Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 41 of 333
Found at i:11612397 original size:37 final size:37
Alignment explanation
Indices: 11612333--11612469 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
11612323 TACGTATGAT
**
11612333 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11612369 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11612406 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11612443 CACTTATCACTTTGTTTCTTGATCAGA
1 CACTTATCACTTTGTTTCTTGATCAGA
11612470 AGTACTCAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 10 0.10
37 86 0.90
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11618981 original size:18 final size:17
Alignment explanation
Indices: 11618939--11618981 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
11618929 TTTTTTAGTT
*
11618939 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
11618956 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
11618974 TATAATTT
1 TATAATTT
11618982 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:11619716 original size:19 final size:19
Alignment explanation
Indices: 11619678--11619718 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11619668 ACACTAGCAA
* **
11619678 AAAAATTAAATTTTTTAAG
1 AAAAATAAAATTTTAAAAG
11619697 AAAAATAAAATTTTAAAAG
1 AAAAATAAAATTTTAAAAG
11619716 AAA
1 AAA
11619719 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAATAAAATTTTAAAAG
Found at i:11620373 original size:14 final size:13
Alignment explanation
Indices: 11620341--11620371 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11620331 TAAAACATTA
11620341 ATTATAAATTTTT
1 ATTATAAATTTTT
11620354 ATTATAAATTTTT
1 ATTATAAATTTTT
11620367 -TTATA
1 ATTATA
11620372 TATTGCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATAAATTTTT
Found at i:11620998 original size:19 final size:20
Alignment explanation
Indices: 11620961--11621020 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
11620951 TTATTTAACA
* *
11620961 TTTTTATCAATTTTAATAATT
1 TTTTTA-CAAATTTAATAAAT
11620982 TTTTTACAAATTT-ATAAAT
1 TTTTTACAAATTTAATAAAT
*
11621001 TTTTTA-AAAATTAA-AAAT
1 TTTTTACAAATTTAATAAAT
11621019 TT
1 TT
11621021 AAAAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 11 0.31
19 12 0.34
20 6 0.17
21 6 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTACAAATTTAATAAAT
Found at i:11621018 original size:18 final size:19
Alignment explanation
Indices: 11620981--11621020 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
11620971 TTTTAATAAT
* *
11620981 TTTTTTACAAATTTATAAA
1 TTTTTTACAAAATTAAAAA
11621000 TTTTTTA-AAAATTAAAAA
1 TTTTTTACAAAATTAAAAA
11621018 TTT
1 TTT
11621021 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTTACAAAATTAAAAA
Found at i:11624228 original size:101 final size:101
Alignment explanation
Indices: 11624053--11624437 Score: 761
Period size: 101 Copynumber: 3.8 Consensus size: 101
11624043 CTCTCTGCTG
11624053 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
1 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
11624118 CTGTACTTACATTAAATGAGTTCGGTTCACAAGTAA
66 CTGTACTTACATTAAATGAGTTCGGTTCACAAGTAA
11624154 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
1 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
11624219 CTGTACTTACATTAAATGAGTTCGGTTCACAAGTAA
66 CTGTACTTACATTAAATGAGTTCGGTTCACAAGTAA
11624255 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
1 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
11624320 CTGTACTTACATTAAATGAGTTCGGTTCACAAGTAA
66 CTGTACTTACATTAAATGAGTTCGGTTCACAAGTAA
11624356 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
1 ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
*
11624421 CTATACTTACATTAAAT
66 CTGTACTTACATTAAAT
11624438 TAGTCAGTAT
Statistics
Matches: 283, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 283 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (101 bp):
ATACATGTCTGCGTATTTGTTGCCTCTCAATATTCAACAAGTAGATGGTTGCAATGTGATGCTAT
CTGTACTTACATTAAATGAGTTCGGTTCACAAGTAA
Found at i:11630558 original size:29 final size:30
Alignment explanation
Indices: 11630497--11630563 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
11630487 CTAAACTTAT
*
11630497 TTTTTAAA-ATAATTTTATATATTTAATTT
1 TTTTTAAATATAATTTTATATATTTAATTA
11630526 TTTTTAAATATCATATTTT-TATA-TT-ATTA
1 TTTTTAAATAT-A-ATTTTATATATTTAATTA
*
11630555 TTTTGAAAT
1 TTTTTAAAT
11630564 TAAAAGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 19 0.58
30 4 0.12
31 5 0.15
32 5 0.15
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (30 bp):
TTTTTAAATATAATTTTATATATTTAATTA
Found at i:11634494 original size:19 final size:19
Alignment explanation
Indices: 11634447--11634495 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
11634437 TTAAATTGGG
11634447 ATTATATTTTATATAAAAT
1 ATTATATTTTATATAAAAT
* * *
11634466 GTGCAT-TTTTATTTAAAAT
1 AT-TATATTTTATATAAAAT
11634485 ATTATATTTTA
1 ATTATATTTTA
11634496 CATTAGTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTATATTTTATATAAAAT
Found at i:11642328 original size:16 final size:17
Alignment explanation
Indices: 11642307--11642343 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
11642297 CATGTTAGCT
11642307 AAAATAAAAA-ATTCAA
1 AAAATAAAAATATTCAA
11642323 AAAATAAAAATTATTCAA
1 AAAATAAAAA-TATTCAA
11642341 AAA
1 AAA
11642344 TTTTAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAAAATATTCAA
Found at i:11642975 original size:21 final size:20
Alignment explanation
Indices: 11642946--11642989 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
11642936 ATATTATAAG
11642946 TTTTGATAATTTTTATAAATT
1 TTTTGATAATTTTTAT-AATT
*
11642967 TTTTTATAATTTTTATAATT
1 TTTTGATAATTTTTATAATT
11642987 TTT
1 TTT
11642990 AAAATACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTGATAATTTTTATAATT
Found at i:11642988 original size:8 final size:9
Alignment explanation
Indices: 11642899--11642990 Score: 78
Period size: 9 Copynumber: 9.6 Consensus size: 9
11642889 GTGTTGTAAC
*
11642899 TTTTATGAT
1 TTTTATAAT
11642908 TTTTATAAT
1 TTTTATAAT
*
11642917 TTTTAAATAT
1 TTTTATA-AT
11642927 TTTTA-AAT
1 TTTTATAAT
*
11642935 CATATTATAAGT
1 --TTTTATAA-T
*
11642947 TTTGATAAT
1 TTTTATAAT
11642956 TTTTATAAATTT
1 TTTTAT-AA--T
11642968 TTTTATAAT
1 TTTTATAAT
11642977 TTTTATAAT
1 TTTTATAAT
11642986 TTTTA
1 TTTTA
11642991 AAATACTAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
8 2 0.03
9 36 0.52
10 19 0.28
11 4 0.06
12 8 0.12
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:11646458 original size:33 final size:33
Alignment explanation
Indices: 11646416--11646491 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
11646406 CCTATACTAG
11646416 TGTCTTCGTCATCGAATCTAGTCCCTTTACCAA
1 TGTCTTCGTCATCGAATCTAGTCCCTTTACCAA
*
11646449 TGTCTTCGTCATCGAATCTTGTCCCTTTACCAA
1 TGTCTTCGTCATCGAATCTAGTCCCTTTACCAA
11646482 TGTCTTCGTC
1 TGTCTTCGTC
11646492 TTCTGATCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.39
Consensus pattern (33 bp):
TGTCTTCGTCATCGAATCTAGTCCCTTTACCAA
Found at i:11647237 original size:12 final size:12
Alignment explanation
Indices: 11647220--11647246 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11647210 AAAATCTAGA
11647220 AATATATATTGT
1 AATATATATTGT
11647232 AATATATATTGT
1 AATATATATTGT
11647244 AAT
1 AAT
11647247 CTTGCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATATATATTGT
Found at i:11650195 original size:3 final size:3
Alignment explanation
Indices: 11650189--11650221 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11650179 TTTTTTTGTT
11650189 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11650222 CAGAAGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11663872 original size:19 final size:19
Alignment explanation
Indices: 11663848--11663885 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11663838 GTAATTGAAC
*
11663848 TTGAAAATTGGACCTGAGA
1 TTGAAAATTGGACCCGAGA
11663867 TTGAAAATTGGACCCGAGA
1 TTGAAAATTGGACCCGAGA
11663886 ACCAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (19 bp):
TTGAAAATTGGACCCGAGA
Found at i:11667483 original size:62 final size:61
Alignment explanation
Indices: 11667383--11667516 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 61
11667373 CAAAGATAGT
* * * *
11667383 ATTATTTTAA-TAAATTTAATATTTATCTAGATAGTATTTTATTAATTTTATAGTAATATG
1 ATTATTTTAATTAAATTTAATATTTATATAGAAAATATTTTATTAATTTAATAGTAATATG
* * * *
11667443 ATATATTTTAATTTAATTTAATATTTATATTGAAAATATTTTATTAATTTAATATTAATGTG
1 AT-TATTTTAATTAAATTTAATATTTATATAGAAAATATTTTATTAATTTAATAGTAATATG
11667505 ATTAATTTTAAT
1 ATT-ATTTTAAT
11667517 CCTAGTTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 2 0.03
61 9 0.14
62 52 0.83
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (61 bp):
ATTATTTTAATTAAATTTAATATTTATATAGAAAATATTTTATTAATTTAATAGTAATATG
Found at i:11667490 original size:31 final size:32
Alignment explanation
Indices: 11667385--11667498 Score: 110
Period size: 31 Copynumber: 3.7 Consensus size: 32
11667375 AAGATAGTAT
* * * * *
11667385 TATTTTAATAAATTTAATATTTATCTAGATAG
1 TATTTTAATTAATTTAATATTTATATTGAAAA
* * * *
11667417 TATTTT-ATTAATTTTATAGTAATA-TG-ATA
1 TATTTTAATTAATTTAATATTTATATTGAAAA
11667446 TATTTTAATTTAATTTAATATTTATATTGAAAA
1 TATTTTAA-TTAATTTAATATTTATATTGAAAA
11667479 TATTTT-ATTAATTTAATATT
1 TATTTTAATTAATTTAATATT
11667499 AATGTGATTA
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
29 6 0.09
30 2 0.03
31 40 0.62
32 9 0.14
33 8 0.12
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (32 bp):
TATTTTAATTAATTTAATATTTATATTGAAAA
Found at i:11671044 original size:22 final size:22
Alignment explanation
Indices: 11671002--11671053 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
11670992 TTTATGTAAC
*
11671002 ATATTATGAATGTGCAATATAT
1 ATATTATGAATGTACAATATAT
*
11671024 ATATT-TGAATGTATAACTATAT
1 ATATTATGAATGTACAA-TATAT
11671046 -TCATTATG
1 AT-ATTATG
11671054 TATATAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 10 0.40
22 13 0.52
23 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (22 bp):
ATATTATGAATGTACAATATAT
Found at i:11679395 original size:20 final size:19
Alignment explanation
Indices: 11679372--11679417 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
11679362 AACATTGAAT
*
11679372 CTTGGATCGAAACCTCAAAC
1 CTTGAATCGAAACC-CAAAC
*
11679392 CTTGAATCTAAACCCAAAC
1 CTTGAATCGAAACCCAAAC
*
11679411 CTCGAAT
1 CTTGAAT
11679418 AGTTCAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.22
Consensus pattern (19 bp):
CTTGAATCGAAACCCAAAC
Found at i:11679806 original size:44 final size:44
Alignment explanation
Indices: 11679754--11679837 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
11679744 AATATTACTA
* * *
11679754 AATTCACATTT-AAAAATAATTATAATTTAATAAAAGTTGAAAT
1 AATTCACATTTAAAAAATAAATATAAGTTAAAAAAAGTTGAAAT
*
11679797 AATTACACATTTAAAAAATAAATATTAGTTAAAAAAAGTTG
1 AATT-CACATTTAAAAAATAAATATAAGTTAAAAAAAGTTG
11679838 TGATAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 4 0.11
44 7 0.20
45 24 0.69
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (44 bp):
AATTCACATTTAAAAAATAAATATAAGTTAAAAAAAGTTGAAAT
Found at i:11681199 original size:19 final size:19
Alignment explanation
Indices: 11681175--11681213 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11681165 GTTAATTTTG
11681175 TTATTATTTTAAAGGCATT
1 TTATTATTTTAAAGGCATT
*
11681194 TTATTATTTTAGAGGCATT
1 TTATTATTTTAAAGGCATT
11681213 T
1 T
11681214 GCTTGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTATTTTAAAGGCATT
Found at i:11681333 original size:18 final size:18
Alignment explanation
Indices: 11681297--11681334 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11681287 GGAATATTTA
*
11681297 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
11681315 TTTTGATGTCTTATA-TAT
1 TTTTGATGT-TTATAGTAT
11681333 TT
1 TT
11681335 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:11689199 original size:19 final size:19
Alignment explanation
Indices: 11689175--11689212 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11689165 GCATTTAACT
11689175 TCTAAAAAATAGAGAAATA
1 TCTAAAAAATAGAGAAATA
11689194 TCTAAAAAATAGAGAAATA
1 TCTAAAAAATAGAGAAATA
11689213 AATGTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (19 bp):
TCTAAAAAATAGAGAAATA
Found at i:11689838 original size:42 final size:42
Alignment explanation
Indices: 11689791--11689870 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
11689781 TATTCAACTC
11689791 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACAAGTT
1 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACAAGTT
11689833 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACA
1 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACA
11689871 CCAAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.54, C:0.07, G:0.19, T:0.20
Consensus pattern (42 bp):
GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACAAGTT
Found at i:11689910 original size:21 final size:23
Alignment explanation
Indices: 11689886--11689929 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
11689876 TAAATTTAGG
*
11689886 AAAACAAT-GAACAAA-AATAAT
1 AAAAAAATAGAACAAAGAATAAT
11689907 AAAAAAATAAGAACAAAGAATAA
1 AAAAAAAT-AGAACAAAGAATAA
11689930 ATATTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (23 bp):
AAAAAAATAGAACAAAGAATAAT
Found at i:11695776 original size:39 final size:39
Alignment explanation
Indices: 11695733--11695837 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
11695723 ATCATGATCT
** *
11695733 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
11695772 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
11695811 GAAGCCCGAAGGCTAACTGAAGCACAT
1 GAAGCCCGAAGGCTAACTGAAGCACAT
11695838 CAGAGCTGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:11695815 original size:21 final size:21
Alignment explanation
Indices: 11695751--11695815 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
11695741 AAATCTAGCT
11695751 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
*** *
11695772 GAAGC-CCGGAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
11695790 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
11695811 GAAGC
1 GAAGC
11695816 CCGAAGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.38, C:0.22, G:0.28, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:11700909 original size:20 final size:20
Alignment explanation
Indices: 11700886--11700925 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11700876 CCTTGAAAAA
11700886 GGTACCGATA-CTTTATGATT
1 GGTACCGATACCTTTA-GATT
*
11700906 GGTATCGATACCTTTAGATT
1 GGTACCGATACCTTTAGATT
11700926 TAATTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
GGTACCGATACCTTTAGATT
Found at i:11703386 original size:2 final size:2
Alignment explanation
Indices: 11703381--11703414 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11703371 TGTGTGGAAA
11703381 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
11703415 CATCCATCAT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11716468 original size:32 final size:32
Alignment explanation
Indices: 11716432--11716501 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
11716422 CCTCAACTAT
* * *
11716432 TTTGGTCGTGT-GGGCCACACGGGCAAGGCCAA
1 TTTGGTCGTGTACGCCCACACAGGCAA-GCCAA
*
11716464 TTTGGGTCGTGTACGCCCACACAGGCAAGCCAT
1 TTT-GGTCGTGTACGCCCACACAGGCAAGCCAA
11716497 TTTGG
1 TTTGG
11716502 GGATGTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
32 5 0.16
33 15 0.47
34 12 0.38
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.23
Consensus pattern (32 bp):
TTTGGTCGTGTACGCCCACACAGGCAAGCCAA
Found at i:11722846 original size:42 final size:42
Alignment explanation
Indices: 11722800--11722899 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
11722790 GGAAACTCAT
*
11722800 AAGAGCTGAACGGAAACCCATA-AGAGTTAAATAGAAGCTTAA
1 AAGAGCTAAACGGAAACCCATATA-AGTTAAATAGAAGCTTAA
* * * **
11722842 AAGAGCTAAATGGAAACTCATATAAGTTGAATAGAAGCTTGT
1 AAGAGCTAAACGGAAACCCATATAAGTTAAATAGAAGCTTAA
*
11722884 GAGAGCTAAACGGAAA
1 AAGAGCTAAACGGAAA
11722900 GTAAACATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.23, T:0.19
Consensus pattern (42 bp):
AAGAGCTAAACGGAAACCCATATAAGTTAAATAGAAGCTTAA
Found at i:11731481 original size:14 final size:14
Alignment explanation
Indices: 11731462--11731491 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11731452 AGGTTAAAAA
11731462 TTAATAAGAATTGG
1 TTAATAAGAATTGG
11731476 TTAATAAGAATTGG
1 TTAATAAGAATTGG
11731490 TT
1 TT
11731492 TCATTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (14 bp):
TTAATAAGAATTGG
Found at i:11738094 original size:35 final size:35
Alignment explanation
Indices: 11738055--11738126 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
11738045 CATCTCCGGA
* *
11738055 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
* * *
11738090 GCTTGGAAAATATGGAATGGGATTTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
11738125 GC
1 GC
11738127 GATCCTAGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:11738342 original size:12 final size:12
Alignment explanation
Indices: 11738325--11738357 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11738315 CATTCACTCA
11738325 AACTTTTCTCTC
1 AACTTTTCTCTC
11738337 AACTTTTCTCTC
1 AACTTTTCTCTC
*
11738349 AACTGTTCT
1 AACTTTTCT
11738358 TATTTTTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.30, G:0.03, T:0.48
Consensus pattern (12 bp):
AACTTTTCTCTC
Found at i:11739140 original size:16 final size:16
Alignment explanation
Indices: 11739119--11739181 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
11739109 ACATTTTACA
* *
11739119 AAAATAGTATAAAAAT
1 AAAATACTAAAAAAAT
11739135 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
*** *
11739151 ATCTTAATAAAAAAAT
1 AAAATACTAAAAAAAT
*
11739167 AAAATACGAAAAAAA
1 AAAATACTAAAAAAA
11739182 AATTTTGGGG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:11739586 original size:151 final size:148
Alignment explanation
Indices: 11739214--11739991 Score: 1108
Period size: 151 Copynumber: 5.2 Consensus size: 148
11739204 GCGAGTTTTT
*
11739214 TACTAAAATAATAT-AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAA-T
* * * * *
11739278 TAAAAAATACAAACAAAGGGTCAAAATTAGGGTTATTTACTAAATT-A-ATAAAAATACTAAAAT
65 AAAAAAATAC-AACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAACACTTAAAT
11739341 AATACATTTGAAACATTTATG
129 AATACATTTGAAACA-TTATG
**
11739362 TACTAAAATAATAT----AA-AAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
*
11739422 AAAAAATACCAACAAAGTGTCAAAATTAGGGTTATTTGTTAAATTAATATAAAAACACTTAAATA
66 AAAAAATA-CAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAACACTTAAATA
11739487 ATACATTTGAAACATTATG
130 ATACATTTGAAACATTATG
* * *
11739506 TGCTAAAATAATATATAAAAAATAAAATACGAAAATAGTATATTTCAAAAAATAAAATCTAAAAA
1 TACTAAAAT-A-ATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAA
11739571 TAAAAAAATATCAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTAA
64 TAAAAAAATA-CAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATAT-AAAAACACTTAA
11739636 ATAATACATTTGAAACATTATG
127 ATAATACATTTGAAACATTATG
* * *
11739658 TACTAAAATAATATAAAAAATAAAAAACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAAT-
* * * *
11739723 AAAAAAATACCAACAGAGTGTCAAAATCATGGTTATTTATTAAATTAATA-AAAAA-ATTTAAAT
65 AAAAAAATA-CAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAACACTTAAAT
* *
11739786 AATATATTTGAAATATTATG
129 AATACATTTGAAACATTATG
11739806 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
* * * *
11739871 AAAAAATACAAATAAAGTATCAAAATCATGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
66 AAAAAATAC-AACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATAT-AAAAACACTTAAAT
* * *
11739936 AATATATTTAAAATATTATG
129 AATACATTTGAAACATTATG
*
11739956 TACCAAAATAATATAAAAAAATAAAATACGAAAATA
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATA
11739992 AAAAAATATC
Statistics
Matches: 577, Mismatches: 36, Indels: 31
0.90 0.06 0.05
Matches are distributed among these distances:
143 41 0.07
144 54 0.09
145 32 0.06
146 5 0.01
147 45 0.08
148 100 0.17
149 10 0.02
150 90 0.16
151 158 0.27
152 42 0.07
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (148 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
AAAAAATACAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAACACTTAAATAA
TACATTTGAAACATTATG
Found at i:11739861 original size:298 final size:298
Alignment explanation
Indices: 11739214--11739992 Score: 1166
Period size: 298 Copynumber: 2.6 Consensus size: 298
11739204 GCGAGTTTTT
*
11739214 TACTAAAATAATAT-AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAA-T
* * * * *
11739278 TAAAAAATACAAACAAAGGGTCAAAATTAGGGTTATTTACTAAATT-A-AT-AAAAATACTAAAA
65 AAAAAAATACAAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTAAA
*
11739340 TAATACATTTGAAACATTTATGTACTAAAATAATATAAAAAAT----ACGAAAATAGTATATTTT
130 TAATACATTTGAAACA-TTATGTACTAAAATAATATAAAAAATAAAAACGAAAATAATATATTTT
* * *
11739401 AAAAAATAAAATCTGAAAATAAAAAAATACCAACAAAGTGTCAAAATTAGGGTTATTTGTTAAAT
194 AAAAAATAAAATCCGAAAATAAAAAAATACCAACAAAGTGTCAAAATCAGGGTTATTTATTAAAT
11739466 TAATATAAAAACACTTAAATAATACATTTGAAACATTATG
259 TAATATAAAAACACTTAAATAATACATTTGAAACATTATG
* * *
11739506 TGCTAAAATAATATATAAAAAATAAAATACGAAAATAGTATATTTCAAAAAATAAAATCTAAAAA
1 TACTAAAAT-A-ATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAA
11739571 TAAAAAAATATC-AACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTA
64 TAAAAAAATA-CAAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTA
11739635 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAAACGAAAATAATATATT
128 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAT-AAAAACGAAAATAATATATT
* *
11739700 TTAAAAAATAAAATCCGAAAATAAAAAAAATACCAACAGAGTGTCAAAATCATGGTTATTTATTA
192 TTAAAAAATAAAATCCGAAAAT-AAAAAAATACCAACAAAGTGTCAAAATCAGGGTTATTTATTA
* * *
11739765 AATTAATA-AAAAA-ATTTAAATAATATATTTGAAATATTATG
256 AATTAATATAAAAACACTTAAATAATACATTTGAAACATTATG
11739806 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
* * * *
11739871 AAAAAATACAAATAAAGTATCAAAATCATGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
66 AAAAAATACAAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
* * * *
11739936 AATATATTTAAAATATTATGTACCAAAATAATATAAAAAAATAAAATACGAAAATAA
131 AATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAA-ACGAAAATAA
11739993 AAAAATATCA
Statistics
Matches: 442, Mismatches: 29, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
292 8 0.02
293 1 0.00
294 46 0.10
295 47 0.11
296 28 0.06
297 28 0.06
298 146 0.33
299 18 0.04
300 33 0.07
301 41 0.09
302 46 0.10
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (298 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
AAAAAATACAAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
AATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAACGAAAATAATATATTTTAA
AAAATAAAATCCGAAAATAAAAAAATACCAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTA
ATATAAAAACACTTAAATAATACATTTGAAACATTATG
Found at i:11742327 original size:33 final size:33
Alignment explanation
Indices: 11742249--11742363 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 33
11742239 ATCTTTGGGT
* * * * * *
11742249 CGTATCCAACGCAGCACAGCACTTCTCCCGACC
1 CGTATCCACCGCAGTATAGCACTACCCCCGGCC
* * * **
11742282 CATATTCGCCGCAGTATAGCACTACCTTCGGCC
1 CGTATCCACCGCAGTATAGCACTACCCCCGGCC
*
11742315 TGTATCCACCGCAGTATAGCACTACCCCCGGCC
1 CGTATCCACCGCAGTATAGCACTACCCCCGGCC
11742348 CGTATCCACCGCAGTA
1 CGTATCCACCGCAGTA
11742364 CTCTACTCCT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.23, C:0.41, G:0.17, T:0.19
Consensus pattern (33 bp):
CGTATCCACCGCAGTATAGCACTACCCCCGGCC
Found at i:11742803 original size:18 final size:18
Alignment explanation
Indices: 11742780--11742867 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
11742770 ATACATTACA
11742780 ACATTAATCTAATTAAAC
1 ACATTAATCTAATTAAAC
**
11742798 ACATTAATCTAATTGGA-
1 ACATTAATCTAATTAAAC
*
11742815 ACATTAAT-TAAATTCATTAC
1 ACATTAATCT-AATT-A-AAC
* *
11742835 AACATAAATCTAATTAAAT
1 -ACATTAATCTAATTAAAC
11742854 ACATTAATCTAATT
1 ACATTAATCTAATT
11742868 GGAACATTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
16 1 0.02
17 12 0.21
18 28 0.50
19 2 0.04
20 1 0.02
21 11 0.20
22 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (18 bp):
ACATTAATCTAATTAAAC
Found at i:11742803 original size:26 final size:26
Alignment explanation
Indices: 11742767--11742905 Score: 97
Period size: 26 Copynumber: 5.0 Consensus size: 26
11742757 GAACAAACTC
11742767 TAAATACATTACAACATTAATCTAAT
1 TAAATACATTACAACATTAATCTAAT
* *
11742793 TAAACACATTA-ATCTAATTGGAA-CATTAAT
1 TAAATACATTACAAC--ATT--AATC--TAAT
* *
11742823 TAAATTCATTACAACATAAATCTAAT
1 TAAATACATTACAACATTAATCTAAT
*
11742849 TAAATACATTA-ATCTAATTGGAA-CATTAAT
1 TAAATACATTACAAC--ATT--AATC--TAAT
11742879 TAAATACATTACAACATTAATCTAAT
1 TAAATACATTACAACATTAATCTAAT
11742905 T
1 T
11742906 GGAACAAACT
Statistics
Matches: 87, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
25 4 0.05
26 29 0.33
27 9 0.10
28 4 0.05
29 9 0.10
30 28 0.32
31 4 0.05
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (26 bp):
TAAATACATTACAACATTAATCTAAT
Found at i:11742825 original size:30 final size:30
Alignment explanation
Indices: 11742789--11742889 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
11742779 AACATTAATC
*
11742789 TAATTAAACACATTAATCTAATTGGAACAT
1 TAATTAAATACATTAATCTAATTGGAACAT
* *
11742819 TAATTAAATTCATT-A-C-AACAT--AA-AT
1 TAATTAAATACATTAATCTAA-TTGGAACAT
11742844 CTAATTAAATACATTAATCTAATTGGAACAT
1 -TAATTAAATACATTAATCTAATTGGAACAT
11742875 TAATTAAATACATTA
1 TAATTAAATACATTA
11742890 CAACATTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
25 2 0.03
26 15 0.26
27 3 0.05
28 4 0.07
29 3 0.05
30 29 0.50
31 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.36
Consensus pattern (30 bp):
TAATTAAATACATTAATCTAATTGGAACAT
Found at i:11742838 original size:56 final size:56
Alignment explanation
Indices: 11742767--11742905 Score: 251
Period size: 56 Copynumber: 2.5 Consensus size: 56
11742757 GAACAAACTC
11742767 TAAATACATTACAACATTAATCTAATTAAACACATTAATCTAATTGGAACATTAAT
1 TAAATACATTACAACATTAATCTAATTAAACACATTAATCTAATTGGAACATTAAT
* * *
11742823 TAAATTCATTACAACATAAATCTAATTAAATACATTAATCTAATTGGAACATTAAT
1 TAAATACATTACAACATTAATCTAATTAAACACATTAATCTAATTGGAACATTAAT
11742879 TAAATACATTACAACATTAATCTAATT
1 TAAATACATTACAACATTAATCTAATT
11742906 GGAACAAACT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 78 1.00
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (56 bp):
TAAATACATTACAACATTAATCTAATTAAACACATTAATCTAATTGGAACATTAAT
Found at i:11745398 original size:21 final size:20
Alignment explanation
Indices: 11745363--11745410 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
11745353 CATGTATTGG
*
11745363 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
11745383 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
11745404 A-ATTAAA
1 ATATTAAA
11745411 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:11747455 original size:19 final size:19
Alignment explanation
Indices: 11747431--11747528 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
11747421 AATCTTTAAG
11747431 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11747450 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11747469 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11747486 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11747505 GATGTGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
11747526 GAT
1 GAT
11747529 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11747461 original size:36 final size:35
Alignment explanation
Indices: 11747421--11747506 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 35
11747411 ATGGAAATAT
11747421 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
11747457 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
11747493 AATC-TTAGATATGA
1 AATCTTTAGATATGA
11747507 TGTGCAATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 37 0.79
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:11747507 original size:36 final size:36
Alignment explanation
Indices: 11747437--11747507 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
11747427 TAAGGATATG
11747437 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
11747473 CAATCTTAGATATGATATGCAATCTTAGATATGAT
1 CAATCTTAGATATGATATGCAATCTTAGATATGAT
11747508 GTGCAATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:11748560 original size:17 final size:17
Alignment explanation
Indices: 11748540--11748596 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
11748530 TTCTAAACCA
*
11748540 ATATATTTTTTATTTTT
1 ATATAATTTTTATTTTT
*
11748557 ATATAATTATTATCCTTTT
1 ATATAATTTTTAT--TTTT
* *
11748576 ATA-AATTTTTGTTATT
1 ATATAATTTTTATTTTT
11748592 ATATA
1 ATATA
11748597 TTATATATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 6 0.19
17 12 0.38
18 7 0.22
19 7 0.22
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATAATTTTTATTTTT
Found at i:11749935 original size:46 final size:46
Alignment explanation
Indices: 11749884--11750208 Score: 402
Period size: 46 Copynumber: 7.0 Consensus size: 46
11749874 GTGTGCTCTC
* *
11749884 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
11749930 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
11749976 TAATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGTAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
11750022 TGATA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
11750068 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
11750114 TGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
11750161 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
11750207 TG
1 TG
11750209 TCAAAGATAA
Statistics
Matches: 252, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 208 0.83
47 43 0.17
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:11750161 original size:24 final size:24
Alignment explanation
Indices: 11750088--11750162 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
11750078 TGAATAAGAC
11750088 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
* *
11750112 CATGACG-GGAAA-ATGA--ATAAG-AA
1 CATG--GTTGAAAGAT-ACCAT-GGCAA
11750135 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
11750159 CATG
1 CATG
11750163 ACAGAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 11 0.29
24 15 0.39
25 5 0.13
26 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:11750508 original size:16 final size:17
Alignment explanation
Indices: 11750489--11750521 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11750479 ATGATGGAGT
11750489 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
11750505 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
11750522 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:11752659 original size:18 final size:18
Alignment explanation
Indices: 11752638--11752713 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
11752628 AACCTAAAAC
11752638 ACATATAACAAATAAATT
1 ACATATAACAAATAAATT
11752656 ACATA-AA-AGAATAAA--
1 ACATATAACA-AATAAATT
* * **
11752671 ACATCTAATCAACCTAAAAC
1 ACATATAA-CAA-ATAAATT
11752691 ACATATAACAAATAAATT
1 ACATATAACAAATAAATT
11752709 ACATA
1 ACATA
11752714 AAAGAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.09
16 3 0.07
17 9 0.20
18 19 0.42
19 3 0.07
20 7 0.16
ACGTcount: A:0.61, C:0.16, G:0.01, T:0.22
Consensus pattern (18 bp):
ACATATAACAAATAAATT
Found at i:11752678 original size:53 final size:53
Alignment explanation
Indices: 11752620--11752727 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
11752610 TATAAATATT
11752620 ATCTAATCAACCTAAAACACATATAACAAATAAATTACATAAAAGAATAAAAC
1 ATCTAATCAACCTAAAACACATATAACAAATAAATTACATAAAAGAATAAAAC
11752673 ATCTAATCAACCTAAAACACATATAACAAATAAATTACATAAAAGAATAAAAC
1 ATCTAATCAACCTAAAACACATATAACAAATAAATTACATAAAAGAATAAAAC
11752726 AT
1 AT
11752728 TCTTTACATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (53 bp):
ATCTAATCAACCTAAAACACATATAACAAATAAATTACATAAAAGAATAAAAC
Found at i:11752883 original size:16 final size:16
Alignment explanation
Indices: 11752862--11752894 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11752852 TAGTTTTTTT
11752862 ACTAACAATAATAATA
1 ACTAACAATAATAATA
*
11752878 ACTAACAATAATGATA
1 ACTAACAATAATAATA
11752894 A
1 A
11752895 GGGTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:11752920 original size:26 final size:26
Alignment explanation
Indices: 11752878--11752969 Score: 141
Period size: 26 Copynumber: 3.6 Consensus size: 26
11752868 AATAATAATA
*
11752878 ACTAACAATAATGATAAGGGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
* *
11752904 ACCAACAATAATAATAAGGATTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
11752930 ACTAACAATAATAATAA-GGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
*
11752955 ACTAATAATAATAAT
1 ACTAACAATAATAAT
11752970 TACTAACAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 21 0.35
26 39 0.65
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (26 bp):
ACTAACAATAATAATAAGGGTTTTTT
Found at i:11754074 original size:18 final size:18
Alignment explanation
Indices: 11754053--11754125 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
11754043 TTTATTTTTT
11754053 TTACTATTATTTATATTA
1 TTACTATTATTTATATTA
*
11754071 TTACTATTATTTCTCATGTA
1 TTACTATTATTTAT-AT-TA
*
11754091 TATATTATTATTTATATTA
1 T-TACTATTATTTATATTA
*
11754110 TTATTA-TATTATATAT
1 TTACTATTATT-TATAT
11754126 ACCCTCTCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.08
18 23 0.48
19 5 0.10
20 5 0.10
21 11 0.23
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (18 bp):
TTACTATTATTTATATTA
Found at i:11754201 original size:3 final size:3
Alignment explanation
Indices: 11754193--11754271 Score: 97
Period size: 3 Copynumber: 25.0 Consensus size: 3
11754183 TATTTCTGAC
*
11754193 TAT TAT TAT TAT TAT ATAT ATAT GTAT GTAT TAT TGT T-T GTAT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT
11754239 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11754272 CACCCCTATT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
2 1 0.01
3 55 0.77
4 15 0.21
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11754398 original size:16 final size:17
Alignment explanation
Indices: 11754372--11754413 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
11754362 ATATATTAGT
* *
11754372 GTATATTTTTATGTATA
1 GTATATATTTATATATA
11754389 -TATATATTTATATATA
1 GTATATATTTATATATA
11754405 GTAT-TATTT
1 GTATATATTT
11754414 TTTATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
GTATATATTTATATATA
Found at i:11754475 original size:3 final size:3
Alignment explanation
Indices: 11754467--11754491 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11754457 ATTTCTATAT
11754467 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
11754492 ATAGTAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11763639 original size:44 final size:43
Alignment explanation
Indices: 11763576--11763896 Score: 175
Period size: 44 Copynumber: 7.5 Consensus size: 43
11763566 ATTTATAGAT
*
11763576 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGATAAGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGA-GATAAGC
* * * * *
11763620 CTTAAACCCCTAAGCAGTAGGGTAACAGGT-TAA-A-TTTA--
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGAGATAAGC
* * * *
11763658 C--AGA-CCCTAAACAGTAGGGAAACAGATCAAATGTGACAAGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAA-GAGATAAGC
* * ** *
11763699 CTTAAACCCCTAAGCAGTA-GGATAACAG-GCTGAAGATTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGA-AACAGATC-AAAGAGATA-AG-C
* * *
11763744 CTTAAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
1 CTTAAA-CCCCTAAGCAGTAGGGAAACAGATC-AAAGAGATAAGC
* * ** * ** *
11763789 CTT-AACCCCTAAACAGTAGGGTAAC-GGGCTAA-ATTTATAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGAGATA-AG-C
**
11763831 CTT-AACACCCTAAGCAGTAGGGAAACAGATCAAAGACGATGGGC
1 CTTAAAC-CCCTAAGCAGTAGGGAAACAGATCAAAGA-GATAAGC
*
11763875 CTTAAACCCCTATGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGG
11763897 TACCAAGCTG
Statistics
Matches: 199, Mismatches: 55, Indels: 46
0.66 0.18 0.15
Matches are distributed among these distances:
35 20 0.10
36 4 0.02
38 1 0.01
39 1 0.01
40 3 0.02
41 4 0.02
42 9 0.05
43 45 0.23
44 70 0.35
45 14 0.07
46 21 0.11
47 7 0.04
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (43 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGAGATAAGC
Found at i:11763714 original size:79 final size:80
Alignment explanation
Indices: 11763582--11763898 Score: 307
Period size: 79 Copynumber: 3.8 Consensus size: 80
11763572 AGATCTTAAC
* *
11763582 CCCCTAAGCAGTAGGGAAACAGATCAAAGACGATAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGCAGTAGGGAAACAGATCAAAG-TGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
11763647 GGTTAAATTTACAG-A
65 GGTTAAATTTACAGAA
* *
11763662 -CCCTAAACAGTAGGGAAACAGATCAAATGTGACAAGCCTTAAACCCCTAAGCAGTAGGATAACA
1 CCCCTAAGCAGTAGGGAAACAGATCAAA-GTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
*
11763726 GGCTGAAGATTTACAGATCTTAAA
65 GG-TTAA-ATTTACAG------AA
* *
11763750 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAAC
1 -CCCCTAAGCAGTAGGGAAACAGATC-AAAGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAAC
* * *
11763814 GGGCTAAATTTATAGATCTTAA
64 AGGTTAAATTTACAG-----AA
* *** *
11763836 CACCCTAAGCAGTAGGGAAACAGATCAAAGACGATGGGCCTTAAACCCCTATGCAGTAGGGTA
1 C-CCCTAAGCAGTAGGGAAACAGATCAAAG-TGACAAGCCTTAAACCCCTAAGCAGTAGGGTA
11763899 CCAAGCTGAA
Statistics
Matches: 197, Mismatches: 24, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
79 60 0.30
80 4 0.02
81 8 0.04
85 4 0.02
86 34 0.17
87 25 0.13
88 3 0.02
89 22 0.11
90 35 0.18
91 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (80 bp):
CCCCTAAGCAGTAGGGAAACAGATCAAAGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAG
GTTAAATTTACAGAA
Found at i:11763762 original size:46 final size:44
Alignment explanation
Indices: 11763703--11763851 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 44
11763693 ACAAGCCTTA
11763703 AACCCCTAAGCAGTAGGATAACAGGCTGAAGATTTACAGATCTT
1 AACCCCTAAGCAGTAGGATAACAGGCTGAAGATTTACAGATCTT
* * * *
11763747 AAACCCCCTAAGCAGTAGGGA-AACA-GATCGAAG-GTGACA-AGCCTT
1 -AA-CCCCTAAGCAGTA-GGATAACAGGCT-GAAGATTTACAGA-TCTT
* * * *
11763792 AACCCCTAAACAGTAGGGTAACGGGCT-AA-ATTTATAGATCTT
1 AACCCCTAAGCAGTAGGATAACAGGCTGAAGATTTACAGATCTT
11763834 AACACCCTAAGCAGTAGG
1 AAC-CCCTAAGCAGTAGG
11763852 GAAACAGATC
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
42 13 0.16
43 29 0.35
44 5 0.06
45 11 0.13
46 21 0.26
47 3 0.04
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (44 bp):
AACCCCTAAGCAGTAGGATAACAGGCTGAAGATTTACAGATCTT
Found at i:11764466 original size:30 final size:30
Alignment explanation
Indices: 11764423--11764505 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
11764413 ACCCTAGCCG
*
11764423 CCTTGCTTCCCACTTGCACCTACTCCACCA
1 CCTTGCCTCCCACTTGCACCTACTCCACCA
*
11764453 CTTTGCCTCCCACTTGCACCTACTCCACCA
1 CCTTGCCTCCCACTTGCACCTACTCCACCA
*
11764483 CCTTGTCTCCCACTTGCACCTAC
1 CCTTGCCTCCCACTTGCACCTAC
11764506 ACCATCAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.28
Consensus pattern (30 bp):
CCTTGCCTCCCACTTGCACCTACTCCACCA
Found at i:11765029 original size:3 final size:3
Alignment explanation
Indices: 11765018--11765100 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
11765008 TTATTTTTTT
* * *
11765018 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA CTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
11765061 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
11765101 ATATACCTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 7 0.11
3 47 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11765093 original size:18 final size:18
Alignment explanation
Indices: 11765022--11765104 Score: 78
Period size: 18 Copynumber: 4.4 Consensus size: 18
11765012 TTTTTTTTAT
*
11765022 TTTATTATTTTTACTATTA
1 TTTA-TATTATTACTATTA
11765041 TTTATATTATTACTATTA
1 TTTATATTATTACTATTA
* *
11765059 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TACTATTA
*
11765080 TTTATATTATTATTA-TA
1 TTTATATTATTACTATTA
11765097 TTATATAT
1 TT-TATAT
11765105 ACCTTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 27 0.48
19 9 0.16
20 5 0.09
21 11 0.20
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATTATTACTATTA
Found at i:11773441 original size:16 final size:16
Alignment explanation
Indices: 11773420--11773487 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
11773410 TTTGGTTCGC
11773420 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11773436 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
11773452 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11773468 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11773484 TGTA
1 TGTA
11773488 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11786382 original size:13 final size:13
Alignment explanation
Indices: 11786364--11786388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11786354 CATTTGGGTA
11786364 AAAAAAATAAAAT
1 AAAAAAATAAAAT
11786377 AAAAAAATAAAA
1 AAAAAAATAAAA
11786389 AAGACACAAC
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):
AAAAAAATAAAAT
Found at i:11792124 original size:16 final size:16
Alignment explanation
Indices: 11792103--11792134 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11792093 AAAAGAAAAG
*
11792103 ATATCTGATTAATGAA
1 ATATCTGATAAATGAA
11792119 ATATCTGATAAATGAA
1 ATATCTGATAAATGAA
11792135 TCGGTAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (16 bp):
ATATCTGATAAATGAA
Found at i:11797331 original size:16 final size:18
Alignment explanation
Indices: 11797304--11797336 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11797294 TTAGGTTAAA
11797304 TTATATAAA-TTTATTTT
1 TTATATAAATTTTATTTT
11797321 TTATA-AAATTTTATTT
1 TTATATAAATTTTATTT
11797337 ATGAAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATAAATTTTATTTT
Found at i:11803479 original size:19 final size:19
Alignment explanation
Indices: 11803450--11803495 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
11803440 CCATATATTT
*
11803450 TAAAT-TTATTTAGTTAGA
1 TAAATCTTATTTAGGTAGA
11803468 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
11803487 TAAATCTTA
1 TAAATCTTA
11803496 GAGATATTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:11803939 original size:164 final size:164
Alignment explanation
Indices: 11803666--11803995 Score: 633
Period size: 164 Copynumber: 2.0 Consensus size: 164
11803656 CATCTGAGCT
*
11803666 AGGTTAAATCTCTAATAACATCATGGTTAAAACAACCTTCACTGGAGATAAGAGATCCAATAATC
1 AGGTTAAAACTCTAATAACATCATGGTTAAAACAACCTTCACTGGAGATAAGAGATCCAATAATC
* *
11803731 AAACAGAGGAAGAAATTTCTACCTTTGAAACAACTACTGAGAGTACAATGACTCAAGGGACAAAG
66 AAACAGAGGAAGAAAGTTCTACCTTTGAAACAACTACCGAGAGTACAATGACTCAAGGGACAAAG
11803796 GTGTTTCATCTTTCTTTTCAGCTAACATCTCACA
131 GTGTTTCATCTTTCTTTTCAGCTAACATCTCACA
11803830 AGGTTAAAACTCTAATAACATCATGGTTAAAACAACCTTCACTGGAGATAAGAGATCCAATAATC
1 AGGTTAAAACTCTAATAACATCATGGTTAAAACAACCTTCACTGGAGATAAGAGATCCAATAATC
11803895 AAACAGAGGAAGAAAGTTCTACCTTTGAAACAACTACCGAGAGTACAATGACTCAAGGGACAAAG
66 AAACAGAGGAAGAAAGTTCTACCTTTGAAACAACTACCGAGAGTACAATGACTCAAGGGACAAAG
11803960 GTGTTTCATCTTTCTTTTCAGCTAACATCTCACA
131 GTGTTTCATCTTTCTTTTCAGCTAACATCTCACA
11803994 AG
1 AG
11803996 CTGAATGACA
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 163 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (164 bp):
AGGTTAAAACTCTAATAACATCATGGTTAAAACAACCTTCACTGGAGATAAGAGATCCAATAATC
AAACAGAGGAAGAAAGTTCTACCTTTGAAACAACTACCGAGAGTACAATGACTCAAGGGACAAAG
GTGTTTCATCTTTCTTTTCAGCTAACATCTCACA
Found at i:11819930 original size:21 final size:21
Alignment explanation
Indices: 11819904--11819945 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11819894 AATGTTTCAA
11819904 ATTTTGAGATGCTTGAAGAGT
1 ATTTTGAGATGCTTGAAGAGT
11819925 ATTTTGAGATGCTTGAAGAGT
1 ATTTTGAGATGCTTGAAGAGT
11819946 TCTCTTGGAA
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:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (21 bp):
ATTTTGAGATGCTTGAAGAGT
Found at i:11822790 original size:32 final size:32
Alignment explanation
Indices: 11822749--11822812 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
11822739 TATCCTCCTG
11822749 GCTCAAAAGGAACAAAAAGAACATAGAGGATT
1 GCTCAAAAGGAACAAAAAGAACATAGAGGATT
11822781 GCTCAAAAGGAACAAAAAGAACATAGAGGATT
1 GCTCAAAAGGAACAAAAAGAACATAGAGGATT
11822813 TTAATCTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.12
Consensus pattern (32 bp):
GCTCAAAAGGAACAAAAAGAACATAGAGGATT
Found at i:11827718 original size:18 final size:19
Alignment explanation
Indices: 11827691--11827727 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11827681 TCACTATCAC
*
11827691 CCACCGTAATC-AATTTGT
1 CCACCATAATCAAATTTGT
11827709 CCACCATAATCAAATTTGT
1 CCACCATAATCAAATTTGT
11827728 TATTAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.32
Consensus pattern (19 bp):
CCACCATAATCAAATTTGT
Found at i:11828480 original size:19 final size:18
Alignment explanation
Indices: 11828458--11828496 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11828448 TTCGAAAAAA
*
11828458 AATTTGAGTTGACTCGAAT
1 AATTTGA-TTAACTCGAAT
*
11828477 AATTTGATTAATTCGAAT
1 AATTTGATTAACTCGAAT
11828495 AA
1 AA
11828497 CTCGATTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (18 bp):
AATTTGATTAACTCGAAT
Found at i:11830096 original size:3 final size:3
Alignment explanation
Indices: 11830088--11830259 Score: 83
Period size: 3 Copynumber: 58.0 Consensus size: 3
11830078 AAAGAGAAAT
* * * *
11830088 ATA ATA ATA GTA ATA ATA ATA TTTA ATTA ATTG AT- TTA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA A-TA A-TA ATA ATA ATA ATA ATA
** * * *
11830134 ATA ACG ATG ATA ATA ATA AT- ACA ATA ATA ATA A-A ATA GAAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * *
11830178 ATA ATA ACA AT- ACA ATA ATA ATA ATA GTA A-A GACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* *
11830222 ATA ATA ATA TTA A-A ATTA ATTA AT- TTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA
11830260 GCTGAAATAA
Statistics
Matches: 129, Mismatches: 26, Indels: 28
0.70 0.14 0.15
Matches are distributed among these distances:
2 13 0.10
3 99 0.77
4 17 0.13
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11830103 original size:9 final size:8
Alignment explanation
Indices: 11830085--11830259 Score: 60
Period size: 8 Copynumber: 21.1 Consensus size: 8
11830075 CCAAAAGAGA
11830085 AATATAAT
1 AATATAAT
11830093 AATAGTAAT
1 AATA-TAAT
*
11830102 AATAATATTT
1 AAT-ATA-AT
11830112 AAT-TAATT
1 AATATAA-T
* *
11830120 GATTTAAT
1 AATATAAT
11830128 AATATAAT
1 AATATAAT
* *
11830136 AACGATGAT
1 AA-TATAAT
11830145 AATAATAAT
1 AAT-ATAAT
11830154 ACA-ATAAT
1 A-ATATAAT
*
11830162 AATAAAAT
1 AATATAAT
11830170 AGA-A-AAT
1 A-ATATAAT
*
11830177 AATAATAAC
1 AAT-ATAAT
*
11830186 AATACAAT
1 AATATAAT
11830194 AATAATAAT
1 AAT-ATAAT
* *
11830203 AGTA-AAG
1 AATATAAT
11830210 ACA-ATAAT
1 A-ATATAAT
11830218 AATAATAAT
1 AAT-ATAAT
11830227 AATATTAA-
1 AATA-TAAT
11830235 AAT-TAATT
1 AATATAA-T
*
11830243 AATTTAAT
1 AATATAAT
*
11830251 AATAAAAT
1 AATATAAT
11830259 A
1 A
11830260 GCTGAAATAA
Statistics
Matches: 125, Mismatches: 20, Indels: 44
0.66 0.11 0.23
Matches are distributed among these distances:
6 4 0.03
7 10 0.08
8 56 0.45
9 49 0.39
10 6 0.05
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (8 bp):
AATATAAT
Found at i:11830216 original size:38 final size:35
Alignment explanation
Indices: 11830143--11830227 Score: 116
Period size: 35 Copynumber: 2.3 Consensus size: 35
11830133 AATAACGATG
*
11830143 ATAATAATAATACAATAATAATAAAATAGAAAATA
1 ATAATAATAATACAATAATAATAAAAAAGAAAATA
* *
11830178 ATAATAACAATACAATAATAATAATAGTAAAGACAATA
1 ATAATAATAATACAATAATAATAA-A--AAAGAAAATA
11830216 ATAATAATAATA
1 ATAATAATAATA
11830228 ATATTAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 23 0.53
36 1 0.02
38 19 0.44
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.26
Consensus pattern (35 bp):
ATAATAATAATACAATAATAATAAAAAAGAAAATA
Found at i:11831835 original size:44 final size:44
Alignment explanation
Indices: 11831691--11831857 Score: 140
Period size: 44 Copynumber: 3.8 Consensus size: 44
11831681 ATGTTGCTTT
* * * * * *
11831691 AATCCGCTCCACTGCAACTTCAGGGGGATAGGAT-TAATAGCTTC
1 AATCTGCTCTACTGCAACTTCAAGGAGATAAGATCT-ATAACTTC
* * * ** *
11831735 AATCTGCTCT-CTTGTAACTTTAGGGAGATAAGAGTCGCTATCTTC
1 AATCTGCTCTAC-TGCAACTTCAAGGAGATAAGA-TCTATAACTTC
** *
11831780 AATCTATTCTACTGCAACTACAAGGAGATAAGATCTATAACTTC
1 AATCTGCTCTACTGCAACTTCAAGGAGATAAGATCTATAACTTC
* *
11831824 AATCTGCTCTACTGCTACTTCAAGGAGATGAGAT
1 AATCTGCTCTACTGCAACTTCAAGGAGATAAGAT
11831858 TTGTAATTTG
Statistics
Matches: 96, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
43 1 0.01
44 62 0.65
45 32 0.33
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCTACTGCAACTTCAAGGAGATAAGATCTATAACTTC
Found at i:11832004 original size:44 final size:44
Alignment explanation
Indices: 11831924--11832085 Score: 155
Period size: 44 Copynumber: 3.7 Consensus size: 44
11831914 ATCTTCAGAG
* * *
11831924 TGCTCCACTTCAACTTCAGGGAGAAAAGACTT-ATAGCTTTAATC
1 TGCTCTACTGCAACTTCAGAGAGAAAAGA-TTCATAGCTTTAATC
* * *
11831968 TGCTCTACTACAACTTCAGAGAGATAATATTCATAGCTTTAATC
1 TGCTCTACTGCAACTTCAGAGAGAAAAGATTCATAGCTTTAATC
* * * ** * *
11832012 TACTTTACTGTAACTTCAGAGAGAAAAGATTCACTATATTCAGTC
1 TGCTCTACTGCAACTTCAGAGAGAAAAGATTCA-TAGCTTTAATC
* * *
11832057 TGCTCTACTGCAATTTCAGGGAGATAAGA
1 TGCTCTACTGCAACTTCAGAGAGAAAAGA
11832086 CTTGTAATTT
Statistics
Matches: 95, Mismatches: 21, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
43 2 0.02
44 63 0.66
45 30 0.32
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (44 bp):
TGCTCTACTGCAACTTCAGAGAGAAAAGATTCATAGCTTTAATC
Found at i:11833458 original size:46 final size:46
Alignment explanation
Indices: 11833408--11833583 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
11833398 TGGTTGAGCA
*
11833408 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
11833454 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
11833501 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
11833547 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11833584 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:11833564 original size:93 final size:93
Alignment explanation
Indices: 11833405--11833575 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11833395 GGATGGTTGA
* *
11833405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
11833470 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
11833498 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
11833563 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11833576 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:11839574 original size:17 final size:16
Alignment explanation
Indices: 11839554--11839587 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11839544 TTCATAAGCA
*
11839554 TATATCATTCATTTCAT
1 TATATCAAT-ATTTCAT
11839571 TATATCAATATTTCAT
1 TATATCAATATTTCAT
11839587 T
1 T
11839588 CTCCATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATCAATATTTCAT
Found at i:11839867 original size:46 final size:46
Alignment explanation
Indices: 11839807--11840034 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
11839797 TTTAACATGA
* * * * * *
11839807 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
11839853 TGCCATGGTATCTTTCAACCATGATCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11839899 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATAAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11839945 TGCCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
11839991 TATCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11840035 AGAGCACACT
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.02
46 157 0.98
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11845862 original size:16 final size:17
Alignment explanation
Indices: 11845831--11845863 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11845821 CATAAGTATA
11845831 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
11845848 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
11845864 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:11846213 original size:46 final size:46
Alignment explanation
Indices: 11846149--11846513 Score: 489
Period size: 46 Copynumber: 7.9 Consensus size: 46
11846139 TTTGAAATGA
* * * *
11846149 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGT
* * * *
11846195 TGCAATGGTATCTTTCAACCATGGTCTTATTCATTACATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* ***
11846241 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* *
11846287 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* * ***
11846333 TGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* *
11846379 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* * *
11846425 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
*
11846471 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
11846514 GAGAGCACAC
Statistics
Matches: 286, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 3 0.01
46 283 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
Found at i:11846514 original size:92 final size:92
Alignment explanation
Indices: 11846149--11846513 Score: 541
Period size: 92 Copynumber: 4.0 Consensus size: 92
11846139 TTTGAAATGA
* * * * * *
11846149 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCAATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
11846214 CATGGTCTTATTCATTACATATCACGT
66 CATGGTCTTACACATTTCATATCACGT
*
11846241 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
**
11846306 CATGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTACACATTTCATATCACGT
* *
11846333 TGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
*
11846398 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
* *** * *
11846425 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
11846490 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATTTCATATCA
11846514 GAGAGCACAC
Statistics
Matches: 253, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 253 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:11849008 original size:30 final size:30
Alignment explanation
Indices: 11848941--11849008 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
11848931 CACTCTTAAA
* * *
11848941 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
11848971 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
11849000 AGTATTTAC
1 A-TATTTAC
11849009 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:11852058 original size:3 final size:3
Alignment explanation
Indices: 11852050--11852311 Score: 105
Period size: 3 Copynumber: 88.0 Consensus size: 3
11852040 GAAGAGAAAT
* * * *
11852050 ATA ATA ATA GTA ATA ATA ATA TTTA ATTA ATTG AT- TTA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA A-TA A-TA ATA ATA ATA ATA ATA
* * * * *
11852096 ATA ATG ATG ATA ATA AAA ATA AT- ACA ATA ATA ATA A-A ATA GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
11852140 ATA ATA ATA ACA AT- ACA ATA ATA ATA ATA GTA A-A GACA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * * * * * * * * *
11852184 ATA AGA ATG ATA AGA ATA CTA CTA CTA CTA CTA CTA CTA CTA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
11852232 ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA A-A ATTA ATTA ATT A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA
*
11852277 ATA ATA ATA A-A ATTA ATTA AT- TTA ATA ATA A-A ATA
1 ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA
11852312 GCTGAAATAA
Statistics
Matches: 204, Mismatches: 38, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
2 16 0.08
3 165 0.81
4 23 0.11
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11852065 original size:9 final size:8
Alignment explanation
Indices: 11852047--11852149 Score: 50
Period size: 8 Copynumber: 12.2 Consensus size: 8
11852037 CCAGAAGAGA
11852047 AATATAAT
1 AATATAAT
11852055 AATAGTAAT
1 AATA-TAAT
*
11852064 AATAATATTT
1 AAT-ATA-AT
11852074 AAT-TAATT
1 AATATAA-T
* *
11852082 GATTTAAT
1 AATATAAT
11852090 AATATAAT
1 AATATAAT
*
11852098 AATGATGAT
1 AAT-ATAAT
*
11852107 AATAAAAAT
1 AAT-ATAAT
*
11852116 AATACAAT
1 AATATAAT
11852124 AATAATAA-
1 AAT-ATAAT
*
11852132 AATAGAA-
1 AATATAAT
11852139 AATAATAAT
1 AAT-ATAAT
11852148 AA
1 AA
11852150 CAATACAATA
Statistics
Matches: 73, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
7 6 0.08
8 32 0.44
9 30 0.41
10 5 0.07
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (8 bp):
AATATAAT
Found at i:11852116 original size:26 final size:26
Alignment explanation
Indices: 11852087--11852145 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11852077 TAATTGATTT
* * *
11852087 AATAATATAATAATGATGATAATA-AA
1 AATAATACAATAATAAT-AAAATAGAA
11852113 AATAATACAATAATAATAAAATAGAA
1 AATAATACAATAATAATAAAATAGAA
11852139 AATAATA
1 AATAATA
11852146 ATAACAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (26 bp):
AATAATACAATAATAATAAAATAGAA
Found at i:11852844 original size:7 final size:8
Alignment explanation
Indices: 11852830--11852860 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
11852820 AAAAAAGGTA
11852830 ATTTTTTT
1 ATTTTTTT
11852838 ATTTTTTT
1 ATTTTTTT
11852846 ATTTTTTTT
1 A-TTTTTTT
11852855 ATTTTT
1 ATTTTT
11852861 GATATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
ATTTTTTT
Found at i:11852845 original size:9 final size:9
Alignment explanation
Indices: 11852831--11852860 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11852821 AAAAAGGTAA
11852831 TTTTTTTA-
1 TTTTTTTAT
11852839 TTTTTTTAT
1 TTTTTTTAT
11852848 TTTTTTTAT
1 TTTTTTTAT
11852857 TTTT
1 TTTT
11852861 GATATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:11855333 original size:13 final size:13
Alignment explanation
Indices: 11855317--11855341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11855307 TGTTTTAAAA
11855317 TTTTTAATTAATG
1 TTTTTAATTAATG
11855330 TTTTTAATTAAT
1 TTTTTAATTAAT
11855342 AAATATATTA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:11855831 original size:20 final size:20
Alignment explanation
Indices: 11855799--11855836 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11855789 TAAGAAATAA
*
11855799 TATTTTTATTATATAATACC
1 TATTTTTATTATAAAATACC
11855819 TATTATTTA-TATAAAATA
1 TATT-TTTATTATAAAATA
11855837 AAAAGAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTTTATTATAAAATACC
Found at i:11857832 original size:126 final size:126
Alignment explanation
Indices: 11857630--11857886 Score: 370
Period size: 126 Copynumber: 2.0 Consensus size: 126
11857620 ATACTGGTGC
* * * * *
11857630 GTGTCTCAACCGTGTGTGACACACGGCTATGCGCACGGGCGTGTGGTTTGGCTGTGTGTCCCTTG
1 GTGTCTCAACCGTGTGTGACACACGACCATGCGCACGGGCATGTGGTTTGGCTGTATGTCACTTG
* * * * *
11857695 CATTTTAAAATTTGAGAAACATAATGCTTAGAATTAAGCACACCGGCAGAGACACGGGCGT
66 CATCTTAAAATTTAAGAAACAGAATGCTCAAAATTAAGCACACCGGCAGAGACACGGGCGT
* * *
11857756 GTGTCTCAACTGTGTGTGACACACGACCATGCGTACGGGCATGTGGTTTGGTTGTATGTCACTTG
1 GTGTCTCAACCGTGTGTGACACACGACCATGCGCACGGGCATGTGGTTTGGCTGTATGTCACTTG
* * *
11857821 CATCTTAAAATTTAAGAAACAGAATGCTCAAAATTGAGCATACGGGCAGAGACACGGGCGT
66 CATCTTAAAATTTAAGAAACAGAATGCTCAAAATTAAGCACACCGGCAGAGACACGGGCGT
11857882 GTGTC
1 GTGTC
11857887 CTGGCCGTGT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 115 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (126 bp):
GTGTCTCAACCGTGTGTGACACACGACCATGCGCACGGGCATGTGGTTTGGCTGTATGTCACTTG
CATCTTAAAATTTAAGAAACAGAATGCTCAAAATTAAGCACACCGGCAGAGACACGGGCGT
Found at i:11860167 original size:15 final size:15
Alignment explanation
Indices: 11860147--11860254 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
11860137 TTTATGGAAA
11860147 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
11860162 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
11860176 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
11860192 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
11860206 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
11860222 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
11860236 AGTCAAAGATATGAGT
1 A-TCAAAGATATGGGT
11860252 ATC
1 ATC
11860255 GAGATATTGG
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.65
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:11860184 original size:30 final size:30
Alignment explanation
Indices: 11860141--11860264 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
11860131 TCCATATTTA
* *
11860141 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
11860171 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
11860201 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
11860231 TGGAAAGTCAAAGATATGAGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
11860262 TGG
1 TGG
11860265 CATAATAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 79 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:11864860 original size:15 final size:15
Alignment explanation
Indices: 11864840--11864947 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
11864830 TTTATGGAAA
11864840 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
11864855 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
11864869 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
11864885 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
11864899 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
11864915 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
11864929 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
11864945 ATC
1 ATC
11864948 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:11864877 original size:30 final size:30
Alignment explanation
Indices: 11864834--11864957 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
11864824 TCCATATTTA
* *
11864834 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
11864864 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
11864894 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
11864924 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
11864955 TGG
1 TGG
11864958 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:11868443 original size:21 final size:21
Alignment explanation
Indices: 11868413--11868455 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11868403 GTTGATTTTT
*
11868413 AATTGGTTGGTTTAGTAATTC
1 AATTGATTGGTTTAGTAATTC
11868434 AATTGATTGGTTTAGTAATTC
1 AATTGATTGGTTTAGTAATTC
11868455 A
1 A
11868456 TTAACGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.47
Consensus pattern (21 bp):
AATTGATTGGTTTAGTAATTC
Found at i:11871849 original size:29 final size:29
Alignment explanation
Indices: 11871816--11871874 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
11871806 GAGACTTGTT
* *
11871816 AGGCACCGCCCAGGTAGAGGGATGCTGTC
1 AGGCAACGCCCAGGTAGAGGGACGCTGTC
* *
11871845 AGGCAATGCCCAGGTGGAGGGACGCTGTC
1 AGGCAACGCCCAGGTAGAGGGACGCTGTC
11871874 A
1 A
11871875 AGCGACATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.25, G:0.39, T:0.14
Consensus pattern (29 bp):
AGGCAACGCCCAGGTAGAGGGACGCTGTC
Found at i:11873220 original size:42 final size:43
Alignment explanation
Indices: 11873145--11873261 Score: 141
Period size: 43 Copynumber: 2.7 Consensus size: 43
11873135 TATAGGACGT
*
11873145 TGGCATCGA-ATTATGATTTACGTGTAAGACCATGTCTGAGACA-
1 TGGCATCGATATT-TGATTT-CATGTAAGACCATGTCTGAGACAG
* * *
11873188 TCGGCATC-TTATTTGATTTCATGTAAGACCATGTTTGGGACAG
1 T-GGCATCGATATTTGATTTCATGTAAGACCATGTCTGAGACAG
*
11873231 TGGCATCGATATTTGATTACATGTAAGACCA
1 TGGCATCGATATTTGATTTCATGTAAGACCA
11873262 CGTTTTGGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 26 0.41
43 29 0.45
44 9 0.14
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCATGTAAGACCATGTCTGAGACAG
Found at i:11873244 original size:43 final size:43
Alignment explanation
Indices: 11873122--11873271 Score: 146
Period size: 44 Copynumber: 3.5 Consensus size: 43
11873112 ATGTGTTTTT
* *
11873122 ATGTAAGACCACGTATAGGAC-GTTGGCATCGA-ATTATGATTTAC
1 ATGTAAGACCACGTTTGGGACAG-TGGCATCGATATT-TGATTT-C
* * * * *
11873166 GTGTAAGACCATGTCTGAGACA-TCGGCATC-TTATTTGATTTC
1 ATGTAAGACCACGTTTGGGACAGT-GGCATCGATATTTGATTTC
* *
11873208 ATGTAAGACCATGTTTGGGACAGTGGCATCGATATTTGATTAC
1 ATGTAAGACCACGTTTGGGACAGTGGCATCGATATTTGATTTC
11873251 ATGTAAGACCACGTTTTGGGA
1 ATGTAAGACCACG-TTTGGGA
11873272 TGTTGGCATT
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
42 26 0.30
43 30 0.34
44 32 0.36
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTAAGACCACGTTTGGGACAGTGGCATCGATATTTGATTTC
Found at i:11885374 original size:24 final size:24
Alignment explanation
Indices: 11885348--11885459 Score: 152
Period size: 24 Copynumber: 4.7 Consensus size: 24
11885338 GATTCAACTC
* * * *
11885348 CGCACACATAGTGCCAAATAATTC
1 CGCACACATAGTGCCATACAAATA
* * *
11885372 CGCAGACATAGTGCCTTACATATA
1 CGCACACATAGTGCCATACAAATA
11885396 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
11885420 CGCTCACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
11885444 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
11885460 CTTAAATCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 76 1.00
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:11891786 original size:14 final size:15
Alignment explanation
Indices: 11891759--11891787 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11891749 TGATTTGCAT
11891759 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
11891774 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
11891788 AAATGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:11892240 original size:10 final size:10
Alignment explanation
Indices: 11892225--11892255 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11892215 CTTTGGTTCT
11892225 TATTCTTTTC
1 TATTCTTTTC
*
11892235 TATTCTATTC
1 TATTCTTTTC
11892245 TATTCTTTTC
1 TATTCTTTTC
11892255 T
1 T
11892256 TTTTTTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTCTTTTC
Found at i:11896894 original size:51 final size:51
Alignment explanation
Indices: 11896818--11897394 Score: 280
Period size: 51 Copynumber: 11.9 Consensus size: 51
11896808 GGTATAGGAA
* * * * *
11896818 TTGTAGTTTCAATCTACTCCGCTGCAACTTTAGGAAGATAAGGTTTGTAAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAAC
* *
11896869 TTGTAACTTCAATCTGTTCCACTGCAACTTCAGAGAA-ATAAGATTTG---C
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTGTAAC
* * * *
11896917 ---TATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTATAAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAAC
* * ** * * *
11896965 TTGTAGCTTTAATATATTCTACTGCAACTTCAGGAAAATAAGATTCG---C
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAAC
* * * * * *
11897013 ---TATCTTCAATTTGCTCCACTGCAGCATCAGGGAGATAAGATTTATAAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAAC
* * * * *
11897061 TTGTAGCTTTAATCTGTTCCACTGCAACTTTAGG-GGAGTAAGATTCG---C
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA-TAAGATTTGTAAC
* * * *
11897109 ---TATCTTCAATCTACTCCACTGCAACATCATGG-AGATAAGA--T-TCAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGTAAC
* * * *
11897154 ---TATCTGCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAAC
* * * * * *
11897202 TTGTAGCTTTAATCTGTTCCACTGTAACTTTAGGGAGATAAGACTTGCT-A-
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTG-TAAC
* * * * * *
11897252 TGGTAGATTTAATCTAAC-CTACTGCAACTTCA--AAGGTATAAGA-CT-T-A-
1 TTGTAGCTTCAATCT-GCTCCACTGCAACTTCAGGAA-G-ATAAGATTTGTAAC
* * * *
11897299 TCGT---TTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATTTATAGC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAAC
* * * * *
11897347 TTGTAGCTTTAATTTGTTCCACTGTAACTTCAGGGAA-ATAAAATTTGT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGT
11897395 TATCTTTAAT
Statistics
Matches: 397, Mismatches: 88, Indels: 82
0.70 0.16 0.14
Matches are distributed among these distances:
43 1 0.00
44 29 0.07
45 134 0.34
46 7 0.02
47 6 0.02
48 12 0.03
49 2 0.01
50 32 0.08
51 166 0.42
52 8 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (51 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAAC
Found at i:11896939 original size:45 final size:45
Alignment explanation
Indices: 11896879--11897523 Score: 351
Period size: 45 Copynumber: 13.8 Consensus size: 45
11896869 TTGTAACTTC
* * * *
11896879 AATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* * *
11896924 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-T-GC---TATCTTT
* ** * * * * *
11896975 AATATATTCTACTGCAACTTCAGGAAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * *
11897020 AATTTGCTCCACTGCAGCATCAGGGAGATAAGATTTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-T-GC---TATCTTT
* * * *
11897071 AATCTGTTCCACTGCAACTTTAGGG-GAGTAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGA-TAAGATTTGCTATCTTT
* * * ** **
11897116 AATCTACTCCACTGCAACATCATGGAGATAAGATTCACTATCTGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* *
11897161 AATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTT
* * * * *
11897212 AATCTGTTCCACTGTAACTTTAGGGAGATAAGACTTGCTATGGTAGATTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA---T--CTTT
* * * * *
11897262 AATCTAAC-CTACTGCAACTTCAAAGG-TATAAGA-CT--TATCGTTT
1 AATCT-GCTCCACTGCAACTTC-AGGGAGATAAGATTTGCTATC-TTT
* * *
11897305 CAATCTGCTTCACTGCAACTTCAGGAAGATAAGATTTATAGCTTGTAGCTTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-T-GC---TATCTTT
* * * * * *
11897357 AATTTGTTCCACTGTAACTTCAGGGAAATAAAATTTGTTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * *
11897402 AATCTACTCCACTGCAGCTTCAGGGAGATGAGATTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
*
11897446 AATCCGCTCCACTGCAACTTCAGGGAGAT-A-ATGTT-C--TCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGCTATCTTT
* * *
11897487 AATCTGCTCCACTGTATCTTCAGAGAGATAAGATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
11897524 TAACTTGTAG
Statistics
Matches: 452, Mismatches: 103, Indels: 92
0.70 0.16 0.14
Matches are distributed among these distances:
41 29 0.06
42 5 0.01
43 11 0.02
44 55 0.12
45 169 0.37
46 6 0.01
47 4 0.01
48 7 0.02
49 2 0.00
50 32 0.07
51 126 0.28
52 3 0.01
53 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
Found at i:11896989 original size:96 final size:96
Alignment explanation
Indices: 11896825--11897554 Score: 567
Period size: 96 Copynumber: 7.7 Consensus size: 96
11896815 GAATTGTAGT
* * * * * * * *
11896825 TTCAATCTACTCCGCTGCAACTTTAGGAAGATAAGGTTTGTAACTTGTAACTTCAATCTGTTCCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCA
*
11896890 CTGCAACTTCAGAGAAATAAGATTTGCTATC
66 CTGCAACTTCAGGGAAATAAGATTTGCTATC
* * * *
11896921 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTATAACTTGTAGCTTTAATATATTCTA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCA
* *
11896986 CTGCAACTTCAGGAAAATAAGATTCGCTATC
66 CTGCAACTTCAGGGAAATAAGATTTGCTATC
* * *
11897017 TTCAATTTGCTCCACTGCAGCATCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCA
* * * *
11897082 CTGCAACTTTAGGGGAGTAAGATTCGCTATC
66 CTGCAACTTCAGGGAAATAAGATTTGCTATC
* * * * * *
11897113 TTCAATCTACTCCACTGCAACATCATGGAGATAAGA--T-TCACTATCT-GC---AATCTGCTCC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACT-TGTAGCTTTAATCTGTTCC
* * *
11897171 ACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAGC
65 ACTGCAACTTCAGGGAAATAAGATTTG---C---TATC
* * * * ** * * **
11897209 TTTAATCTGTTCCACTGTAACTTTAGGGAGATAAGACTTGCT-A-TGGTAGATTTAATCT-AACC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTATAACTTGTAGCTTTAATCTGTTCC
* * *
11897271 TACTGCAACTTCAAAGG-TATAAGA-CT--TATC
65 -ACTGCAACTTC-AGGGAAATAAGATTTGCTATC
* * * *
11897301 GTTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATTTATAGCTTGTAGCTTTAATTTGTTC
1 --TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTC
* * *
11897366 CACTGTAACTTCAGGGAAATAAAATTTGTTATC
64 CACTGCAACTTCAGGGAAATAAGATTTGCTATC
* * * * * *
11897399 TTTAATCTACTCCACTGCAGCTTCAGGGAGAT--GA--GAT---TTGTAGCTTTAATCCGCTCCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCA
*
11897457 CTGCAACTTCAGGGAGAT-A-ATGTT-C--TC
66 CTGCAACTTCAGGGAAATAAGAT-TTGCTATC
* * * * * ** *
11897484 TTTAATCTGCTCCACTGTATCTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAGCCTATTCCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCA
11897549 CTGCAA
66 CTGCAA
11897555 TGTAGCACCC
Statistics
Matches: 502, Mismatches: 98, Indels: 72
0.75 0.15 0.11
Matches are distributed among these distances:
85 30 0.06
87 4 0.01
88 3 0.01
89 35 0.07
90 30 0.06
92 27 0.05
93 10 0.02
94 38 0.08
95 27 0.05
96 262 0.52
97 1 0.00
98 6 0.01
99 1 0.00
100 4 0.01
101 21 0.04
102 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (96 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCA
CTGCAACTTCAGGGAAATAAGATTTGCTATC
Found at i:11897055 original size:141 final size:136
Alignment explanation
Indices: 11896875--11897244 Score: 361
Period size: 141 Copynumber: 2.6 Consensus size: 136
11896865 TAACTTGTAA
* * * * * * *
11896875 CTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGC-TATCTTCAATCTGCTCCACTGC
1 CTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGCTTAGCTTTAATCTGTTCCACTGC
* * * *
11896939 AACTTTAGGGAGATAAGATTTATAACTTG-TAGCTTTAATATATTCTACTGCAACTTCA-GGAAA
66 AACTTTAGGGAGATAAGA--T-T--C--GCTAGCTTCAATATACTCCACTGCAACATCATGG-AA
*
11897002 ATAAGATTCGCTAT
123 ATAAGATTCACTAT
* * *
11897016 CTTCAATTTGCTCCACTGCAGCATCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGA-TT-T-GC-T-TAGCTTTAATCTGTTCC
* * *
11897081 ACTGCAACTTTAGGG-GAGTAAGATTCGCTATCTTCAATCTACTCCACTGCAACATCATGGAGAT
61 ACTGCAACTTTAGGGAGA-TAAGATTCGCTAGCTTCAATATACTCCACTGCAACATCATGGAAAT
11897145 AAGATTCACTAT
125 AAGATTCACTAT
*
11897157 CTGCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTG---C-T-TAGCTTTAATCTGTTCC
*
11897222 ACTGTAACTTTAGGGAGATAAGA
61 ACTGCAACTTTAGGGAGATAAGA
11897245 CTTGCTATGG
Statistics
Matches: 193, Mismatches: 23, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
139 1 0.01
140 3 0.02
141 142 0.74
142 7 0.04
143 1 0.01
144 2 0.01
145 1 0.01
146 2 0.01
147 34 0.18
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (136 bp):
CTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGCTTAGCTTTAATCTGTTCCACTGC
AACTTTAGGGAGATAAGATTCGCTAGCTTCAATATACTCCACTGCAACATCATGGAAATAAGATT
CACTAT
Found at i:11897252 original size:141 final size:138
Alignment explanation
Indices: 11896971--11897476 Score: 509
Period size: 141 Copynumber: 3.6 Consensus size: 138
11896961 TAACTTGTAG
* * * * * *
11896971 CTTTAATATATTCTACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAATTTGCTCCACTGCA
1 CTTTAATCTACTCCACTGCAACTTCAGG-AGATAAGATT-ACTATCTTCAATCTGCTCCACTGCA
* *
11897036 GCATCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGG-GAGT
64 ACATCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGTAACTTTAGGGAGA-T
11897100 AAGATTCGCTAT
128 AAGATT-GCTAT
* * *
11897112 CTTCAATCTACTCCACTGCAACATCATGGAGATAAGATTCACTATCTGCAATCTGCTCCACTGCA
1 CTTTAATCTACTCCACTGCAACTTCA-GGAGATAAGATT-ACTATCTTCAATCTGCTCCACTGCA
*
11897177 ACATCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGTAACTTTAGGGAGATA
64 ACATCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGTAACTTTAGGGAGATA
11897242 AGACTTGCTATGGT
129 AGA-TTGCTA---T
* * * * *
11897256 AGATTTAATCTAAC-CTACTGCAACTTCAAAGG-TATAAGACT--TATCGTTTCAATCTGCTTCA
1 --CTTTAATCT-ACTCCACTGCAACTTC--AGGAGATAAGATTACTATC--TTCAATCTGCTCCA
* * * * *
11897317 CTGCAACTTCAGGAAGATAAGATTTATAGCTTGTAGCTTTAATTTGTTCCACTGTAACTTCAGGG
59 CTGCAACATCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGTAACTTTAGGG
* * *
11897382 AAATAAAATTTGTTAT
124 AGATAAGA-TTGCTAT
* * ** * * *
11897398 CTTTAATCTACTCCACTGCAGCTTCAGGGAGATGAGATTTGTAGCTTTAATCCGCTCCACTGCAA
1 CTTTAATCTACTCCACTGCAACTTCA-GGAGATAAGATTACTATCTTCAATCTGCTCCACTGCAA
*
11897463 CTTCAGGGAGATAA
65 CATCAGGGAGATAA
11897477 TGTTCTCTTT
Statistics
Matches: 306, Mismatches: 41, Indels: 37
0.80 0.11 0.10
Matches are distributed among these distances:
138 1 0.00
139 4 0.01
140 55 0.18
141 119 0.39
142 10 0.03
143 4 0.01
144 1 0.00
145 82 0.27
146 25 0.08
147 4 0.01
148 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (138 bp):
CTTTAATCTACTCCACTGCAACTTCAGGAGATAAGATTACTATCTTCAATCTGCTCCACTGCAAC
ATCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGTAACTTTAGGGAGATAAG
ATTGCTAT
Found at i:11897521 original size:85 final size:87
Alignment explanation
Indices: 11897347--11897525 Score: 227
Period size: 85 Copynumber: 2.1 Consensus size: 87
11897337 GATTTATAGC
** * *
11897347 TTGTAGCTTTAATTTGTTCCACTGTAACTTCAGGGAAATAAAATTTGTTATCTTTAATCTACTCC
1 TTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAAT-AAA-TTGTTATCTTTAATCTACTCC
* *
11897412 ACTGCAGCTTCAGGGAGATGAGAT
64 ACTGCAGCTTCAGAGAGATAAGAT
* * *
11897436 TTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAGAT-AA-TGTTCTCTTTAATCTGCTCCAC
1 TTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAATTGTTATCTTTAATCTACTCCAC
* *
11897499 TGTATCTTCAGAGAGATAAGAT
66 TGCAGCTTCAGAGAGATAAGAT
11897521 TTGTA
1 TTGTA
11897526 ACTTGTAGCT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 43 0.54
87 2 0.03
89 34 0.43
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (87 bp):
TTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAATTGTTATCTTTAATCTACTCCAC
TGCAGCTTCAGAGAGATAAGAT
Found at i:11898653 original size:22 final size:21
Alignment explanation
Indices: 11898613--11898653 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
11898603 CCAATCTCAT
11898613 GCATCAGATAAAAACAACATG
1 GCATCAGATAAAAACAACATG
11898634 GCATGCAG-TAAATAACAACA
1 GCAT-CAGATAAA-AACAACA
11898654 GTCAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (21 bp):
GCATCAGATAAAAACAACATG
Found at i:11900243 original size:26 final size:26
Alignment explanation
Indices: 11900203--11900311 Score: 200
Period size: 26 Copynumber: 4.2 Consensus size: 26
11900193 ATGAAATTCC
11900203 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
11900229 TATCATGGAATATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
11900255 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
11900281 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
11900307 TATCA
1 TATCA
11900312 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:11900732 original size:44 final size:44
Alignment explanation
Indices: 11900650--11900925 Score: 155
Period size: 44 Copynumber: 6.4 Consensus size: 44
11900640 CATTACATGC
* * *
11900650 AACTTCAGAGAGAT-A-A-TGGTAGATTTAATCTGAC-CCACTAA
1 AACTTCAGAGAGATAAGATTTGTAGCTTCAATCTG-CTCCACTAA
* * **
11900691 AACTTCAGAGATATAAGATTTGTCGCTTCAATCTGCTCCACTGT
1 AACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACTAA
* * *
11900735 AACTTCAGGGAGATAAGATTTGTAGCTTCAACCTGCTCCACTAC
1 AACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACTAA
* * * * *
11900779 AACTTCA-AGGAGATAAG--GT-TA-CTTTAATCTGATCCATTGCA
1 AACTTCAGA-GAGATAAGATTTGTAGCTTCAATCTGCTCCACT-AA
** * * *
11900820 CCCTT-AG-GAAGATAAGATTTGTAACTTCAATCTACTCCACTAC
1 AACTTCAGAG-AGATAAGATTTGTAGCTTCAATCTGCTCCACTAA
* * * ** **
11900863 AACTTTA-AGGAGATAAGGTTTGT-GACTTTAATCTATTCCACTGC
1 AACTTCAGA-GAGATAAGATTTGTAG-CTTCAATCTGCTCCACTAA
*
11900907 AACTTCAGGGAGATAAGAT
1 AACTTCAGAGAGATAAGAT
11900926 CTGCCACGAT
Statistics
Matches: 178, Mismatches: 40, Indels: 31
0.71 0.16 0.12
Matches are distributed among these distances:
39 1 0.01
40 21 0.12
41 18 0.10
42 3 0.02
43 7 0.04
44 127 0.71
45 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (44 bp):
AACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACTAA
Found at i:11915159 original size:25 final size:23
Alignment explanation
Indices: 11915115--11915171 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
11915105 TGGTATTATG
* *
11915115 ATCATTATTGTTATCCTTATTACTC
1 ATCATTATTATTATACTTA-TA-TC
*
11915140 ATCATTATTATTATAGTTATATC
1 ATCATTATTATTATACTTATATC
11915163 ATTCATTAT
1 A-TCATTAT
11915172 GCATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 9 0.32
25 16 0.57
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.53
Consensus pattern (23 bp):
ATCATTATTATTATACTTATATC
Found at i:11916824 original size:24 final size:24
Alignment explanation
Indices: 11916795--11916848 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
11916785 AATTAAGTAT
11916795 AAAATATAATTTT-ATTATTTGATA
1 AAAATATAATTTTGATTATTT-ATA
*
11916819 AAAATA-AATTTTGATTATTTTTA
1 AAAATATAATTTTGATTATTTATA
11916842 AAAATAT
1 AAAATAT
11916849 TCATTTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAAATATAATTTTGATTATTTATA
Found at i:11926285 original size:25 final size:25
Alignment explanation
Indices: 11926257--11926309 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
11926247 TTAAAATTTC
11926257 ATAAGGGAACAAATCTAATATGCAA
1 ATAAGGGAACAAATCTAATATGCAA
*
11926282 ATAAGGGAACAAATTTAATATGCAA
1 ATAAGGGAACAAATCTAATATGCAA
11926307 ATA
1 ATA
11926310 GATCAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.23
Consensus pattern (25 bp):
ATAAGGGAACAAATCTAATATGCAA
Found at i:11927527 original size:17 final size:14
Alignment explanation
Indices: 11927483--11927518 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11927473 AACTTGAATC
*
11927483 ATTA-ATTAACTTT
1 ATTATATTAAATTT
11927496 ATTATATTAAATTT
1 ATTATATTAAATTT
11927510 ATTATATTA
1 ATTATATTA
11927519 CAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATATTAAATTT
Done.