Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 117 of 121
Found at i:20184273 original size:25 final size:25
Alignment explanation
Indices: 20184214--20184274 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
20184204 GTATATTCAT
*
20184214 AAATAATAAATAAATTATAATCAAAC
1 AAAT-ATAAATAAATAATAATCAAAC
* *
20184240 AAATTTAAATAAATAAATTAT-AAAC
1 AAATATAAATAAAT-AATAATCAAAC
20184265 AAATATAAAT
1 AAATATAAAT
20184275 GAACCAACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATATAAATAAATAATAATCAAAC
Found at i:20191351 original size:13 final size:13
Alignment explanation
Indices: 20191333--20191361 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20191323 ATATTTAAGA
20191333 CTCCAATTGCTTT
1 CTCCAATTGCTTT
20191346 CTCCAATTGCTTT
1 CTCCAATTGCTTT
20191359 CTC
1 CTC
20191362 ATTTGTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.34, G:0.07, T:0.45
Consensus pattern (13 bp):
CTCCAATTGCTTT
Found at i:20194289 original size:13 final size:12
Alignment explanation
Indices: 20194271--20194305 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
20194261 CCAATTTGGT
20194271 TTTTATTTTGTAA
1 TTTTATTTT-TAA
*
20194284 TTTTATTTTTAT
1 TTTTATTTTTAA
20194296 TTTTATTTTT
1 TTTTATTTTT
20194306 TTTCTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:20194481 original size:22 final size:20
Alignment explanation
Indices: 20194455--20194526 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
20194445 ATTTATTTAT
*
20194455 TATTTTTTTACTTATCTTGTA
1 TATTTTTTTAATTATC-TGTA
*
20194476 GTA-TTTTTTATTTATCT-TA
1 -TATTTTTTTAATTATCTGTA
20194495 TTATTATTTTTAATTATCTGTTA
1 -TATT-TTTTTAATTATCTG-TA
20194518 TATTTTTTT
1 TATTTTTTT
20194527 TTCTTTTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
19 4 0.09
20 2 0.05
21 29 0.67
22 6 0.14
23 2 0.05
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTTTTAATTATCTGTA
Found at i:20194522 original size:41 final size:40
Alignment explanation
Indices: 20194445--20194541 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 40
20194435 TATTATTATA
*
20194445 ATTTATTTATTATTTTTTTACTTATCTTGTAGTATTTTTT
1 ATTTATTTATTATTTTTTTAATTATCTTGTAGTATTTTTT
20194485 ATTTATCTTATTATTATTTTTAATTATC-TGTTA-TATTTTTT
1 ATTTAT-TTATTATT-TTTTTAATTATCTTG-TAGTATTTTTT
* *
20194526 -TTTCTTT-TTCTTTTTT
1 ATTTATTTATTATTTTTT
20194542 CGTTTATCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
37 4 0.08
38 4 0.08
39 2 0.04
40 10 0.20
41 18 0.35
42 13 0.25
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (40 bp):
ATTTATTTATTATTTTTTTAATTATCTTGTAGTATTTTTT
Found at i:20194527 original size:22 final size:21
Alignment explanation
Indices: 20194447--20194527 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 21
20194437 TTATTATAAT
*
20194447 TTAT-TTATTA-TTTTTTTAC
1 TTATCTTATTATTTTTTTTAA
* * *
20194466 TTATCTT-GTAGTATTTTTTAT
1 TTATCTTATTA-TTTTTTTTAA
*
20194487 TTATCTTATTATTATTTTTAA
1 TTATCTTATTATTTTTTTTAA
20194508 TTATCTGT-TATATTTTTTTT
1 TTATCT-TAT-TATTTTTTTT
20194528 TCTTTTTCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
19 6 0.12
20 2 0.04
21 28 0.58
22 12 0.25
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (21 bp):
TTATCTTATTATTTTTTTTAA
Found at i:20194561 original size:20 final size:21
Alignment explanation
Indices: 20194532--20194582 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
20194522 TTTTTTTCTT
* *
20194532 TTTCTTTTTTCGTTTATCTGA
1 TTTCTTTTTTCATTTATCAGA
20194553 TTT-TTTTTTCATTTATCAGA
1 TTTCTTTTTTCATTTATCAGA
20194573 TTTCTTTTTT
1 TTTCTTTTTT
20194583 TCTTTTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTCTTTTTTCATTTATCAGA
Found at i:20195477 original size:21 final size:21
Alignment explanation
Indices: 20195453--20195497 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20195443 TTAGATTAGG
20195453 TTTATTTAATATTT-TTTTATC
1 TTTATTTAATATTTGTTTTA-C
* *
20195474 TTTATTTTATTTTTGTTTTAC
1 TTTATTTAATATTTGTTTTAC
20195495 TTT
1 TTT
20195498 TCTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTATTTAATATTTGTTTTAC
Found at i:20195537 original size:40 final size:40
Alignment explanation
Indices: 20195462--20195538 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
20195452 GTTTATTTAA
* *
20195462 TATTTTTTTATCTTTATTTTATTTTTGTTTTACTTTTCTT
1 TATTTTTTTATCTTTATTTTATTTATGTTTCACTTTTCTT
20195502 TATTTTTTTAAT-TTTAATTTTATTTAT-TTTCACTTTT
1 TATTTTTTT-ATCTTT-ATTTTATTTATGTTTCACTTTT
20195539 ATTTTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 21 0.64
41 12 0.36
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (40 bp):
TATTTTTTTATCTTTATTTTATTTATGTTTCACTTTTCTT
Found at i:20195614 original size:27 final size:27
Alignment explanation
Indices: 20195584--20195674 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
20195574 ATAAAAAAAT
20195584 ATTTTTTGAAAAAAGTTGAAAGTATCA
1 ATTTTTTGAAAAAAGTTGAAAGTATCA
* *
20195611 ATTTTCCTTGAAAATCAAAGTTTCCAAAGAAT--
1 ATTTT--TTG-AAA--AAAG-TT-GAAAGTATCA
* *
20195643 ATTTTTGGAGAAAAGTTGAAAGTATCA
1 ATTTTTTGAAAAAAGTTGAAAGTATCA
20195670 ATTTT
1 ATTTT
20195675 CCTTAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 6 0.12
26 2 0.04
27 14 0.29
29 5 0.10
30 5 0.10
32 9 0.18
33 2 0.04
34 6 0.12
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (27 bp):
ATTTTTTGAAAAAAGTTGAAAGTATCA
Found at i:20195648 original size:59 final size:58
Alignment explanation
Indices: 20195576--20195971 Score: 449
Period size: 59 Copynumber: 6.7 Consensus size: 58
20195566 AAATAAAAAT
* *
20195576 AAAAAAATATTTTTTGAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTTTC
* * * * *
20195635 CAAAGAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
1 AAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
*** * *
20195693 AAAAAAAGCGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
*
20195752 AAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAAAGTTTC
1 AAAAAAATAT-TTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAAGTTTC
* * *
20195813 TAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTC
1 -AAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* ** *
20195871 -AAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAAT-ATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* * *
20195930 AAAAGAATTTTTTTTTTTG-GAAAAATTGAAAGTATCAATTTT
1 AAAA-AA--ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTT
20195972 TCCTGCACAA
Statistics
Matches: 291, Mismatches: 33, Indels: 25
0.83 0.09 0.07
Matches are distributed among these distances:
56 7 0.02
57 6 0.02
58 47 0.16
59 144 0.49
60 34 0.12
61 32 0.11
62 18 0.06
63 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
Found at i:20200041 original size:9 final size:10
Alignment explanation
Indices: 20200021--20200052 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
20200011 AAAAGGTCTC
*
20200021 AAAAATGAAA
1 AAAAAAGAAA
20200031 AAAAAAGAAA
1 AAAAAAGAAA
20200041 AAAAAAGAAA
1 AAAAAAGAAA
20200051 AA
1 AA
20200053 TAAATACCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:20202228 original size:41 final size:41
Alignment explanation
Indices: 20202166--20202379 Score: 266
Period size: 41 Copynumber: 5.0 Consensus size: 41
20202156 ATGATTGTCA
* *
20202166 AGGAGCATTTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
20202207 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
20202248 AGGAGCAATTTACCAATTTACTTTCTCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTT----A--T--TTT-TCAAAGTCGTGGTGCCTCTGTTTAG
** *
20202298 AAAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
20202339 AGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
20202380 TACCTCTGTT
Statistics
Matches: 151, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
41 110 0.73
42 3 0.02
45 1 0.01
46 1 0.01
47 1 0.01
49 3 0.02
50 32 0.21
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:20202286 original size:50 final size:48
Alignment explanation
Indices: 20202212--20202446 Score: 178
Period size: 41 Copynumber: 5.0 Consensus size: 48
20202202 TTTAGAGGAG
*
20202212 CAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTAC
1 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTT-AAGGAGCAATTTAC
* *
20202261 CAATTTACTTTCTCAAAGTCATGGTGCCTCTGTTT-A-GA--AA---AG
1 CAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAAGGAGCAATTTAC
20202303 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT--
1 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA-AGGAGCAATTTAC
* * ** *
20202350 -AATTT-C----CAAAGTCGTGGTGCCTCTGTTT-AGTACCTCTGTTTAGAGGAG
1 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAGGA--GCAATTT-----AC
*
20202398 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA-AGGAGCAATTTAC
20202447 TTTTCAAAAA
Statistics
Matches: 147, Mismatches: 13, Indels: 52
0.69 0.06 0.25
Matches are distributed among these distances:
39 3 0.02
41 48 0.33
42 12 0.08
43 1 0.01
44 2 0.01
45 3 0.02
46 7 0.05
47 2 0.01
48 1 0.01
49 16 0.11
50 23 0.16
54 26 0.18
56 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (48 bp):
CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAGGAGCAATTTAC
Found at i:20202343 original size:91 final size:90
Alignment explanation
Indices: 20202174--20202350 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
20202164 CAAGGAGCAT
* * ** *
20202174 TTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCC
1 TTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAAAAGCAATTTACTTTTCAAAGTCGTGGTGCC
20202239 TCTGTTTAAAGGAGCAATTTACCAA
66 TCTGTTTAAAGGAGCAATTTACCAA
20202264 TTTACTTTCTCAAAGTCATGGTGCCTCTGTTTAGAAAAGCAATTTACTTTTCAAAGTCGTGGTGC
1 TTTACTTTC-CAAAGTCATGGTGCCTCTGTTTAGAAAAGCAATTTACTTTTCAAAGTCGTGGTGC
*
20202329 CTCTGTTTAGAGGAGCAATTTA
65 CTCTGTTTAAAGGAGCAATTTA
20202351 ATTTCCAAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 8 0.10
91 72 0.90
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (90 bp):
TTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAAAAGCAATTTACTTTTCAAAGTCGTGGTGCC
TCTGTTTAAAGGAGCAATTTACCAA
Found at i:20202410 original size:54 final size:54
Alignment explanation
Indices: 20202328--20202433 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
20202318 AGTCGTGGTG
20202328 CCTCTGTTTAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGTA
1 CCTCTGTTTAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGTA
*
20202382 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 CCTCTGTTTAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAG
20202434 AGGAGCAATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (54 bp):
CCTCTGTTTAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGTA
Found at i:20202423 original size:95 final size:95
Alignment explanation
Indices: 20202196--20202475 Score: 324
Period size: 95 Copynumber: 3.0 Consensus size: 95
20202186 AGTCGTGGTG
* *
20202196 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTT-A
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAA
** * * * * *
20202260 ---CCAATTTAC-T--T-TCTCAAAGTCATGGTG
66 TTTCCAAAAT-CGTGGTGCCTC--TGT-TTAGTA
**
20202287 CCTCTGTTTAGAAAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAA
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAA
*
20202352 TTTCCAAAGTCGTGGTGCCTCTGTTTAGTA
66 TTTCCAAAATCGTGGTGCCTCTGTTTAGTA
*
20202382 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-
* *
20202447 TTTTCAAAAATCGTGGTGCCTCTGTTTAG
65 ATTTCCAAAATCGTGGTGCCTCTGTTTAG
20202476 AGGAGCAATT
Statistics
Matches: 163, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
91 59 0.36
92 1 0.01
94 1 0.01
95 70 0.43
96 28 0.17
97 1 0.01
98 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (95 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAA
TTTCCAAAATCGTGGTGCCTCTGTTTAGTA
Found at i:20202530 original size:42 final size:42
Alignment explanation
Indices: 20202382--20202566 Score: 201
Period size: 42 Copynumber: 4.4 Consensus size: 42
20202372 CTGTTTAGTA
* *
20202382 CCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGAG
* * * *
20202423 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAATCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGAG
** * *
20202465 CCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTTGTTGAG
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGAG
* * * * *
20202507 CCTCTGATTAGAGGAGCCATTTATGTTTCTCAAAGTCATTGAG
1 CCTCTGTTTAGAGGAGCAATTTATTTTTC-CAAAGTCGTGGAG
**
20202550 CCTCTGCCTAGAGGAGC
1 CCTCTGTTTAGAGGAGC
20202567 TTTGATCAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
41 23 0.19
42 75 0.61
43 25 0.20
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (42 bp):
CCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGAG
Found at i:20202767 original size:6 final size:6
Alignment explanation
Indices: 20202747--20202782 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
20202737 CCCAATTTGG
20202747 TTTTTA TTTTGTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTT
20202783 TTTCTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:20202782 original size:7 final size:7
Alignment explanation
Indices: 20202747--20202818 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
20202737 CCCAATTTGG
20202747 TTTTTAT
1 TTTTTAT
*
20202754 TTTGTA-
1 TTTTTAT
20202760 TTTTTA-
1 TTTTTAT
20202766 TTTTTA-
1 TTTTTAT
20202772 TTTTTAT
1 TTTTTAT
*
20202779 TTTTTTT
1 TTTTTAT
20202786 CTTTTGTAT
1 -TTTT-TAT
20202795 TTTATGTAT
1 TTT-T-TAT
*
20202804 TATTTAT
1 TTTTTAT
*
20202811 TTATTAT
1 TTTTTAT
20202818 T
1 T
20202819 ACTATATATT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
6 17 0.31
7 20 0.37
8 8 0.15
9 9 0.17
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:20202930 original size:14 final size:15
Alignment explanation
Indices: 20202891--20202933 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
20202881 ATATGTATTT
*
20202891 TATTTATCTAGTTATA
1 TATTTATTTA-TTATA
20202907 TATTTA-TTATTATA
1 TATTTATTTATTATA
20202921 -ATTTATTTATTAT
1 TATTTATTTATTAT
20202934 TTTTTTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 2 0.08
16 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTTATTTATTATA
Found at i:20202980 original size:21 final size:21
Alignment explanation
Indices: 20202910--20202989 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
20202900 AGTTATATAT
* *
20202910 TTATTATTATAATTTAT-TTA
1 TTATTATTTTTATTTATCTTA
*
20202930 TTATT-TTTTTACTTATCTT-
1 TTATTATTTTTATTTATCTTA
* *
20202949 GTAGTATTTTTTATTTATCTTA
1 TTATTA-TTTTTATTTATCTTA
*
20202971 TTATTATTTTTAATTATCT
1 TTATTATTTTTATTTATCT
20202990 ATTTTTTTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 11 0.23
20 7 0.15
21 25 0.53
22 4 0.09
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (21 bp):
TTATTATTTTTATTTATCTTA
Found at i:20202998 original size:17 final size:18
Alignment explanation
Indices: 20202968--20203018 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
20202958 TTTATTTATC
*
20202968 TTAT-TATTATTTTT-AA
1 TTATCTATTTTTTTTCAA
**
20202984 TTATCTATTTTTTTTCGT
1 TTATCTATTTTTTTTCAA
20203002 TTATCTGATTTTTTTTC
1 TTATCT-ATTTTTTTTC
20203019 GTTTATCAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
18 6 0.21
19 10 0.34
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.71
Consensus pattern (18 bp):
TTATCTATTTTTTTTCAA
Found at i:20203018 original size:19 final size:19
Alignment explanation
Indices: 20202984--20203036 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
20202974 TTATTTTTAA
20202984 TTATCT-ATTTTTTTTCGT
1 TTATCTGATTTTTTTTCGT
20203002 TTATCTGATTTTTTTTCGT
1 TTATCTGATTTTTTTTCGT
*
20203021 TTATCAGATTTTTTTT
1 TTATCTGATTTTTTTT
20203037 TCTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 6 0.18
19 27 0.82
ACGTcount: A:0.13, C:0.09, G:0.08, T:0.70
Consensus pattern (19 bp):
TTATCTGATTTTTTTTCGT
Found at i:20203924 original size:4 final size:4
Alignment explanation
Indices: 20203870--20203908 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
20203860 TTTTTTTTGA
* *
20203870 ATTT ATTT ATTT ATTT GTTT ATTT ATTT TTTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
20203909 AGATTAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:20203948 original size:11 final size:10
Alignment explanation
Indices: 20203939--20204021 Score: 60
Period size: 11 Copynumber: 7.6 Consensus size: 10
20203929 TCTTTTTATC
20203939 TTTATTTTATT
1 TTTATTTT-TT
20203950 TTTATTTTTGT
1 TTTATTTTT-T
20203961 TTTACTTTTCTT
1 TTTA-TTTT-TT
20203973 TATT-TTTTTAT
1 T-TTATTTTT-T
*
20203984 TTTATTTTTA
1 TTTATTTTTT
*
20203994 TTTATTTTCACT
1 TTTATTTT--TT
*
20204006 TTTATTTTGT
1 TTTATTTTTT
20204016 TTTATT
1 TTTATT
20204022 ATTCTATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
10 19 0.32
11 24 0.40
12 14 0.23
13 3 0.05
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:20203949 original size:5 final size:5
Alignment explanation
Indices: 20203932--20204021 Score: 62
Period size: 5 Copynumber: 17.4 Consensus size: 5
20203922 TTAATATTCT
* *
20203932 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA -TTT-
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
*
20203978 TTTTA TTTTA TTTT- TATTTA TTTTCA CTTTTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTTA T-TTTA TTTT-A -TTTTA TTTTA TTTTA TT
20204022 ATTCTATTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
4 10 0.14
5 34 0.49
6 22 0.31
7 4 0.06
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:20203952 original size:6 final size:6
Alignment explanation
Indices: 20203931--20204013 Score: 61
Period size: 6 Copynumber: 14.7 Consensus size: 6
20203921 TTTAATATTC
* * * *
20203931 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
* *
20203977 TTTTTA -TTTTA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
20204014 GTTTTATTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
4 4 0.07
5 15 0.25
6 39 0.65
7 2 0.03
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:20203972 original size:40 final size:38
Alignment explanation
Indices: 20203928--20204031 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 38
20203918 TTATTTAATA
* *
20203928 TTCTTTTTATCTTTATTTTATTTTTATTTTTGTTTTACTT
1 TTCTTTTT-TCTTTATTTTATTTTTATTTAT-TTTCACTT
*
20203968 TTCTTTATTTTTTTATTTTATTTTTATTTATTTTCACTT
1 TTCTTT-TTTCTTTATTTTATTTTTATTTATTTTCACTT
* * *
20204007 TTATTTTGTTTTATTATTCTATTTT
1 TTCTTTT-TTCT-TTATTTTATTTT
20204032 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 16 0.29
40 37 0.66
41 2 0.04
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (38 bp):
TTCTTTTTTCTTTATTTTATTTTTATTTATTTTCACTT
Found at i:20204009 original size:45 final size:45
Alignment explanation
Indices: 20203926--20204031 Score: 108
Period size: 45 Copynumber: 2.3 Consensus size: 45
20203916 GTTTATTTAA
* **
20203926 TATTCTTTTTATCTTTATTTTATTTTTATTTTTGTTTTACTTTT-CTT
1 TATT-TTTTTAT-TTTATTTTATATTTATTTTACTTTTA-TTTTGCTT
*
20203973 TATTTTTTTATTTTATTTT-TATTTATTTTCACTTTTATTTTGTTT
1 TATTTTTTTATTTTATTTTATATTTATTTT-ACTTTTATTTTGCTT
* *
20204018 TATTATTCTATTTT
1 TATTTTTTTATTTT
20204032 CTTTAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
44 13 0.25
45 27 0.53
46 7 0.14
47 4 0.08
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (45 bp):
TATTTTTTTATTTTATTTTATATTTATTTTACTTTTATTTTGCTT
Found at i:20204123 original size:59 final size:58
Alignment explanation
Indices: 20204047--20204382 Score: 383
Period size: 59 Copynumber: 5.7 Consensus size: 58
20204037 AATAAAAATA
20204047 AAAAAAAT-TTTTTGGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTC
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAGTTTC
* * * * * *
20204104 TAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTTTC
* *
20204161 AAAAAAAAAGGTTTTTGAGG-AAAAGTTGAGAGTATCAATTTTTCTTGAAAATAAAAGTTTTC
1 AAAAAAATA--TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAG-TTTC
* * * *
20204223 AAAAAAATATTTTTGGAAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTTTC
* * * * *
20204281 AAAAAATAAATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
1 AAAAAA-ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTTTC
*** *
20204340 AAAAAAATATTTTTTTTAAAAAAGTTGAAAGTATAAATTTTTC
1 AAAAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
20204383 CTGCACAAAA
Statistics
Matches: 235, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
57 15 0.06
58 23 0.10
59 146 0.62
60 40 0.17
62 11 0.05
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTTTC
Found at i:20204278 original size:119 final size:118
Alignment explanation
Indices: 20204046--20204382 Score: 457
Period size: 119 Copynumber: 2.9 Consensus size: 118
20204036 AAATAAAAAT
* * * *
20204046 AAAAAAAATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCTAAAGA
1 AAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAGTTTCAAAAAA
** *
20204110 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTT-A
66 ATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
*
20204161 AAAAAAAAAGGTTTTTGAGGAAAAGTTGAGAGTATCAATTTTTCTTGAAAATAAAAGTTTTCAAA
1 AAAAAAAAA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAG-TTTCAAA
*
20204226 AAAATATTTTTGGAAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
63 AAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* * * * *
20204282 AAAAATAAATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCG-AAATTAAAGTTTCAAAAAA
1 AAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAGTTTCAAAAAA
** *
20204346 ATATTTTTTTTAAAAAAGTTGAAAGTATAAATTTTTC
66 ATA-TTTTTGGAAAAAAGTTGAAAGTATCAATTTTTC
20204383 CTGCACAAAA
Statistics
Matches: 196, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
115 8 0.04
117 19 0.10
118 74 0.38
119 83 0.42
120 3 0.02
121 9 0.05
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (118 bp):
AAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAGTTTCAAAAAA
ATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
Found at i:20204295 original size:16 final size:17
Alignment explanation
Indices: 20204257--20204295 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
20204247 TGAAAGTATC
*
20204257 AATTTTTCTTAAAAATA
1 AATTTTTCTAAAAAATA
20204274 AA-TTTTC-AAAAAATA
1 AATTTTTCTAAAAAATA
20204289 AATTTTT
1 AATTTTT
20204296 GAGAAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 9 0.45
17 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTTCTAAAAAATA
Found at i:20209580 original size:18 final size:17
Alignment explanation
Indices: 20209536--20209580 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
20209526 AATCGTTTAC
*
20209536 ACTTAAAAAATTTATAA
1 ACTTATAAAATTTATAA
*
20209553 ATCTTTTAAAATTTATTAA
1 A-CTTATAAAATTTA-TAA
20209572 ACTTATAAA
1 ACTTATAAA
20209581 TCATCTATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.78
19 4 0.17
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (17 bp):
ACTTATAAAATTTATAA
Found at i:20225874 original size:11 final size:12
Alignment explanation
Indices: 20225853--20225881 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
20225843 ACCCGAAGTC
20225853 AAAAATATTTTT
1 AAAAATATTTTT
20225865 AAAAAT-TTTTT
1 AAAAATATTTTT
20225876 AAAAAT
1 AAAAAT
20225882 GATAGACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:20231506 original size:59 final size:57
Alignment explanation
Indices: 20231377--20231829 Score: 405
Period size: 59 Copynumber: 7.7 Consensus size: 57
20231367 TTTGTGCAGA
* * * * *
20231377 AAAAATTGATACTTTCAAC-TTCTCCCCAAAATATTTTTT-AGAAACTTTAATTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGA-AAAC-TTATTTTTAAG
* * * *
20231434 GAAAATTAATACTTTCAACTTTTTCTCAAACATCCATTTTCTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAAT--ATTTTTTGAAAACTTATTTTTAAG
* * **
20231493 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAAC-TTATTTTTAAG
* *
20231551 AAAAATTGATACTTTCAAC-TTTTCTTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTC-TCAAAAATA--TTTTTTGAAAACTTATTTTTAAG
* * * * **
20231610 AAAAATTGATACTTTCAATTTTTTCCCAAAAATATATATTTTTTGGAAACTTTAATTTGGAG
1 AAAAATTGATACTTTCAACTTTTTCTC--AAA-A-ATATTTTTTGAAAAC-TTATTTTTAAG
* * ** *
20231672 GAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAATTTTTT-TTAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCTC---AAAAATATTTTTTGAAAACTTATTTTTAAG
* **
20231731 AAAAATTGATACTTTCAACTTTTT-TCCAAAAATATTTTTTGGAAACTTGAATTTCGAA-
1 AAAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTGAAAACTT--ATTTTTAAG
* *
20231789 AAAAATTGATATTTTCAACTTTTCCTCAAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTT
20231830 TTGAATTTTA
Statistics
Matches: 327, Mismatches: 48, Indels: 40
0.79 0.12 0.10
Matches are distributed among these distances:
56 12 0.04
57 38 0.12
58 67 0.20
59 119 0.36
60 28 0.09
61 22 0.07
62 34 0.10
63 7 0.02
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAACTTATTTTTAAG
Found at i:20231596 original size:117 final size:117
Alignment explanation
Indices: 20231377--20231842 Score: 566
Period size: 117 Copynumber: 4.0 Consensus size: 117
20231367 TTTGTGCAGA
* * * *
20231377 AAAAATTGATACTTTCAAC-TTCTCCCCAAAATATTTTTT-AGAAACTTTAATTTCAAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGA-AAACTTTAATTTCGAGAAAAAT
* * ** * * *
20231440 TAATACTTTCAACTTTTTCTCAAACATCCATTTTCTGAAAACTTATTTTTAAG
65 TGATACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAG
* *
20231493 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATT
20231558 GATACTTTCAAC-TTTTCTTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAG
66 GATACTTTCAACTTTTTC-TCAAAAAAACTTTTTTTGAAAATTTATTTTTAAG
* * * *
20231610 AAAAATTGATACTTTCAATTTTTTCCCAAAAATATATATTTTTTGGAAACTTTAATTTGGAGGAA
1 AAAAATTGATACTTTCAACTTTTTCCC--AAA-A-ATATTTTTTGAAAACTTTAATTTCGAGAAA
* *
20231675 AATTGATACTTTCAACTTTTTCTCAAAAAAAAAATTTTTTT--TAATTTATTTTTAAG
62 AATTGATACTTTCAACTTTTTCTC--AAAAAAACTTTTTTTGAAAATTTATTTTTAAG
* * * *
20231731 AAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGGAAACTTGAATTTCGAAAAAAATT
1 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATT
* * * *
20231796 GATATTTTCAACTTTTCCTCAAAAAATATTTTTTTTG-AATTTTATTT
66 GATACTTTCAACTTTTTCTCAAAAAA-ACTTTTTTTGAAAATTTATTT
20231843 AAAGAAAGTA
Statistics
Matches: 306, Mismatches: 32, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
115 6 0.02
116 31 0.10
117 157 0.51
118 2 0.01
119 6 0.02
120 1 0.00
121 84 0.27
122 5 0.02
123 14 0.05
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.44
Consensus pattern (117 bp):
AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATT
GATACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAG
Found at i:20231795 original size:238 final size:238
Alignment explanation
Indices: 20231407--20231842 Score: 644
Period size: 238 Copynumber: 1.8 Consensus size: 238
20231397 TCTCCCCAAA
* ***
20231407 ATATTTTTTAGAAACTTTAATTTCAAGGAAAATTAATACTTTCAACTTTTTCTCAAACATCCATT
1 ATATTTTTTAGAAACTTTAATTTCAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAAAAAATT
*
20231472 TTCTGAAAACTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAA
66 TTCTGAAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAA
* * *
20231537 ACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCTTCAAAAAA-ACTTTTTTTGAAAATTT
131 ACTTGAATTTCGAAAAAAATTGATACTTTCAACTTTTCCTCAAAAAATACTTTTTTTG-AAATTT
20231601 ATTTTTAAGAAAAATTGATACTTTCAATTTTTTCCCAAAAATAT
195 ATTTTTAAGAAAAATTGATACTTTCAATTTTTTCCCAAAAATAT
* ** *
20231645 ATATTTTTTGGAAACTTTAATTTGGAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAT
1 ATATTTTTTAGAAACTTTAATTTCAAGGAAAATTAATACTTTCAACTTTTTCTC-AAAAAAAAAT
*** * *
20231710 TTT-TTTTAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTT-TCCAAAAATATTTTTTGG
65 TTTCTGAAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTGA
* * *
20231773 AAACTTGAATTTCGAAAAAAATTGATATTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAATTT
129 AAACTTGAATTTCGAAAAAAATTGATACTTTCAACTTTTCCTCAAAAAATACTTTTTTTGAAATT
20231838 TATTT
194 TATTT
20231843 AAAGAAAGTA
Statistics
Matches: 175, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
237 1 0.01
238 156 0.89
239 18 0.10
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (238 bp):
ATATTTTTTAGAAACTTTAATTTCAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAAAAAATT
TTCTGAAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAA
ACTTGAATTTCGAAAAAAATTGATACTTTCAACTTTTCCTCAAAAAATACTTTTTTTGAAATTTA
TTTTTAAGAAAAATTGATACTTTCAATTTTTTCCCAAAAATAT
Found at i:20231940 original size:3 final size:3
Alignment explanation
Indices: 20231932--20231967 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
20231922 AATTCTAATC
20231932 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20231968 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20231972 original size:4 final size:4
Alignment explanation
Indices: 20231963--20231988 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20231953 TAATAATAAT
20231963 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
20231989 CGAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:20232181 original size:10 final size:10
Alignment explanation
Indices: 20232166--20232190 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20232156 CCAAAATTTG
20232166 AAAAATTTTC
1 AAAAATTTTC
20232176 AAAAATTTTC
1 AAAAATTTTC
20232186 AAAAA
1 AAAAA
20232191 AAAAATTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATTTTC
Found at i:20234532 original size:21 final size:21
Alignment explanation
Indices: 20234506--20234547 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20234496 CTGAGAGCCC
20234506 GGCAGAGTTATATCAATGGAT
1 GGCAGAGTTATATCAATGGAT
20234527 GGCAGAGTTATATCAATGGAT
1 GGCAGAGTTATATCAATGGAT
20234548 TTTTTTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
GGCAGAGTTATATCAATGGAT
Found at i:20239246 original size:18 final size:18
Alignment explanation
Indices: 20239211--20239251 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20239201 AATTAAATTA
*
20239211 TATATATTTATTAGTTTT
1 TATATATTTATTAATTTT
20239229 TATATATTT-TTCAATTTT
1 TATATATTTATT-AATTTT
20239247 T-TATA
1 TATATA
20239252 AAACAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATATTTATTAATTTT
Found at i:20242038 original size:15 final size:15
Alignment explanation
Indices: 20242001--20242052 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
20241991 GTTTGAATTA
** *
20242001 AATTTAATAATTTAA
1 AATTTAATAAAATAT
*
20242016 AATATAATATAAA-AT
1 AATTTAATA-AAATAT
20242031 AATTTAATAAAATAT
1 AATTTAATAAAATAT
20242046 AATTTAA
1 AATTTAA
20242053 AATTTTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 3 0.10
15 26 0.87
16 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTTAATAAAATAT
Found at i:20242041 original size:25 final size:25
Alignment explanation
Indices: 20242013--20242091 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
20242003 TTTAATAATT
20242013 TAAAATATAATATAAAATAATTTAA
1 TAAAATATAATATAAAATAATTTAA
*
20242038 TAAAATATAATTTAAAAT--TTTAA
1 TAAAATATAATATAAAATAATTTAA
* * * *
20242061 T-AATTATTATTATATATTAATTTAA
1 TAAAATA-TAATATAAAATAATTTAA
20242086 TAAAAT
1 TAAAAT
20242092 CAAAAAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.09
23 13 0.30
25 23 0.53
26 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAAATATAATATAAAATAATTTAA
Found at i:20242258 original size:31 final size:30
Alignment explanation
Indices: 20242223--20242291 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
20242213 TAGCTATAGA
*
20242223 AATATTAACCAATAATATAATATCAAATTTT
1 AATATTAACCAATAATATAATAACAAA-TTT
* * *
20242254 AATATTGACGAATAATATAGTAACAAATTT
1 AATATTAACCAATAATATAATAACAAATTT
*
20242284 AATCTTAA
1 AATATTAA
20242292 ACACTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (30 bp):
AATATTAACCAATAATATAATAACAAATTT
Found at i:20244139 original size:693 final size:693
Alignment explanation
Indices: 20242814--20244174 Score: 2584
Period size: 693 Copynumber: 2.0 Consensus size: 693
20242804 GAACTTGATC
*
20242814 AAATTTTTTTCGCGACCATCAGTGTGATTTCATTCATTCTTAAAGTTTTCTTACACTTTAAAAAA
1 AAATTTTTTTCACGACCATCAGTGTGATTTCATTCATTCTTAAAGTTTTCTTACACTTTAAAAAA
20242879 ATTCATGACGAATTAAAGCAAAGAGATTACCTGATTTGTTTTTTTTCATCTTGTTCAGTCTGTCT
66 ATTCATGACGAATTAAAGCAAAGAGATTACCTGATTTGTTTTTTTTCATCTTGTTCAGTCTGTCT
20242944 TCACCAAACTCTTTCTTGCTTTGTTTAAATAATTTAAACATTGATTTTCTGGTTTATTATAAAGC
131 TCACCAAACTCTTTCTTGCTTTGTTTAAATAATTTAAACATTGATTTTCTGGTTTATTATAAAGC
20243009 ATTAAAGAAACAAAGAATGACGTGTGCTGCAATTTATTTGTTTATATATATTATATTGTTTCTTC
196 ATTAAAGAAACAAAGAATGACGTGTGCTGCAATTTATTTGTTTATATATATTATATTGTTTCTTC
20243074 AGTTTCTAAATTAAGCTAAGAAATGTTATATACGCAACTACTATCTTTTGGATCAATTAATATAT
261 AGTTTCTAAATTAAGCTAAGAAATGTTATATACGCAACTACTATCTTTTGGATCAATTAATATAT
* *
20243139 TATATTATTGAAATTAATACTTAAAAATTATGAATTGAACAAAGTTTATGTGTAATTTATTTTTA
326 TATATTATTGAAATTAATACTTAAAAATTATGAATTAAAAAAAGTTTATGTGTAATTTATTTTTA
* *
20243204 AAAGTAAATTAAAAATTTTAAACAGTTATATACGCAACCGCTGAAGCTCCACATTGTTTTCCACT
391 AAAGTAAATTAAAAATTTTAAAAAATTATATACGCAACCGCTGAAGCTCCACATTGTTTTCCACT
*
20243269 GGTCAGCAGTGAGGGCCAAGACTTAAACCAAAAGAGGGGCAACTACTGAATAAATTGAGTGGAAA
456 GGTCAACAGTGAGGGCCAAGACTTAAACCAAAAGAGGGGCAACTACTGAATAAATTGAGTGGAAA
*
20243334 TGGTGGAATATATTGGTAATCTTTTACTTTAGAGTTCAGACCAATAAAATTAATGTCCTTATCAC
521 TGGTGGAATATATTGGTAATCTCTTACTTTAGAGTTCAGACCAATAAAATTAATGTCCTTATCAC
20243399 TTTCAATTTCAGCTGCCCAAGTAAAGAAAATAAGCCAACTATTATAAGTCATAGTTTATTTTATA
586 TTTCAATTTCAGCTGCCCAAGTAAAGAAAATAAGCCAACTATTATAAGTCATAGTTTATTTTATA
20243464 TTCCATAAATTTCATTTTTTTTTTTAATTCCAACTTAATATTA
651 TTCCATAAATTTCATTTTTTTTTTTAATTCCAACTTAATATTA
20243507 AAATTTTTTTCACGACCATCACAGTGTGATTTCATTCATTCTTAAAGTTTTCTTACACTTTAAAA
1 AAATTTTTTTCACGACCAT--CAGTGTGATTTCATTCATTCTTAAAGTTTTCTTACACTTTAAAA
*
20243572 AAATTCATGACGAATTAAAGCAAAGAGTTTACCTGA-TTGTTTTTTTTCATCTTGTTCAGTCTGT
64 AAATTCATGACGAATTAAAGCAAAGAGATTACCTGATTTGTTTTTTTTCATCTTGTTCAGTCTGT
20243636 CTTCACCAAACTCTTTCTTGCTTTGTTTAAATAATTTAAACATTGATTTTCTGGTTTATTATAAA
129 CTTCACCAAACTCTTTCTTGCTTTGTTTAAATAATTTAAACATTGATTTTCTGGTTTATTATAAA
20243701 GCATTAAAGAAACAAAGAATGACGTGTGCTGCAATTTATTTGTTTATATATATTATATTGTTTCT
194 GCATTAAAGAAACAAAGAATGACGTGTGCTGCAATTTATTTGTTTATATATATTATATTGTTTCT
20243766 TCAGTTTCTAAATTAAGCTAAGAAATGTTATATACGCAACTACTATCTTTTGGATCAATTAATAT
259 TCAGTTTCTAAATTAAGCTAAGAAATGTTATATACGCAACTACTATCTTTTGGATCAATTAATAT
20243831 ATTATATTATTGAAATT-ATACTTAAAAATTATGAATTAAAAAAAGTTTATGTGTAATTTATTTT
324 ATTATATTATTGAAATTAATACTTAAAAATTATGAATTAAAAAAAGTTTATGTGTAATTTATTTT
20243895 TAAAAGTAAATTAAAAATTTTAAAAAATTATATACGCAACCGCTGAAGCTCCACATTGTTTTCCA
389 TAAAAGTAAATTAAAAATTTTAAAAAATTATATACGCAACCGCTGAAGCTCCACATTGTTTTCCA
* *
20243960 CTGGTCAACAGTGGGGGCTAAGACTTAAACCAAAAGAGGGGCAA-TGACTGAATAAATTGAGTGG
454 CTGGTCAACAGTGAGGGCCAAGACTTAAACCAAAAGAGGGGCAACT-ACTGAATAAATTGAGTGG
20244024 AAATGGTGGAATATATTGGTAATCTCTTACTTTAGAGTTCAGACCAATAAAATTAATGTCCTTAT
518 AAATGGTGGAATATATTGGTAATCTCTTACTTTAGAGTTCAGACCAATAAAATTAATGTCCTTAT
20244089 CACTTTCAATTTCAGCTGCCCAAGTAAAGAAAATAAGCCAACTATTATAAGTCATAGTTTATTTT
583 CACTTTCAATTTCAGCTGCCCAAGTAAAGAAAATAAGCCAACTATTATAAGTCATAGTTTATTTT
20244154 ATATTCCATAAATTTCATTTT
648 ATATTCCATAAATTTCATTTT
20244175 ATTTAATATT
Statistics
Matches: 655, Mismatches: 10, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
692 1 0.00
693 335 0.51
694 240 0.37
695 79 0.12
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (693 bp):
AAATTTTTTTCACGACCATCAGTGTGATTTCATTCATTCTTAAAGTTTTCTTACACTTTAAAAAA
ATTCATGACGAATTAAAGCAAAGAGATTACCTGATTTGTTTTTTTTCATCTTGTTCAGTCTGTCT
TCACCAAACTCTTTCTTGCTTTGTTTAAATAATTTAAACATTGATTTTCTGGTTTATTATAAAGC
ATTAAAGAAACAAAGAATGACGTGTGCTGCAATTTATTTGTTTATATATATTATATTGTTTCTTC
AGTTTCTAAATTAAGCTAAGAAATGTTATATACGCAACTACTATCTTTTGGATCAATTAATATAT
TATATTATTGAAATTAATACTTAAAAATTATGAATTAAAAAAAGTTTATGTGTAATTTATTTTTA
AAAGTAAATTAAAAATTTTAAAAAATTATATACGCAACCGCTGAAGCTCCACATTGTTTTCCACT
GGTCAACAGTGAGGGCCAAGACTTAAACCAAAAGAGGGGCAACTACTGAATAAATTGAGTGGAAA
TGGTGGAATATATTGGTAATCTCTTACTTTAGAGTTCAGACCAATAAAATTAATGTCCTTATCAC
TTTCAATTTCAGCTGCCCAAGTAAAGAAAATAAGCCAACTATTATAAGTCATAGTTTATTTTATA
TTCCATAAATTTCATTTTTTTTTTTAATTCCAACTTAATATTA
Found at i:20245154 original size:16 final size:18
Alignment explanation
Indices: 20245133--20245170 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20245123 AATTATCTAT
20245133 ATTTAAAGT-TT-ATATA
1 ATTTAAAGTATTAATATA
*
20245149 ATTTAAATTATTAATATA
1 ATTTAAAGTATTAATATA
20245167 ATTT
1 ATTT
20245171 TTAAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTAAAGTATTAATATA
Found at i:20252043 original size:15 final size:15
Alignment explanation
Indices: 20252007--20252046 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
20251997 TTTTTAGAAT
20252007 TTTA-GATTTTAAGG
1 TTTAGGATTTTAAGG
*
20252021 TTTTGGATTTTAAGG
1 TTTAGGATTTTAAGG
20252036 TTTAGGATTTT
1 TTTAGGATTTT
20252047 GGATTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (15 bp):
TTTAGGATTTTAAGG
Found at i:20252226 original size:59 final size:60
Alignment explanation
Indices: 20252134--20252281 Score: 169
Period size: 59 Copynumber: 2.5 Consensus size: 60
20252124 TATTTCAAAG
* * *
20252134 TTTGAAAGATTTAAGGTTTCAATTTTGGGATTTGGAGGGTTTAA-ATTTGA-TTTTAAGA
1 TTTGAAAGATTTAAGGTTTCAATTTTAGGATTTGAAGGATTTAAGATTTGAGTTTTAAGA
* *
20252192 TTTGAAA-ACTTTAAGGTTTTCAATTTTAGGATTTGAAGGATTTAAGATTTTAGTTTTAACGC
1 TTTGAAAGA-TTTAAGG-TTTCAATTTTAGGATTTGAAGGATTTAAGATTTGAGTTTTAA-GA
* * *
20252254 TTAG-AAGGTTTAATGTTTCAATTTTAGG
1 TTTGAAAGATTTAAGGTTTCAATTTTAGG
20252282 GCTTAGAGGG
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
57 1 0.01
58 14 0.18
59 25 0.33
60 18 0.24
61 14 0.18
62 4 0.05
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (60 bp):
TTTGAAAGATTTAAGGTTTCAATTTTAGGATTTGAAGGATTTAAGATTTGAGTTTTAAGA
Found at i:20252236 original size:31 final size:30
Alignment explanation
Indices: 20252134--20252372 Score: 106
Period size: 30 Copynumber: 8.1 Consensus size: 30
20252124 TATTTCAAAG
* *
20252134 TTTGAAAGATTTAAGGTTTCAATTTTGGGA
1 TTTGAAGGATTTAAGGTTTCAATTTTAGGA
* * * * *
20252164 TTTGGAGGGTTTAA-ATTT-GATTTTAAGA
1 TTTGAAGGATTTAAGGTTTCAATTTTAGGA
*
20252192 TTTGAA-AACTTTAAGGTTTTCAATTTTAGGA
1 TTTGAAGGA-TTTAAGG-TTTCAATTTTAGGA
* * * * *
20252223 TTTGAAGGATTTAAGATTTTAGTTTTAACGC
1 TTTGAAGGATTTAAGGTTTCAATTTT-AGGA
* * *
20252254 TTAGAAGG-TTTAATGTTTCAATTTTAGGG
1 TTTGAAGGATTTAAGGTTTCAATTTTAGGA
* ** *
20252283 CTT-AGAGGGCTTAGGGTTTC-ATTTTGAGG-
1 TTTGA-AGGATTTAAGGTTTCAATTTT-AGGA
**
20252312 TTTGAAGG-TTTGGGGTTT-AATTTTAAGG-
1 TTTGAAGGATTTAAGGTTTCAATTTT-AGGA
**
20252340 TTTGGAAGG-TTT-AGGATTTTGATTTTAGGA
1 TTT-GAAGGATTTAAGG-TTTCAATTTTAGGA
20252370 TTT
1 TTT
20252373 ATGGCTTAAT
Statistics
Matches: 157, Mismatches: 37, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
28 39 0.25
29 33 0.21
30 55 0.35
31 29 0.18
32 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.45
Consensus pattern (30 bp):
TTTGAAGGATTTAAGGTTTCAATTTTAGGA
Found at i:20252329 original size:28 final size:29
Alignment explanation
Indices: 20252296--20252351 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
20252286 AGAGGGCTTA
* *
20252296 GGGTTTCATTTTGAGGTTT-GAAGGTTTG
1 GGGTTTAATTTTAAGGTTTGGAAGGTTTG
20252324 GGGTTTAATTTTAAGGTTTGGAAGGTTT
1 GGGTTTAATTTTAAGGTTTGGAAGGTTT
20252352 AGGATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.46
Consensus pattern (29 bp):
GGGTTTAATTTTAAGGTTTGGAAGGTTTG
Found at i:20252420 original size:14 final size:14
Alignment explanation
Indices: 20252398--20252514 Score: 69
Period size: 14 Copynumber: 8.2 Consensus size: 14
20252388 ACTTTGTAGA
*
20252398 TTTAAGGTTTTGAT
1 TTTAGGGTTTTGAT
*
20252412 TTTAGGGTTTTGAGGG
1 TTTAGGGTTTTGA--T
*
20252428 TTTAGGG-TTTCAT
1 TTTAGGGTTTTGAT
* * *
20252441 TTCAGGGTTTGGAGA
1 TTTAGGGTTTTGA-T
*
20252456 TTTAGGGTTTTAAT
1 TTTAGGGTTTTGAT
* * *
20252470 TTTAGAGTTTAGAGG
1 TTTAGGGTTTTGA-T
*
20252485 TTT-GGGTTTTGAAA
1 TTTAGGGTTTTG-AT
20252499 TTTAGGG-TTTGAT
1 TTTAGGGTTTTGAT
20252512 TTT
1 TTT
20252515 CTGGTTTAAA
Statistics
Matches: 76, Mismatches: 20, Indels: 15
0.68 0.18 0.14
Matches are distributed among these distances:
13 10 0.13
14 38 0.50
15 21 0.28
16 7 0.09
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:20252442 original size:29 final size:28
Alignment explanation
Indices: 20252410--20252508 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
20252400 TAAGGTTTTG
* *
20252410 ATTTTAGGGTTTTGAGGGTTTAGGGTTTC
1 ATTTTAGGGTTTAGA-GGTTTAGGGTTTA
* * *
20252439 ATTTCAGGGTTTGGAGATTTAGGGTTTTA
1 ATTTTAGGGTTTAGAGGTTTAGGG-TTTA
*
20252468 ATTTTAGAGTTTAGAGGTTT-GGGTTTTGA
1 ATTTTAGGGTTTAGAGGTTTAGGG-TTT-A
*
20252497 AATTTAGGGTTT
1 ATTTTAGGGTTT
20252509 GATTTTCTGG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
28 15 0.26
29 43 0.74
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.47
Consensus pattern (28 bp):
ATTTTAGGGTTTAGAGGTTTAGGGTTTA
Found at i:20252460 original size:28 final size:28
Alignment explanation
Indices: 20252390--20252465 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
20252380 AATTTTAAAC
* * * *
20252390 TTTGTAGATTTAAGGTTTTGATTTTAGGG
1 TTTGGAGATTT-AGGGTTTCATTTCAGGG
* *
20252419 TTTTGAGGGTTTAGGGTTTCATTTCAGGG
1 TTTGGA-GATTTAGGGTTTCATTTCAGGG
20252448 TTTGGAGATTTAGGGTTT
1 TTTGGAGATTTAGGGTTT
20252466 TAATTTTAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 11 0.29
29 23 0.61
30 4 0.11
ACGTcount: A:0.17, C:0.03, G:0.32, T:0.49
Consensus pattern (28 bp):
TTTGGAGATTTAGGGTTTCATTTCAGGG
Found at i:20252728 original size:23 final size:21
Alignment explanation
Indices: 20252690--20252732 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
20252680 TTGGCATTTT
20252690 TATTTTTTTTAGTTATTATCC
1 TATTTTTTTTAGTTATTATCC
*
20252711 TATTTTATTTTATTTTATTATC
1 TATTTT-TTTTA-GTTATTATC
20252733 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTTTTTTAGTTATTATCC
Found at i:20253970 original size:16 final size:16
Alignment explanation
Indices: 20253946--20253989 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
20253936 CACCCCAGTC
*
20253946 TTCTGTTTTTTGCTAT
1 TTCTATTTTTTGCTAT
*
20253962 TTCTATTTTTTTGCTGT
1 TTCTA-TTTTTTGCTAT
*
20253979 TTTTATTTTTT
1 TTCTATTTTTT
20253990 TAATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.75
Consensus pattern (16 bp):
TTCTATTTTTTGCTAT
Found at i:20253988 original size:18 final size:17
Alignment explanation
Indices: 20253951--20253990 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
20253941 CAGTCTTCTG
20253951 TTTTTTGCTATTTCTAT
1 TTTTTTGCTATTTCTAT
* *
20253968 TTTTTTGCTGTTTTTAT
1 TTTTTTGCTATTTCTAT
20253985 TTTTTT
1 TTTTTT
20253991 AATTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (17 bp):
TTTTTTGCTATTTCTAT
Found at i:20255719 original size:21 final size:21
Alignment explanation
Indices: 20255693--20255734 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20255683 CTGAGAGCCC
20255693 GGCAGAGTTATATCAATGGAT
1 GGCAGAGTTATATCAATGGAT
20255714 GGCAGAGTTATATCAATGGAT
1 GGCAGAGTTATATCAATGGAT
20255735 TTTTTTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
GGCAGAGTTATATCAATGGAT
Found at i:20262575 original size:16 final size:18
Alignment explanation
Indices: 20262554--20262591 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20262544 AATTATCTAT
20262554 ATTTAAAGT-TT-ATATA
1 ATTTAAAGTATTAATATA
*
20262570 ATTTAAATTATTAATATA
1 ATTTAAAGTATTAATATA
20262588 ATTT
1 ATTT
20262592 TTAAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTAAAGTATTAATATA
Found at i:20269450 original size:15 final size:15
Alignment explanation
Indices: 20269414--20269453 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
20269404 TTTTTAGAAT
20269414 TTTA-GATTTTAAGG
1 TTTAGGATTTTAAGG
*
20269428 TTTTGGATTTTAAGG
1 TTTAGGATTTTAAGG
20269443 TTTAGGATTTT
1 TTTAGGATTTT
20269454 GGATTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (15 bp):
TTTAGGATTTTAAGG
Found at i:20269630 original size:59 final size:60
Alignment explanation
Indices: 20269538--20269685 Score: 169
Period size: 59 Copynumber: 2.5 Consensus size: 60
20269528 TATTTCAAAG
* * *
20269538 TTTGAAAGATTTAAGGTTTCAATTTTGGGATTTGGAGGGTTTAA-ATTTGA-TTTTAAGA
1 TTTGAAAGATTTAAGGTTTCAATTTTAGGATTTGAAGGATTTAAGATTTGAGTTTTAAGA
* *
20269596 TTTGAAA-ACTTTAAGGTTTTCAATTTTAGGATTTGAAGGATTTAAGATTTTAGTTTTAACGC
1 TTTGAAAGA-TTTAAGG-TTTCAATTTTAGGATTTGAAGGATTTAAGATTTGAGTTTTAA-GA
* * *
20269658 TTAG-AAGGTTTAATGTTTCAATTTTAGG
1 TTTGAAAGATTTAAGGTTTCAATTTTAGG
20269686 GCTTAGAGGG
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
57 1 0.01
58 14 0.18
59 25 0.33
60 18 0.24
61 14 0.18
62 4 0.05
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (60 bp):
TTTGAAAGATTTAAGGTTTCAATTTTAGGATTTGAAGGATTTAAGATTTGAGTTTTAAGA
Found at i:20269640 original size:31 final size:30
Alignment explanation
Indices: 20269538--20269776 Score: 106
Period size: 30 Copynumber: 8.1 Consensus size: 30
20269528 TATTTCAAAG
* *
20269538 TTTGAAAGATTTAAGGTTTCAATTTTGGGA
1 TTTGAAGGATTTAAGGTTTCAATTTTAGGA
* * * * *
20269568 TTTGGAGGGTTTAA-ATTT-GATTTTAAGA
1 TTTGAAGGATTTAAGGTTTCAATTTTAGGA
*
20269596 TTTGAA-AACTTTAAGGTTTTCAATTTTAGGA
1 TTTGAAGGA-TTTAAGG-TTTCAATTTTAGGA
* * * * *
20269627 TTTGAAGGATTTAAGATTTTAGTTTTAACGC
1 TTTGAAGGATTTAAGGTTTCAATTTT-AGGA
* * *
20269658 TTAGAAGG-TTTAATGTTTCAATTTTAGGG
1 TTTGAAGGATTTAAGGTTTCAATTTTAGGA
* ** *
20269687 CTT-AGAGGGCTTAGGGTTTC-ATTTTGAGG-
1 TTTGA-AGGATTTAAGGTTTCAATTTT-AGGA
**
20269716 TTTGAAGG-TTTGGGGTTT-AATTTTAAGG-
1 TTTGAAGGATTTAAGGTTTCAATTTT-AGGA
**
20269744 TTTGGAAGG-TTT-AGGATTTTGATTTTAGGA
1 TTT-GAAGGATTTAAGG-TTTCAATTTTAGGA
20269774 TTT
1 TTT
20269777 ATGGCTTAAT
Statistics
Matches: 157, Mismatches: 37, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
28 39 0.25
29 33 0.21
30 55 0.35
31 29 0.18
32 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.45
Consensus pattern (30 bp):
TTTGAAGGATTTAAGGTTTCAATTTTAGGA
Found at i:20269733 original size:28 final size:29
Alignment explanation
Indices: 20269700--20269755 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
20269690 AGAGGGCTTA
* *
20269700 GGGTTTCATTTTGAGGTTT-GAAGGTTTG
1 GGGTTTAATTTTAAGGTTTGGAAGGTTTG
20269728 GGGTTTAATTTTAAGGTTTGGAAGGTTT
1 GGGTTTAATTTTAAGGTTTGGAAGGTTT
20269756 AGGATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.46
Consensus pattern (29 bp):
GGGTTTAATTTTAAGGTTTGGAAGGTTTG
Found at i:20269824 original size:14 final size:14
Alignment explanation
Indices: 20269802--20269918 Score: 69
Period size: 14 Copynumber: 8.2 Consensus size: 14
20269792 ACTTTGTAGA
*
20269802 TTTAAGGTTTTGAT
1 TTTAGGGTTTTGAT
*
20269816 TTTAGGGTTTTGAGGG
1 TTTAGGGTTTTGA--T
*
20269832 TTTAGGG-TTTCAT
1 TTTAGGGTTTTGAT
* * *
20269845 TTCAGGGTTTGGAGA
1 TTTAGGGTTTTGA-T
*
20269860 TTTAGGGTTTTAAT
1 TTTAGGGTTTTGAT
* * *
20269874 TTTAGAGTTTAGAGG
1 TTTAGGGTTTTGA-T
*
20269889 TTT-GGGTTTTGAAA
1 TTTAGGGTTTTG-AT
20269903 TTTAGGG-TTTGAT
1 TTTAGGGTTTTGAT
20269916 TTT
1 TTT
20269919 CTGGTTTAAA
Statistics
Matches: 76, Mismatches: 20, Indels: 15
0.68 0.18 0.14
Matches are distributed among these distances:
13 10 0.13
14 38 0.50
15 21 0.28
16 7 0.09
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:20269846 original size:29 final size:28
Alignment explanation
Indices: 20269814--20269912 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
20269804 TAAGGTTTTG
* *
20269814 ATTTTAGGGTTTTGAGGGTTTAGGGTTTC
1 ATTTTAGGGTTTAGA-GGTTTAGGGTTTA
* * *
20269843 ATTTCAGGGTTTGGAGATTTAGGGTTTTA
1 ATTTTAGGGTTTAGAGGTTTAGGG-TTTA
*
20269872 ATTTTAGAGTTTAGAGGTTT-GGGTTTTGA
1 ATTTTAGGGTTTAGAGGTTTAGGG-TTT-A
*
20269901 AATTTAGGGTTT
1 ATTTTAGGGTTT
20269913 GATTTTCTGG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
28 15 0.26
29 43 0.74
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.47
Consensus pattern (28 bp):
ATTTTAGGGTTTAGAGGTTTAGGGTTTA
Found at i:20269864 original size:28 final size:28
Alignment explanation
Indices: 20269794--20269869 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
20269784 AATTTTAAAC
* * * *
20269794 TTTGTAGATTTAAGGTTTTGATTTTAGGG
1 TTTGGAGATTT-AGGGTTTCATTTCAGGG
* *
20269823 TTTTGAGGGTTTAGGGTTTCATTTCAGGG
1 TTTGGA-GATTTAGGGTTTCATTTCAGGG
20269852 TTTGGAGATTTAGGGTTT
1 TTTGGAGATTTAGGGTTT
20269870 TAATTTTAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 11 0.29
29 23 0.61
30 4 0.11
ACGTcount: A:0.17, C:0.03, G:0.32, T:0.49
Consensus pattern (28 bp):
TTTGGAGATTTAGGGTTTCATTTCAGGG
Found at i:20270132 original size:23 final size:21
Alignment explanation
Indices: 20270094--20270136 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
20270084 TTGGCATTTT
20270094 TATTTTTTTTAGTTATTATCC
1 TATTTTTTTTAGTTATTATCC
*
20270115 TATTTTATTTTATTTTATTATC
1 TATTTT-TTTTA-GTTATTATC
20270137 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTTTTTTAGTTATTATCC
Found at i:20270233 original size:21 final size:21
Alignment explanation
Indices: 20270185--20270233 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
20270175 AAATTATCAT
20270185 ACAT-AAATATTAAAAATAAA
1 ACATAAAATATTAAAAATAAA
20270205 AC-TCAAAATA-TAAAAATAATA
1 ACAT-AAAATATTAAAAATAA-A
20270226 ACATAAAA
1 ACATAAAA
20270234 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 12 0.48
22 1 0.04
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
ACATAAAATATTAAAAATAAA
Found at i:20271377 original size:16 final size:16
Alignment explanation
Indices: 20271353--20271396 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
20271343 CACCCCAGTC
*
20271353 TTCTGTTTTTTGCTAT
1 TTCTATTTTTTGCTAT
*
20271369 TTCTATTTTTTTGCTGT
1 TTCTA-TTTTTTGCTAT
*
20271386 TTTTATTTTTT
1 TTCTATTTTTT
20271397 TAATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.75
Consensus pattern (16 bp):
TTCTATTTTTTGCTAT
Found at i:20271395 original size:18 final size:17
Alignment explanation
Indices: 20271358--20271397 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
20271348 CAGTCTTCTG
20271358 TTTTTTGCTATTTCTAT
1 TTTTTTGCTATTTCTAT
* *
20271375 TTTTTTGCTGTTTTTAT
1 TTTTTTGCTATTTCTAT
20271392 TTTTTT
1 TTTTTT
20271398 AATTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (17 bp):
TTTTTTGCTATTTCTAT
Found at i:20273126 original size:21 final size:21
Alignment explanation
Indices: 20273100--20273141 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20273090 CTGAGAGCCC
20273100 GGCAGAGTTATATCAATGGAT
1 GGCAGAGTTATATCAATGGAT
20273121 GGCAGAGTTATATCAATGGAT
1 GGCAGAGTTATATCAATGGAT
20273142 TTTTTTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
GGCAGAGTTATATCAATGGAT
Found at i:20277831 original size:18 final size:18
Alignment explanation
Indices: 20277796--20277836 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20277786 ATATAAATTA
*
20277796 TATATATTTATTAGTTTT
1 TATATATTTATTAATTTT
20277814 TATATATTT-TTCAATTTT
1 TATATATTTATT-AATTTT
20277832 T-TATA
1 TATATA
20277837 AAACAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATATTTATTAATTTT
Found at i:20280613 original size:12 final size:12
Alignment explanation
Indices: 20280592--20280638 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
20280582 ATTAAATTTA
*
20280592 ATAATTTAAAAT
1 ATAATATAAAAT
20280604 ATAATATAAAAT
1 ATAATATAAAAT
*
20280616 ATTA-ATAAAAT
1 ATAATATAAAAT
*
20280627 ATAATTTAAAAT
1 ATAATATAAAAT
20280639 TTTAATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:20280624 original size:23 final size:23
Alignment explanation
Indices: 20280598--20280646 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
20280588 TTTAATAATT
20280598 TAAAATATAATATAAAATATTAA
1 TAAAATATAATATAAAATATTAA
* *
20280621 TAAAATATAATTTAAAATTTTAA
1 TAAAATATAATATAAAATATTAA
20280644 TAA
1 TAA
20280647 TTATTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAATATAATATAAAATATTAA
Found at i:20280848 original size:31 final size:30
Alignment explanation
Indices: 20280813--20280881 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
20280803 TAGCAATAGA
*
20280813 AATATTAACCAATAATATAATATCAAATTTT
1 AATATTAACCAATAATATAATAACAAA-TTT
* * *
20280844 AATATTGACGAATAATATAGTAACAAATTT
1 AATATTAACCAATAATATAATAACAAATTT
*
20280874 AATCTTAA
1 AATATTAA
20280882 ACACTCTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (30 bp):
AATATTAACCAATAATATAATAACAAATTT
Found at i:20282815 original size:2 final size:2
Alignment explanation
Indices: 20282808--20282832 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20282798 CCACCAAGAT
20282808 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20282833 GCATGCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20283851 original size:32 final size:32
Alignment explanation
Indices: 20283786--20283852 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
20283776 AAATTTGACG
* * *
20283786 ATTTATATATTCATATTATGTAAAATATTAAA
1 ATTTAAATATTCATATTATATAAAATATAAAA
***
20283818 ATTTAAATATTCATATTATATTTTATATAAAA
1 ATTTAAATATTCATATTATATAAAATATAAAA
20283850 ATT
1 ATT
20283853 ATATGTCACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (32 bp):
ATTTAAATATTCATATTATATAAAATATAAAA
Found at i:20284576 original size:22 final size:23
Alignment explanation
Indices: 20284541--20284602 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
20284531 TATATTTAGT
* *
20284541 ATATATATTTTTATATTAAA-TA
1 ATATAAATTATTATATTAAATTA
*
20284563 ATATAAATTATTATTTTAAATTA
1 ATATAAATTATTATATTAAATTA
*
20284586 AT-TAAAATTAATATATT
1 ATAT-AAATTATTATATT
20284603 TTTATTGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATAAATTATTATATTAAATTA
Found at i:20285042 original size:2 final size:2
Alignment explanation
Indices: 20285032--20285067 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
20285022 AATGATTTTT
*
20285032 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20285068 AATGAAGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:20285821 original size:30 final size:28
Alignment explanation
Indices: 20285775--20285885 Score: 125
Period size: 30 Copynumber: 3.8 Consensus size: 28
20285765 TTACATTTTT
* *
20285775 ATATTTATTATAATTAATTAAATTTTGA
1 ATATTTATTTTAATTAATTAAATTTTAA
20285803 ATATTTTATTTTAAATTAATTAAAATTTTAA
1 ATA-TTTATTTT-AATTAATT-AAATTTTAA
* *
20285834 ATATATATTTTTATTAAATTAAATTCTTAA
1 ATATTTATTTTAATT-AATTAAATT-TTAA
*
20285864 ATATTTATTTT-TTTAATTAAAT
1 ATATTTATTTTAATTAATTAAAT
20285886 CATCGATTAG
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.15
29 17 0.24
30 33 0.46
31 11 0.15
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (28 bp):
ATATTTATTTTAATTAATTAAATTTTAA
Found at i:20285851 original size:34 final size:31
Alignment explanation
Indices: 20285778--20285855 Score: 95
Period size: 31 Copynumber: 2.4 Consensus size: 31
20285768 CATTTTTATA
*
20285778 TTTATTATAATTAATTAAATTTTGAATATTTT
1 TTTATTA-AATTAATTAAATTTTAAATATTTT
*
20285810 ATT-TTAAATTAATTAAAATTTTAAATATATATT
1 TTTATTAAATTAATT-AAATTTTAAATAT-T-TT
20285843 TTTATTAAATTAA
1 TTTATTAAATTAA
20285856 ATTCTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 8 0.21
31 15 0.38
32 3 0.08
33 4 0.10
34 9 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TTTATTAAATTAATTAAATTTTAAATATTTT
Found at i:20286414 original size:16 final size:16
Alignment explanation
Indices: 20286393--20286447 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
20286383 TGAATTCAAT
20286393 TAATTATAAATAAATA
1 TAATTATAAATAAATA
* *
20286409 TAATTA-ATATTTAATA
1 TAATTATA-AATAAATA
20286425 TAATT-TAAATTAAATA
1 TAATTATAAA-TAAATA
*
20286441 TATTTAT
1 TAATTAT
20286448 TTAATAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.07
16 27 0.90
17 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTATAAATAAATA
Found at i:20286455 original size:27 final size:31
Alignment explanation
Indices: 20286393--20286453 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
20286383 TGAATTCAAT
20286393 TAATTATAAA-TAAATATAATTAATATTTAATA
1 TAATT-TAAATTAAATATAATT-ATATTTAATA
20286425 TAATTTAAATTAAATAT-ATT-TATTTAATA
1 TAATTTAAATTAAATATAATTATATTTAATA
20286454 ATATAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 9 0.32
31 7 0.25
32 12 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TAATTTAAATTAAATATAATTATATTTAATA
Found at i:20289033 original size:30 final size:28
Alignment explanation
Indices: 20288953--20289038 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 28
20288943 AACAATTTGA
*
20288953 TATATTTATA-GAATATAAAATATTATATT
1 TATATTTATATTAATAT-AAA-ATTATATT
*
20288982 TAT-TTTATATTTTATTATAAAATTATATGT
1 TATATTTATA--TTAATATAAAATTATAT-T
*
20289012 TATAATTTATATTAATATAAAAATATA
1 TAT-ATTTATATTAATATAAAATTATA
20289039 AAATATGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
28 6 0.13
29 10 0.21
30 21 0.45
31 4 0.09
32 6 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TATATTTATATTAATATAAAATTATATT
Found at i:20289070 original size:21 final size:23
Alignment explanation
Indices: 20289046--20289090 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
20289036 ATAAAATATG
*
20289046 TATTTTTAA-TTTTATT-AAATT
1 TATTTATAATTTTTATTGAAATT
20289067 TATTTATAATTTTTATTGAAATT
1 TATTTATAATTTTTATTGAAATT
20289090 T
1 T
20289091 TAAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 7 0.33
23 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTTATAATTTTTATTGAAATT
Found at i:20295144 original size:22 final size:22
Alignment explanation
Indices: 20295119--20295161 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20295109 TTAAGGGTTC
20295119 ATTTGGACGAATGGTGAGATTA
1 ATTTGGACGAATGGTGAGATTA
* *
20295141 ATTTGGATGAATTGTGAGATT
1 ATTTGGACGAATGGTGAGATT
20295162 GAAAATAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (22 bp):
ATTTGGACGAATGGTGAGATTA
Found at i:20295329 original size:35 final size:36
Alignment explanation
Indices: 20295277--20295345 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 36
20295267 TAATAAAATA
20295277 AAAAATAATCATTAAAAATATT-AAA-TATTTTCACT
1 AAAAATAATCATTAAAAAT-TTAAAATTATTTTCACT
*
20295312 AAAAATTAT-ATTAAAAAATTTAAAATTATTTTCA
1 AAAAATAATCATT-AAAAATTTAAAATTATTTTCA
20295346 AATCAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 5 0.17
35 17 0.57
36 8 0.27
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (36 bp):
AAAAATAATCATTAAAAATTTAAAATTATTTTCACT
Found at i:20295566 original size:13 final size:13
Alignment explanation
Indices: 20295548--20295572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20295538 TCTTAAAGAG
20295548 AAAAATAAAAAAT
1 AAAAATAAAAAAT
20295561 AAAAATAAAAAA
1 AAAAATAAAAAA
20295573 CTGTGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:20295802 original size:21 final size:21
Alignment explanation
Indices: 20295763--20295809 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
20295753 ATATAATGTG
*
20295763 ATTAAATTTATTATATCATCA
1 ATTAAATTTAATATATCATCA
20295784 ATTAAATTTAA-ATAT--TC-
1 ATTAAATTTAATATATCATCA
20295801 ATTAAATTT
1 ATTAAATTT
20295810 TTTCAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
20 4 0.16
21 10 0.40
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAAATTTAATATATCATCA
Found at i:20297173 original size:3 final size:3
Alignment explanation
Indices: 20297167--20297193 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20297157 GCAGCAGCGG
20297167 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
20297194 GCTCAGTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:20304374 original size:19 final size:21
Alignment explanation
Indices: 20304334--20304377 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
20304324 ATAATATAAA
20304334 ATATTAATAATTTATATATTT
1 ATATTAATAATTTATATATTT
*
20304355 ATATT-ATATTTTATAT-TTT
1 ATATTAATAATTTATATATTT
20304374 ATAT
1 ATAT
20304378 AAAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTAATAATTTATATATTT
Found at i:20304472 original size:22 final size:23
Alignment explanation
Indices: 20304410--20304477 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 23
20304400 TATAGATATA
*
20304410 AAAATATAAAATATATTTTTATTT
1 AAAATATTAAAT-TATTTTTATTT
* * *
20304434 AAAGTTATT-TATAATTTTTA-TT
1 AAA-ATATTAAATTATTTTTATTT
20304456 AAAATATTAAATTA-TTTTATTT
1 AAAATATTAAATTATTTTTATTT
20304478 TTATATTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
21 9 0.26
22 10 0.29
23 7 0.21
24 5 0.15
25 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
AAAATATTAAATTATTTTTATTT
Found at i:20304484 original size:13 final size:13
Alignment explanation
Indices: 20304468--20304504 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
20304458 AATATTAAAT
* *
20304468 TATTTTATTTTTA
1 TATTATATTTTCA
20304481 TATTATATTTTCA
1 TATTATATTTTCA
20304494 TATTATATTTT
1 TATTATATTTT
20304505 AAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTATATTTTCA
Found at i:20304569 original size:2 final size:2
Alignment explanation
Indices: 20304562--20304596 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
20304552 ACAAATGCTT
20304562 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
20304597 TAAGAAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20314277 original size:3 final size:3
Alignment explanation
Indices: 20314271--20314298 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20314261 GAGGAGGGCT
20314271 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
20314299 TTAGGTGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:20314374 original size:24 final size:24
Alignment explanation
Indices: 20314337--20314407 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
20314327 GTGGTGGGGT
* *
20314337 AGGAGTTGGAGGTGGAGCTGGTGG
1 AGGACTTGGTGGTGGAGCTGGTGG
* * * * *
20314361 GGGGCTTGGTGGTGGTGCAGGAGG
1 AGGACTTGGTGGTGGAGCTGGTGG
*
20314385 AGGACTTGGTGGTGGAGGTGGTG
1 AGGACTTGGTGGTGGAGCTGGTG
20314408 CGGGTGGCGG
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.13, C:0.06, G:0.59, T:0.23
Consensus pattern (24 bp):
AGGACTTGGTGGTGGAGCTGGTGG
Found at i:20314474 original size:30 final size:30
Alignment explanation
Indices: 20314440--20314503 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
20314430 AAAAGGTGGA
* *
20314440 GGTGTAGGCGTTGGTGGTGGA-CCTGGCGGT
1 GGTGTAGGAGTTGGAGGTGGAGCC-GGCGGT
* *
20314470 GGTGTTGGAGTTGGAGGTGGAGCCGGTGGT
1 GGTGTAGGAGTTGGAGGTGGAGCCGGCGGT
20314500 GGTG
1 GGTG
20314504 CTGGCGGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.08, C:0.09, G:0.56, T:0.27
Consensus pattern (30 bp):
GGTGTAGGAGTTGGAGGTGGAGCCGGCGGT
Found at i:20314499 original size:42 final size:42
Alignment explanation
Indices: 20314452--20314543 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
20314442 TGTAGGCGTT
* ** *
20314452 GGTGGTGGACCTGGCGGTGGTGTTGGAGTTGGAGGTGGAGCC
1 GGTGGTGGACCTGGCGGAGGACTTGGAGGTGGAGGTGGAGCC
** * *
20314494 GGTGGTGGTGCTGGCGGAGGACTTGGAGGTGGAGGTGGTGCT
1 GGTGGTGGACCTGGCGGAGGACTTGGAGGTGGAGGTGGAGCC
20314536 GGTGGTGG
1 GGTGGTGG
20314544 TTTTGGAGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.09, C:0.10, G:0.58, T:0.24
Consensus pattern (42 bp):
GGTGGTGGACCTGGCGGAGGACTTGGAGGTGGAGGTGGAGCC
Found at i:20314550 original size:30 final size:30
Alignment explanation
Indices: 20314497--20314673 Score: 96
Period size: 30 Copynumber: 6.0 Consensus size: 30
20314487 TGGAGCCGGT
* * *
20314497 GGTGGTGCTGGCGGAGGACTTGGAGGTGGA
1 GGTGGTGCTGGTGGTGGTCTTGGAGGTGGA
*
20314527 GGTGGTGCTGGTGGTGGTTTTGGAGGTGGA
1 GGTGGTGCTGGTGGTGGTCTTGGAGGTGGA
*** * * * *
20314557 -AAAG-G-TGGAGGT-G--TGGGAGTTGGC
1 GGTGGTGCTGGTGGTGGTCTTGGAGGTGGA
* * **
20314581 GGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGA
1 GGTGGTGCTGGTGG---TGGTCTTGGAGGTGGA
** * * *
20314614 GCCGGCGGTGGTGGTGGACTTGGAGGTGGA
1 GGTGGTGCTGGTGGTGGTCTTGGAGGTGGA
*
20314644 GGTGGTGCTGGTGGTGGTTTTGGAGGTGGA
1 GGTGGTGCTGGTGGTGGTCTTGGAGGTGGA
20314674 AAAGGTGGAG
Statistics
Matches: 104, Mismatches: 34, Indels: 18
0.67 0.22 0.12
Matches are distributed among these distances:
24 8 0.08
25 1 0.01
26 2 0.02
27 11 0.11
28 1 0.01
29 1 0.01
30 64 0.62
31 1 0.01
33 15 0.14
ACGTcount: A:0.11, C:0.07, G:0.56, T:0.25
Consensus pattern (30 bp):
GGTGGTGCTGGTGGTGGTCTTGGAGGTGGA
Found at i:20314636 original size:117 final size:117
Alignment explanation
Indices: 20314386--20314748 Score: 501
Period size: 117 Copynumber: 3.0 Consensus size: 117
20314376 TGCAGGAGGA
* * * * *
20314386 GGACTTGGTGGTGGAGGTGGTGCGGGTGGCGGGTTTGGAGGTGGAAAAGGTGGAGGTGTAGGCGT
1 GGACTTGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGT
* * * ** * * * *
20314451 TGGTGGTGGACCTGGCGGTGGTGTTGGAGTTGGAGGTGGAGCCGGTGGTGGTGCTGGCGGA
66 TGGCGGTGG---TGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGT-G-G-T---GGT
*
20314512 GGACTTGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTGGGAGT
1 GGACTTGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGT
20314577 TGGCGGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGGT
66 TGGCGGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGGT
20314629 GGACTTGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGT
1 GGACTTGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGT
*
20314694 TGGCGGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGCT
66 TGGCGGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGGT
20314746 GGA
1 GGA
20314749 GGAGGTCTTG
Statistics
Matches: 220, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
117 120 0.55
120 1 0.00
121 1 0.00
122 1 0.00
123 30 0.14
126 67 0.30
ACGTcount: A:0.12, C:0.08, G:0.56, T:0.24
Consensus pattern (117 bp):
GGACTTGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGT
TGGCGGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGGT
Found at i:20314641 original size:18 final size:18
Alignment explanation
Indices: 20314593--20314648 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
20314583 TGGTGCCGGA
*
20314593 GGACTTGGTGGTGGAGGT
1 GGACTTGGAGGTGGAGGT
* * *
20314611 GGAGC-CGGCGGTGGTGGT
1 GGA-CTTGGAGGTGGAGGT
20314629 GGACTTGGAGGTGGAGGT
1 GGACTTGGAGGTGGAGGT
20314647 GG
1 GG
20314649 TGCTGGTGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.11, C:0.09, G:0.59, T:0.21
Consensus pattern (18 bp):
GGACTTGGAGGTGGAGGT
Found at i:20314659 original size:18 final size:17
Alignment explanation
Indices: 20314598--20314660 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
20314588 CCGGAGGACT
20314598 TGGTGGTGGAGGTGGAGC
1 TGGTGGTGGAGGTGG-GC
* * * *
20314616 CGGCGGTGGTGGTGGAC
1 TGGTGGTGGAGGTGGGC
*
20314633 TTGGAGGTGGAGGTGGTGC
1 -TGGTGGTGGAGGTGG-GC
20314652 TGGTGGTGG
1 TGGTGGTGG
20314661 TTTTGGAGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.08, C:0.08, G:0.60, T:0.24
Consensus pattern (17 bp):
TGGTGGTGGAGGTGGGC
Found at i:20314731 original size:21 final size:21
Alignment explanation
Indices: 20314677--20314828 Score: 79
Period size: 21 Copynumber: 7.5 Consensus size: 21
20314667 AGGTGGAAAA
* * *
20314677 GGTGGAGGTGTAGGAGTTGGC
1 GGTGGAGGTGGAGGACTTGGT
* **
20314698 GGTGGTGCCGGAGGACTTGGT
1 GGTGGAGGTGGAGGACTTGGT
*
20314719 GGTGGAGGTGGAGCCGGC--GGT
1 GGTGGAGGTGGAG--GACTTGGT
** * *
20314740 GGTGCTGGAGGAGGTCTTGGT
1 GGTGGAGGTGGAGGACTTGGT
* *
20314761 GGTGGTGGTGGAGGACTTGGA
1 GGTGGAGGTGGAGGACTTGGT
* *
20314782 GGTGGAGCTGGTGG---TGGT
1 GGTGGAGGTGGAGGACTTGGT
20314800 -GTCGGA---GGAGGACTTGGT
1 GGT-GGAGGTGGAGGACTTGGT
20314818 GGTGGAGGTGG
1 GGTGGAGGTGG
20314829 TGCTGGTGGT
Statistics
Matches: 96, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
15 4 0.04
17 2 0.02
18 13 0.14
19 4 0.04
21 71 0.74
23 2 0.02
ACGTcount: A:0.11, C:0.09, G:0.57, T:0.23
Consensus pattern (21 bp):
GGTGGAGGTGGAGGACTTGGT
Found at i:20314772 original size:42 final size:41
Alignment explanation
Indices: 20314481--20314773 Score: 158
Period size: 42 Copynumber: 7.3 Consensus size: 41
20314471 GTGTTGGAGT
* * * *
20314481 TGGAGGTGGAGCCGGTGGTGGTGCTGGCGGAGGACTTGGAGG
1 TGGAGGTGGAGCTGGCGGTGGTGCTGGAGGAGG-CTTGGTGG
* * ** * ***
20314523 TGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGG
1 TGGAGGTGGAGCTGGCGGTGGTGCTGGAGGAGG-CTTGGTGG
* * * *
20314565 AGG-TGTGGGAGTTGGCGGTGGTGCCGGAGGA--CTTGGTGG
1 TGGAGGT-GGAGCTGGCGGTGGTGCTGGAGGAGGCTTGGTGG
* * *
20314604 TGGAGGTGGAGCCGGCGGT-G-G-TGGTGGA--CTTGGAGG
1 TGGAGGTGGAGCTGGCGGTGGTGCTGGAGGAGGCTTGGTGG
* * ** * ***
20314640 TGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGG
1 TGGAGGTGGAGCTGGCGGTGGTGCTGGAGGAGG-CTTGGTGG
* * * *
20314682 AGG-TGTAGGAGTTGGCGGTGGTGCCGGAGGA--CTTGGTGG
1 TGGAGGT-GGAGCTGGCGGTGGTGCTGGAGGAGGCTTGGTGG
*
20314721 TGGAGGTGGAGCCGGCGGTGGTGCTGGAGGAGGTCTTGGTGG
1 TGGAGGTGGAGCTGGCGGTGGTGCTGGAGGAGG-CTTGGTGG
*
20314763 TGGTGGTGGAG
1 TGGAGGTGGAG
20314774 GACTTGGAGG
Statistics
Matches: 181, Mismatches: 57, Indels: 26
0.69 0.22 0.10
Matches are distributed among these distances:
36 28 0.15
37 2 0.01
38 1 0.01
39 50 0.28
40 4 0.02
41 4 0.02
42 92 0.51
ACGTcount: A:0.12, C:0.08, G:0.56, T:0.24
Consensus pattern (41 bp):
TGGAGGTGGAGCTGGCGGTGGTGCTGGAGGAGGCTTGGTGG
Found at i:20314782 original size:57 final size:57
Alignment explanation
Indices: 20314721--20314828 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
20314711 GACTTGGTGG
* *
20314721 TGGAGGTGGAGCCGGCGGTGGTG-CTGGAGGAGGTCTTGGTGGTGGTGGTGGAGGACT
1 TGGAGGTGGAGCCGGCGGTGGTGTC-GGAGGAGGACTTGGTGGTGGAGGTGGAGGACT
* *
20314778 TGGAGGTGGAGCTGGTGGTGGTGTCGGAGGAGGACTTGGTGGTGGAGGTGG
1 TGGAGGTGGAGCCGGCGGTGGTGTCGGAGGAGGACTTGGTGGTGGAGGTGG
20314829 TGCTGGTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
57 45 0.98
58 1 0.02
ACGTcount: A:0.11, C:0.08, G:0.57, T:0.23
Consensus pattern (57 bp):
TGGAGGTGGAGCCGGCGGTGGTGTCGGAGGAGGACTTGGTGGTGGAGGTGGAGGACT
Found at i:20314794 original size:30 final size:30
Alignment explanation
Indices: 20314760--20314894 Score: 99
Period size: 30 Copynumber: 4.3 Consensus size: 30
20314750 GAGGTCTTGG
20314760 TGGTGGTGGTGGAGGACTTGGAGGTGGAGC
1 TGGTGGTGGTGGAGGACTTGGAGGTGGAGC
* *
20314790 TGGTGGTGGTGTCGGAGGAGGACTTGGTGGTGGAGG
1 TGGTGGT-G-GT----GGAGGACTTGGAGGTGGAGC
* * ** **
20314826 TGGTGCTGGTGGTGGTTTTGGAGGTGGAAA
1 TGGTGGTGGTGGAGGACTTGGAGGTGGAGC
* * ** *
20314856 AGGTGGAGGTGTTGGAATTGGAGGTGGAGC
1 TGGTGGTGGTGGAGGACTTGGAGGTGGAGC
20314886 TGGTGGTGG
1 TGGTGGTGG
20314895 GGCAGGTGGA
Statistics
Matches: 80, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
30 50 0.62
31 1 0.01
32 2 0.03
34 2 0.03
35 1 0.01
36 24 0.30
ACGTcount: A:0.13, C:0.04, G:0.56, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGTGGAGGACTTGGAGGTGGAGC
Found at i:20314797 original size:36 final size:36
Alignment explanation
Indices: 20314757--20314841 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
20314747 GAGGAGGTCT
20314757 TGGTGGTGGTGGTGGAGGACTTGGAGGTGGAGCTGG
1 TGGTGGTGGTGGTGGAGGACTTGGAGGTGGAGCTGG
* * *
20314793 TGGTGGT-GTCGGAGGAGGACTTGGTGGTGGAGGTGG
1 TGGTGGTGGT-GGTGGAGGACTTGGAGGTGGAGCTGG
*
20314829 TGCTGGTGGTGGT
1 TGGTGGTGGTGGT
20314842 TTTGGAGGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 2 0.05
36 38 0.90
37 2 0.05
ACGTcount: A:0.09, C:0.06, G:0.58, T:0.27
Consensus pattern (36 bp):
TGGTGGTGGTGGTGGAGGACTTGGAGGTGGAGCTGG
Found at i:20314798 original size:117 final size:115
Alignment explanation
Indices: 20314517--20314787 Score: 400
Period size: 117 Copynumber: 2.3 Consensus size: 115
20314507 GCGGAGGACT
* * ** *
20314517 TGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTGGGAGTTGGCG
1 TGGAGGTCGAGGTGGTGCTGGTGGAGGACTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGCG
*
20314582 GTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGGTGGA
66 GTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGCTGGA
* * **
20314632 CTTGGAGGTGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGG
1 --TGGAGGTCGAGGTGGTGCTGGTGGAGGACTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGG
20314697 CGGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGCTGGA
64 CGGTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGCTGGA
** *
20314749 -GGAGGTCTTGGTGGTGGTGGTGGAGGACTTGGAGGTGGA
1 TGGAGGTCGAGGTGGTGCTGGTGGAGGACTTGGAGGTGGA
20314788 GCTGGTGGTG
Statistics
Matches: 145, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
114 32 0.22
117 113 0.78
ACGTcount: A:0.13, C:0.07, G:0.56, T:0.24
Consensus pattern (115 bp):
TGGAGGTCGAGGTGGTGCTGGTGGAGGACTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGCG
GTGGTGCCGGAGGACTTGGTGGTGGAGGTGGAGCCGGCGGTGGTGCTGGA
Found at i:20314861 original size:42 final size:42
Alignment explanation
Indices: 20314778--20314861 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
20314768 GTGGAGGACT
***
20314778 TGGAGGTGGAGCTGGTGGTGGTGTCGGAGGAGGACTTGGTGG
1 TGGAGGTGGAGCTGGTGGTGGTGTCGGAGGAGGAAAAGGTGG
* * * *
20314820 TGGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGG
1 TGGAGGTGGAGCTGGTGGTGGTGTCGGAGGAGGAAAAGGTGG
20314862 AGGTGTTGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.13, C:0.05, G:0.56, T:0.26
Consensus pattern (42 bp):
TGGAGGTGGAGCTGGTGGTGGTGTCGGAGGAGGAAAAGGTGG
Found at i:20314955 original size:24 final size:24
Alignment explanation
Indices: 20314928--20315005 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
20314918 GTATTGGAGG
* *
20314928 TGGAGGTGGTGCAGGTGGAGGTTT
1 TGGAGGTGGTGCTGGTGGAGGATT
* *
20314952 TGGAGGCGGTGCTGGTGGTGGATT
1 TGGAGGTGGTGCTGGTGGAGGATT
*
20314976 TGGAGGTGGTGCTGGTGGAGGAAT
1 TGGAGGTGGTGCTGGTGGAGGATT
20315000 TGGAGG
1 TGGAGG
20315006 GGGATTTTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.13, C:0.05, G:0.55, T:0.27
Consensus pattern (24 bp):
TGGAGGTGGTGCTGGTGGAGGATT
Found at i:20314972 original size:42 final size:42
Alignment explanation
Indices: 20314880--20314973 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
20314870 GAATTGGAGG
* * * * *
20314880 TGGAGCTGGTGGTGGGGCAGGTGGAGGACTTGGTGGTGGTAT
1 TGGAGGTGGAGGTGGGGCAGGTGGAGGACTTGGAGGCGGTAC
* ** *
20314922 TGGAGGTGGAGGTGGTGCAGGTGGAGGTTTTGGAGGCGGTGC
1 TGGAGGTGGAGGTGGGGCAGGTGGAGGACTTGGAGGCGGTAC
*
20314964 TGGTGGTGGA
1 TGGAGGTGGA
20314974 TTTGGAGGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.12, C:0.06, G:0.56, T:0.26
Consensus pattern (42 bp):
TGGAGGTGGAGGTGGGGCAGGTGGAGGACTTGGAGGCGGTAC
Found at i:20319806 original size:27 final size:27
Alignment explanation
Indices: 20319776--20319829 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20319766 AATTTGACAG
20319776 ACGCTTTAATTTGATACTAATGATTTC
1 ACGCTTTAATTTGATACTAATGATTTC
20319803 ACGCTTTAATTTGATACTAATGATTTC
1 ACGCTTTAATTTGATACTAATGATTTC
20319830 CTATCCTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (27 bp):
ACGCTTTAATTTGATACTAATGATTTC
Found at i:20325790 original size:21 final size:21
Alignment explanation
Indices: 20325747--20325789 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
20325737 TTATATCATG
20325747 ATAAAATTTTAATTATTATAT
1 ATAAAATTTTAATTATTATAT
*
20325768 ATAAAA-TTT-ATTATTACAT
1 ATAAAATTTTAATTATTATAT
20325787 ATA
1 ATA
20325790 TTATATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 3 0.14
21 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATTTTAATTATTATAT
Found at i:20326778 original size:14 final size:15
Alignment explanation
Indices: 20326753--20326785 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20326743 TTTATGAAAA
*
20326753 TATTTGATTTTTGTT
1 TATTTGATTTTTATT
20326768 TATTT-ATTTTTATT
1 TATTTGATTTTTATT
20326782 TATT
1 TATT
20326786 AAACTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TATTTGATTTTTATT
Found at i:20327004 original size:21 final size:21
Alignment explanation
Indices: 20326978--20327032 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
20326968 TTAATTTTAT
* *
20326978 TTTAAAATTCGTTTATATTTG
1 TTTAAAATTTGTTTATATATG
* *
20326999 TTT-AAATTTATTAATATATG
1 TTTAAAATTTGTTTATATATG
20327019 TTTAAAATTTGTTT
1 TTTAAAATTTGTTT
20327033 GTTTAAGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTAAAATTTGTTTATATATG
Found at i:20327045 original size:14 final size:15
Alignment explanation
Indices: 20327020--20327065 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
20327010 TAATATATGT
* *
20327020 TTAAAATTTGTTTGT
1 TTAAGATTTGTTTGA
20327035 TTAAG-TTTGTTTGA
1 TTAAGATTTGTTTGA
*
20327049 TTATGATTTGTTT-A
1 TTAAGATTTGTTTGA
20327063 TTA
1 TTA
20327066 TTCATGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (15 bp):
TTAAGATTTGTTTGA
Found at i:20327948 original size:23 final size:22
Alignment explanation
Indices: 20327922--20327965 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20327912 TATAGATTAA
20327922 ATATTTAAATTAAATTAAATTTT
1 ATATTT-AATTAAATTAAATTTT
* *
20327945 ATATTTAATTTAATTCAATTT
1 ATATTTAATTAAATTAAATTT
20327966 GATTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTTAATTAAATTAAATTTT
Found at i:20327973 original size:22 final size:22
Alignment explanation
Indices: 20327922--20327973 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
20327912 TATAGATTAA
*
20327922 ATATTTAAATTAAATTAAATTTT
1 ATATTT-AATTAAATTAAATTTG
* *
20327945 ATATTTAATTTAATTCAATTTG
1 ATATTTAATTAAATTAAATTTG
*
20327967 ATTTTTA
1 ATATTTA
20327974 TATATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTAATTAAATTAAATTTG
Found at i:20328044 original size:6 final size:6
Alignment explanation
Indices: 20328033--20328095 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
20328023 ATTATTTTTT
*
20328033 AATATA AATATA AA-ATT AA-ATA AATATA AATATA AATATA TAAT-TA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA -AATATA
*
20328079 AATA-A TAATAAA AATAT
1 AATATA -AATATA AATAT
20328096 TATATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
5 12 0.24
6 33 0.67
7 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Done.