Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 64 of 187
Found at i:19077907 original size:21 final size:22
Alignment explanation
Indices: 19077881--19077922 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19077871 AGCAGATAAA
*
19077881 ATCCAAA-TTTAAATTTGAATC
1 ATCCAAACATTAAATTTGAATC
19077902 ATCCAAACATTAAATTTGAAT
1 ATCCAAACATTAAATTTGAAT
19077923 TAATTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
ATCCAAACATTAAATTTGAATC
Found at i:19078410 original size:14 final size:15
Alignment explanation
Indices: 19078391--19078424 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19078381 ATTATTTTTA
*
19078391 AAATTCAAA-TTTCC
1 AAATTCAAAGGTTCC
19078405 AAATTCAAAGGTTCC
1 AAATTCAAAGGTTCC
19078420 AAATT
1 AAATT
19078425 GCCATGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (15 bp):
AAATTCAAAGGTTCC
Found at i:19079120 original size:21 final size:21
Alignment explanation
Indices: 19079094--19079149 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
19079084 AACAGCGGTG
*
19079094 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19079115 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19079136 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
19079150 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:19079273 original size:9 final size:9
Alignment explanation
Indices: 19079259--19079293 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
19079249 ATAGAAGTTT
19079259 TTTAAATTA
1 TTTAAATTA
19079268 TTTAAATTA
1 TTTAAATTA
19079277 TTTTAAATTA
1 -TTTAAATTA
*
19079287 TTAAAAT
1 TTTAAAT
19079294 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTAAATTA
Found at i:19079283 original size:10 final size:10
Alignment explanation
Indices: 19079258--19079288 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
19079248 AATAGAAGTT
19079258 TTTTAAATTA
1 TTTTAAATTA
19079268 -TTTAAATTA
1 TTTTAAATTA
19079277 TTTTAAATTA
1 TTTTAAATTA
19079287 TT
1 TT
19079289 AAAATATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTAAATTA
Found at i:19087542 original size:30 final size:31
Alignment explanation
Indices: 19087482--19087542 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
19087472 GGGTTGGGAG
* *
19087482 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
* *
19087513 GGGA-AGGGGTAAAAGTTTTTAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
19087543 AAAAAAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.44, T:0.21
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:19091305 original size:15 final size:15
Alignment explanation
Indices: 19091285--19091325 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
19091275 TGGAATAGCT
19091285 ATTCACCTTTTTCTG
1 ATTCACCTTTTTCTG
19091300 ATTCACCTTTTTCTG
1 ATTCACCTTTTTCTG
*
19091315 ATTCACATTTT
1 ATTCACCTTTT
19091326 GAGACCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.24, G:0.05, T:0.54
Consensus pattern (15 bp):
ATTCACCTTTTTCTG
Found at i:19094537 original size:16 final size:16
Alignment explanation
Indices: 19094516--19094555 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
19094506 TTGAATTACT
* *
19094516 ATTACAGTTCTATTTC
1 ATTACAGCTCTATTCC
19094532 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
19094548 ATTACAGC
1 ATTACAGC
19094556 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:19096472 original size:43 final size:43
Alignment explanation
Indices: 19096424--19096520 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
19096414 AGAAACAAAT
* * *
19096424 GCCGCTAAAGACCACGACCTTTAGCAACGCTTTTCCCAAAAAC
1 GCCGCTAAAAAACACGACCTTTAGCAACGCTTCTCCCAAAAAC
* ** *
19096467 GCCGCTAAAAAACATGACCTTTAGCGGCGCTTCTCGCAAAAAC
1 GCCGCTAAAAAACACGACCTTTAGCAACGCTTCTCCCAAAAAC
19096510 GCCGCTAAAAA
1 GCCGCTAAAAA
19096521 CATACCTTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (43 bp):
GCCGCTAAAAAACACGACCTTTAGCAACGCTTCTCCCAAAAAC
Found at i:19098654 original size:24 final size:24
Alignment explanation
Indices: 19098625--19098678 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
19098615 CTGATGAAAG
*
19098625 ATGAACTGTTAAATACATGCAGAA
1 ATGAACTGTTAAATACATACAGAA
* *
19098649 ATGAACCGTTCAATACATACAGAA
1 ATGAACTGTTAAATACATACAGAA
19098673 A-GAACT
1 ATGAACT
19098679 TACTTTTCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (24 bp):
ATGAACTGTTAAATACATACAGAA
Found at i:19100180 original size:10 final size:11
Alignment explanation
Indices: 19100154--19100179 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19100144 AAAATCAGTC
19100154 AAAAATAGGAT
1 AAAAATAGGAT
19100165 AAAAATAGGAT
1 AAAAATAGGAT
19100176 AAAA
1 AAAA
19100180 TTCCTTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (11 bp):
AAAAATAGGAT
Found at i:19102675 original size:5 final size:5
Alignment explanation
Indices: 19102665--19102695 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
19102655 CTTTGATTAC
19102665 AAATA AAATA AAATA AAATA AAATA ATAATA
1 AAATA AAATA AAATA AAATA AAATA A-AATA
19102696 TGAAGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:19103195 original size:23 final size:24
Alignment explanation
Indices: 19103141--19103197 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
19103131 ATAGAAATGT
19103141 ATAAAATAAAATAATAATACCTAA
1 ATAAAATAAAATAATAATACCTAA
* *
19103165 A-AACATAAAATAAT-AT-CTTATA
1 ATAAAATAAAATAATAATACCTA-A
19103187 ATAAAATAAAA
1 ATAAAATAAAA
19103198 GGATCTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.11
22 4 0.14
23 20 0.71
24 1 0.04
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAATAAAATAATAATACCTAA
Found at i:19103273 original size:22 final size:21
Alignment explanation
Indices: 19103231--19103283 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
19103221 GGAAAAATAA
*
19103231 AATAA-AATAAAAAGACTAAT
1 AATAATAATAAAAAGACCAAT
*
19103251 AATAATAATAATAATGACCAAT
1 AATAATAATAA-AAAGACCAAT
*
19103273 AAAAATAATAA
1 AATAATAATAA
19103284 CAATAAACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 5 0.18
21 5 0.18
22 18 0.64
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
AATAATAATAAAAAGACCAAT
Found at i:19103279 original size:16 final size:15
Alignment explanation
Indices: 19103247--19103290 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19103237 ATAAAAAGAC
* *
19103247 TAATAATAATAATAA
1 TAATAACAATAAAAA
*
19103262 TAATGACCAATAAAAA
1 TAAT-AACAATAAAAA
19103278 TAATAACAATAAA
1 TAATAACAATAAA
19103291 CCAATTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (15 bp):
TAATAACAATAAAAA
Found at i:19105960 original size:5 final size:5
Alignment explanation
Indices: 19105952--19105977 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19105942 ATTTGGTTTG
19105952 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
19105978 GTATGTGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:19110714 original size:12 final size:12
Alignment explanation
Indices: 19110685--19110740 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
19110675 TATTATCTTA
19110685 TAAA-TAAATAT
1 TAAATTAAATAT
19110696 TAAATTAAAT-T
1 TAAATTAAATAT
*
19110707 TAACATTAAGATAA
1 TAA-ATTAA-ATAT
* *
19110721 TCAATTTAATAT
1 TAAATTAAATAT
19110733 TAAATTAA
1 TAAATTAA
19110741 TAAAATAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
11 8 0.23
12 19 0.54
13 6 0.17
14 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (12 bp):
TAAATTAAATAT
Found at i:19116513 original size:18 final size:18
Alignment explanation
Indices: 19116492--19116542 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
19116482 AATGAAATAG
19116492 TTATTTCAAATATAATTA
1 TTATTTCAAATATAATTA
* * * *
19116510 TTATTTTATATGTAA-GA
1 TTATTTCAAATATAATTA
19116527 -TATTTCAAATATAATT
1 TTATTTCAAATATAATT
19116543 TTTTTCATCT
Statistics
Matches: 24, Mismatches: 8, Indels: 3
0.69 0.23 0.09
Matches are distributed among these distances:
16 11 0.46
17 1 0.04
18 12 0.50
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (18 bp):
TTATTTCAAATATAATTA
Found at i:19117573 original size:30 final size:26
Alignment explanation
Indices: 19117500--19117574 Score: 69
Period size: 30 Copynumber: 2.6 Consensus size: 26
19117490 CACATTAGCA
19117500 ATTTATTAATTTTTAAAATTAAAAAAAT
1 ATTT-TTAA-TTTTAAAATTAAAAAAAT
* *
19117528 ATTTTAAAATATTAAAATTATAAAAAAAATT
1 ATTTT-TAATTTTAAAA-T-T-AAAAAAA-T
19117559 ATTTTTAATTTTAAAA
1 ATTTTTAATTTTAAAA
19117575 ACTTAATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 8 0.21
28 7 0.18
29 1 0.03
30 16 0.42
31 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTTTTAATTTTAAAATTAAAAAAAT
Found at i:19121159 original size:12 final size:12
Alignment explanation
Indices: 19121138--19121175 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
19121128 TGATCATCAT
19121138 CAGCAACAGCAG
1 CAGCAACAGCAG
*
19121150 CAGCACCAGCAG
1 CAGCAACAGCAG
*
19121162 CAGCAACAACAG
1 CAGCAACAGCAG
19121174 CA
1 CA
19121176 ACAGCAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.37, G:0.21, T:0.00
Consensus pattern (12 bp):
CAGCAACAGCAG
Found at i:19121920 original size:3 final size:3
Alignment explanation
Indices: 19121914--19121970 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
19121904 TGAATAATAT
* * * * * *
19121914 GCA GCA GCA GCA GCA GCA GCA GCA TCA ACA ACA GCA GCA ACA ACA ACA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
19121962 GCA GCA GCA
1 GCA GCA GCA
19121971 ACATTATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.42, C:0.33, G:0.23, T:0.02
Consensus pattern (3 bp):
GCA
Found at i:19121934 original size:15 final size:15
Alignment explanation
Indices: 19121915--19121973 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
19121905 GAATAATATG
* *
19121915 CAGCAGCAGCAGCAG
1 CAGCAGCAGCAACAA
*
19121930 CAGCAGCATCAACAA
1 CAGCAGCAGCAACAA
*
19121945 CAGCAGCAACAACAA
1 CAGCAGCAGCAACAA
19121960 CAGCAGCAGCAACA
1 CAGCAGCAGCAACA
19121974 TTATAAACTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.44, C:0.34, G:0.20, T:0.02
Consensus pattern (15 bp):
CAGCAGCAGCAACAA
Found at i:19121971 original size:18 final size:18
Alignment explanation
Indices: 19121924--19121973 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
19121914 GCAGCAGCAG
* *
19121924 CAGCAGCAGCAGCATCAA
1 CAGCAGCAGCAACAACAA
*
19121942 CAACAGCAGCAACAACAA
1 CAGCAGCAGCAACAACAA
19121960 CAGCAGCAGCAACA
1 CAGCAGCAGCAACA
19121974 TTATAAACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.46, C:0.34, G:0.18, T:0.02
Consensus pattern (18 bp):
CAGCAGCAGCAACAACAA
Found at i:19123450 original size:5 final size:5
Alignment explanation
Indices: 19123423--19123472 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
19123413 GAGAAAGAAC
* * * *
19123423 AAAAG GAAA- AAAAG AGAAG -AAAG TAAAG TAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
19123471 AA
1 AA
19123473 GAAAAAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
4 6 0.16
5 32 0.84
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:19123460 original size:10 final size:9
Alignment explanation
Indices: 19123414--19123482 Score: 54
Period size: 10 Copynumber: 7.7 Consensus size: 9
19123404 TTGGAAAGAG
19123414 AGAAAGAACA
1 AGAAAGAA-A
*
19123424 A-AAGGAAA
1 AGAAAGAAA
*
19123432 A-AAAGAGA
1 AGAAAGAAA
*
19123440 AGAAAGTAA
1 AGAAAGAAA
19123449 AGTAAAGAAA
1 AG-AAAGAAA
19123459 AGAAAAGAAA
1 AG-AAAGAAA
19123469 AG-AAGAAA
1 AGAAAGAAA
*
19123477 AAAAAG
1 AGAAAG
19123483 CAGGAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 15 0.31
9 15 0.31
10 18 0.38
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.03
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:19127857 original size:13 final size:13
Alignment explanation
Indices: 19127841--19127873 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19127831 TTTAAACTAA
19127841 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
*
19127854 ACTTCTCAAAAAC
1 ACTTTTCAAAAAC
19127867 ACTTTTC
1 ACTTTTC
19127874 TCCGGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:19131405 original size:19 final size:19
Alignment explanation
Indices: 19131366--19131427 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
19131356 TTTTTGAAAC
* *
19131366 TTTTAAAAAATAATTTGGAA
1 TTTTTAAAAAT-ATTTTGAA
*
19131386 TTTTTATAAATATTTTGAA
1 TTTTTAAAAATATTTTGAA
19131405 -TTTTAAAAATTATTTTG-A
1 TTTTTAAAAA-TATTTTGAA
19131423 TTTTT
1 TTTTT
19131428 TTATGTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.25
19 18 0.50
20 9 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
TTTTTAAAAATATTTTGAA
Found at i:19133355 original size:6 final size:6
Alignment explanation
Indices: 19133344--19133368 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19133334 TATTGTTGAT
19133344 AATGGG AATGGG AATGGG AATGGG A
1 AATGGG AATGGG AATGGG AATGGG A
19133369 GGAGGGAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
AATGGG
Found at i:19133434 original size:28 final size:29
Alignment explanation
Indices: 19133409--19133486 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
19133399 GAAGAGGGGA
*
19133409 GATGGGAATGGGAAATGGGAGGAGGGCAC
1 GATGGGAATGGGAAATGGGAGGAGGGCAT
* * *
19133438 GGT-GGAATGGGAAATGGGA--ATGGTATT
1 GATGGGAATGGGAAATGGGAGGAGGGCA-T
19133465 GCATGGGAATGGGAAATGGGAG
1 G-ATGGGAATGGGAAATGGGAG
19133487 AAGGATACGG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.10
27 1 0.03
28 17 0.43
29 18 0.45
ACGTcount: A:0.31, C:0.04, G:0.49, T:0.17
Consensus pattern (29 bp):
GATGGGAATGGGAAATGGGAGGAGGGCAT
Found at i:19133584 original size:30 final size:30
Alignment explanation
Indices: 19133548--19133673 Score: 198
Period size: 30 Copynumber: 4.2 Consensus size: 30
19133538 TGTATTTAAA
* *
19133548 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
19133578 ATTTTAAAAATAAAAAAATACATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
19133608 ATTTTCAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
19133638 ATTCTAGAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
19133668 ATTTTA
1 ATTTTA
19133674 TTAAATGAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 87 1.00
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:19133869 original size:21 final size:21
Alignment explanation
Indices: 19133845--19133897 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
19133835 CATTATTTCT
*
19133845 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
19133866 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
19133887 AATCTCACCGC
1 AATCTCACCGC
19133898 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:19148542 original size:71 final size:71
Alignment explanation
Indices: 19148426--19148567 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
19148416 TCTTGGATTT
* *
19148426 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATT-CTCGAGATCATTTACA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCT-GAGATCATTTAAA
19148490 ACTTGAG
65 ACTTGAG
* *
19148497 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGATATCGTTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAGATCATTTAAAA
19148562 CTTGAG
66 CTTGAG
19148568 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
71 64 0.97
72 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (71 bp):
AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAGATCATTTAAAA
CTTGAG
Found at i:19149105 original size:154 final size:154
Alignment explanation
Indices: 19148825--19149133 Score: 609
Period size: 154 Copynumber: 2.0 Consensus size: 154
19148815 ACAAATCAAT
19148825 ACATACAAATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTA
1 ACATACAAATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTA
19148890 AATAAATAAAGAAAATGAATAAAATATAAAAATAAAAAAATGTAAAAAGATGTATATATTTGTAT
66 AATAAATAAAGAAAATGAATAAAATATAAAAATAAAAAAATGTAAAAAGATGTATATATTTGTAT
19148955 ATATATATGCATATAAAAATTATA
131 ATATATATGCATATAAAAATTATA
19148979 ACATACAAATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTA
1 ACATACAAATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTA
*
19149044 AATAAATGAAGAAAATGAATAAAATATAAAAATAAAAAAATGTAAAAAGATGTATATATTTGTAT
66 AATAAATAAAGAAAATGAATAAAATATAAAAATAAAAAAATGTAAAAAGATGTATATATTTGTAT
19149109 ATATATATGCATATAAAAATTATA
131 ATATATATGCATATAAAAATTATA
19149133 A
1 A
19149134 AATAATATAT
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (154 bp):
ACATACAAATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTA
AATAAATAAAGAAAATGAATAAAATATAAAAATAAAAAAATGTAAAAAGATGTATATATTTGTAT
ATATATATGCATATAAAAATTATA
Found at i:19151368 original size:83 final size:83
Alignment explanation
Indices: 19151276--19151434 Score: 257
Period size: 83 Copynumber: 1.9 Consensus size: 83
19151266 AAGATTCGCC
* * * *
19151276 GTCTTCAGTCTTAATGCCAGGGAGATAAGAT-TCGCTGCCTTTAGCTTTAATCTGCTCCGCTACA
1 GTCTTCAGTCTTAACGCCAGGAAGATAAGATCT-GCTGCCTTCAGCTTTAATCTGCTCCACTACA
19151340 ATGCCAAAGAAGACTAGCT
65 ATGCCAAAGAAGACTAGCT
*
19151359 GTCTTCAGTCTTAACGCCAGGAAGATAAGATCTGCTGCCTTCAGCTTTAATCTGCTCCACTATAA
1 GTCTTCAGTCTTAACGCCAGGAAGATAAGATCTGCTGCCTTCAGCTTTAATCTGCTCCACTACAA
19151424 TGCCAAAGAAG
66 TGCCAAAGAAG
19151435 TAAGATTCGT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
83 69 0.99
84 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (83 bp):
GTCTTCAGTCTTAACGCCAGGAAGATAAGATCTGCTGCCTTCAGCTTTAATCTGCTCCACTACAA
TGCCAAAGAAGACTAGCT
Found at i:19151623 original size:50 final size:50
Alignment explanation
Indices: 19151569--19151945 Score: 272
Period size: 50 Copynumber: 7.5 Consensus size: 50
19151559 TGCAATGTCG
* *
19151569 GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCGCTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * * * ** * ** *
19151619 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATG-TC
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* ** * * * *
19151668 GAGGAAACAAGATTCATCGTCGTAGCTTCAATCTGTTCCATTACACCGCCA
1 G-GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * * * * * ** * * ** * *
19151719 AGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTTG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* *
19151769 GGGAAGCAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGTACCGCTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * * * ** * ** *
19151819 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATG-TCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCT-A
* *
19151869 GGGTAGCAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * *
19151919 GGGAAGTAAGATTTGCCGTTGTGGCTT
1 GGGAAGCAAGATTCGCCGTTGTAGCTT
19151946 TTATCTTTTT
Statistics
Matches: 236, Mismatches: 87, Indels: 8
0.71 0.26 0.02
Matches are distributed among these distances:
49 3 0.01
50 232 0.98
51 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
Found at i:19151811 original size:200 final size:197
Alignment explanation
Indices: 19151431--19151955 Score: 722
Period size: 200 Copynumber: 2.7 Consensus size: 197
19151421 TAATGCCAAA
** * * * * * * *
19151431 GAAGTAAGATTCGTTGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACGAGATTCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAACAAGATTCGTC
*
19151496 GTCGTAGCTTCAATCTGTTCCACTACACCGCC-AG--GGAAG-TT---TTGTGGCTTCAATCTTT
66 GTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGAAGTAAGATTCCGTTGTGGCTTCAATCTTT
*
19151554 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCGCTA
131 TTAATTACAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCGCTA
19151619 GG
196 GG
* *
19151621 GAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGAGGAAACAAGATTCATC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAACAAGATTCGTC
*
19151686 GTCGTAGCTTCAATCTGTTCCATTACACCGCCAAGAAAGTAAGATTCACCGTTGTGGCTTCAATC
66 GTCGTAGCTTCAATCTGTTCCACTACACCGCCAAG-AAGTAAGATT--CCGTTGTGGCTTCAATC
* * *
19151751 TTTTTAATTACAATGTTGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGTACCG
128 TTTTTAATTACAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCG
19151816 CTAGG
193 CTAGG
* *
19151821 GAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGTAGCAAGATTCGTC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAACAAGATTCGTC
* * * * **
19151886 GTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCCGTTGTGGCTTTTATC
66 GTCGTAGCTTCAATCTGTTCCACTACACCGCCA-AGAAGTAAGA-TT-CCGTTGTGGCTTCAATC
19151951 TTTTT
128 TTTTT
19151956 NNNNNNNNNN
Statistics
Matches: 294, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
190 85 0.29
191 2 0.01
194 4 0.01
195 2 0.01
200 198 0.67
201 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (197 bp):
GAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAACAAGATTCGTC
GTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGAAGTAAGATTCCGTTGTGGCTTCAATCTTT
TTAATTACAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCGCTA
GG
Found at i:19151955 original size:100 final size:100
Alignment explanation
Indices: 19151537--19151955 Score: 640
Period size: 100 Copynumber: 4.2 Consensus size: 100
19151527 CAGGGAAGTT
* *
19151537 TTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCT
1 TTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCT
*
19151602 GTTCCACTGTACCGCTAGGGAAGTAAGATTCGCCG
66 GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCCG
* * * * *
19151637 TTGTGGCTTCAATATTTTTAATTGCAATGTCGAGGAAACAAGATTCATCGTCGTAGCTTCAATCT
1 TTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCT
* * * * * *
19151702 GTTCCATTACACCGCCAAGAAAGTAAGATTCACCG
66 GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCCG
* *
19151737 TTGTGGCTTCAATCTTTTTAATTACAATGTTGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCT
1 TTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCT
*
19151802 GTTCCACTGTACCGCTAGGGAAGTAAGATTCGCCG
66 GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCCG
* *
19151837 TTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGTAGCAAGATTCGTCGTTGTAGCTTCAATCT
1 TTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCT
*
19151902 GTTCCACTGCACCGCTAGGGAAGTAAGATTTGCCG
66 GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCCG
**
19151937 TTGTGGCTTTTATCTTTTT
1 TTGTGGCTTCAATCTTTTT
19151956 NNNNNNNNNN
Statistics
Matches: 282, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 282 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (100 bp):
TTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCT
GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCCG
Found at i:19153563 original size:50 final size:50
Alignment explanation
Indices: 19153486--19153930 Score: 322
Period size: 50 Copynumber: 8.9 Consensus size: 50
19153476 TGCACCGCCA
* * *
19153486 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCG
** ** * * ** * *
19153536 GGGAAGCAAGATTCGTTGTTGTAGCTTCAAT-TTGTTCCACTGTACCGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTT-TTTAATTGCAATGTCG
* * *
19153586 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCG
* * * ** * ** *
19153636 GGGTAGCAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCG-CTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-G
* * * *
19153686 GGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCG
* * ** * * * * *
19153736 GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCAGTACACTGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCG
* ** * * *
19153786 GGGAAGTAAGATTCGTTGTTGTGGCTTCAAAT-TTATTAATTACAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTC-AATCTTTTTAATTGCAATGTCG
* * ** **** *
19153836 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCT-GCTGCACCACCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-TTTTAATTGCAATGTCG
* * *
19153886 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGCAA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAA
19153931 CCTTAGGGGT
Statistics
Matches: 290, Mismatches: 97, Indels: 16
0.72 0.24 0.04
Matches are distributed among these distances:
49 9 0.03
50 273 0.94
51 8 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCG
Found at i:19153644 original size:100 final size:100
Alignment explanation
Indices: 19153465--19153930 Score: 700
Period size: 100 Copynumber: 4.7 Consensus size: 100
19153455 NNNNNNNNNN
*
19153465 ATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCA
1 ATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCA
**
19153530 ATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCA
66 ATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCA
* * *
19153565 ATTTGTTCCACTGTACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCA
1 ATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCA
* *
19153630 ATGTCGGGGTAGCAAGATTCGTCGTTGTAGCTTCA
66 ATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCA
* *
19153665 ATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCA
1 ATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCA
* *
19153730 ATATCGGGGAAGCAAGATTCGCCATTGTAGCTTCA
66 ATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCA
* * * ** * *
19153765 ATCTGTTCCAGTACACTGCCAGGGAAGTAAGATTCGTTGTTGTGGCTTCAAAT-TTATTAATTAC
1 ATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTC-AATCTTTTTAATTGC
*
19153829 AATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCA
65 AATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCA
** * *
19153865 ATCTGTTCTGCTGCACCACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGCA
1 ATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCA
19153930 A
66 A
19153931 CCTTAGGGGT
Statistics
Matches: 326, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
99 3 0.01
100 320 0.98
101 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
ATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCA
ATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCA
Found at i:19154827 original size:17 final size:17
Alignment explanation
Indices: 19154801--19154833 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19154791 GGCCTCTCCT
*
19154801 TTTTCTTTTCTTTTTTC
1 TTTTCGTTTCTTTTTTC
19154818 TTTTCGTTTCTTTTTT
1 TTTTCGTTTCTTTTTT
19154834 TTCAAGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTCGTTTCTTTTTTC
Found at i:19155297 original size:9 final size:9
Alignment explanation
Indices: 19155267--19155319 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
19155257 CCGATAGAGG
19155267 TTTTTTTGT
1 TTTTTTTGT
*
19155276 TTTGTTTTAT
1 TTT-TTTTGT
19155286 TGTTTTTT-T
1 T-TTTTTTGT
*
19155295 TGTTTTTGT
1 TTTTTTTGT
19155304 TTTTTTTGT
1 TTTTTTTGT
19155313 TTTTTTT
1 TTTTTTT
19155320 TCCACTGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 5 0.13
9 21 0.55
10 10 0.26
11 2 0.05
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:19155301 original size:23 final size:23
Alignment explanation
Indices: 19155267--19155319 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
19155257 CCGATAGAGG
19155267 TTTTTTTGTTTTG-TTTTATTGT
1 TTTTTTTGTTTTGTTTTTATTGT
*
19155289 TTTTTTTGTTTTTGTTTTTTTTGT
1 TTTTTTTG-TTTTGTTTTTATTGT
19155313 TTTTTTT
1 TTTTTTT
19155320 TCCACTGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 8 0.29
23 5 0.18
24 15 0.54
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (23 bp):
TTTTTTTGTTTTGTTTTTATTGT
Found at i:19155303 original size:15 final size:15
Alignment explanation
Indices: 19155270--19155320 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
19155260 ATAGAGGTTT
19155270 TTTTGTTTTGTTTTATTG
1 TTTT-TTTTG-TTT-TTG
19155288 TTTTTTTTGTTTTTG
1 TTTTTTTTGTTTTTG
19155303 TTTTTTTTGTTTTT-
1 TTTTTTTTGTTTTTG
19155317 TTTT
1 TTTT
19155321 CCACTGAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.12
15 17 0.52
16 3 0.09
17 5 0.15
18 4 0.12
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (15 bp):
TTTTTTTTGTTTTTG
Found at i:19158324 original size:71 final size:71
Alignment explanation
Indices: 19158208--19158562 Score: 674
Period size: 71 Copynumber: 5.0 Consensus size: 71
19158198 CTTGGATTTA
*
19158208 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
19158273 CTTGAG
66 CTTGAG
19158279 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
19158344 CTTGAG
66 CTTGAG
19158350 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
19158415 CTTGAG
66 CTTGAG
19158421 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
19158486 CTTGAG
66 CTTGAG
* * *
19158492 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGATATCGTTTAAAA
1 AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
19158557 CTTGAG
66 CTTGAG
19158563 TTTGAAAATA
Statistics
Matches: 280, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 280 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (71 bp):
AAAAAAATGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
CTTGAG
Found at i:19159346 original size:22 final size:18
Alignment explanation
Indices: 19159304--19159340 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
19159294 CATTCTTTTA
19159304 AAATAATAACAAAAATGT
1 AAATAATAACAAAAATGT
19159322 AAATAAATAAACAAAAATG
1 AAAT-AAT-AACAAAAATG
19159341 AATAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 3 0.18
20 10 0.59
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
AAATAATAACAAAAATGT
Found at i:19159549 original size:22 final size:18
Alignment explanation
Indices: 19159507--19159543 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
19159497 CATTCTTTTA
19159507 AAATAATAACAAAAATGT
1 AAATAATAACAAAAATGT
19159525 AAATAAATAAACAAAAATG
1 AAAT-AAT-AACAAAAATG
19159544 AATAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 3 0.18
20 10 0.59
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
AAATAATAACAAAAATGT
Found at i:19159549 original size:203 final size:203
Alignment explanation
Indices: 19159200--19159610 Score: 813
Period size: 203 Copynumber: 2.0 Consensus size: 203
19159190 TCTTGGTGTC
*
19159200 AAAAACAAAACAAAATAGGATATGTGGTATACAAACGGGAAAAAGGACAAATCAATAGCATACAA
1 AAAAACAAAACAAAATAGGATATGTGGTATAAAAACGGGAAAAAGGACAAATCAATAGCATACAA
19159265 AATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTAAATAAAT
66 AATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTAAATAAAT
19159330 AAACAAAAATGAATAAAATATAAAAATATAAAAATGTAAAAAGATGTATATATTTGTATATATAT
131 AAACAAAAATGAATAAAATATAAAAATATAAAAATGTAAAAAGATGTATATATTTGTATATATAT
19159395 ATGCATAT
196 ATGCATAT
19159403 AAAAACAAAACAAAATAGGATATGTGGTATAAAAACGGGAAAAAGGACAAATCAATAGCATACAA
1 AAAAACAAAACAAAATAGGATATGTGGTATAAAAACGGGAAAAAGGACAAATCAATAGCATACAA
19159468 AATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTAAATAAAT
66 AATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTAAATAAAT
19159533 AAACAAAAATGAATAAAATATAAAAATATAAAAATGTAAAAAGATGTATATATTTGTATATATAT
131 AAACAAAAATGAATAAAATATAAAAATATAAAAATGTAAAAAGATGTATATATTTGTATATATAT
19159598 ATGCATAT
196 ATGCATAT
19159606 AAAAA
1 AAAAA
19159611 TTATAAAATA
Statistics
Matches: 207, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 207 1.00
ACGTcount: A:0.58, C:0.07, G:0.10, T:0.25
Consensus pattern (203 bp):
AAAAACAAAACAAAATAGGATATGTGGTATAAAAACGGGAAAAAGGACAAATCAATAGCATACAA
AATAAATATATAAGCAAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATGTAAATAAAT
AAACAAAAATGAATAAAATATAAAAATATAAAAATGTAAAAAGATGTATATATTTGTATATATAT
ATGCATAT
Found at i:19159787 original size:15 final size:16
Alignment explanation
Indices: 19159767--19159796 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19159757 GTACGTGTAT
19159767 AAATATATAT-TATAG
1 AAATATATATATATAG
19159782 AAATATATATATATA
1 AAATATATATATATA
19159797 TATATATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATATATATATATAG
Found at i:19163957 original size:20 final size:20
Alignment explanation
Indices: 19163923--19163964 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19163913 AACTATTTAA
** *
19163923 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
19163943 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
19163963 AT
1 AT
19163965 GTGCTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:19166161 original size:19 final size:19
Alignment explanation
Indices: 19166137--19166174 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19166127 TTTCAATCTG
*
19166137 ATTTATTTCGATAT-TTTTA
1 ATTTATATC-ATATATTTTA
19166156 ATTTATATCATATATTTTA
1 ATTTATATCATATATTTTA
19166175 TTCTATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTATATCATATATTTTA
Found at i:19176438 original size:24 final size:24
Alignment explanation
Indices: 19176410--19176461 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
19176400 TTCGTAGGTA
* *
19176410 AAATAAATTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
19176434 AAATATACTATACTAATAGATACT
1 AAATAAACTATACTAATAAATACT
19176458 AAAT
1 AAAT
19176462 CTTCTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:19178410 original size:24 final size:24
Alignment explanation
Indices: 19178382--19178433 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
19178372 TTCGTAGGTA
* * *
19178382 AAATACATTATGCTAATAAATGCT
1 AAATACATAATACTAATAAATACT
* *
19178406 AAATATATAATACTAATAGATACT
1 AAATACATAATACTAATAAATACT
19178430 AAAT
1 AAAT
19178434 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATACATAATACTAATAAATACT
Found at i:19184838 original size:24 final size:24
Alignment explanation
Indices: 19184809--19184855 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
19184799 ACCGACTAGA
19184809 ACATTGATTGTAATATAGCTGCCG
1 ACATTGATTGTAATATAGCTGCCG
19184833 ACATTGATTGTAATATAGCTGCC
1 ACATTGATTGTAATATAGCTGCC
19184856 CATTCTCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (24 bp):
ACATTGATTGTAATATAGCTGCCG
Found at i:19187180 original size:5 final size:6
Alignment explanation
Indices: 19187165--19187189 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19187155 TTATAAGGAA
19187165 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
19187190 TTATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:19188582 original size:3 final size:3
Alignment explanation
Indices: 19188576--19188600 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19188566 TCTGCAACAA
19188576 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
19188601 TAATGGACCT
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:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:19197350 original size:9 final size:9
Alignment explanation
Indices: 19197299--19197349 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
19197289 AATCATAAAA
19197299 TTAATTCGG
1 TTAATTCGG
19197308 TTAATTCGG
1 TTAATTCGG
*
19197317 GTAATTCGG
1 TTAATTCGG
19197326 TTAATTCGG
1 TTAATTCGG
*
19197335 TTAATTTGG
1 TTAATTCGG
19197344 TTAATT
1 TTAATT
19197350 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.47
Consensus pattern (9 bp):
TTAATTCGG
Found at i:19197503 original size:9 final size:9
Alignment explanation
Indices: 19197409--19197502 Score: 125
Period size: 9 Copynumber: 10.4 Consensus size: 9
19197399 GTAGTGATTC
*
19197409 AATTTGGTT
1 AATTCGGTT
*
19197418 AATTCGGGT
1 AATTCGGTT
*
19197427 AATTCGGGT
1 AATTCGGTT
*
19197436 AATTCGGGT
1 AATTCGGTT
*
19197445 AATTCGGGT
1 AATTCGGTT
*
19197454 AATTCGATT
1 AATTCGGTT
19197463 AATTCGGTT
1 AATTCGGTT
19197472 AATTCGGTT
1 AATTCGGTT
19197481 AATTCGGTT
1 AATTCGGTT
*
19197490 AATTTGGTT
1 AATTCGGTT
19197499 AATT
1 AATT
19197503 TTTAACCAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 79 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:19200519 original size:11 final size:11
Alignment explanation
Indices: 19200482--19200521 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
19200472 AATATATTTC
*
19200482 AAAAAAGAAGA
1 AAAAAAGAAAA
*
19200493 AGAAAAGAAAA
1 AAAAAAGAAAA
*
19200504 GAAAAAGAAAA
1 AAAAAAGAAAA
19200515 AAAAAAG
1 AAAAAAG
19200522 GCCAAGATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:19200519 original size:16 final size:16
Alignment explanation
Indices: 19200482--19200519 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19200472 AATATATTTC
*
19200482 AAAAAAGAAGAAGAAA
1 AAAAAAGAAAAAGAAA
*
19200498 AGAAAAGAAAAAGAAA
1 AAAAAAGAAAAAGAAA
19200514 AAAAAA
1 AAAAAA
19200520 AGGCCAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAA
Found at i:19202190 original size:89 final size:89
Alignment explanation
Indices: 19201966--19202710 Score: 549
Period size: 89 Copynumber: 8.4 Consensus size: 89
19201956 TCCTTAAGCA
* * * * *
19201966 GCAGTAGAGTAGGTTGAAGATTGTAGATCTTGTCTTTCTGTACTGGCAGTGAAGTAGATCAAAAA
1 GCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA
* * ***
19202031 CAGCAGCCTTATCTCCCTG-AGCA
66 CACCAGCCTTACCTCCCTGAATTT
* *
19202054 GCAATGGAGTAGGTTAAAGATTGTAGATTTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA
1 GCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA
* * *
19202119 CACTAGCCTTATCTCCCTAAATTT
66 CACCAGCCTTACCTCCCTGAATTT
*
19202143 GCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCATGTACTGGCAGTGAAGCAGATCGAAAA
1 GCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA
* * ***
19202208 CACTAGCCTTATCTCCCTG-AGCA
66 CACCAGCCTTACCTCCCTGAATTT
* * * * * *
19202231 GCAGTGGAGTAGGTTAAAGATTGTAGATTTTGTTTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
1 GCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA
* *
19202296 CACTAGCCTTACCTCCCTGAGTTT
66 CACCAGCCTTACCTCCCTGAATTT
* ** ** *** * * * * *
19202320 GCAGTTGAACAGACTAAA-AGTAACAGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCGAAA
1 GCAGTGGAGTAGGTTAAAGA-TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAA
* * * *
19202384 ACACCGGCCTTGCCTCCTTGAGTTT
65 ACACCAGCCTTACCTCCCTGAATTT
* *** * * * * * * *
19202409 ACAGCAAAGCAGACTGAAAGCA--GTAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAA
1 GCAGTGGAGTAG-GTTAAAG-ATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAA
* * * *
19202472 TACACCAACCTTGCCTCCCTGAGTTT
64 AACACCAGCCTTACCTCCCTGAATTT
* * * * * * *
19202498 GCAGCGGAGCAGACTGAAAGCA--GCAGATCTTGTCTTTCTGTACTGGCAGTGGAGCAGATCGAA
1 GCAGTGGAGTAG-GTTAAAG-ATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAA
* ** *
19202561 GACACCAGCCTCGCCTCTCC-GAGTTT
64 AACACCAGCCTTACCTC-CCTGAATTT
* * * * * * *
19202587 -CAGTGGAGCAGACTGAAAAATAGCAGATCTTGTCTTCTTGTGA-TGGCAGTGAAGCAGATCGAA
1 GCAGTGGAGTAG-GTTAAAGATTGTAGATCTTGTCTTCCTGT-ACTGGCAGTGAAGCAGATCGAA
* * * *
19202650 ATA-ACAAACCTTATCTCCCTGAAGTT
64 A-ACACCAGCCTTACCTCCCTGAATTT
* * * *
19202676 GCAGTAGAGTAGGTTGAAGATTGCAGATCCTGTCT
1 GCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCT
19202711 CCCTAAGCAG
Statistics
Matches: 546, Mismatches: 98, Indels: 25
0.82 0.15 0.04
Matches are distributed among these distances:
87 1 0.00
88 171 0.31
89 357 0.65
90 16 0.03
92 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (89 bp):
GCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA
CACCAGCCTTACCTCCCTGAATTT
Found at i:19202314 original size:88 final size:88
Alignment explanation
Indices: 19201947--19202316 Score: 526
Period size: 88 Copynumber: 4.2 Consensus size: 88
19201937 TTAAGCCACC
* * * * *
19201947 AGCCTTATCTCCTTAAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATCTTGTCTTTCTGTACTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGG
* *
19202012 CAGTGAAGTAGATCAAAAACAGC-
66 CAGTGAAGCAGATCGAAAACA-CT
* *
19202035 AGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTAAAGATTGTAGATTTTGTCTTCCTGTACTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGG
19202100 CAGTGAAGCAGATCGAAAACACT
66 CAGTGAAGCAGATCGAAAACACT
* *** *
19202123 AGCCTTATCTCCCTAAATTTGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCATGTACTG
1 AGCCTTATCTCCCT-GAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTG
19202188 GCAGTGAAGCAGATCGAAAACACT
65 GCAGTGAAGCAGATCGAAAACACT
* * *
19202212 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATTTTGTTTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGG
* * *
19202277 CAGCGAAGTAGATCGAAGACACT
66 CAGTGAAGCAGATCGAAAACACT
*
19202300 AGCCTTACCTCCCTGAG
1 AGCCTTATCTCCCTGAG
19202317 TTTGCAGTTG
Statistics
Matches: 252, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 170 0.67
89 81 0.32
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGG
CAGTGAAGCAGATCGAAAACACT
Found at i:19202350 original size:177 final size:177
Alignment explanation
Indices: 19201990--19202571 Score: 645
Period size: 177 Copynumber: 3.3 Consensus size: 177
19201980 TGAAGATTGT
* * *
19201990 AGATCTTGTCTTTCTGTACTGGCAGTGAAGTAGATCAAAAACAGCAGCCTTATCTCCCTGAGCAG
1 AGATCTTGTCTTTCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCCCTGAGCAG
* * *
19202055 CAATGGAGTAGGTTAAAGATTGTAGATTTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAAC
66 CAATGGAGTAGGTTAAAGATTGTAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAAAC
* * * * * * * *
19202120 ACTAGCCTTATCTCCCTAAATTTGCAGTGGAGTAG-GTTAAAGATTGT
131 ACTAGCCTTACCTCCCTGAGTTTGCAGTGGAGCAGACTAAAAG-TAGC
*
19202167 AGATCTTGTC-TTCATGTACTGGCAGTGAAGCAGATCGAAAACACTAGCCTTATCTCCCTGAGCA
1 AGATCTTGTCTTTC-TGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCCCTGAGCA
* * *
19202231 GCAGTGGAGTAGGTTAAAGATTGTAGATTTTGTTTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
65 GCAATGGAGTAGGTTAAAGATTGTAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAAA
* * *
19202296 CACTAGCCTTACCTCCCTGAGTTTGCAGTTGAACAGACTAAAAGTAAC
130 CACTAGCCTTACCTCCCTGAGTTTGCAGTGGAGCAGACTAAAAGTAGC
* * * * * * * ** *
19202344 AGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCGAAAACACCGGCCTTGCCTCCTTGAGTTT
1 AGATCTTGTCTTTCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCCCTGAG---
* * * * * *
19202409 ACAGCAAAGCAG-A-CTGAAAGCA--GTAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCG
63 -CAGCAATGGAGTAGGTTAAAG-ATTGTAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * * * * *
19202470 AATACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAAGCAGC
126 AAAACACTAGCCTTACCTCCCTGAGTTTGCAGTGGAGCAGACTAAAAGTAGC
* *
19202522 AGATCTTGTCTTTCTGTACTGGCAGTGGAGCAGATCGAAGACACCAGCCT
1 AGATCTTGTCTTTCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCT
19202572 CGCCTCTCCG
Statistics
Matches: 338, Mismatches: 59, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
176 3 0.01
177 194 0.57
178 126 0.37
179 5 0.01
180 2 0.01
181 8 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (177 bp):
AGATCTTGTCTTTCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCCCTGAGCAG
CAATGGAGTAGGTTAAAGATTGTAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAAAC
ACTAGCCTTACCTCCCTGAGTTTGCAGTGGAGCAGACTAAAAGTAGC
Found at i:19202704 original size:178 final size:177
Alignment explanation
Indices: 19201949--19202710 Score: 585
Period size: 177 Copynumber: 4.3 Consensus size: 177
19201939 AAGCCACCAG
* ** *
19201949 CCTTATCT-CCTTAAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATCTTGTCTTTCTGTACTGGC
1 CCTTATCTCCCTGAAGTTGCAGTAGAGTAGGTTGAAGATTGCAGATCTTGTCTTTCTGTACTGGC
* * * * * * * * * *
19202013 AGTGAAGTAGATCAAAAACAGCAGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTAAAGATTGT
66 AGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGCAGCTGAAAAATAGT
* * * *
19202078 AGATTTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACTAG
131 AGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACTAA
* * * * *
19202125 CCTTATCTCCCTAAATTTGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTC-TTCATGTACTGG
1 CCTTATCTCCCTGAAGTTGCAGTAGAGTAGGTTGAAGATTGCAGATCTTGTCTTTC-TGTACTGG
* * * * * * *
19202189 CAGTGAAGCAGATCGAAAACACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTG
65 CAGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGCAGCTGAAAAATAG
* * * * *
19202254 TAGATTTTGTTTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACTAG
130 TAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACTAA
* * ** ** * ** * * * *
19202302 CCTTACCTCCCTG-AGTTTGCAGTTGAACAGACT-AAAAGTAACAGATCTTATCTTCCTATATTG
1 CCTTATCTCCCTGAAG-TTGCAGTAGAGTAGGTTGAAGA-TTGCAGATCTTGTCTTTCTGTACTG
* * * * * * ***
19202365 GCAGCGAAGTAGATCGAAAACACCGGCCTTGCCTCCTTGAGTTTA-CAGCAAAGCAGACTG-AAA
64 GCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAG--CAGCAGTGGAGCAG-CTGAAAA
** * * * *
19202428 GCAGTAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAATACACCAA
126 ATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACTAA
** ** * **
19202480 CCTTGCCTCCCTG-AGTTTGCAGCGGAGCAGACTGAAAGCA--GCAGATCTTGTCTTTCTGTACT
1 CCTTATCTCCCTGAAG-TTGCAGTAGAGTAGGTTG-AAG-ATTGCAGATCTTGTCTTTCTGTACT
* * ** ***
19202542 GGCAGTGGAGCAGATCGAAGACACCAGCCTCGCCTCTCC-GAGTTTCAGTGGAGCAGACTGAAAA
63 GGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTC-CCTGAGCAGCAGTGGAGCAG-CTGAAAA
* * * *
19202606 ATAGCAGATCTTGTCTTCTTGTGA-TGGCAGTGAAGCAGATCGAAATA-ACAAA
126 ATAGTAGATCTTGTCTTCCTGT-ATTGGCAGCGAAGCAGATCGAAA-ACACTAA
*
19202658 CCTTATCTCCCTGAAGTTGCAGTAGAGTAGGTTGAAGATTGCAGATCCTGTCT
1 CCTTATCTCCCTGAAGTTGCAGTAGAGTAGGTTGAAGATTGCAGATCTTGTCT
19202711 CCCTAAGCAG
Statistics
Matches: 473, Mismatches: 94, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
176 17 0.04
177 235 0.50
178 211 0.45
179 7 0.01
180 2 0.00
181 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (177 bp):
CCTTATCTCCCTGAAGTTGCAGTAGAGTAGGTTGAAGATTGCAGATCTTGTCTTTCTGTACTGGC
AGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGCAGCTGAAAAATAGT
AGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACTAA
Found at i:19203067 original size:44 final size:44
Alignment explanation
Indices: 19202903--19203120 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 44
19202893 GAAGATAGGC
* * * ** * *
19202903 TACAAATCTTGTCTCCCTAAAGTTACAGTGGAGCAGATGAAAGC
1 TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGA
* * * * *
19202947 CACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA-A
1 TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGA
* * *
19202990 TAACAAACCTTATCTCTCTGAAGTTTTAATGGAGCAGATTAAAGA
1 T-ACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGA
* * * *
19203035 TACCAATCTTATCTCCCTGAAGATGTAGTGGAGTAGATTGAAGACCGA
1 TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT-AA-A--GA
** *
19203083 CTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA
1 -TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
19203121 CCATTGATAG
Statistics
Matches: 137, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
44 98 0.72
45 4 0.03
46 1 0.01
48 2 0.01
49 32 0.23
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGA
Found at i:19207204 original size:17 final size:17
Alignment explanation
Indices: 19207184--19207216 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19207174 TTTAGCAGAC
19207184 TTTGATTTTTATTGCTT
1 TTTGATTTTTATTGCTT
*
19207201 TTTGATTTTTTTTGCT
1 TTTGATTTTTATTGCT
19207217 GATTCAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.73
Consensus pattern (17 bp):
TTTGATTTTTATTGCTT
Found at i:19208424 original size:22 final size:23
Alignment explanation
Indices: 19208388--19208430 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19208378 GATATGATAT
19208388 GTAATCTTAGAAGATATGATTCG
1 GTAATCTTAGAAGATATGATTCG
* *
19208411 GTAATTTTAG-AGATTTGATT
1 GTAATCTTAGAAGATATGATT
19208431 TGTAGATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (23 bp):
GTAATCTTAGAAGATATGATTCG
Found at i:19215109 original size:21 final size:21
Alignment explanation
Indices: 19215065--19215108 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
19215055 TTCTCACTAG
* *
19215065 AATTTATTTCTAAAATATTAA
1 AATTTATTTATAAAAAATTAA
19215086 AATTTATTTATAAAAAATATAA
1 AATTTATTTATAAAAAAT-TAA
19215108 A
1 A
19215109 TGATTATCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTATTTATAAAAAATTAA
Found at i:19215625 original size:124 final size:124
Alignment explanation
Indices: 19215483--19215730 Score: 496
Period size: 124 Copynumber: 2.0 Consensus size: 124
19215473 CCTATAATTA
19215483 TAGAATTGAATTTTAAATTTTTAAATGTAATTTTATTATTGTATTAATTTATAATTATATAATTT
1 TAGAATTGAATTTTAAATTTTTAAATGTAATTTTATTATTGTATTAATTTATAATTATATAATTT
19215548 GTTGATACACAGTATCAACAGAAGTGGAGAATGAGGGGGAGGATGTTCTGGTGAAGAAG
66 GTTGATACACAGTATCAACAGAAGTGGAGAATGAGGGGGAGGATGTTCTGGTGAAGAAG
19215607 TAGAATTGAATTTTAAATTTTTAAATGTAATTTTATTATTGTATTAATTTATAATTATATAATTT
1 TAGAATTGAATTTTAAATTTTTAAATGTAATTTTATTATTGTATTAATTTATAATTATATAATTT
19215672 GTTGATACACAGTATCAACAGAAGTGGAGAATGAGGGGGAGGATGTTCTGGTGAAGAAG
66 GTTGATACACAGTATCAACAGAAGTGGAGAATGAGGGGGAGGATGTTCTGGTGAAGAAG
19215731 CAGATCAAAG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (124 bp):
TAGAATTGAATTTTAAATTTTTAAATGTAATTTTATTATTGTATTAATTTATAATTATATAATTT
GTTGATACACAGTATCAACAGAAGTGGAGAATGAGGGGGAGGATGTTCTGGTGAAGAAG
Found at i:19218081 original size:134 final size:133
Alignment explanation
Indices: 19217743--19218098 Score: 437
Period size: 133 Copynumber: 2.7 Consensus size: 133
19217733 ATCAAATTGC
* * *
19217743 TTAAGTGGAATCGCAATTGTAAATCGATGAATTCTTTAAGAAGTGTTCATAATTATAAATCAATG
1 TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
* * * * *
19217808 AACTGAAG-TCGTGATCGTAAATCAACAGGCTTTAAACATGATAGTCGTGATACTAACTCAGCGA
66 AACTGAAGCT-GTGATCGTAAATCAACAAGCTTTAAAAATGACAATCGTGATACTAAATCAGCGA
19217872 AATG
130 AATG
* * ** * * * * *
19217876 TTAATTGTAGTCATGATTGTAAATCGGTGAACTCTTCAAGAAGTGTTCATGATCATAAATCAATA
1 TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
* ** *
19217941 AACTGAAGCTGTGATCGTAAATCAACAAGCTTTAAAAATGACAATTGTGATTGTAAATTAGCGAA
66 AACTGAAGCTGTGATCGTAAATCAACAAGCTTTAAAAATGACAATCGTGATACTAAATCAGCGAA
19218006 CTAT-
131 --ATG
* * *
19218010 TTAAGTGGAGTCGCGATCGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTGTAAATTAATG
1 TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
* *
19218075 AACTGAAGCCGTGATCATAAATCA
66 AACTGAAGCTGTGATCGTAAATCA
19218099 GTAAATTGTT
Statistics
Matches: 185, Mismatches: 35, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
133 107 0.58
134 76 0.41
135 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (133 bp):
TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
AACTGAAGCTGTGATCGTAAATCAACAAGCTTTAAAAATGACAATCGTGATACTAAATCAGCGAA
ATG
Found at i:19218165 original size:39 final size:39
Alignment explanation
Indices: 19218116--19218254 Score: 127
Period size: 39 Copynumber: 3.6 Consensus size: 39
19218106 GTTAGAAAAT
* * * *
19218116 CAAAGGTCGTGATCGTAAATCAGTAGACTGTAAGAATGC
1 CAAAGATCATGATCGTAAATCAGTGGACTGTAAGAAAGC
* * * * * *
19218155 CGAAGATCGTGACCGTAAATTAGTGGAAC-ATAAGAAAGT
1 CAAAGATCATGATCGTAAATCAGTGG-ACTGTAAGAAAGC
* * *
19218194 CAAAGATCATAATCGTAAATTAGCGGACTGTAAGAAAGC
1 CAAAGATCATGATCGTAAATCAGTGGACTGTAAGAAAGC
* *
19218233 CAAAGGTCATGATCATAAATCA
1 CAAAGATCATGATCGTAAATCA
19218255 ACAGAATATA
Statistics
Matches: 79, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
38 2 0.03
39 75 0.95
40 2 0.03
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (39 bp):
CAAAGATCATGATCGTAAATCAGTGGACTGTAAGAAAGC
Found at i:19218252 original size:78 final size:78
Alignment explanation
Indices: 19218109--19218252 Score: 171
Period size: 78 Copynumber: 1.8 Consensus size: 78
19218099 GTAAATTGTT
* * * * * * * *
19218109 AGAAAATCAAAGGTCGTGATCGTAAATCAGTAGACTGTAAGAATGCCGAAGATCGTGACCGTAAA
1 AGAAAATCAAAGATCATAATCGTAAATCAGCAGACTGTAAGAAAGCCAAAGATCATGACCATAAA
19218174 TTAGTGGAACATA
66 TTAGTGGAACATA
* * * * *
19218187 AGAAAGTCAAAGATCATAATCGTAAATTAGCGGACTGTAAGAAAGCCAAAGGTCATGATCATAAA
1 AGAAAATCAAAGATCATAATCGTAAATCAGCAGACTGTAAGAAAGCCAAAGATCATGACCATAAA
19218252 T
66 T
19218253 CAACAGAATA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
78 53 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (78 bp):
AGAAAATCAAAGATCATAATCGTAAATCAGCAGACTGTAAGAAAGCCAAAGATCATGACCATAAA
TTAGTGGAACATA
Found at i:19223127 original size:54 final size:54
Alignment explanation
Indices: 19223045--19223154 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
19223035 TTAAAGCAAA
*
19223045 CACGATTGCAACTAACTCAAGGTCATGTGTCGGATAATTTCTTTTGTGTGATTT
1 CACGATTGCAACTAACTCAAGGTCATGTGTCAGATAATTTCTTTTGTGTGATTT
19223099 CACGATTGCAACTAACTCAAGGTCATGTGTCAGATAATTTCTTTTGTGTGATTT
1 CACGATTGCAACTAACTCAAGGTCATGTGTCAGATAATTTCTTTTGTGTGATTT
19223153 CA
1 CA
19223155 ACTGACGAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
CACGATTGCAACTAACTCAAGGTCATGTGTCAGATAATTTCTTTTGTGTGATTT
Found at i:19232782 original size:69 final size:67
Alignment explanation
Indices: 19232608--19232887 Score: 317
Period size: 69 Copynumber: 4.1 Consensus size: 67
19232598 CGACATTCGA
* * *
19232608 GTCATATTAAGGCTCGTAAGCGAAGAGTCGCAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTA
1 GTCATATTAAGGCTCGT-AGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTA
19232673 CCT
65 CCT
* * * * * * *
19232676 GTCATATTAAGGCTCGTTGGTGAAAAGCCACAACCTCCAACATAGTTAACGAGAACAAAGCTCCT
1 GTCATATTAAGGCTCG-TAGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCT-CT
*
19232741 AGCT
64 ACCT
* * * *
19232745 GTAATATTAAGGCTCATAGTCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCTC
1 GTCATATTAAGGCTCGTAGT-GAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCT-
19232810 ACCT
64 ACCT
* * ** *
19232814 ATCATACTAAAACTCGTAGGTGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTA
1 GTCATATTAAGGCTCGTA-GTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTA
*
19232879 GCT
65 CCT
19232882 GTCATA
1 GTCATA
19232888 CTGAAGCTCA
Statistics
Matches: 177, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
68 63 0.36
69 112 0.63
70 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (67 bp):
GTCATATTAAGGCTCGTAGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTAC
CT
Found at i:19232880 original size:137 final size:137
Alignment explanation
Indices: 19232611--19232883 Score: 361
Period size: 137 Copynumber: 2.0 Consensus size: 137
19232601 CATTCGAGTC
* * *
19232611 ATATTAAGGCTCGTAAGCGAAGAGTCGCAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTACCT
1 ATATTAAGGCTCATAAGCGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTACCT
* * ** * * *
19232676 GTCATATTAAGGCTCGTTGGTGAAAAGCCACAACCTCCAACATAGTTAACGAGAACAAAGCTCCT
66 ATCATACTAAAACTCGTAGGTGAAAAGCCACAACCTCCAACACAATTAACGAGAACAAAGCTCCT
19232741 AGCTGTA
131 AGCTGTA
* *
19232748 ATATTAAGGCTCAT-AGTCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCTCAC
1 ATATTAAGGCTCATAAG-CGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCT-AC
* * * * *
19232812 CTATCATACTAAAACTCGTAGGTGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGCAAAGCT-
64 CTATCATACTAAAACTCGTAGGTGAAAAGCCACAACCTCCAACACAATTAACGAGAACAAAGCTC
19232876 CTAGCTGT
129 CTAGCTGT
19232884 CATACTGAAG
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.02
137 61 0.52
138 54 0.46
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (137 bp):
ATATTAAGGCTCATAAGCGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTACCT
ATCATACTAAAACTCGTAGGTGAAAAGCCACAACCTCCAACACAATTAACGAGAACAAAGCTCCT
AGCTGTA
Found at i:19232921 original size:21 final size:21
Alignment explanation
Indices: 19232891--19232930 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19232881 TGTCATACTG
19232891 AAGCTCACAGGCAAAGACCTA
1 AAGCTCACAGGCAAAGACCTA
* *
19232912 AAGCTTACAGTCAAAGACC
1 AAGCTCACAGGCAAAGACC
19232931 GCAGCCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.12
Consensus pattern (21 bp):
AAGCTCACAGGCAAAGACCTA
Found at i:19233045 original size:58 final size:58
Alignment explanation
Indices: 19232980--19233238 Score: 349
Period size: 58 Copynumber: 4.5 Consensus size: 58
19232970 ACTATGTTAC
* * ** *
19232980 CTTTCAAAATTTTCACAAGTATAAAATAGTTCGGGGATTCACATCCCTAGTTGGTTAT
1 CTTTCAAAATTTTCACAAGTATAAAACAGCTCACGGATTCACATCCCTAGTTGATTAT
* *
19233038 CTTTCAAAATTTGT-ACAAGTATAAAATAGCTCACGGATTCACATCCCCAGTTGATTAT
1 CTTTCAAAATTT-TCACAAGTATAAAACAGCTCACGGATTCACATCCCTAGTTGATTAT
* * **
19233096 CTTTCAGAATTTTCACAAGCATAAAACAGCTCGTGGATTCACATCCCTAGTTGATTAT
1 CTTTCAAAATTTTCACAAGTATAAAACAGCTCACGGATTCACATCCCTAGTTGATTAT
* ** *
19233154 CTTTCAAAATTTTCACAAGTATAAAACAGTTCACAAATTCACATCCCTAATTGATTAT
1 CTTTCAAAATTTTCACAAGTATAAAACAGCTCACGGATTCACATCCCTAGTTGATTAT
* *
19233212 CTTTCAAATTTTTCTCAAGTATAAAAC
1 CTTTCAAAATTTTCACAAGTATAAAAC
19233239 TATTTGCTGA
Statistics
Matches: 178, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
57 1 0.01
58 176 0.99
59 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (58 bp):
CTTTCAAAATTTTCACAAGTATAAAACAGCTCACGGATTCACATCCCTAGTTGATTAT
Found at i:19237567 original size:19 final size:19
Alignment explanation
Indices: 19237543--19237589 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
19237533 TTTTACAAAT
19237543 TTACAATTTAGTCCCTAAA
1 TTACAATTTAGTCCCTAAA
19237562 TTACAATTTAGTCCCTAAA
1 TTACAATTTAGTCCCTAAA
19237581 TTACAATTT
1 TTACAATTT
19237590 CATCAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
TTACAATTTAGTCCCTAAA
Found at i:19241091 original size:8 final size:8
Alignment explanation
Indices: 19241078--19241105 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
19241068 TGTGCACACT
19241078 TAAATTTA
1 TAAATTTA
19241086 TAAATTTA
1 TAAATTTA
19241094 TAAATTTA
1 TAAATTTA
19241102 TAAA
1 TAAA
19241106 CCCGTCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TAAATTTA
Found at i:19242107 original size:43 final size:42
Alignment explanation
Indices: 19242052--19242203 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 42
19242042 TCGTACAATA
* * *
19242052 CCAACGTCCCAGATGTGGTCTTACATGTAATAAAATAACAATG
1 CCAATGTCCCAGATGTGGTCTTACATGTAATCAAAT-ACGATG
* * *
19242095 CCATTGTCCCAGATAG-GGTCTTACACGTAATCATATACGATG
1 CCAATGTCCCAGAT-GTGGTCTTACATGTAATCAAATACGATG
** *
19242137 CCAATGTCCCAGACATGGTTTTACATGTAAATCCCAAAT-CGATG
1 CCAATGTCCCAGATGTGGTCTTACATGT-AAT--CAAATACGATG
19242181 CCAATGTCCCAGATGTGGTCTTA
1 CCAATGTCCCAGATGTGGTCTTA
19242204 TACAAAATCA
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 27 0.30
43 32 0.36
44 26 0.29
45 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
CCAATGTCCCAGATGTGGTCTTACATGTAATCAAATACGATG
Found at i:19242161 original size:42 final size:43
Alignment explanation
Indices: 19242092--19242193 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
19242082 TAAAATAACA
* * *
19242092 ATGCCATTGTCCCAGATAGGGTCTTACACGT-AAT-CATATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCCAAAT-CG
* * *
19242134 ATGCCAATGTCCCAGACATGGTTTTACATGTAAATCCCAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAAT-CCAAATCG
19242178 ATGCCAATGTCCCAGA
1 ATGCCAATGTCCCAGA
19242194 TGTGGTCTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 26 0.51
43 3 0.06
44 18 0.35
45 4 0.08
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCCAAATCG
Found at i:19243295 original size:13 final size:13
Alignment explanation
Indices: 19243277--19243301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19243267 ACAAACGATA
19243277 AAATTTTCACACG
1 AAATTTTCACACG
19243290 AAATTTTCACAC
1 AAATTTTCACAC
19243302 ACATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:19254095 original size:20 final size:19
Alignment explanation
Indices: 19254041--19254097 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
19254031 ACTCCCCCTA
*
19254041 TTTACTTTCCCTTAAAC-T
1 TTTATTTTCCCTTAAACTT
* *
19254059 TTTATTCT-CC-AAAACTT
1 TTTATTTTCCCTTAAACTT
19254076 TTTATTTTTCCCTTAAACTT
1 TTTA-TTTTCCCTTAAACTT
19254096 TT
1 TT
19254098 ACTTCTCACC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 9 0.30
19 2 0.07
20 8 0.27
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTTTCCCTTAAACTT
Found at i:19258208 original size:22 final size:23
Alignment explanation
Indices: 19258183--19258227 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
19258173 ATCATCTCGA
19258183 TTTTAAAAATTAAAA-AAATTAT
1 TTTTAAAAATTAAAATAAATTAT
* *
19258205 TTTTCATAATTAAAATAAATTAT
1 TTTTAAAAATTAAAATAAATTAT
19258228 ATTATTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAAAAATTAAAATAAATTAT
Found at i:19261400 original size:37 final size:38
Alignment explanation
Indices: 19261305--19261402 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 38
19261295 ACACACCAGT
**
19261305 TTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGATAAACCAAAG--ATAAA
** * * * *
19261345 TTACCACCTAGTGTCTCATCGGCTAAACCGAAG-TAAA
1 TTGGCACCCAGTGCCTCATCGGATAAACCAAAGATAAA
19261382 TTGGCACCCAGTGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
19261403 AATTAATTTG
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
37 21 0.46
40 25 0.54
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGGATAAACCAAAGATAAA
Found at i:19262415 original size:21 final size:21
Alignment explanation
Indices: 19262378--19262417 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19262368 AAGAAAGAAA
*
19262378 GAAATCGGATTTAGATGAGGG
1 GAAATCGGAGTTAGATGAGGG
19262399 GAAATCGGAAGTT-GATGAG
1 GAAATCGG-AGTTAGATGAG
19262418 TAGTTGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.05, G:0.38, T:0.23
Consensus pattern (21 bp):
GAAATCGGAGTTAGATGAGGG
Found at i:19262600 original size:48 final size:48
Alignment explanation
Indices: 19262546--19262730 Score: 214
Period size: 48 Copynumber: 3.9 Consensus size: 48
19262536 TTGCCGAATT
* *
19262546 GATTTGAGATCCCGTATAAGACCATATCTGAGATATAACATCAGTC-TC
1 GATTTGAGATCCCGTATAAGACCATATCTGAGATATGACATC-GGCATC
*
19262594 GATTTGAGATCCCGTATAAGACCATATCT-AGGATATGGA-ATTGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGA-GATAT-GACATCGGCATC
* * * *
19262642 GGTTTGAGATCCCGTATAAGACCATATTTGAGATATGGCATCGGCATT
1 GATTTGAGATCCCGTATAAGACCATATCTGAGATATGACATCGGCATC
** * * *
19262690 GATTTGAGATTTCATATAAGATCATATCTGGGATATGACAT
1 GATTTGAGATCCCGTATAAGACCATATCTGAGATATGACAT
19262731 TGATATGAGA
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 4 0.03
48 110 0.95
49 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATATCTGAGATATGACATCGGCATC
Found at i:19262716 original size:96 final size:96
Alignment explanation
Indices: 19262548--19262726 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 96
19262538 GCCGAATTGA
* *
19262548 TTTGAGATCCCGTATAAGACCATATCTGAGATATAACATCAGTCTCGATTTGAGATCCCGTATAA
1 TTTGAGATCCCGTATAAGACCATATCTGAGATATAACATCAGGCTCGATTTGAGATCCCATATAA
19262613 GACCATATCTAGGATATGGAATTGGCATCGG
66 GACCATATCTAGGATATGGAATTGGCATCGG
* ** * **
19262644 TTTGAGATCCCGTATAAGACCATATTTGAGATATGGCATC-GGCATTGATTTGAGATTTCATATA
1 TTTGAGATCCCGTATAAGACCATATCTGAGATATAACATCAGGC-TCGATTTGAGATCCCATATA
* *
19262708 AGATCATATCTGGGATATG
65 AGACCATATCTAGGATATG
19262727 ACATTGATAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 2 0.03
96 70 0.97
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (96 bp):
TTTGAGATCCCGTATAAGACCATATCTGAGATATAACATCAGGCTCGATTTGAGATCCCATATAA
GACCATATCTAGGATATGGAATTGGCATCGG
Found at i:19262733 original size:42 final size:43
Alignment explanation
Indices: 19262686--19262808 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 43
19262676 ATGGCATCGG
* * *
19262686 CATTGATTTGAGATTTCATATAAGATCATATCTGGGATA-TGA
1 CATTGATATGAGATTTCATGTAAGACCATATCTGGGATATTGA
* * *
19262728 CATTGATATGAGACTTCGTGTAAGACCATAGCTGGGATATTGA
1 CATTGATATGAGATTTCATGTAAGACCATATCTGGGATATTGA
*
19262771 CATCGATATGAGATTTCCATGTAAGACCATATCTGGGA
1 CATTGATATGAGATTT-CATGTAAGACCATATCTGGGA
19262809 CATAGCATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 33 0.48
43 17 0.25
44 19 0.28
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (43 bp):
CATTGATATGAGATTTCATGTAAGACCATATCTGGGATATTGA
Found at i:19262782 original size:43 final size:43
Alignment explanation
Indices: 19262706--19262808 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 43
19262696 AGATTTCATA
* * *
19262706 TAAGATCATATCTGGGATATGACATTGATATGAGACTT-CGTG
1 TAAGACCATATCTGGGATATGACATCGATATGAGACTTCCATG
* *
19262748 TAAGACCATAGCTGGGATATTGACATCGATATGAGATTTCCATG
1 TAAGACCATATCTGGGATA-TGACATCGATATGAGACTTCCATG
19262792 TAAGACCATATCTGGGA
1 TAAGACCATATCTGGGA
19262809 CATAGCATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 17 0.32
43 17 0.32
44 19 0.36
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (43 bp):
TAAGACCATATCTGGGATATGACATCGATATGAGACTTCCATG
Found at i:19266555 original size:35 final size:35
Alignment explanation
Indices: 19266471--19266556 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 35
19266461 ATCGACTAGT
* * * *
19266471 CTTTCGAGGCTACACCGTGTAAATAGTATATGGGTC
1 CTTT-GAGGCGACACCGTGCAAACAGTATATAGGTC
* *
19266507 CTTT-AGGGTGACACCGTGCAAACGGTATATAGGTC
1 CTTTGA-GGCGACACCGTGCAAACAGTATATAGGTC
19266542 CTTTGAGGCGACACC
1 CTTTGAGGCGACACC
19266557 TCGAAAGAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
34 1 0.02
35 35 0.85
36 5 0.12
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (35 bp):
CTTTGAGGCGACACCGTGCAAACAGTATATAGGTC
Found at i:19267091 original size:17 final size:17
Alignment explanation
Indices: 19267069--19267102 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19267059 AGAAAATCGT
19267069 CGAGGATTTACTAAAGA
1 CGAGGATTTACTAAAGA
19267086 CGAGGATTTACTAAAGA
1 CGAGGATTTACTAAAGA
19267103 AGAGAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
CGAGGATTTACTAAAGA
Found at i:19268959 original size:22 final size:22
Alignment explanation
Indices: 19268934--19268975 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19268924 CATGATTATT
19268934 TTAAATAAAC-ATGTAATACTTC
1 TTAAATAAACAAT-TAATACTTC
*
19268956 TTAAATAGACAATTAATACT
1 TTAAATAAACAATTAATACT
19268976 CAAATTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (22 bp):
TTAAATAAACAATTAATACTTC
Found at i:19271140 original size:28 final size:29
Alignment explanation
Indices: 19271099--19271233 Score: 110
Period size: 30 Copynumber: 4.6 Consensus size: 29
19271089 TACCATCGGT
* * *
19271099 ACATAGTACCTGATAATTATAACA-CGAC
1 ACATAGTGCCTGATAAATATAACACCAAC
*
19271127 ACATAGTGCTTGATAAATATAACACCAAC
1 ACATAGTGCCTGATAAATATAACACCAAC
* * * *
19271156 ACATAGTGTCTGATACAACATGAACACCGAT
1 ACATAGTGCCTGATA-AATAT-AACACCAAC
* * ***
19271187 ACAAAGTACCTGATAAATATAATCACCGGT
1 ACATAGTGCCTGATAAATATAA-CACCAAC
*
19271217 ACATAATGCCTGATAAA
1 ACATAGTGCCTGATAAA
19271234 CCCTAATGAC
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
28 21 0.24
29 18 0.21
30 28 0.33
31 19 0.22
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (29 bp):
ACATAGTGCCTGATAAATATAACACCAAC
Found at i:19273471 original size:60 final size:60
Alignment explanation
Indices: 19273398--19273527 Score: 251
Period size: 60 Copynumber: 2.2 Consensus size: 60
19273388 AAAAAAAAAC
*
19273398 CAATTAAGCCTATGTATTAAATTCGCACCCAATTAAGTCTCTGCCCTTAACTAAAATAAT
1 CAATTAAGCCTATGTATTAAATTCGCACCCAATTAAGCCTCTGCCCTTAACTAAAATAAT
19273458 CAATTAAGCCTATGTATTAAATTCGCACCCAATTAAGCCTCTGCCCTTAACTAAAATAAT
1 CAATTAAGCCTATGTATTAAATTCGCACCCAATTAAGCCTCTGCCCTTAACTAAAATAAT
19273518 CAATTAAGCC
1 CAATTAAGCC
19273528 CCTCCTTTAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (60 bp):
CAATTAAGCCTATGTATTAAATTCGCACCCAATTAAGCCTCTGCCCTTAACTAAAATAAT
Found at i:19273494 original size:29 final size:29
Alignment explanation
Indices: 19273397--19273497 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
19273387 AAAAAAAAAA
19273397 CCAATTAAGCCTATGTATTAAATTCGCAC
1 CCAATTAAGCCTATGTATTAAATTCGCAC
* * ** * **** *
19273426 CCAATTAAGTCTCTGCCCTTAACTAAAATAA
1 CCAATTAAGCCTATG-TATTAAAT-TCGCAC
*
19273457 TCAATTAAGCCTATGTATTAAATTCGCAC
1 CCAATTAAGCCTATGTATTAAATTCGCAC
19273486 CCAATTAAGCCT
1 CCAATTAAGCCT
19273498 CTGCCCTTAA
Statistics
Matches: 48, Mismatches: 22, Indels: 4
0.65 0.30 0.05
Matches are distributed among these distances:
29 25 0.52
30 10 0.21
31 13 0.27
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.31
Consensus pattern (29 bp):
CCAATTAAGCCTATGTATTAAATTCGCAC
Found at i:19273525 original size:31 final size:31
Alignment explanation
Indices: 19273427--19273527 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
19273417 AATTCGCACC
*
19273427 CAATTAAGTCTCTGCCCTTAACTAAAATAAT
1 CAATTAAGCCTCTGCCCTTAACTAAAATAAT
* ** * **** **
19273458 CAATTAAGCCTATG-TATTAAAT-TCGCACC
1 CAATTAAGCCTCTGCCCTTAACTAAAATAAT
19273487 CAATTAAGCCTCTGCCCTTAACTAAAATAAT
1 CAATTAAGCCTCTGCCCTTAACTAAAATAAT
19273518 CAATTAAGCC
1 CAATTAAGCC
19273528 CCTCCTTTAT
Statistics
Matches: 47, Mismatches: 21, Indels: 4
0.65 0.29 0.06
Matches are distributed among these distances:
29 14 0.30
30 10 0.21
31 23 0.49
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.30
Consensus pattern (31 bp):
CAATTAAGCCTCTGCCCTTAACTAAAATAAT
Found at i:19274165 original size:18 final size:17
Alignment explanation
Indices: 19274144--19274186 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
19274134 CTAGTTAAAT
19274144 TAAATAAAAATTAAAAAA
1 TAAATAAAAATT-AAAAA
* *
19274162 TAAATATATATTAAAAA
1 TAAATAAAAATTAAAAA
19274179 TAAA-AAAA
1 TAAATAAAA
19274187 TTGGTTCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 10 0.48
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAAAAATTAAAAA
Found at i:19274379 original size:30 final size:32
Alignment explanation
Indices: 19274335--19274419 Score: 115
Period size: 28 Copynumber: 2.8 Consensus size: 32
19274325 TTTTTATAGA
* *
19274335 ATTTTAATAAATTTTTATAAAATTTTACACAT
1 ATTTTATTATATTTTTATAAAATTTTACACAT
19274367 ATTTTA-T-TATTTTTAT--AATTTTACACAT
1 ATTTTATTATATTTTTATAAAATTTTACACAT
*
19274395 ATTTTATTATATTTTTATAATATTT
1 ATTTTATTATATTTTTATAAAATTT
19274420 ATAATATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 18 0.38
29 1 0.02
30 17 0.36
31 1 0.02
32 10 0.21
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (32 bp):
ATTTTATTATATTTTTATAAAATTTTACACAT
Found at i:19274382 original size:9 final size:9
Alignment explanation
Indices: 19274312--19274522 Score: 86
Period size: 9 Copynumber: 22.0 Consensus size: 9
19274302 AATTTTTTAA
*
19274312 ATAAATTTT
1 ATAATTTTT
*
19274321 ATGATTTTT
1 ATAATTTTT
*
19274330 ATAGAATTTTA
1 AT--AATTTTT
19274341 ATAAATTTTT
1 AT-AATTTTT
*
19274351 ATAAAATTTT
1 AT-AATTTTT
*
19274361 ACACATATTTT
1 ATA-AT-TTTT
*
19274372 ATTATTTTT
1 ATAATTTTT
19274381 ATAA-TTTT
1 ATAATTTTT
*
19274389 ACACATATTTT
1 ATA-AT-TTTT
19274400 ATTATATTTTT
1 A-TA-ATTTTT
*
19274411 ATAATATTT
1 ATAATTTTT
*
19274420 ATAATATTT
1 ATAATTTTT
* *
19274429 ATAAGGTTAT
1 ATAA-TTTTT
* *
19274439 ATCAATGTTC
1 AT-AATTTTT
19274449 ATATATATTTT
1 ATA-AT-TTTT
*
19274460 -TAATATTTA
1 ATAAT-TTTT
*
19274469 ATGATTTTT
1 ATAATTTTT
*
19274478 ATATTTTTT
1 ATAATTTTT
*
19274487 GATAAATTTT
1 -ATAATTTTT
*
19274497 ATATTTTTT
1 ATAATTTTT
19274506 AT-ATTTTT
1 ATAATTTTT
*
19274514 ATGATTTTT
1 ATAATTTTT
19274523 TATGATTTTA
Statistics
Matches: 152, Mismatches: 35, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
8 13 0.09
9 68 0.45
10 42 0.28
11 26 0.17
12 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (9 bp):
ATAATTTTT
Found at i:19274427 original size:30 final size:30
Alignment explanation
Indices: 19274335--19274428 Score: 113
Period size: 30 Copynumber: 3.1 Consensus size: 30
19274325 TTTTTATAGA
* *
19274335 ATTTTAATAAATTTTTATAAAATTTTACACAT
1 ATTTT-ATATATTTTTATAATA-TTTACACAT
19274367 ATTTTAT-TATTTTTATAAT-TTTACACAT
1 ATTTTATATATTTTTATAATATTTACACAT
*
19274395 ATTTTATTATATTTTTATAATATTTATA-AT
1 ATTTTA-TATATTTTTATAATATTTACACAT
19274425 ATTT
1 ATTT
19274429 ATAAGGTTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
28 15 0.27
29 1 0.02
30 28 0.50
31 7 0.12
32 5 0.09
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (30 bp):
ATTTTATATATTTTTATAATATTTACACAT
Found at i:19274498 original size:19 final size:17
Alignment explanation
Indices: 19274474--19274532 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 17
19274464 ATTTAATGAT
19274474 TTTTATATTTTTTGATAAA
1 TTTTATATTTTTT-AT-AA
*
19274493 TTTTATATTTTTTATAT
1 TTTTATATTTTTTATAA
*
19274510 TTTTATGATTTTTTATGA
1 TTTTAT-ATTTTTTATAA
19274528 TTTTA
1 TTTTA
19274533 ATCGTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.19
18 16 0.44
19 13 0.36
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTTTATAA
Found at i:19274522 original size:10 final size:9
Alignment explanation
Indices: 19274473--19274531 Score: 66
Period size: 10 Copynumber: 6.3 Consensus size: 9
19274463 TATTTAATGA
19274473 TTTTTATAT
1 TTTTTATAT
*
19274482 TTTTTGATAA
1 TTTTT-ATAT
*
19274492 ATTTTATAT
1 TTTTTATAT
19274501 TTTTTATA-
1 TTTTTATAT
19274509 TTTTTATGAT
1 TTTTTAT-AT
19274519 TTTTTATGAT
1 TTTTTAT-AT
19274529 TTT
1 TTT
19274532 AATCGTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
8 7 0.16
9 16 0.37
10 20 0.47
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (9 bp):
TTTTTATAT
Found at i:19274531 original size:9 final size:9
Alignment explanation
Indices: 19274469--19274544 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
19274459 TTAATATTTA
19274469 ATGATTTTT
1 ATGATTTTT
19274478 AT-ATTTTT
1 ATGATTTTT
19274486 -TGATAAATTTT
1 ATGAT---TTTT
19274497 AT-ATTTTTT
1 ATGA-TTTTT
19274506 AT-ATTTTT
1 ATGATTTTT
19274514 ATGATTTTTT
1 ATGA-TTTTT
*
19274524 ATGATTTTA
1 ATGATTTTT
19274533 ATCG-TTTTT
1 AT-GATTTTT
19274542 ATG
1 ATG
19274545 GGAAAAAGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 19
0.73 0.03 0.25
Matches are distributed among these distances:
7 1 0.02
8 16 0.29
9 22 0.39
10 10 0.18
11 5 0.09
12 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.66
Consensus pattern (9 bp):
ATGATTTTT
Found at i:19282425 original size:20 final size:20
Alignment explanation
Indices: 19282374--19282436 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
19282364 GCATCGTAGA
19282374 TGCATAATAGAGGCACTGAAG
1 TGCA-AATAGAGGCACTGAAG
* * *
19282395 TGCAGACAGAGGCAC-GATTG
1 TGCAAATAGAGGCACTGA-AG
* *
19282415 TGCAAATAGAGACATTGAAG
1 TGCAAATAGAGGCACTGAAG
19282435 TG
1 TG
19282437 TAACATAGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.06
20 24 0.75
21 6 0.19
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (20 bp):
TGCAAATAGAGGCACTGAAG
Found at i:19302125 original size:50 final size:50
Alignment explanation
Indices: 19302022--19302214 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
19302012 GGGAATGAGA
*
19302022 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
19302078 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * **
19302128 TCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
19302178 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19302215 GTACAGAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
49 1 0.01
50 79 0.65
51 2 0.02
53 3 0.02
55 1 0.01
56 36 0.30
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:19302207 original size:100 final size:103
Alignment explanation
Indices: 19302028--19302214 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 103
19302018 GAGATCCCAT
* **
19302028 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCA
* *
19302093 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCCC
63 TATCTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCCC
* *
19302134 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCTCATGTAAGACCATAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
*
19302196 CTGGGATATGGCATTGGCA
66 CTGGGACATGGCATTGGCA
19302215 GTACAGAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 40 0.55
101 2 0.03
105 1 0.01
106 30 0.41
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (103 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
CTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCCC
Found at i:19302479 original size:4 final size:4
Alignment explanation
Indices: 19302463--19302506 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
19302453 ATGAGTTATT
* * * *
19302463 TAAG TAAG CAAG TAAG TAAA CAAG TAAG TGAG TAAG TAAG TAAG
1 TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG
19302507 CGAGTAAAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.25, T:0.20
Consensus pattern (4 bp):
TAAG
Found at i:19302480 original size:12 final size:12
Alignment explanation
Indices: 19302463--19302513 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
19302453 ATGAGTTATT
19302463 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
19302475 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
19302487 TAAGTGAGTAAG
1 TAAGTAAGCAAG
*
19302499 TAAGTAAGCGAG
1 TAAGTAAGCAAG
19302511 TAA
1 TAA
19302514 AGATTCTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.49, C:0.06, G:0.25, T:0.20
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:19308560 original size:19 final size:19
Alignment explanation
Indices: 19308538--19308578 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
19308528 TCAATCCACA
*
19308538 ATTTCACATTTCATTTCCC
1 ATTTCAAATTTCATTTCCC
*
19308557 ATTTCAAATTTCATTTCTC
1 ATTTCAAATTTCATTTCCC
19308576 ATT
1 ATT
19308579 CTTTTTGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCAAATTTCATTTCCC
Found at i:19309684 original size:31 final size:31
Alignment explanation
Indices: 19309649--19309710 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
19309639 GATAAATATG
*
19309649 GGCTGTTATGCGACTTGGTACAAATCGACTA
1 GGCTGTTATGCGACTTGGTAAAAATCGACTA
*
19309680 GGCTGTTATGCGACTTGGTAAAAATTGACTA
1 GGCTGTTATGCGACTTGGTAAAAATCGACTA
19309711 ACATAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (31 bp):
GGCTGTTATGCGACTTGGTAAAAATCGACTA
Found at i:19314653 original size:18 final size:18
Alignment explanation
Indices: 19314627--19314662 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19314617 AATAAAGCCG
19314627 AAGCCGAAACAAGAATCA
1 AAGCCGAAACAAGAATCA
*
19314645 AAGCTGAAACAAGAATCA
1 AAGCCGAAACAAGAATCA
19314663 CTTATCTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.17, T:0.08
Consensus pattern (18 bp):
AAGCCGAAACAAGAATCA
Found at i:19318904 original size:3 final size:3
Alignment explanation
Indices: 19318896--19318923 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19318886 TGATTTTACC
19318896 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
19318924 CTAAAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:19321341 original size:446 final size:443
Alignment explanation
Indices: 19320517--19321404 Score: 1713
Period size: 443 Copynumber: 2.0 Consensus size: 443
19320507 TCATATCCAA
19320517 TACGTTAGGACACAACATATTGAATTCCCGAGAATGAGCTTTTTATTTGTGTTTTAATTAAAAAG
1 TACGTTAGGACACAACATATTGAATTCCCGAGAATGAGCTTTTTATTTGTGTTTTAATTAAAAAG
19320582 GATGCTTGGTTTCTTAGATCTCGAGGAAGATTGGAATCCAGTAAGTTAGGACACAATCTTTGCGA
66 GATGCTTGGTTTCTTAGATCTCGAGGAAGATTGGAATCCAGTAAGTTAGGACACAATCTTTGCGA
*
19320647 ATTTCAAAATATGAAATTTTGTTTATTTTAAAACCATATTAAATAAAATTAACTTAACATAAAAT
131 ATTTCAAAATATGAAATTTTGTTTATTTTAAAACCATATTAAATAAAACTAACTTAACATAAAAT
19320712 GGTAGGAATAAACACAATATTAACTTGTATAACAAAATGATGATGATAATACAAGCACAAATAAT
196 GGTAGGAATAAACACAATATTAACTTGTATAACAAAATGATGATGATAATACAAGCACAAATAAT
19320777 ATACGCAATGATCACAAGAAATAAAATACATAAAATAAAAGAGTCAAGTATATGAGATAATAAGT
261 ATACGCAATGATCACAAGAAATAAAATACATAAAATAAAAGAGTCAAGTATATGAGATAATAAGT
19320842 AAAAAAAACTAAAGCATTTCCTACAAATAATAACGAACATATGAATAAATAAATGAATAAATATT
326 AAAAAAAACTAAAGCATTTCCTACAAATAATAACGAACATATGAATAAATAAATGAATAAATATT
19320907 GAATAGAACGACAATAGCAATACAAATAATAAAAGATAAAATATCTACGTATT
391 GAATAGAACGACAATAGCAATACAAATAATAAAAGATAAAATATCTACGTATT
19320960 TACGTTAGGACACAACATATTGAATTCCCGAGAATGAGCTTTTTATTTGTGTTTTAATTAAAAAG
1 TACGTTAGGACACAACATATTGAATTCCCGAGAATGAGCTTTTTATTTGTGTTTTAATTAAAAAG
*
19321025 GATGCTTGGTTTCTTAGATCTCGAGGAAGATTGGAATCCAGTAAGTTAGGACACAATCTTTTCGA
66 GATGCTTGGTTTCTTAGATCTCGAGGAAGATTGGAATCCAGTAAGTTAGGACACAATCTTTGCGA
* *
19321090 GTTTCAAAATATGAAATTTTGTTTATTTTAAAATCATATTAAATAAAACTAACTTAACATAAAAT
131 ATTTCAAAATATGAAATTTTGTTTATTTTAAAACCATATTAAATAAAACTAACTTAACATAAAAT
19321155 GGTAGGAATAAACACAATATTAACTTGTATAACAAAATGATGATGATGATAATACAAGCACAAAT
196 GGTAGGAATAAACACAATATTAACTTGTATAAC-AAA--ATGATGATGATAATACAAGCACAAAT
19321220 AATATACGCAATGATCACAAGAAATAAAATACATAAAATAAAAGAGTCAAGTATATGAGATAATA
258 AATATACGCAATGATCACAAGAAATAAAATACATAAAATAAAAGAGTCAAGTATATGAGATAATA
19321285 AGTAAAAAAAACTAAAGCATTTCCTACAAATAATAACGAACATATGAATAAATAAATGAATAAAT
323 AGTAAAAAAAACTAAAGCATTTCCTACAAATAATAACGAACATATGAATAAATAAATGAATAAAT
19321350 ATTGAATAGAACGACAATAGCAATACAAATAATAAAAGATAAAATATCTACGTAT
388 ATTGAATAGAACGACAATAGCAATACAAATAATAAAAGATAAAATATCTACGTAT
19321405 GTATATTAGT
Statistics
Matches: 438, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
443 224 0.51
444 3 0.01
446 211 0.48
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (443 bp):
TACGTTAGGACACAACATATTGAATTCCCGAGAATGAGCTTTTTATTTGTGTTTTAATTAAAAAG
GATGCTTGGTTTCTTAGATCTCGAGGAAGATTGGAATCCAGTAAGTTAGGACACAATCTTTGCGA
ATTTCAAAATATGAAATTTTGTTTATTTTAAAACCATATTAAATAAAACTAACTTAACATAAAAT
GGTAGGAATAAACACAATATTAACTTGTATAACAAAATGATGATGATAATACAAGCACAAATAAT
ATACGCAATGATCACAAGAAATAAAATACATAAAATAAAAGAGTCAAGTATATGAGATAATAAGT
AAAAAAAACTAAAGCATTTCCTACAAATAATAACGAACATATGAATAAATAAATGAATAAATATT
GAATAGAACGACAATAGCAATACAAATAATAAAAGATAAAATATCTACGTATT
Found at i:19322906 original size:15 final size:15
Alignment explanation
Indices: 19322870--19322908 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
19322860 GGGCCAGGGT
*
19322870 ATTGGGCTTAGGCTA
1 ATTGGGTTTAGGCTA
19322885 ATTGGGTTTAGGCTA
1 ATTGGGTTTAGGCTA
*
19322900 GTTGGGTTT
1 ATTGGGTTT
19322909 CTGTAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.08, G:0.36, T:0.41
Consensus pattern (15 bp):
ATTGGGTTTAGGCTA
Found at i:19325875 original size:19 final size:20
Alignment explanation
Indices: 19325829--19325876 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
19325819 CTCGTAATAG
* **
19325829 TAAATCTTTGTTCAATGACG
1 TAAATCTTTGTTCAATCAAA
19325849 TAAATCTTTGTTCAATCAAA
1 TAAATCTTTGTTCAATCAAA
19325869 T-AATCTTT
1 TAAATCTTT
19325877 TGTGATTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
TAAATCTTTGTTCAATCAAA
Found at i:19326863 original size:91 final size:91
Alignment explanation
Indices: 19326708--19326915 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
19326698 AGTTTATCTA
* * * *
19326708 CAAACACTGGTGGTTTACCCACAAATTTATTGGCAGCTTTTATCTACAAACACTTTGTGTATTCA
1 CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATCTACAAACACATTGTGCATTCA
* *
19326773 CAACCTACTGGCAGCGTATTAACCTG
66 CAACCTACTGGCAACATATTAACCTG
* ** *
19326799 CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATTTGTAAACCCATTGTGCATTCA
1 CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATCTACAAACACATTGTGCATTCA
* *
19326864 CAACTTACTGGCAACATATTAACTTG
66 CAACCTACTGGCAACATATTAACCTG
*
19326890 C-AACACTGGTGGTTCATCCACAAATT
1 CAAACACTGGTGGTTTATCCACAAATT
19326916 GGAGTGTCCG
Statistics
Matches: 104, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 24 0.23
91 80 0.77
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (91 bp):
CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATCTACAAACACATTGTGCATTCA
CAACCTACTGGCAACATATTAACCTG
Found at i:19331170 original size:7 final size:7
Alignment explanation
Indices: 19331158--19331191 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
19331148 TACATATACA
19331158 TCTTTTT
1 TCTTTTT
19331165 TCTTTTT
1 TCTTTTT
19331172 TCTTTTT
1 TCTTTTT
*
19331179 TTTTTTT
1 TCTTTTT
19331186 TACTTT
1 T-CTTT
19331192 ATAAGAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.88
8 3 0.12
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (7 bp):
TCTTTTT
Found at i:19333618 original size:24 final size:24
Alignment explanation
Indices: 19333591--19333637 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19333581 AATAAAGCGA
*
19333591 TAAATTT-ATTTAAATGAATTAAAC
1 TAAATTTGATGTAAA-GAATTAAAC
19333615 TAAATTTGATGTAAAGAATTAAA
1 TAAATTTGATGTAAAGAATTAAA
19333638 GATGTGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (24 bp):
TAAATTTGATGTAAAGAATTAAAC
Found at i:19336704 original size:2 final size:2
Alignment explanation
Indices: 19336697--19336721 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19336687 GGCCAGGCTA
19336697 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
19336722 TCGAAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19340595 original size:28 final size:27
Alignment explanation
Indices: 19340543--19340598 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
19340533 AACTAGGGAT
19340543 TAAATTGTGAAATATGAAATTTGTATGG
1 TAAATTGTGAAATATGAAA-TTGTATGG
19340571 TAAATGTGTGAAATTATGAAA-TGTATGG
1 TAAAT-TGTGAAA-TATGAAATTGTATGG
19340599 ACTGCCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 12 0.46
29 7 0.27
30 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.38
Consensus pattern (27 bp):
TAAATTGTGAAATATGAAATTGTATGG
Done.