTTAATTAAAACAAATAAACAAAG
*
21216474 TTTAACTAAAA
1 TTTAATTAAAA
21216485 GATTATTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (24 bp):
TTTAATTAAAACAAATAAACAAAG
Found at i:21229167 original size:23 final size:23
Alignment explanation
Indices: 21229094--21229290 Score: 195
Period size: 23 Copynumber: 8.5 Consensus size: 23
21229084 TATGCGGAAC
* *
21229094 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
21229116 -AACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
21229137 AGGCAACAGAGAGCACACACAGTGCT
1 A---AACAGAGAGCACACAAAGTGCT
* *
21229163 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
21229186 AATCGGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
21229209 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
21229232 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
21229255 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
21229280 AAACAGAGAGC
1 AAACAGAGAGC
21229291 GCGCTAGTGT
Statistics
Matches: 148, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
21 17 0.11
23 92 0.62
24 2 0.01
25 29 0.20
26 8 0.05
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:21229216 original size:69 final size:69
Alignment explanation
Indices: 21229094--21229290 Score: 222
Period size: 69 Copynumber: 2.8 Consensus size: 69
21229084 TATGCGGAAC
* *
21229094 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACATAAGTGCTAGGCAACAGAGAGCACACAC
1 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACAAAAGTGCTA-G-AACAGAGAGCACACAA
21229157 AGTGCT
64 AGTGCT
* *
21229163 AAACAGAGAGTACACAAAGTACTAATCGGAGAGCACACAAAGTGCTA-ATCAGAGAGCACACAAA
1 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACA-AAAGTGCTAGAACAGAGAGCACACAAA
21229227 GTGCT
65 GTGCT
* * * * * *
21229232 AATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTA-AACAGAGAGC
1 AAACAGAGAGTACACAAAGTACTAAT--CAGAGAGCAC-AAAAGTGCTAGAACAGAGAGC
21229291 GCGCTAGTGT
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
69 55 0.50
70 11 0.10
71 35 0.32
72 9 0.08
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (69 bp):
AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACAAAAGTGCTAGAACAGAGAGCACACAAAG
TGCT
Found at i:21233626 original size:20 final size:20
Alignment explanation
Indices: 21233601--21233682 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
21233591 CAGCAAATGA
21233601 TTTTAAATTATTAAAATTAT
1 TTTTAAATTATTAAAATTAT
*
21233621 TTTTAAAATA-TAAAATTA-
1 TTTTAAATTATTAAAATTAT
* *
21233639 -TTAAAATTATTTTAATATTAT
1 TTTTAAATTA--TTAAAATTAT
*
21233660 TTTTAAA-AATATAAAATTAT
1 TTTTAAATTAT-TAAAATTAT
21233680 TTT
1 TTT
21233683 AATATTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
17 7 0.14
19 9 0.18
20 27 0.55
21 1 0.02
22 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTAAATTATTAAAATTAT
Found at i:21233658 original size:11 final size:11
Alignment explanation
Indices: 21233595--21233684 Score: 51
Period size: 9 Copynumber: 9.1 Consensus size: 11
21233585 CCATGTCAGC
*
21233595 AAATGATTTT-
1 AAATTATTTTA
21233605 AAATTA--TTA
1 AAATTATTTTA
21233614 AAATTATTTTTA
1 AAATTA-TTTTA
21233626 AAA-TA---TA
1 AAATTATTTTA
21233633 AAATTA--TTA
1 AAATTATTTTA
21233642 AAATTATTTTA
1 AAATTATTTTA
*
21233653 ATATTATTTTTA
1 AAATTA-TTTTA
*
21233665 AAA--A-TATA
1 AAATTATTTTA
21233673 AAATTATTTTA
1 AAATTATTTTA
21233684 A
1 A
21233685 TATTTTAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 23
0.69 0.05 0.25
Matches are distributed among these distances:
7 5 0.08
8 10 0.16
9 14 0.22
10 7 0.11
11 14 0.22
12 13 0.21
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:21233662 original size:39 final size:39
Alignment explanation
Indices: 21233611--21233693 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
21233601 TTTTAAATTA
*
21233611 TTAAAATTATTTTT-AAAATATAAAATTATTAAAATTATT
1 TTAATATTATTTTTAAAAATATAAAATTATTAAAA-TATT
**
21233650 TTAATATTATTTTTAAAAATATAAAATTATTTTAATATT
1 TTAATATTATTTTTAAAAATATAAAATTATTAAAATATT
21233689 TTAAT
1 TTAAT
21233694 CATCATCATC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 22 0.55
40 18 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
TTAATATTATTTTTAAAAATATAAAATTATTAAAATATT
Found at i:21234390 original size:97 final size:98
Alignment explanation
Indices: 21234280--21234463 Score: 307
Period size: 97 Copynumber: 1.9 Consensus size: 98
21234270 ATTGAGATTG
* * *
21234280 AAATAGAGAACCTTGAAGGGTTAGGAGAGTGATGGAAGAAGAAAAAGCCATGGTTTGATTCA-AA
1 AAATAGAGAACCTTGAAGAGTTAGGAGAGCGATGGAAGAAGAAAAAGCCATAGTTTGATTCAGAA
21234344 TCCAAGTGGAGAAGTAGCCATGGTTACGAGGTT
66 TCCAAGTGGAGAAGTAGCCATGGTTACGAGGTT
* * *
21234377 AAATAGAGAACCTTGAAGAGTTAGGAGAGCGATGGAAGAAGAAGAAGCCATAGTTTGGTTCAGAC
1 AAATAGAGAACCTTGAAGAGTTAGGAGAGCGATGGAAGAAGAAAAAGCCATAGTTTGATTCAGAA
21234442 TCCAAGTGGAGAAGTAGCCATG
66 TCCAAGTGGAGAAGTAGCCATG
21234464 TTTGTTCAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 57 0.71
98 23 0.29
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.20
Consensus pattern (98 bp):
AAATAGAGAACCTTGAAGAGTTAGGAGAGCGATGGAAGAAGAAAAAGCCATAGTTTGATTCAGAA
TCCAAGTGGAGAAGTAGCCATGGTTACGAGGTT
Found at i:21243005 original size:9 final size:9
Alignment explanation
Indices: 21242991--21243015 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21242981 ACAATGCTCT
21242991 TTCCCGTCG
1 TTCCCGTCG
21243000 TTCCCGTCG
1 TTCCCGTCG
21243009 TTCCCGT
1 TTCCCGT
21243016 TAGAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.44, G:0.20, T:0.36
Consensus pattern (9 bp):
TTCCCGTCG
Found at i:21245104 original size:16 final size:18
Alignment explanation
Indices: 21245069--21245107 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
21245059 AAACGATTTA
21245069 ATTT-TTAAACAAAATCT
1 ATTTATTAAACAAAATCT
21245086 ATTTATTAAA-AAAAT-T
1 ATTTATTAAACAAAATCT
21245102 ATTTAT
1 ATTTAT
21245108 ATTATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTATTAAACAAAATCT
Found at i:21245691 original size:28 final size:31
Alignment explanation
Indices: 21245655--21245724 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 31
21245645 TTTAATAGTT
21245655 TATAATTTTATA-AATTTTAAAGGATTAAA-
1 TATAATTTTATATAATTTTAAAGGATTAAAG
* * *
21245684 T-TAATTTTTTATTATTTTAAGGGATTAAAG
1 TATAATTTTATATAATTTTAAAGGATTAAAG
21245714 TATAATTTTAT
1 TATAATTTTAT
21245725 CATTACTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 9 0.26
29 16 0.47
30 1 0.03
31 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (31 bp):
TATAATTTTATATAATTTTAAAGGATTAAAG
Found at i:21247664 original size:30 final size:31
Alignment explanation
Indices: 21247628--21247691 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
21247618 AAACAATTCG
* *
21247628 ACTC-TTTTCAAAGATTGATGA-TCGAATTTA
1 ACTCTTTTTAAAAGATTGA-GAGTCAAATTTA
21247658 ACTCTTTTTAAAAGATTGAGAGTCAAATTTA
1 ACTCTTTTTAAAAGATTGAGAGTCAAATTTA
21247689 ACT
1 ACT
21247692 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
ACTCTTTTTAAAAGATTGAGAGTCAAATTTA
Found at i:21260768 original size:21 final size:21
Alignment explanation
Indices: 21260730--21260769 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21260720 TAGCTACGGA
*
21260730 ATTAAATACACAATATATTTT
1 ATTAAATACACAACATATTTT
21260751 ATTAAA-ACACATACATATT
1 ATTAAATACACA-ACATATT
21260770 ATTCTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAAATACACAACATATTTT
Found at i:21264404 original size:28 final size:27
Alignment explanation
Indices: 21264333--21264409 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 27
21264323 GTTAGCTTCT
* *
21264333 ATATATGGTCGGTCTTGTCGCCTGAATG
1 ATATATGGTCGGTCCTGCCG-CTGAATG
* ** * *
21264361 ATACATGGTCAATCCTACCGCTTAATTG
1 ATATATGGTCGGTCCTGCCGCTGAA-TG
21264389 ATATATGGTCGGTCCTGCCGC
1 ATATATGGTCGGTCCTGCCGC
21264410 CTGAGTATTA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
27 4 0.11
28 33 0.89
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
ATATATGGTCGGTCCTGCCGCTGAATG
Found at i:21264989 original size:456 final size:452
Alignment explanation
Indices: 21264069--21265751 Score: 1727
Period size: 456 Copynumber: 3.7 Consensus size: 452
21264059 TGGGCTCGTC
* *
21264069 GAGTTTCCAACATCTAACATTTCATTTCCATCTCTCTATTATTTTTGCCTTTAGTAGTTTTCACG
1 GAGTTTCCAACATCTAACATTTCATTTCCATCTGTCTACTATTTTTGCCTTTAGTAGTTTTCACG
* *
21264134 AGAGAATATTAAAATGAATTGGGAGAAACAAGTAAATTCAATTTCCCAACATATGCGTATAAAAA
66 AGAGAAGATTAAAATGAATTGGGAGAAACAAGTAAATTCAATTTCCCAACATATACGTATAAAAA
* * * * *
21264199 TGGACATATTAGAACAACTTCAAGC-AGAGACAAATTGTTC-AGTTCATAAATAAAATGTATTCT
131 TGGACATATTATAACAACTTC-AGCAAAAGACAAATCGTTCAAATCCATAAATAAAATGTATTCT
* * * * *
21264262 TTTCTATTATAATTGTAAATT-TCGGTTAAACCTTAGATTTTTAAGTATTTAGTACACTTGGGTT
195 TTTCTCTTATAATTGT-AATTCTCGATTAAACCTTAGGTTTTTAAGTAATTAGTGCACTTGGGTT
* * * * * * * *
21264326 AGCTTCTATATATGGTCGGTCTTGTCGCCTGAATGATACATGGTCAATCCTACCGCTTAATTGAT
259 AGCTTCTATATATGGTCAGTCTTGTCGCTTGAATGATATATGATCGATTCTACCGCCTAAATGAT
* * *
21264391 ATATGGTCGGTCCTGCCGCCTGAGTATTATAGTGCACTAAAGTTAGAAAAT-AAAAGATTAACCG
324 ATATGATCGATCCTGCCGCCTGAGTATTATAGTGCACTAAAGTTAAAAAATAAAAAG-TTAACCG
* * * * * **
21264455 ACTTCATAGAGTTTGTGTAACATTACTTGTAGGTCCTAAGTCATT-TGTAGTAGGTGCGTTAAAC
388 ACTTTATAGAATTAGTGTAACATTACTTGTAGGTCCTAAATC-TTCTGTAGT--GTGC-CT-GGC
*
21264519 TCAAT
448 TCATT
* *
21264524 GAGTTTCCAACATTTAACATTTCATTTCCATCTGTCTACTATTTTTTCCTTTAGTAGTTTTCACG
1 GAGTTTCCAACATCTAACATTTCATTTCCATCTGTCTACTATTTTTGCCTTTAGTAGTTTTCACG
21264589 AGAGAAGATTAAAATGAATTGGGAGAAACAAGTAAATTCAATTTCCCAACATATACGTATAAAAA
66 AGAGAAGATTAAAATGAATTGGGAGAAACAAGTAAATTCAATTTCCCAACATATACGTATAAAAA
* *
21264654 TAGG-CATATTATAACAACTTCA-CAAAGAGACAAATCGTT-AAAGTCCATAAATAAAAGGTGTT
131 T-GGACATATTATAACAACTTCAGCAAA-AGACAAATCGTTCAAA-TCCATAAATAAAATGTATT
* * * * *
21264716 CTTTTCTCTTGTAATTGTAATTCTCGATTAAGCCTTAGGTTTTTAAGTACTTAATGCATTTGGGT
193 CTTTTCTCTTATAATTGTAATTCTCGATTAAACCTTAGGTTTTTAAGTAATTAGTGCACTTGGGT
* ***
21264781 TAGCTTCTATATATGGTCAGTCTTGTCGCTTGAATGATATATGATCGGTTCTGTTGCCTAAATGA
258 TAGCTTCTATATATGGTCAGTCTTGTCGCTTGAATGATATATGATCGATTCTACCGCCTAAATGA
* * * * *
21264846 TATATAATCGATCCTGTCGTCTGAGCATTATAGTGCACTAAAGTTAAAAAATAAAAAGTTAACCA
323 TATATGATCGATCCTGCCGCCTGAGTATTATAGTGCACTAAAGTTAAAAAATAAAAAGTTAACCG
* *
21264911 ACTTTATAGAATTGGTGTAACATTACTTGTGGGTCCTAAATCTTCTGTAGTCGATGCACTGGGCT
388 ACTTTATAGAATTAGTGTAACATTACTTGTAGGTCCTAAATCTTCTGTAGT-G-TGC-CT-GGCT
21264976 CATT
449 CATT
* * * *
21264980 AAATTTCCAATATCTAACATTTGATTTCCATCTGTCTACTATTTTTGCCTTTAGTAGTTTTCACG
1 GAGTTTCCAACATCTAACATTTCATTTCCATCTGTCTACTATTTTTGCCTTTAGTAGTTTTCACG
* * * *
21265045 AGAGAAGATTAAAATGAATTTGAAGAAACAAGTAAATTCAATTTCCTAACATATGCGTATAAAAA
66 AGAGAAGATTAAAATGAATTGGGAGAAACAAGTAAATTCAATTTCCCAACATATACGTATAAAAA
* * * *
21265110 TGGACATATT-TGAATAACTTCAGGC-AAATACAAATCATTCAAATCAATAAATAAAATGTATTC
131 TGGACATATTAT-AACAACTTCA-GCAAAAGACAAATCGTTCAAATCCATAAATAAAATGTATTC
* * * **
21265173 TTTTCTCTTGTAATTGTAAGTC-CTGATTAAACATTAGGTTTTTAAGTAATTAGTGCACTTGCAT
194 TTTTCTCTTATAATTGTAATTCTC-GATTAAACCTTAGGTTTTTAAGTAATTAGTGCACTTGGGT
* * * * * * * * * *
21265237 TAGGTT-TATATATGAT-TGGCTCTG-CTACTTGAATGATATATAATTGACTCTACCGTCTGAAT
258 TAGCTTCTATATATGGTCAGTCT-TGTC-GCTTGAATGATATATGATCGATTCTACCGCCTAAAT
* * * * * * *
21265299 AATATGTGATCGATCCTACCGCCTGAATATTTTAATGTC-CTAAAGTT-AAAAATAAAAGGTTAA
321 GATATATGATCGATCCTGCCGCCTGAGTATTATAGTG-CACTAAAGTTAAAAAATAAAAAGTTAA
** * * * * *
21265362 TTGACTTTATAGAATTAATGTAACATTACTCGTAAGTCCTAAATCCTCTGTAGTG-G-GTGGCTC
385 CCGACTTTATAGAATTAGTGTAACATTACTTGTAGGTCCTAAATCTTCTGTAGTGTGCCTGGCTC
21265425 ATT
450 ATT
** * * * * * * *
21265428 GAGTTTCTGACATCGAAC---T--TTTCCATCTATCTTCCATTTTTGCCTTTAATAATTTTTACG
1 GAGTTTCCAACATCTAACATTTCATTTCCATCTGTCTACTATTTTTGCCTTTAGTAGTTTTCACG
* *
21265488 AGAAAAGATTAAAATGAATTGGGAGAAATAAGTAAATTCAATTTCCC-ACATATACGTATAAAAA
66 AGAGAAGATTAAAATGAATTGGGAGAAACAAGTAAATTCAATTTCCCAACATATACGTATAAAAA
* * ** *
21265552 T-GA-ATA-TATTAA-AACTTCAAGCAAAA-ATAAATTGTTCAAATTTATAAATAAAATGTGTTC
131 TGGACATATTA-TAACAACTTC-AGCAAAAGACAAATCGTTCAAATCCATAAATAAAATGTATTC
* * * * * * * ** * **
21265612 TTTTCTCTTATAATTGTTAGTCTAGATTAAACTTTAAGG-TTCTGACTTTTTAGTGTACTTGAAT
194 TTTTCTCTTATAATTGTAATTCTCGATTAAACCTT-AGGTTTTTAAGTAATTAGTGCACTTGGGT
* * * * * * * * * * *
21265676 TAACTTTTATATATGATC-GACTTTATCACCTGAATGACATATGATTGACTCTATCGCCTAAATG
258 TAGCTTCTATATATGGTCAGTC-TTGTCGCTTGAATGATATATGATCGATTCTACCGCCTAAATG
21265740 ATATATGATCGA
322 ATATATGATCGA
21265752 CTCTACCGCT
Statistics
Matches: 1040, Mismatches: 160, Indels: 71
0.82 0.13 0.06
Matches are distributed among these distances:
439 89 0.09
440 66 0.06
441 5 0.00
442 17 0.02
443 77 0.07
445 1 0.00
448 20 0.02
449 1 0.00
451 1 0.00
453 2 0.00
454 66 0.06
455 236 0.23
456 448 0.43
457 10 0.01
458 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (452 bp):
GAGTTTCCAACATCTAACATTTCATTTCCATCTGTCTACTATTTTTGCCTTTAGTAGTTTTCACG
AGAGAAGATTAAAATGAATTGGGAGAAACAAGTAAATTCAATTTCCCAACATATACGTATAAAAA
TGGACATATTATAACAACTTCAGCAAAAGACAAATCGTTCAAATCCATAAATAAAATGTATTCTT
TTCTCTTATAATTGTAATTCTCGATTAAACCTTAGGTTTTTAAGTAATTAGTGCACTTGGGTTAG
CTTCTATATATGGTCAGTCTTGTCGCTTGAATGATATATGATCGATTCTACCGCCTAAATGATAT
ATGATCGATCCTGCCGCCTGAGTATTATAGTGCACTAAAGTTAAAAAATAAAAAGTTAACCGACT
TTATAGAATTAGTGTAACATTACTTGTAGGTCCTAAATCTTCTGTAGTGTGCCTGGCTCATT
Found at i:21265771 original size:28 final size:28
Alignment explanation
Indices: 21265684--21265776 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 28
21265674 ATTAACTTTT
* *
21265684 ATATATGATCGACTTTATCACCTGAATG
1 ATATATGATCGACTCTATCGCCTGAATG
* * *
21265712 ACATATGATTGACTCTATCGCCTAAATG
1 ATATATGATCGACTCTATCGCCTGAATG
* * *
21265740 ATATATGATCGACTCTACCGCTTGAATA
1 ATATATGATCGACTCTATCGCCTGAATG
*
21265768 ATATCTGAT
1 ATATATGAT
21265777 TAATCTTATT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (28 bp):
ATATATGATCGACTCTATCGCCTGAATG
Found at i:21276718 original size:52 final size:52
Alignment explanation
Indices: 21276640--21276928 Score: 384
Period size: 52 Copynumber: 5.6 Consensus size: 52
21276630 TAAATGAAAA
* *
21276640 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTACG
1 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACG
* **
21276692 AGGTCCAATGACTATGTGTCATCGTGAGTAT-TTAATCCTTTACGGATTATA
1 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACG
* * *
21276743 AGGTCTAATGACTATGTGTCATCGTGAGTAAATGAACCCTTTACGGATTACG
1 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACG
* * * *
21276795 AGGTCTAATGACTATGTGTCATCGTGAGTATATAAATCATTTACGGATTATG
1 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACG
* ** * *
21276847 AGGTCCGATGACTATGCATCATCGTGAGTATATGAATTCTTTACGGATTA-A
1 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACG
* **
21276898 AGGTCCGATGACCCTGTGTCATCGTGAGTAT
1 AGGTCCAATGACTATGTGTCATCGTGAGTAT
21276929 CAAATACACC
Statistics
Matches: 208, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
51 72 0.35
52 136 0.65
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (52 bp):
AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACG
Found at i:21276818 original size:103 final size:104
Alignment explanation
Indices: 21276639--21276928 Score: 413
Period size: 103 Copynumber: 2.8 Consensus size: 104
21276629 GTAAATGAAA
* *
21276639 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTACGAGGTCCAATGAC
1 AAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCAATGAC
* *
21276704 TATGTGTCATCGTGAGTAT-TTAATCCTTTACGGATTAT
66 TATGTGTCATCGTGAGTATATAAATCATTTACGGATTAT
* * * *
21276742 AAGGTCTAATGACTATGTGTCATCGTGAGTAAATGAACCCTTTACGGATTACGAGGTCTAATGAC
1 AAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCAATGAC
21276807 TATGTGTCATCGTGAGTATATAAATCATTTACGGATTAT
66 TATGTGTCATCGTGAGTATATAAATCATTTACGGATTAT
* * ** * * *
21276846 GAGGTCCGATGACTATGCATCATCGTGAGTATATGAATTCTTTACGGATTA-AAGGTCCGATGAC
1 AAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCAATGAC
**
21276910 CCTGTGTCATCGTGAGTAT
66 TATGTGTCATCGTGAGTAT
21276929 CAAATACACC
Statistics
Matches: 165, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
103 105 0.64
104 60 0.36
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (104 bp):
AAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCAATGAC
TATGTGTCATCGTGAGTATATAAATCATTTACGGATTAT
Found at i:21276922 original size:155 final size:155
Alignment explanation
Indices: 21276647--21276927 Score: 429
Period size: 155 Copynumber: 1.8 Consensus size: 155
21276637 AAAAGGTCCG
* * **
21276647 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTACGAGGTCCAATGACTATGTGTC
1 ATGACTATGTGTCATCGTGAGTATATAAATCATTTACAGATTACGAGGTCCAATGACTATGCATC
* * *
21276712 ATCGTGAGTATTTAATCCTTTACGGATTATAAGGTCTAATGACTATGTGTCATCGTGAGTAAATG
66 ATCGTGAGTATTGAATCCTTTACGGATTATAAGGTCCAATGACCATGTGTCATCGTGAGTAAATG
21276777 AACCCTTTACGGATTACGAGGTCTA
131 AACCCTTTACGGATTACGAGGTCTA
* * *
21276802 ATGACTATGTGTCATCGTGAGTATATAAATCATTTACGGATTATGAGGTCCGATGACTATGCATC
1 ATGACTATGTGTCATCGTGAGTATATAAATCATTTACAGATTACGAGGTCCAATGACTATGCATC
* * *
21276867 ATCGTGAGTATATGAATTCTTTACGGATTA-AAGGTCCGATGACCCTGTGTCATCGTGAGTA
66 ATCGTGAGTAT-TGAATCCTTTACGGATTATAAGGTCCAATGACCATGTGTCATCGTGAGTA
21276928 TCAAATACAC
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
155 96 0.86
156 16 0.14
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (155 bp):
ATGACTATGTGTCATCGTGAGTATATAAATCATTTACAGATTACGAGGTCCAATGACTATGCATC
ATCGTGAGTATTGAATCCTTTACGGATTATAAGGTCCAATGACCATGTGTCATCGTGAGTAAATG
AACCCTTTACGGATTACGAGGTCTA
Found at i:21277645 original size:21 final size:21
Alignment explanation
Indices: 21277621--21277674 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
21277611 TCAAGATTTG
21277621 TATCGGTAGAGGAGTCACTTA
1 TATCGGTAGAGGAGTCACTTA
*** *
21277642 TATCGGTAGAACTGTCACTTG
1 TATCGGTAGAGGAGTCACTTA
21277663 TATCGGTAGAGG
1 TATCGGTAGAGG
21277675 TCTACACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
TATCGGTAGAGGAGTCACTTA
Found at i:21282322 original size:6 final size:6
Alignment explanation
Indices: 21282311--21282341 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
21282301 CGATTAATGA
21282311 ATAATT ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT ATAATT A
21282342 AAACAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:21284075 original size:12 final size:12
Alignment explanation
Indices: 21284058--21284088 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21284048 ATAAGTGGTG
21284058 AAAATTCACATA
1 AAAATTCACATA
21284070 AAAATTCACATA
1 AAAATTCACATA
*
21284082 CAAATTC
1 AAAATTC
21284089 TTTTAGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATTCACATA
Found at i:21284482 original size:18 final size:19
Alignment explanation
Indices: 21284440--21284482 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
21284430 GTCCTAATAG
* *
21284440 ATGATATCGAATCTTGAGA
1 ATGATATCGAATATTGACA
21284459 AT-ATATC-AATATTGACA
1 ATGATATCGAATATTGACA
21284476 ATGATAT
1 ATGATAT
21284483 GTTTGACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 9 0.43
19 2 0.10
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (19 bp):
ATGATATCGAATATTGACA
Found at i:21290834 original size:29 final size:29
Alignment explanation
Indices: 21290802--21291029 Score: 132
Period size: 29 Copynumber: 7.8 Consensus size: 29
21290792 TATGGATACC
*
21290802 CGGGGGTAAAATGGTAATTTTGGTGTAAT
1 CGGGGGTAAAATGGTAATTTTGGTGAAAT
* **
21290831 CGGGGTTAAAAATGG-AATTTT--AAAAGATT
1 CGGGGGT-AAAATGGTAATTTTGGTGAA-A-T
*
21290860 CGGGGGTAAAATGGCAATTTTCGGTGAAAT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAAT
** * * **
21290890 TAGGGTTAAAAATGG-AATTTTAGT-AGCTT
1 CGGGGGT-AAAATGGTAATTTTGGTGA-AAT
* * *
21290919 CGGGGGTAAAATAGTAATTTTAGTAAAAT
1 CGGGGGTAAAATGGTAATTTTGGTGAAAT
* * *
21290948 CGGGGTTAAAAATGG-AATTTT--AGAAGCTT
1 CGGGGGT-AAAATGGTAATTTTGGTGAA--AT
21290977 CGGGGAGTAAAATGGTAATTTTTGGTGAAAT
1 CGGGG-GTAAAATGGTAA-TTTTGGTGAAAT
*
21291008 CGGGGTTAAAAT-GTAATTTTGG
1 CGGGGGTAAAATGGTAATTTTGG
21291030 AAAAGTTTTG
Statistics
Matches: 152, Mismatches: 28, Indels: 39
0.69 0.13 0.18
Matches are distributed among these distances:
27 3 0.02
28 21 0.14
29 71 0.47
30 34 0.22
31 18 0.12
32 2 0.01
33 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (29 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAAT
Found at i:21290868 original size:58 final size:58
Alignment explanation
Indices: 21290802--21291059 Score: 315
Period size: 59 Copynumber: 4.4 Consensus size: 58
21290792 TATGGATACC
* *
21290802 CGGGGGTAAAATGGTAATTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
* ** **
21290860 CGGGGGTAAAATGGCAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTAGTAGCTT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
* * * *
21290919 CGGGGGTAAAATAGTAATTTTAGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
*
21290977 CGGGGAGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGTAATTTTGGAAAAG-TT
1 CGGGG-GTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTT--AAAAGCTT
**
21291037 TTGGGGTCAAAAT-GTAATTTTGG
1 CGGGGGT-AAAATGGTAATTTTGG
21291060 AAAAGTTTTG
Statistics
Matches: 173, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
58 63 0.36
59 79 0.46
60 27 0.16
61 4 0.02
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
Found at i:21290911 original size:59 final size:58
Alignment explanation
Indices: 21290802--21291027 Score: 319
Period size: 59 Copynumber: 3.9 Consensus size: 58
21290792 TATGGATACC
* * *
21290802 CGGGGGTAAAATGGTAATTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* ** *
21290860 CGGGGGTAAAATGGCAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTAGTAGCTT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* * *
21290919 CGGGGGTAAAATAGTAATTTTAGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
*
21290977 CGGGGAGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGTAATTTT
1 CGGGG-GTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTT
21291028 GGAAAAGTTT
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
58 57 0.39
59 73 0.50
60 17 0.12
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
Found at i:21291019 original size:117 final size:117
Alignment explanation
Indices: 21290802--21291027 Score: 337
Period size: 117 Copynumber: 1.9 Consensus size: 117
21290792 TATGGATACC
* * **
21290802 CGGGGGTAAAATGGTAATTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 CGGGGGTAAAATAGTAATTTTAGTAAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
21290867 AAAATGGCAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTAGTAGCTT
66 AAAATGGCAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAGTAGCTT
* *
21290919 CGGGGGTAAAATAGTAATTTTAGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGAG
1 CGGGGGTAAAATAGTAATTTTAGTAAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGG-G
* * * *
21290984 TAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGTAATTTT
65 TAAAATGGCAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTT
21291028 GGAAAAGTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 69 0.71
118 28 0.29
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (117 bp):
CGGGGGTAAAATAGTAATTTTAGTAAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
AAAATGGCAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAGTAGCTT
Found at i:21291194 original size:30 final size:30
Alignment explanation
Indices: 21291009--21291187 Score: 313
Period size: 30 Copynumber: 6.0 Consensus size: 30
21290999 TGGTGAAATC
* *
21291009 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
*
21291039 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
21291069 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
21291099 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
*
21291129 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
*
21291159 GGGGTCAAAATATAATTTTAGAAAAGTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTT
21291188 CAGGGTCGAA
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 144 1.00
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAATATAATTTTGGAAAAGTTTT
Found at i:21291487 original size:162 final size:161
Alignment explanation
Indices: 21291282--21291625 Score: 455
Period size: 162 Copynumber: 2.1 Consensus size: 161
21291272 GTATCCAGAG
* * *
21291282 GTCAAGGGACTAATTTGAAAACTTTGAAAAAATTTTGGACCAATTTTGCAATT-AAATAAAAGTC
1 GTCAAAGGACTAATTTGAAAACCTTGAAAAAATTTTGGACCAATTTCGCAATTAAAAT-AAAGTC
*
21291346 GATTTAAGGATT-AATTAAAACAAATTAAAAAT-AAAAAGGACTAAATACAGAAATAATCCAAAA
65 GATTT-AGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATACA-AAATAATCCAAAA
* *
21291409 AGATGACACGTAGCAACCTCTGGTGCAGTCAAACA
128 AG-TGACACGTAGCAACCTATGGTACAGTCAAACA
* *
21291444 GTCAAAGGACTAGTTT-ATAAACCTTG-AAAAATTATTGGACCAATTTCGTAATTAAAATAAAGT
1 GTCAAAGGACTAATTTGA-AAACCTTGAAAAAATT-TTGGACCAATTTCGCAATTAAAATAAAGT
* * *
21291507 TGATTTGGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATGCAAAATAATCCAAAAA
64 CGATTTAGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATACAAAATAATCCAAAAA
* **
21291572 GTGACACGTGGCAGTCTATGGTACAGTCAAACA
129 GTGACACGTAGCAACCTATGGTACAGTCAAACA
* *
21291605 GTTAAAGGACTAAATTGAAAA
1 GTCAAAGGACTAATTTGAAAA
21291626 GCAATTAAAA
Statistics
Matches: 159, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
161 56 0.35
162 83 0.52
163 20 0.13
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (161 bp):
GTCAAAGGACTAATTTGAAAACCTTGAAAAAATTTTGGACCAATTTCGCAATTAAAATAAAGTCG
ATTTAGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATACAAAATAATCCAAAAAGT
GACACGTAGCAACCTATGGTACAGTCAAACA
Found at i:21292493 original size:19 final size:19
Alignment explanation
Indices: 21292469--21292511 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
21292459 TTAAAAGATC
21292469 TATTAATTAA-TATTATTAG
1 TATTAA-TAATTATTATTAG
*
21292488 TATTAATAATTATTATTAT
1 TATTAATAATTATTATTAG
21292507 TATTA
1 TATTA
21292512 TTATAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTAATAATTATTATTAG
Found at i:21292502 original size:3 final size:3
Alignment explanation
Indices: 21292469--21292520 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
21292459 TTAAAAGATC
* * *
21292469 TAT TAAT TAA TAT TAT TAG TAT TAAT AAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
*
21292516 AAT TA
1 TAT TA
21292521 ATAATCATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:21293274 original size:11 final size:11
Alignment explanation
Indices: 21293258--21293334 Score: 75
Period size: 11 Copynumber: 6.8 Consensus size: 11
21293248 TTATAATAAC
21293258 ATTAAATTTAA
1 ATTAAATTTAA
*
21293269 ATTAAATTCAA
1 ATTAAATTTAA
21293280 ATTCAAATTTAA
1 ATT-AAATTTAA
*
21293292 ATTGAATTTAA
1 ATTAAATTTAA
*
21293303 AGTAAATTTTAA
1 ATTAAA-TTTAA
*
21293315 GATTAAA-ATAA
1 -ATTAAATTTAA
*
21293326 ATTTAATTT
1 ATTAAATTT
21293335 TCAAATGGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 5 0.09
11 28 0.53
12 15 0.28
13 5 0.09
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:21293287 original size:23 final size:22
Alignment explanation
Indices: 21293260--21293321 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
21293250 ATAATAACAT
*
21293260 TAAATTTAAATTAAATTCAAAT
1 TAAATTTAAATTAAATTCAAAG
* *
21293282 TCAAATTTAAATTGAATTTAAAG
1 T-AAATTTAAATTAAATTCAAAG
21293305 TAAATTTTAAGATTAAA
1 TAAA-TTTAA-ATTAAA
21293322 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
23 24 0.73
24 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATTTAAATTAAATTCAAAG
Found at i:21293713 original size:68 final size:68
Alignment explanation
Indices: 21293623--21293857 Score: 339
Period size: 68 Copynumber: 3.5 Consensus size: 68
21293613 ATGAAAGCGC
* *
21293623 GTTATCCACTCTTCTTCCATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGA
1 GTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGA
21293688 TGT
66 TGT
* * **
21293691 GTTATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTTAGAGACGAAGA
1 GTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGA
*
21293756 TTT
66 TGT
* * * *
21293759 GATATCCACTCTACTTCAATTTCAA-GAGCTGACGTTGCTCTTACTTCAATTTCAGAGATGAAA-
1 GTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAT-AAAG
*
21293822 ACGT
65 ATGT
21293826 GTTATCCACTCTACTTCAATTTCAAGGGGATG
1 GTTATCCACTCTACTTCAATTTCAAGGGGATG
21293858 TGTTGTCCAC
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
67 54 0.37
68 91 0.63
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (68 bp):
GTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGA
TGT
Found at i:21293867 original size:33 final size:33
Alignment explanation
Indices: 21293824--21293890 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
21293814 AGATGAAAAC
21293824 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
*
21293857 GTGTTGTCCACTCTACTTCAATTTCAAGGGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
21293890 G
1 G
21293891 ACATTGCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (33 bp):
GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
Found at i:21293915 original size:101 final size:100
Alignment explanation
Indices: 21293763--21293946 Score: 307
Period size: 101 Copynumber: 1.8 Consensus size: 100
21293753 AGATTTGATA
* *
21293763 TCCACTCTACTTCAATTTCAAGAGCTGACGTTGCTCTTACTTCAATTTCAGAGATGAAA-ACGTG
1 TCCACTCTACTTCAATTTCAAGAGATGACATTGCTCTTACTTCAATTTCAGAGAT-AAAGACGTG
21293827 TTATCCACTCTACTTCAATTTCAAGGGGATGTGTTG
65 TTATCCACTCTACTTCAATTTCAAGGGGATGTGTTG
* *
21293863 TCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGATGTG
1 TCCACTCTACTTCAATTTCAA-GAGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
21293928 TTATCCACTCTACTTCAAT
65 TTATCCACTCTACTTCAAT
21293947 GACGTTGCTC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 24 0.31
101 54 0.69
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (100 bp):
TCCACTCTACTTCAATTTCAAGAGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTGT
TATCCACTCTACTTCAATTTCAAGGGGATGTGTTG
Found at i:21293935 original size:68 final size:68
Alignment explanation
Indices: 21293858--21294745 Score: 1254
Period size: 68 Copynumber: 13.6 Consensus size: 68
21293848 CAAGGGGATG
* * *
21293858 TGTTGTCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
**
21293923 ATG
66 ACA
*
21293926 TGTTATCCACTCTA---C---TTC-A----ATGACGTTGCTCTTACTTCAATTTCAGAGACGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
*
21293980 ACG
66 ACA
*
21293983 TGTTATCCACTCTACTTCAATTTCAAGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
21294048 ACA
66 ACA
21294051 TGTTATCCACTCTA---C---TTC-A----ATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
21294105 ACA
66 ACA
*
21294108 TGTTATCCACTCTA---C---TTC-A----ATGACGTTGCTCTTACTTCAATTTCAGAGACGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
*
21294162 ACG
66 ACA
*
21294165 TGTTATCCACTCTACTTCAATTTCAAGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
21294230 ACA
66 ACA
* *
21294233 TGTTATCCACTCTACTTCAATTTCAA-GGGACGATGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
21294297 ACA
66 ACA
*
21294300 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGCTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
*
21294365 ACG
66 ACA
*
21294368 TGTTATCCACTCTACTTCAATTTCAAGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
21294433 ACA
66 ACA
* *
21294436 TGTTATCTACTCTACTTCAATTTTCAA-GGGACGACGTTGCTCTTACTTCAATTTCAGAGATGAA
1 TGTTATCCACTCTACTTCAA-TTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
**
21294500 GATG
65 GACA
* * * *
21294504 TGTTATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTTAGAGACGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
*
21294569 ACT
66 ACA
* * *
21294572 TGATATCCACTCTACTTCAATTTCAAGAGGCTGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
21294637 ACA
66 ACA
21294640 TGTTATCCACTCTACTTCAATTTCAA-GGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
21294704 ACA
66 ACA
*
21294707 TGTTATCCACTCTACTTCAATTTCAAAGGGATGACGTTG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
21294746 GTGACCTGCA
Statistics
Matches: 750, Mismatches: 44, Indels: 52
0.89 0.05 0.06
Matches are distributed among these distances:
57 154 0.21
60 2 0.00
61 2 0.00
62 6 0.01
63 6 0.01
64 2 0.00
65 2 0.00
67 137 0.18
68 433 0.58
69 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (68 bp):
TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
ACA
Found at i:21294067 original size:37 final size:37
Alignment explanation
Indices: 21293958--21294071 Score: 123
Period size: 37 Copynumber: 3.2 Consensus size: 37
21293948 ACGTTGCTCT
*
21293958 TACTTCAATTTCAGAGACGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGACGAAGACATGTTATCCACTC
** * * *
21293995 TACTTCAATTTCA-AGGGGATG--ATG-T-TGCTCT-
1 TACTTCAATTTCAGAGACGAAGACATGTTATCCACTC
*
21294026 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
1 TACTTCAATTTCAGAGACGAAGACATGTTATCCACTC
21294063 TACTTCAAT
1 TACTTCAAT
21294072 GACGTTGCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
31 13 0.22
32 9 0.15
33 1 0.02
34 5 0.08
35 1 0.02
36 9 0.15
37 22 0.37
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (37 bp):
TACTTCAATTTCAGAGACGAAGACATGTTATCCACTC
Found at i:21306685 original size:29 final size:30
Alignment explanation
Indices: 21306645--21306748 Score: 81
Period size: 29 Copynumber: 3.5 Consensus size: 30
21306635 ACCCGGGGGC
*
21306645 AAAATGGTAATTTT-GGTGTAATCGGGGTTA
1 AAAATGGCAATTTTAGGTG-AATCGGGGTTA
*** * *
21306675 AAAATGG-AATTTTAAAAGATTCGGGGGT-
1 AAAATGGCAATTTTAGGTGAATCGGGGTTA
* **
21306703 AAAATGGCAATTTTCGGTGAAATTAGGGTTA
1 AAAATGGCAATTTTAGGTG-AATCGGGGTTA
21306734 AAAATGG-AATTTTAG
1 AAAATGGCAATTTTAG
21306749 TAGCTTCAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 7 0.12
29 21 0.38
30 21 0.38
31 7 0.12
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (30 bp):
AAAATGGCAATTTTAGGTGAATCGGGGTTA
Found at i:21306746 original size:59 final size:59
Alignment explanation
Indices: 21306638--21306893 Score: 268
Period size: 59 Copynumber: 4.4 Consensus size: 59
21306628 TATGGATACC
* * *
21306638 CGGGGGCAAAATGGTAATTTT-GGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
* ** **
21306696 CGGGGGTAAAATGGCAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTAGTAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
** ** * * * *
21306755 CAAGGGTAAAATAATAATTTTCAGTAAAATCGGGGTTTAAAACGGAATTTTAAAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
* * *
21306814 CGGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTT-AAAATGTAATTTGGAAAAG-TT
1 C-GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTT-TAAAAGCTT
**
21306873 TTGGGGTCAAAAT-GTAATTTT
1 CGGGGGT-AAAATGGTAATTTT
21306894 GGAAAAGTTT
Statistics
Matches: 161, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
58 32 0.20
59 95 0.59
60 34 0.21
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
Found at i:21306952 original size:30 final size:30
Alignment explanation
Indices: 21306846--21306943 Score: 164
Period size: 29 Copynumber: 3.3 Consensus size: 30
21306836 CGATGAAATC
*
21306846 GGGGTTAAAATGTAA-TTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
21306875 GGGGTCAAAATGTAATTTTGGAAAAG-TTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
21306904 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
21306934 AGGGTCAAAA
1 GGGGTCAAAA
21306944 GATGATTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
29 43 0.66
30 22 0.34
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:21307274 original size:162 final size:163
Alignment explanation
Indices: 21307027--21307372 Score: 484
Period size: 163 Copynumber: 2.1 Consensus size: 163
21307017 GTATCCAGAG
* * * **
21307027 GTCAAGGGACTAATTTGAAAACTTTGAAAAATTTTTGGACCAATTTTTTAATTAAATAAAAGTCG
1 GTCAAAGGACTAATTTGAAAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCG
*
21307092 ATTTAAGGATTAAATTAAAACAAATTAAAAAT-AAAAAGGACTAAATACAGAAATAATCCAAAAA
66 ATTTAAGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATACAGAAATAATCCAAAAA
* *
21307156 GATGACACGTGGCAACCTCTGGTGCAGTCAAACA
131 G-TGACACGTGGCAACCTATGGTACAGTCAAACA
* *
21307190 GTCAAAGGACTAGTTT-ATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAA-ATAAAGT
1 GTCAAAGGACTAATTTGA-AAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATA-AAAGT
* * *
21307253 TGATTT-GGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATGCAGAAATAATCCAAA
64 CGATTTAAGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATACAGAAATAATCCAAA
**
21307317 AAGTGACACGTGGCAGTCTATGGTACAGTCAAACA
129 AAGTGACACGTGGCAACCTATGGTACAGTCAAACA
* *
21307352 GTTAAAGGACTAAATTGAAAA
1 GTCAAAGGACTAATTTGAAAA
21307373 GCAATTAAAA
Statistics
Matches: 161, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
162 71 0.44
163 90 0.56
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (163 bp):
GTCAAAGGACTAATTTGAAAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCG
ATTTAAGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATACAGAAATAATCCAAAAA
GTGACACGTGGCAACCTATGGTACAGTCAAACA
Found at i:21308243 original size:3 final size:3
Alignment explanation
Indices: 21308218--21308269 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
21308208 TTAAAAGATC
* *
21308218 TAT TAAT TAA TAT TAT TAG TAT TAT TAAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
21308265 TAT TA
1 TAT TA
21308270 ATAAATCATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 37 0.86
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:21308244 original size:22 final size:22
Alignment explanation
Indices: 21308218--21308272 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
21308208 TTAAAAGATC
21308218 TATTAATTAATATTATTAGTAT
1 TATTAATTAATATTATTAGTAT
* *
21308240 TATTAATTATTATTATTATTAT
1 TATTAATTAATATTATTAGTAT
21308262 TATT-ATTAATA
1 TATTAATTAATA
21308273 AATCATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTAATTAATATTATTAGTAT
Found at i:21309027 original size:6 final size:6
Alignment explanation
Indices: 21309016--21309087 Score: 73
Period size: 6 Copynumber: 12.7 Consensus size: 6
21309006 TATAATAACA
*
21309016 TTAAAT TTAAA- TTAAAT TTAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
21309061 GTAAAT TTAAGA- TTAAA- ATAAAT TTAA
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAA
21309088 TTTTCAAATG
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
5 18 0.33
6 36 0.65
7 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:21309031 original size:11 final size:11
Alignment explanation
Indices: 21309015--21309090 Score: 91
Period size: 11 Copynumber: 6.8 Consensus size: 11
21309005 TTATAATAAC
21309015 ATTAAATTTAA
1 ATTAAATTTAA
21309026 ATTAAATTTAA
1 ATTAAATTTAA
21309037 ATTTAAATTTAA
1 A-TTAAATTTAA
*
21309049 ATTGAATTTAA
1 ATTAAATTTAA
*
21309060 AGTAAATTTAA
1 ATTAAATTTAA
*
21309071 GATTAAA-ATAA
1 -ATTAAATTTAA
*
21309082 ATTTAATTT
1 ATTAAATTT
21309091 TCAAATGGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
10 5 0.09
11 34 0.62
12 16 0.29
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:21309096 original size:17 final size:16
Alignment explanation
Indices: 21308999--21309090 Score: 87
Period size: 17 Copynumber: 5.5 Consensus size: 16
21308989 GACTTTCTTT
21308999 TTTAATTTATAA-TAACA
1 TTTAATTTA-AATTAA-A
*
21309016 TTAAATTTAAATTAAA
1 TTTAATTTAAATTAAA
21309032 TTTAAATTTAAATTTAAA
1 TTT-AATTTAAA-TTAAA
* *
21309050 TTGAATTTAAAGTAAA
1 TTTAATTTAAATTAAA
* *
21309066 TTTAAGATTAAAATAAA
1 TTTAA-TTTAAATTAAA
21309083 TTTAATTT
1 TTTAATTT
21309091 TCAAATGGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
16 15 0.24
17 41 0.65
18 7 0.11
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (16 bp):
TTTAATTTAAATTAAA
Found at i:21311066 original size:15 final size:15
Alignment explanation
Indices: 21311048--21311090 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
21311038 AATAATAAAA
21311048 TTTAATTTATAATTT
1 TTTAATTTATAATTT
*
21311063 TTTAA---ATTATTT
1 TTTAATTTATAATTT
21311075 TTTAATTTATAATTT
1 TTTAATTTATAATTT
21311090 T
1 T
21311091 AATTGAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
12 11 0.48
15 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAATTTATAATTT
Found at i:21311920 original size:28 final size:29
Alignment explanation
Indices: 21311889--21311948 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
21311879 TTTTGAAACG
*
21311889 TTTTTGAGACAAAAA-AAAAA-AGAAAATA
1 TTTTGGAGACAAAAACAAAAACAGAAAA-A
*
21311917 TTTTGGAGCCAAAAACAAAAACAGAAAAA
1 TTTTGGAGACAAAAACAAAAACAGAAAAA
21311946 TTT
1 TTT
21311949 AATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 13 0.46
29 9 0.32
30 6 0.21
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.22
Consensus pattern (29 bp):
TTTTGGAGACAAAAACAAAAACAGAAAAA
Found at i:21323047 original size:59 final size:58
Alignment explanation
Indices: 21322973--21324061 Score: 609
Period size: 59 Copynumber: 18.5 Consensus size: 58
21322963 ACCCAAAATT
* * *
21322973 TTAATTTTTTTGGTGTTGGTCATGCCATGGTCGACACCCCTATTTATCTGATAGAAAAA
1 TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTATCTGATA-AAAAA
* * * *
21323032 TTAAATTTTTTGGTGTTGGTTATGCAATGACCGACACATCCTTTTT-T-TAGATAAAAAAA
1 TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACAC-CCCTTTTTATCT-GAT-AAAAAA
* * *
21323091 TTTCAAATTTTTTAGTGTTAG-CTATTG-CATGGCCGACACCCCTTTTTATCT-AAATAAAAA
1 -TT-AAATTTTTTGGTGTTGGTC-A-TGCCATGGCCGACACCCCTTTTTATCTGATA-AAAAA
* * * * * * *
21323151 TCAAATTTTTGGGTGTT-GACAATGCCATGACCGGCACCCTCTTTTTGTCCGATAAAAAA
1 TTAAATTTTTTGGTGTTGGTC-ATGCCATGGCCGACACCC-CTTTTTATCTGATAAAAAA
* * * *
21323210 TTTGAATTTTTT-TTGTTGATCATGCCATGGTCGACACCCCTTTTTTTATCTGATAAAAAA
1 -TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCC--TTTTTATCTGATAAAAAA
* * * ** * * * * *
21323270 TTAATTTTTTTTGTTGTTGGCCATGTAATGGTCGACACTCTCTTTTTGTCAGATAAAAAT
1 TTAA-ATTTTTTGGTGTTGGTCATGCCATGGCCGACAC-CCCTTTTTATCTGATAAAAAA
* * * *
21323330 TTAAA-TTTTTGATGTTGG-CAATTG-CATGGCCGACAATCTCTTTTTTATCTGGTAAAAAAA
1 TTAAATTTTTTGGTGTTGGTC-A-TGCCATGGCCGAC-A-CCCCTTTTTATCTGAT-AAAAAA
* * *
21323390 TTTCAAATTTTTTGATGTTAGTCATTG-CATGGCCGACACTCCTTTTTATCTGAATAAAAAAA
1 -TT-AAATTTTTTGGTGTTGGTCA-TGCCATGGCCGACACCCCTTTTTATCTG-AT-AAAAAA
* * * * * * * *
21323452 TTAAATTTTTAGGTATTAGTCATACCATGGCCGACATCCTTGTTTTGTCAGATAAAAAA
1 TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCT-TTTTATCTGATAAAAAA
* * * * *
21323511 TTCAAATTTTTTTTGTGTTGGCCATGTCATGGCTGACACCCCTATTTATCTGATAAAAAAA
1 TT-AAA-TTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTATCTGAT-AAAAAA
* * * *
21323572 TCAAATTTTTTGGTGTTGGTCATGCAATGGCCGACACCTCTTTTT-TCAGATAAAAAAA
1 TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTATCTGAT-AAAAAA
* *
21323630 TTTCAAAATTTTTTGGTGTTGGCCATTG-CATGGCCGACACACCTTTTTATCTGAATAAAAAA
1 -TT--AAATTTTTTGGTGTTGGTCA-TGCCATGGCCGACACCCCTTTTTATCTG-ATAAAAAA
* ** *
21323692 TTAAA-TTTTTGG-G-T-GTC--GACCAT----GA-A--CTTTTTGTCAGAT-A-AAAAAT
1 TTAAATTTTTTGGTGTTGGTCATG-CCATGGCCGACACCCCTTTT-T-ATCTGATAAAAAA
* * * * * *
21323738 TTGAATTTTTTTTTGAGTTGGCCATGCCAT-G-C--C-CCCTTTTTTATCTGGTAAAAAA
1 TT-AA-ATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTATCTGATAAAAAA
* * * * * *
21323793 TTAATTTTTTTGGTGTTGGCCATGCAATAGCTGACACCCCTTTTTGT-TAGATAAAAAA
1 TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTATCT-GATAAAAAA
* **
21323851 TTCAAATTTTTT-GTGTTGGTCATTG-CATGGTCGACATCCTTTTTTTATCT-AGTAAAAAA
1 TT-AAATTTTTTGGTGTTGGTCA-TGCCATGGCCGACA-CCCCTTTTTATCTGA-TAAAAAA
** * * * * *
21323910 GTTTCAAATCTTTTTATTGTTGATCATTG-CATGACCGACATCCTTTTTTATCTAAATAAAAAA
1 --TT-AAAT-TTTTTGGTGTTGGTCA-TGCCATGGCCGACACCCCTTTTTATCT-GATAAAAAA
* * * * *
21323973 TCAAATTTTTTGGTGTTGGTCATACCATGACCGACA-CCCTTTTTTTGTTAGATAAAAAA
1 TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTAT-CT-GATAAAAAA
*
21324032 TTTAATTTTTTTGGTGTTGGTCATGCCATG
1 -TTAAATTTTTTGGTGTTGGTCATGCCATG
21324062 CTATGCCATG
Statistics
Matches: 808, Mismatches: 141, Indels: 161
0.73 0.13 0.15
Matches are distributed among these distances:
46 7 0.01
47 8 0.01
48 1 0.00
49 9 0.01
50 3 0.00
51 1 0.00
52 3 0.00
53 27 0.03
54 8 0.01
55 15 0.02
56 1 0.00
57 7 0.01
58 114 0.14
59 195 0.24
60 157 0.19
61 151 0.19
62 44 0.05
63 55 0.07
64 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (58 bp):
TTAAATTTTTTGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTATCTGATAAAAAA
Found at i:21323318 original size:120 final size:118
Alignment explanation
Indices: 21322967--21324061 Score: 487
Period size: 120 Copynumber: 9.3 Consensus size: 118
21322957 CGATCTACCC
* * * * * *
21322967 AAAATTTTAATTTTTTTGGTGTTGGTCATGCCATGGTCGACACCCC--TATTTATCTGATAGAAA
1 AAAAATTTAAATTTTTT-ATGTTGATCATGCCATGGCCGACACCCCTTTTTTTATCTGATA-AAA
** * *
21323030 AATTAAATTTTTTGGTGTTGGTTATG-CAATGACCGACACATCCTTTTT-TTAGATAA
64 AATTAAATTTTTTGGTGTTGGCCATGTC-ATGGCCGACAC-TCCTTTTTATCAGAT-A
* *
21323086 AAAAATTTCAAATTTTTTAGTGTT-AGCTATTG-CATGGCCGACACCCC--TTTTTATCT-AAAT
1 AAAAATTT-AAATTTTTTA-TGTTGATC-A-TGCCATGGCCGACACCCCTTTTTTTATCTGATA-
* * * * * * * * * *
21323146 AAAAATCAAATTTTTGGGTGTTGACAATGCCATGACCGGCACCCTCTTTTTGTCCGATA
61 AAAAATTAAATTTTTTGGTGTTGGCCATGTCATGGCCGACACTC-CTTTTTATCAGATA
* * *
21323205 AAAAATTTGAATTTTTTTTGTTGATCATGCCATGGTCGACACCCCTTTTTTTATCTGATAAAAAA
1 AAAAATTTAAATTTTTTATGTTGATCATGCCATGGCCGACACCCCTTTTTTTATCTGATAAAAAA
* * * * *
21323270 TTAATTTTTTTTGTTGTTGGCCATGTAATGGTCGACACTCTCTTTTTGTCAGAT-
66 TTAA-ATTTTTTGGTGTTGGCCATGTCATGGCCGACACTC-CTTTTTATCAGATA
* * ** *
21323324 AAAAATTTAAATTTTTGATGTTG-GCAATTG-CATGGCCGACA-ATCTCTTTTTTATCTGGTAAA
1 AAAAATTTAAATTTTTTATGTTGATC-A-TGCCATGGCCGACACCCCT-TTTTTTATCTGAT-AA
* * * *
21323386 AAAATTTCAAATTTTTTGATGTTAGTCAT-TGCATGGCCGACACTCCTTTTTATCTGAATA
62 AAAA-TT-AAATTTTTTGGTGTTGGCCATGT-CATGGCCGACACTCCTTTTTATCAG-ATA
* * * * * * * *
21323446 AAAAAATTAAA-TTTTTAGGTATTAGTCATACCATGGCCGACA-TCCTTGTTTTGTCAGATAAAA
1 AAAAATTTAAATTTTTTATGT-TGA-TCATGCCATGGCCGACACCCCTTTTTTTATCTGATAAAA
* * * * *
21323509 AATTCAAATTTTTTTTGTGTTGGCCATGTCATGGCTGACACCCCTATTTATCTGATA
64 AATT-AAA-TTTTTTGGTGTTGGCCATGTCATGGCCGACACTCCTTTTTATCAGATA
* * * * * * *
21323566 AAAAAATCAAATTTTTTGGTGTTGGTCATGCAATGGCCGACA--CCTCTTTTT-TCAGATAAAAA
1 AAAAATTTAAATTTTTT-ATGTTGATCATGCCATGGCCGACACCCCTTTTTTTATCTGAT-AAAA
* *
21323628 AATTTCAAAATTTTTTGGTGTTGGCCAT-TGCATGGCCGACACACCTTTTTATCTGAATA
64 AA-TT--AAATTTTTTGGTGTTGGCCATGT-CATGGCCGACACTCCTTTTTATCAG-ATA
* * * **
21323687 AAAAA-TTAAA-TTTTT-GGGTG-TC--GACCAT----GA-A---CTTTTTGTCAGAT-A-AAAA
1 AAAAATTTAAATTTTTTATGTTGATCATG-CCATGGCCGACACCCCTTTTT-TTATCTGATAAAA
* * * * * * * *
21323736 ATTTGAATTTTTTTTTGAGTTGGCCATGCCAT-GCC--C-C-CTTTTTTATCTGGTA
64 AATT-AA-ATTTTTTGGTGTTGGCCATGTCATGGCCGACACTCCTTTTTATCAGATA
* * ** * * *
21323788 AAAAA-TTAATTTTTTTGGTGTTGGCCATGCAATAGCTGACACCCCTTTTTGTTA---GATAAAA
1 AAAAATTTAAATTTTTT-ATGTTGATCATGCCATGGCCGACACCCCTTTTT-TTATCTGATAAAA
* *
21323849 AATTCAAATTTTTT-GTGTTGGTCAT-TGCATGGTCGACA-TCCTTTTTTTATCTAG-TA
64 AATT-AAATTTTTTGGTGTTGGCCATGT-CATGGCCGACACTCC--TTTTTATC-AGATA
* * *
21323905 AAAAAGTTTCAAATCTTTTTATTGTTGATCATTG-CATGACCGACA-TCC-TTTTTTATCTAAAT
1 AAAAA-TTT-AAAT-TTTTTA-TGTTGATCA-TGCCATGGCCGACACCCCTTTTTTTATCT-GAT
* * ** * * *
21323967 AAAAAATCAAATTTTTTGGTGTTGGTCATACCATGACCGACAC-CCTTTTTTTGTTAGATA
60 AAAAAATTAAATTTTTTGGTGTTGGCCATGTCATGGCCGACACTCC--TTTTTATCAGATA
* * *
21324027 AAAAATTTAATTTTTTTGGTGTTGGTCATGCCATG
1 AAAAATTTAAATTTTTT-ATGTTGATCATGCCATG
21324062 CTATGCCATG
Statistics
Matches: 759, Mismatches: 136, Indels: 162
0.72 0.13 0.15
Matches are distributed among these distances:
101 11 0.01
102 16 0.02
103 1 0.00
104 4 0.01
105 1 0.00
106 8 0.01
107 22 0.03
108 5 0.01
109 5 0.01
110 5 0.01
111 15 0.02
112 9 0.01
113 9 0.01
114 11 0.01
115 4 0.01
116 4 0.01
117 37 0.05
118 26 0.03
119 161 0.21
120 184 0.24
121 132 0.17
122 74 0.10
123 14 0.02
124 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (118 bp):
AAAAATTTAAATTTTTTATGTTGATCATGCCATGGCCGACACCCCTTTTTTTATCTGATAAAAAA
TTAAATTTTTTGGTGTTGGCCATGTCATGGCCGACACTCCTTTTTATCAGATA
Found at i:21325502 original size:30 final size:30
Alignment explanation
Indices: 21325406--21325512 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 30
21325396 TCCGTTTACT
* * * * *
21325406 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAATTTTAATTTTTAATTTCCTGTATA
* * **
21325436 TTTTAAATTT-ATTTCTAATTTTTTGTATA
1 TTTTAATTTTAATTTTTAATTTCCTGTATA
21325465 TTTTAATTTTAATTTTTAATTTCCTGTATA
1 TTTTAATTTTAATTTTTAATTTCCTGTATA
* *
21325495 TTCTAATTATTATTTTTT
1 TTTTAATT-TTAATTTTT
21325513 GAAAATTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 23 0.36
30 33 0.52
31 8 0.12
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (30 bp):
TTTTAATTTTAATTTTTAATTTCCTGTATA
Found at i:21326637 original size:116 final size:117
Alignment explanation
Indices: 21326448--21326986 Score: 516
Period size: 116 Copynumber: 4.5 Consensus size: 117
21326438 ATTCGGATAA
21326448 AACACAAAAAAAATTGAAATTTTTTTGCCAGATAAAAAA-GAGGATGTCGACCATGCAATGGCCA
1 AACACAAAAAAAATT-AAATTTTTTT--CAGATAAAAAAGGA-G-TGTCGACCATGC-ATGGCCA
*
21326512 ACAC-CAAAAATTCGAATTTTTTATCTGA-AAAAAGGGGGTGTCGGCCATTGCATGGCC
60 ACACAAAAAAATTCGAATTTTTTATCTGATAAAAA-GGGGTGTCGGCCATTGCATGGCC
21326569 AACACAAAAAATAA-T-AATTTTTTTCAGATAAAAAAGGAGTGTCGACCATGGCATGGCCAACA-
1 AACACAAAAAA-AATTAAATTTTTTTCAGATAAAAAAGGAGTGTCGACCAT-GCATGGCCAACAC
* *
21326631 AAAAAAATTCGAATTTTTTATCTGACAAAAAGGGGTGTCGGCCATTACATGGCC
64 AAAAAAATTCGAATTTTTTATCTGATAAAAAGGGGTGTCGGCCATTGCATGGCC
* * *
21326685 AACACCAAAAAAAATTTAAAATTTTTTTATCTGA-AAAAAAGGGGTGTCGGCCATTGCATGGCCA
1 AACA-CAAAAAAAA-TT-AAA-TTTTTT-TCAGATAAAAAAGGAGTGTCGACCA-TGCATGGCCA
* * * * * *
21326749 ACACAAAAAAATT-TAATTTTTTATCAGATAAATAGGGGTGTCGGTC-GTGACATGACC
60 ACACAAAAAAATTCGAATTTTTTATCTGATAAAAAGGGGTGTCGGCCATTG-CATGGCC
* * *
21326806 AACACAAAAAAAATTAAATTTTTTATCTGACAAAAAAGG-GATGTCGATCATTGCATGGCCAACA
1 AACACAAAAAAAATTAAATTTTTT-TCAGATAAAAAAGGAG-TGTCGACCA-TGCATGGCCAACA
** * * * * *
21326870 CCCAAAAATTTGATTTTTTTAT-TAGATTAAAAGGGGCGTCGGTCA-TGCAATGGCC
63 CAAAAAAATTCGAATTTTTTATCT-GATAAAAAGGGGTGTCGGCCATTGC-ATGGCC
* * * *
21326925 AACACCAAAAAAAA-T---TTTTTGTCAGGTAAAAAAGGGGGTGTCGCCCATGCAATGGCCAACA
1 AACA-CAAAAAAAATTAAATTTTTTTCAGATAAAAAA-GGAGTGTCGACCATGC-ATGGCCAACA
21326986 C
63 C
21326987 CAATTTTTTT
Statistics
Matches: 363, Mismatches: 30, Indels: 55
0.81 0.07 0.12
Matches are distributed among these distances:
115 12 0.03
116 96 0.26
117 40 0.11
118 44 0.12
119 49 0.13
120 21 0.06
121 85 0.23
122 16 0.04
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (117 bp):
AACACAAAAAAAATTAAATTTTTTTCAGATAAAAAAGGAGTGTCGACCATGCATGGCCAACACAA
AAAAATTCGAATTTTTTATCTGATAAAAAGGGGTGTCGGCCATTGCATGGCC
Found at i:21326749 original size:179 final size:174
Alignment explanation
Indices: 21326451--21326985 Score: 561
Period size: 179 Copynumber: 3.0 Consensus size: 174
21326441 CGGATAAAAC
* * *
21326451 ACAAAAAAAATTGAAATTTTTT-TGCCAGATAAAAAAGAGGATGTCGACCA-TGCAATGGCCAAC
1 ACAAAAAAAATT-AAATTTTTTAT--CTGACAAAAAAG-GGATGTCGACCATTAC-ATGGCCAAC
* *
21326514 ACC-AAAAATTCGAA-TTTTTTATCTGAAAAAAGGGGGTGTCGGCCATTGCATGGCCAACACAAA
61 ACCAAAAAATT-TAATTTTTTTATCTGAAAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAAA
*
21326577 AAATAATAATTTTTTTCAGATAAAAAAGGAGTGTCGACCATGGCATGGCCA
125 AAA-AATAATTTTTTTCAGATAAAAAAGGGGTGTCGACCATGGCATGGCCA
* * *
21326628 ACAAAAAAAATTCGAATTTTTTATCTGAC-AAAAAGGGGTGTCGGCCATTACATGGCCAACACCA
1 ACAAAAAAAATT-AAATTTTTTATCTGACAAAAAAGGGATGTCGACCATTACATGGCCAACACC-
21326692 AAAAAAATTTAAAATTTTTTTATCTGAAAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAAAA
64 -AAAAAATTT--AATTTTTTTATCTGAAAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAAAA
* * ** * * *
21326757 AAATTTAATTTTTTATCAGAT-AAATAGGGGTGTCGGTCGTGACATGACCAA
126 AAA-ATAATTTTTT-TCAGATAAAAAAGGGGTGTCGACCATGGCATGGCC-A
* * *
21326808 CACAAAAAAAATTAAATTTTTTATCTGACAAAAAAGGGATGTCGATCATTGCATGGCCAACACCC
1 -ACAAAAAAAATTAAATTTTTTATCTGACAAAAAAGGGATGTCGACCATTACATGGCCAACACCA
* ** * *
21326873 AAAAATTTGATTTTTTTAT-TAGATTAAAAGGGGCGTCGGTCA-TGCAATGGCCAACACCAAAAA
65 AAAAATTTAATTTTTTTATCT-GAAAAAAAGGGGTGTCGGCCATTGC-ATGGCCAACA-CAAAAA
* * *
21326936 AAAT--TTTTTGTCAGGTAAAAAAGGGGGTGTCGCCCAT-GCAATGGCCA
127 AAATAATTTTTTTCAGATAAAAAA-GGGGTGTCGACCATGGC-ATGGCCA
21326983 ACA
1 ACA
21326986 CCAATTTTTT
Statistics
Matches: 302, Mismatches: 37, Indels: 41
0.79 0.10 0.11
Matches are distributed among these distances:
174 30 0.10
175 19 0.06
176 23 0.08
177 65 0.22
178 12 0.04
179 89 0.29
180 22 0.07
181 42 0.14
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (174 bp):
ACAAAAAAAATTAAATTTTTTATCTGACAAAAAAGGGATGTCGACCATTACATGGCCAACACCAA
AAAATTTAATTTTTTTATCTGAAAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAAAAAAAAT
AATTTTTTTCAGATAAAAAAGGGGTGTCGACCATGGCATGGCCA
Found at i:21326771 original size:121 final size:120
Alignment explanation
Indices: 21326448--21326940 Score: 530
Period size: 121 Copynumber: 4.1 Consensus size: 120
21326438 ATTCGGATAA
*
21326448 AACACAAAAAAAATTGAAATTTTTT-TGCCAGATAAAAAAGAGGATGTCGACCA-TGCAATGGCC
1 AACACAAAAAAAATTAAAATTTTTTAT--CAGATAAAAAAG-GGATGTCGACCATTGC-ATGGCC
* *
21326511 AACAC-CAAAAATTCGAATTTTTTATCTGA-AAAAAGGGGGTGTCGGCCATTGCATGGCC
62 AACACAAAAAAATTCGAATTTTTTATCTGATAAAAA-GGGGTGTCGGCCATTACATGGCC
*
21326569 AACAC--AAAAAA-TAATAATTTTTT-TCAGATAAAAAA-GGAGTGTCGACCATGGCATGGCCAA
1 AACACAAAAAAAATTAA-AATTTTTTATCAGATAAAAAAGGGA-TGTCGACCATTGCATGGCCAA
*
21326629 CA-AAAAAAATTCGAATTTTTTATCTGACAAAAAGGGGTGTCGGCCATTACATGGCC
64 CACAAAAAAATTCGAATTTTTTATCTGATAAAAAGGGGTGTCGGCCATTACATGGCC
* * *
21326685 AACACCAAAAAAAATTTAAAATTTTTTTATCTGA-AAAAAAGGGGTGTCGGCCATTGCATGGCCA
1 AACA-CAAAAAAAA-TTAAAA-TTTTTTATCAGATAAAAAAGGGATGTCGACCATTGCATGGCCA
* * * * * * *
21326749 ACACAAAAAAATT-TAATTTTTTATCAGATAAATAGGGGTGTCGGTCGTGACATGACC
63 ACACAAAAAAATTCGAATTTTTTATCTGATAAAAAGGGGTGTCGGCCATTACATGGCC
* * *
21326806 AACACAAAAAAAATT-AAATTTTTTATCTGACAAAAAAGGGATGTCGATCATTGCATGGCCAACA
1 AACACAAAAAAAATTAAAATTTTTTATCAGATAAAAAAGGGATGTCGACCATTGCATGGCCAACA
** * * * * * *
21326870 CCCAAAAATTTGATTTTTTTAT-TAGATTAAAAGGGGCGTCGGTCA-TGCAATGGCC
66 CAAAAAAATTCGAATTTTTTATCT-GATAAAAAGGGGTGTCGGCCATTAC-ATGGCC
21326925 AACACCAAAAAAAATT
1 AACA-CAAAAAAAATT
21326941 TTTTGTCAGG
Statistics
Matches: 322, Mismatches: 31, Indels: 39
0.82 0.08 0.10
Matches are distributed among these distances:
115 3 0.01
116 68 0.21
117 31 0.10
118 44 0.14
119 58 0.18
120 22 0.07
121 81 0.25
122 15 0.05
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (120 bp):
AACACAAAAAAAATTAAAATTTTTTATCAGATAAAAAAGGGATGTCGACCATTGCATGGCCAACA
CAAAAAAATTCGAATTTTTTATCTGATAAAAAGGGGTGTCGGCCATTACATGGCC
Found at i:21326923 original size:59 final size:57
Alignment explanation
Indices: 21326481--21326989 Score: 410
Period size: 58 Copynumber: 8.6 Consensus size: 57
21326471 TTTGCCAGAT
* * *
21326481 AAAAAAGAGGATGTCGACCATGCAATGGCCAACACC-AAAAATTCGAATTTTTTATCTG
1 AAAAAAG-GGGTGTCGGCCATGC-ATGGCCAACACCAAAAAATTTGAATTTTTTATCTG
* *
21326539 AAAAAAGGGGGTGTCGGCCATTGCATGGCCAACA-CAAAAAATAAT-AATTTTTT-TCAG
1 AAAAAA-GGGGTGTCGGCCA-TGCATGGCCAACACCAAAAAAT-TTGAATTTTTTATCTG
* * * *
21326596 ATAAAAAAGGAGTGTCGACCATGGCATGGCCAACA-AAAAAAATTCGAATTTTTTATCTG
1 --AAAAAAGGGGTGTCGGCCAT-GCATGGCCAACACCAAAAAATTTGAATTTTTTATCTG
* *
21326655 ACAAAAAGGGGTGTCGGCCATTACATGGCCAACACCAAAAAAAATTTAAAATTTTTTTATCTG
1 A-AAAAAGGGGTGTCGGCCA-TGCATGGCCAACACC--AAAAAATTT-GAA-TTTTTTATCTG
* *
21326718 AAAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAAAAAAATTT-AATTTTTTATCAG
1 -AAAAAAGGGGTGTCGGCCA-TGCATGGCCAACACCAAAAAATTTGAATTTTTTATCTG
* * * * * * *
21326776 ATAAATAGGGGTGTCGGTCGTGACATGACCAACACAAAAAAAATTAAATTTTTTATCTG
1 A-AAAAAGGGGTGTCGGCCATG-CATGGCCAACACCAAAAAATTTGAATTTTTTATCTG
* ** * *
21326835 ACAAAAAAGGGATGTCGATCATTGCATGGCCAACACCCAAAAATTTGATTTTTTTAT-TAG
1 --AAAAAAGGGGTGTCGGCCA-TGCATGGCCAACACCAAAAAATTTGAATTTTTTATCT-G
* * * * *
21326895 ATTAAAAGGGGCGTCGGTCATGCAATGGCCAACACCAAAAAA----AATTTTTTGTCAGG
1 A-AAAAAGGGGTGTCGGCCATGC-ATGGCCAACACCAAAAAATTTGAATTTTTTATC-TG
*
21326951 TAAAAAAGGGGGTGTCGCCCATGCAATGGCCAACACCAA
1 -AAAAAA-GGGGTGTCGGCCATGC-ATGGCCAACACCAA
21326990 TTTTTTTTTA
Statistics
Matches: 373, Mismatches: 48, Indels: 61
0.77 0.10 0.13
Matches are distributed among these distances:
55 8 0.02
56 5 0.01
57 38 0.10
58 154 0.41
59 60 0.16
60 42 0.11
61 20 0.05
62 2 0.01
63 43 0.12
64 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (57 bp):
AAAAAAGGGGTGTCGGCCATGCATGGCCAACACCAAAAAATTTGAATTTTTTATCTG
Found at i:21329404 original size:2 final size:2
Alignment explanation
Indices: 21329397--21329430 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21329387 TCTTCAATTC
21329397 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
21329431 TTGGTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21332433 original size:58 final size:58
Alignment explanation
Indices: 21332350--21332575 Score: 269
Period size: 58 Copynumber: 3.9 Consensus size: 58
21332340 TTAATATAAC
* * * *
21332350 ATTTAGTACTTGAACTTGACACTTTTTAC-TAATTTGGTACCTAAA-TTTTTTTGA-CTCA
1 ATTTGGTACCTGAACTTGACA-TTTTT-CTTAATTCGGTACCTAAACTTTTTTGGATC-CA
* *
21332408 ATTTGGTACCTGGACTTGATACTTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
1 ATTTGGTACCTGAACTTGACA-TTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
* * *
21332467 ATTTTGTACTTGAACTTGGCATTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
1 ATTTGGTACCTGAACTTGACATTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
* * * * *
21332525 ATTTGGTACTTGAACTTGGCATTTTTCTTATTTTGGTACCTAAGCTTTTTT
1 ATTTGGTACCTGAACTTGACATTTTTCTTAATTCGGTACCTAAACTTTTTT
21332576 TTAGATTCAA
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
57 1 0.01
58 122 0.81
59 26 0.17
60 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (58 bp):
ATTTGGTACCTGAACTTGACATTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
Found at i:21332532 original size:28 final size:28
Alignment explanation
Indices: 21332438--21332533 Score: 72
Period size: 28 Copynumber: 3.4 Consensus size: 28
21332428 ACTTTTTCTT
21332438 AATTCGGTACCTAAACTTTTTTGGATCC
1 AATTCGGTACCTAAACTTTTTTGGATCC
** * * *
21332466 AATTTTGTACTTGAACTTGGCATTTT---TCTT
1 AATTCGGTACCTAAACTT----TTTTGGATC-C
21332496 AATTCGGTACCTAAACTTTTTTGGATCC
1 AATTCGGTACCTAAACTTTTTTGGATCC
*
21332524 AATTTGGTAC
1 AATTCGGTAC
21332534 TTGAACTTGG
Statistics
Matches: 49, Mismatches: 11, Indels: 16
0.64 0.14 0.21
Matches are distributed among these distances:
26 4 0.08
28 23 0.47
29 4 0.08
30 14 0.29
32 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (28 bp):
AATTCGGTACCTAAACTTTTTTGGATCC
Found at i:21332553 original size:116 final size:117
Alignment explanation
Indices: 21332350--21332575 Score: 298
Period size: 116 Copynumber: 1.9 Consensus size: 117
21332340 TTAATATAAC
* *
21332350 ATTTAGTACTTGAACTTGACACTTTTTACTAATTTGGTACCTAAATTTTTTTGACTCAATTTGGT
1 ATTTAGTACTTGAACTTGACACTTTTTACTAATTCGGTACCTAAATTTTTTGGACTCAATTTGGT
* *
21332415 ACCTGGACTTGATACTTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
66 ACCTGAACTTGACACTTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
* *
21332467 ATTTTGTACTTGAACTTGGCA-TTTTT-CTTAATTCGGTACCTAAACTTTTTTGGA-TCCAATTT
1 ATTTAGTACTTGAACTTGACACTTTTTAC-TAATTCGGTACCTAAA-TTTTTTGGACT-CAATTT
* * * * *
21332529 GGTACTTGAACTTGGCA-TTTTTCTTATTTTGGTACCTAAGCTTTTTT
63 GGTACCTGAACTTGACACTTTTTCTTAATTCGGTACCTAAACTTTTTT
21332576 TTAGATTCAA
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
115 1 0.01
116 48 0.51
117 46 0.48
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (117 bp):
ATTTAGTACTTGAACTTGACACTTTTTACTAATTCGGTACCTAAATTTTTTGGACTCAATTTGGT
ACCTGAACTTGACACTTTTTCTTAATTCGGTACCTAAACTTTTTTGGATCCA
Found at i:21332900 original size:90 final size:89
Alignment explanation
Indices: 21332751--21332916 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 89
21332741 GATTAGGTAT
* * ** *
21332751 CAAATTAGGAAAAAGAGTCAAGTTTAAGTACCAAATTGGACCCTAAAAAGTTCAAGTACCAACTT
1 CAAATTAAGAAAAAGAGTCAAATTTAAGTACCAAATTGGACCAAAAAAAGTTCAAGTACCAAATT
21332816 ATAAAAAAGTGTCAAATTTAGGTGC
66 A-AAAAAAGTGTCAAATTTAGGTGC
* * * * *
21332841 CAAATTAAGAAAAAGTGTCAAATTTGAGTACCAGATTGGA-CAAAAAATAGTTTAGGTACCAAAT
1 CAAATTAAGAAAAAGAGTCAAATTTAAGTACCAAATTGGACCAAAAAA-AGTTCAAGTACCAAAT
21332905 TAAAAAAAGTGT
65 TAAAAAAAGTGT
21332917 TAAGTTCAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
89 15 0.23
90 50 0.77
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (89 bp):
CAAATTAAGAAAAAGAGTCAAATTTAAGTACCAAATTGGACCAAAAAAAGTTCAAGTACCAAATT
AAAAAAAGTGTCAAATTTAGGTGC
Found at i:21333120 original size:53 final size:54
Alignment explanation
Indices: 21333038--21333142 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 54
21333028 TTCAAAGAAC
* *
21333038 CTAAATAAAAAAAATTATTTTAGGGGAAGCTCACCCTACCAATCCCTAATTTTA
1 CTAAATAAAAAAAATCATTTTAGGAGAAGCTCACCCTACCAATCCCTAATTTTA
*
21333092 CTAAAT-AAAAAAATCATTTTAGGAGAAGCTCACCCTACCAGTCCCTAATTT
1 CTAAATAAAAAAAATCATTTTAGGAGAAGCTCACCCTACCAATCCCTAATTT
21333143 CACCTCTGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 42 0.88
54 6 0.12
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (54 bp):
CTAAATAAAAAAAATCATTTTAGGAGAAGCTCACCCTACCAATCCCTAATTTTA
Found at i:21336363 original size:2 final size:2
Alignment explanation
Indices: 21336356--21336381 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21336346 TTAAATTTAA
21336356 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
21336382 TGGATAATTT
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:21336449 original size:21 final size:21
Alignment explanation
Indices: 21336423--21336471 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
21336413 ATTTATATAC
21336423 ATTTTTCTAAATT-TTTCATAT
1 ATTTTT-TAAATTCTTTCATAT
21336444 ATTTTTTAAATTCTTT--TAT
1 ATTTTTTAAATTCTTTCATAT
*
21336463 ATTCTTTAA
1 ATTTTTTAA
21336472 TGCTTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 6 0.23
21 9 0.35
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTTAAATTCTTTCATAT
Found at i:21336465 original size:19 final size:19
Alignment explanation
Indices: 21336396--21336471 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
21336386 TAATTTTTTA
*
21336396 TTTT-TATACTTTTTATAAT
1 TTTTATATATTTTTTA-AAT
* *
21336415 TTATATACATTTTTCTAAAT
1 TTTTATATATTTTT-TAAAT
21336435 TTTTCATATATTTTTTAAAT
1 TTTT-ATATATTTTTTAAAT
*
21336455 TCTTT-TATATTCTTTAA
1 T-TTTATATATTTTTTAA
21336472 TGCTTATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.30
20 19 0.40
21 14 0.30
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATATATTTTTTAAAT
Found at i:21342912 original size:13 final size:13
Alignment explanation
Indices: 21342877--21342915 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
21342867 GGTCATACTT
* *
21342877 ATTTTTTTAGATA
1 ATTTTTTTAAAAA
21342890 ATTTTATTTAAAAA
1 ATTTT-TTTAAAAA
21342904 ATTTTTTTAAAA
1 ATTTTTTTAAAA
21342916 CATAATACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
ATTTTTTTAAAAA
Found at i:21343037 original size:38 final size:39
Alignment explanation
Indices: 21342965--21343054 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
21342955 ACATTAAAAA
** *
21342965 TATTATATTAAAAACTATGAAATAAATATAATAAACATTT
1 TATTATATTAAAAAC-AACAAATAAATATAATAAAAATTT
*
21343005 TATTATATTAAAAA-AACAAATAAATATGATAAAAATTT
1 TATTATATTAAAAACAACAAATAAATATAATAAAAATTT
*
21343043 TATTGTATTAAA
1 TATTATATTAAA
21343055 TATAATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
38 31 0.69
40 14 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (39 bp):
TATTATATTAAAAACAACAAATAAATATAATAAAAATTT
Done.