Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 156 of 161
Found at i:48633426 original size:46 final size:45
Alignment explanation
Indices: 48633376--48633551 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
48633366 TGGTTGAGCA
*
48633376 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
48633422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
48633469 TCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
48633515 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48633552 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48633532 original size:93 final size:93
Alignment explanation
Indices: 48633373--48633543 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
48633363 GGATGGTTGA
* * *
48633373 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48633438 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
48633466 GCATCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48633531 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48633544 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:48637425 original size:40 final size:39
Alignment explanation
Indices: 48637351--48637560 Score: 253
Period size: 40 Copynumber: 5.3 Consensus size: 39
48637341 CCTTCGAAAT
* * *
48637351 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATAT-AGCACTAGCACAAATGCCTTCGGGTC
* * *
48637389 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-CACTAGCACAAATGCCTTCGGGTC
*
48637429 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAG-CACTAGCACAAATGCCTTCGGGTC
* *
48637469 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGC-ACTAGCACAAATGCCTTCGGGTC
* * * *
48637509 TTAGTCCGGATATAGCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGCACTAGCACAAATGCCTTCGGGTC
48637548 TTAGCCCGGATAT
1 TTAGCCCGGATAT
48637561 CATTCGAATA
Statistics
Matches: 148, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
38 4 0.03
39 46 0.31
40 98 0.66
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATAGCACTAGCACAAATGCCTTCGGGTC
Found at i:48640495 original size:46 final size:46
Alignment explanation
Indices: 48640445--48640566 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
48640435 CTCGTAGCTG
* *
48640445 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATGTGGCTA
1 ATGCATGTCCCAGACACGTCTTACACTAGCTCTCATAATGTGGCTA
48640491 ATGCATGTCCCAGACACGTCTTACACTAGCTCTCATAATGTGGCTA
1 ATGCATGTCCCAGACACGTCTTACACTAGCTCTCATAATGTGGCTA
*
48640537 ATGCATGTCCTAGACACGTCTTACACTAGC
1 ATGCATGTCCCAGACACGTCTTACACTAGC
48640567 CCACAATGAC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACACGTCTTACACTAGCTCTCATAATGTGGCTA
Found at i:48642263 original size:6 final size:6
Alignment explanation
Indices: 48642248--48642307 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
48642238 AAATAGACAT
* * *
48642248 AAAATGA AAAATA AAAAT- AAAA-G AAGATA AAAATA AAAATA AACATA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
48642295 AACATA AAAATA A
1 AAAATA AAAATA A
48642308 TCGGACTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
5 7 0.15
6 34 0.74
7 5 0.11
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:48642267 original size:18 final size:18
Alignment explanation
Indices: 48642236--48642303 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
48642226 AAATAGGAAA
* *
48642236 AAAAATAGACATAAAATG
1 AAAAATAAAAATAAAATG
48642254 AAAAATAAAAATAAAA-G
1 AAAAATAAAAATAAAATG
*
48642271 -AAGATAAAAATAAAAAT-
1 AAAAATAAAAAT-AAAATG
* *
48642288 AAACATAAACATAAAA
1 AAAAATAAAAATAAAA
48642304 ATAATCGGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 10 0.24
17 9 0.21
18 23 0.55
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAATAAAATG
Found at i:48648902 original size:52 final size:50
Alignment explanation
Indices: 48648806--48648937 Score: 156
Period size: 52 Copynumber: 2.6 Consensus size: 50
48648796 GTTGTGAGAA
* * **
48648806 CACATGTGTAGTACTATGTGCAGGCTACTATGTATTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACAAAATGG--TTAGGT
* * * *
48648858 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACAAAATGGTTAGGT
* *
48648908 CGCATGTGTAGTACTAAGTACAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
48648938 TGCTTACCCA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
50 33 0.48
52 36 0.52
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACAAAATGGTTAGGT
Found at i:48649013 original size:51 final size:50
Alignment explanation
Indices: 48648806--48649025 Score: 174
Period size: 51 Copynumber: 4.3 Consensus size: 50
48648796 GTTGTGAGAA
* * * *
48648806 CACATGTGTAGTACTATGTGCAGGCTACTATGTATTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGT-GTAAAAATAGTTTT-GGT
* * * * * *
48648858 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-AAAATAGTTTTGGT
* * ** * * *
48648908 CGCATGTGTAGTACTAAGTACAGGCTACTATGCT-TACCCAATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG-TGTA-AAAATAGTTTTGGT
* * *
48648959 CACATGTATGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGTTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAA-ATAGTTTTGGT
* *
48649010 CACAAGTGTGGTACTA
1 CACATGTGTAGTACTA
48649026 TGTGAAAGCC
Statistics
Matches: 133, Mismatches: 30, Indels: 11
0.76 0.17 0.06
Matches are distributed among these distances:
50 39 0.29
51 61 0.46
52 33 0.25
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAATAGTTTTGGT
Found at i:48649088 original size:51 final size:51
Alignment explanation
Indices: 48648970--48649088 Score: 125
Period size: 51 Copynumber: 2.3 Consensus size: 51
48648960 ACATGTATGG
* * * * *
48648970 TACTAAGTGCAGGCCACTATGTGTAAAAGATAGTTTTGGTCACAAGTGTGG
1 TACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGCTCACAAGGGTGA
* * * *
48649021 TACTATGTGAAAGCCACTTTGTG-AAGAAGGTAGCTTTGACT-ACAAGGGTGA
1 TACTATGTGCAGGCCACTATGTGTAA-AAGATAGCTTTG-CTCACAAGGGTGA
48649072 TACTATGTGCAGGCCAC
1 TACTATGTGCAGGCCAC
48649089 CGGGCATCCG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
50 2 0.04
51 52 0.95
52 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
TACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGCTCACAAGGGTGA
Found at i:48653853 original size:22 final size:22
Alignment explanation
Indices: 48653825--48653867 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
48653815 GACTACGCGA
48653825 TCTGAGCTCATGAGT-TATGTGG
1 TCTGAGCTCATGA-TATATGTGG
48653847 TCTGAGCTCATGATATATGTG
1 TCTGAGCTCATGATATATGTG
48653868 ATACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGATATATGTGG
Found at i:48658128 original size:46 final size:46
Alignment explanation
Indices: 48657973--48658156 Score: 151
Period size: 46 Copynumber: 4.0 Consensus size: 46
48657963 AGATATGTGC
* * * * **
48657973 GCCAGTGTTAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGA
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTTA
*** * *
48658019 GCCAATGTAAGACCATGTCTGGGACATGGCATCGATATTGAGACAAG-T-
1 GCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG--ATGTTA
* *
48658067 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
* *
48658113 GCCAATGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATGT
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGT
48658157 GCTAGTGTGA
Statistics
Matches: 109, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 57 0.52
47 28 0.26
48 16 0.15
49 1 0.01
50 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
Found at i:48665690 original size:11 final size:10
Alignment explanation
Indices: 48665649--48665693 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
48665639 TTATTCTAGA
48665649 AAATTTTTTT
1 AAATTTTTTT
*
48665659 AACTTTTTTT
1 AAATTTTTTT
*
48665669 ATATATTTTTT
1 AAAT-TTTTTT
48665680 AGAATTTTTTT
1 A-AATTTTTTT
48665691 AAA
1 AAA
48665694 AAAATTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 13 0.45
11 14 0.48
12 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
AAATTTTTTT
Found at i:48665722 original size:19 final size:18
Alignment explanation
Indices: 48665682--48665724 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
48665672 TATTTTTTAG
*
48665682 AATTTTTTTAAAAAAATT
1 AATTTTTTTAAAAAAATA
*
48665700 AATTTTTTTAAAAGATATA
1 AATTTTTTTAAAA-AAATA
48665719 AATTTT
1 AATTTT
48665725 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTTTTTTAAAAAAATA
Found at i:48665750 original size:19 final size:19
Alignment explanation
Indices: 48665715--48665771 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
48665705 TTTTAAAAGA
*
48665715 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
48665733 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
48665751 TAGAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
48665771 T
1 T
48665772 GTAATTTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 15 0.44
19 15 0.44
20 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:48665777 original size:19 final size:19
Alignment explanation
Indices: 48665720--48665777 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
48665710 AAAGATATAA
* *
48665720 ATTTTGGAATTTTTATAAAT
1 ATTTT-GAATTTTTGTAATT
* *
48665740 ATTTTGAATTTTAGAAATT
1 ATTTTGAATTTTTGTAATT
48665759 ATTTTGAATTTTTGTAATT
1 ATTTTGAATTTTTGTAATT
48665778 TTTGTTGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 27 0.84
20 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTTGTAATT
Found at i:48666988 original size:7 final size:6
Alignment explanation
Indices: 48666973--48667008 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
48666963 AAGTAAAATA
48666973 TTATTT TTATTTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTA-TTT TTATTT TTATTT TTATTT TTATT
48667009 GTTAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:48669593 original size:20 final size:19
Alignment explanation
Indices: 48669543--48669598 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
48669533 TGGGTATCAA
48669543 AATATTTATCAATATTTTT
1 AATATTTATCAATATTTTT
* *
48669562 AACACTTAATCAATATTTTT
1 AATA-TTTATCAATATTTTT
48669582 AAGTATTTATCAATATT
1 AA-TATTTATCAATATT
48669599 GATAATGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 27 0.87
21 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (19 bp):
AATATTTATCAATATTTTT
Found at i:48670176 original size:17 final size:16
Alignment explanation
Indices: 48670154--48670185 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
48670144 ATCATATGTA
48670154 TAATAATTATATAAATT
1 TAATAATTATA-AAATT
48670171 TAATAATTATAAAAT
1 TAATAATTATAAAAT
48670186 CTAGAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAATTATAAAATT
Found at i:48671514 original size:18 final size:18
Alignment explanation
Indices: 48671491--48671539 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
48671481 ATTTTATATT
48671491 TTTAAAATTAATTTTTAA
1 TTTAAAATTAATTTTTAA
* *
48671509 TTTAAAA-AATATTTTTTA
1 TTTAAAATTA-ATTTTTAA
*
48671527 TTTAAATTTAATT
1 TTTAAAATTAATT
48671540 ACAAAAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAAAATTAATTTTTAA
Found at i:48671524 original size:19 final size:19
Alignment explanation
Indices: 48671479--48671532 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
48671469 TTTTTAATTG
* * *
48671479 ATATTTTATATTTTTAAAA
1 ATATTTTTTAATTTAAAAA
* *
48671498 TTAATTTTTAATTTAAAAA
1 ATATTTTTTAATTTAAAAA
48671517 ATATTTTTT-ATTTAAA
1 ATATTTTTTAATTTAAA
48671533 TTTAATTACA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTTTAATTTAAAAA
Found at i:48672349 original size:28 final size:28
Alignment explanation
Indices: 48672308--48672374 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
48672298 ATCTCTACAG
*
48672308 AAAATAAAAGAGGATTTAAATTCAATTA
1 AAAATAAAATAGGATTTAAATTCAATTA
* **
48672336 AAAATAAAATAGGATTTTAATTTGATTA
1 AAAATAAAATAGGATTTAAATTCAATTA
48672364 AAAATAAAATA
1 AAAATAAAATA
48672375 AAATCAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.31
Consensus pattern (28 bp):
AAAATAAAATAGGATTTAAATTCAATTA
Found at i:48672394 original size:15 final size:16
Alignment explanation
Indices: 48672364--48672398 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
48672354 AATTTGATTA
48672364 AAAATAAAATAAAATC
1 AAAATAAAATAAAATC
*
48672380 AAAATAACA-AAAATC
1 AAAATAAAATAAAATC
48672395 AAAA
1 AAAA
48672399 AAATCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAATAAAATAAAATC
Found at i:48672399 original size:16 final size:17
Alignment explanation
Indices: 48672363--48672399 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
48672353 TAATTTGATT
48672363 AAAAATAAAATAAAATC
1 AAAAATAAAATAAAATC
*
48672380 -AAAATAACA-AAAATC
1 AAAAATAAAATAAAATC
48672395 AAAAA
1 AAAAA
48672400 AATCAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAATAAAATAAAATC
Found at i:48673459 original size:45 final size:44
Alignment explanation
Indices: 48673394--48673480 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
48673384 ATTAGTAGCA
*
48673394 TACATATCCAAACTAACTAGAATAAATCACTAAAAACATGTTCT
1 TACATATCAAAACTAACTAGAATAAATCACTAAAAACATGTTCT
* *
48673438 TACATATCAAAAATTAACTAGAATAAATCACTAAAAATATGTT
1 TACATATC-AAAACTAACTAGAATAAATCACTAAAAACATGTT
48673481 GATTAAGCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 8 0.21
45 31 0.79
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.29
Consensus pattern (44 bp):
TACATATCAAAACTAACTAGAATAAATCACTAAAAACATGTTCT
Found at i:48676459 original size:23 final size:22
Alignment explanation
Indices: 48676423--48676468 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
48676413 AATAAAATAA
* *
48676423 TAAAATAATCATAAATATCTTAT
1 TAAAATAATAATAAA-ATATTAT
*
48676446 TAAAATATTAATAAAATATTAT
1 TAAAATAATAATAAAATATTAT
48676468 T
1 T
48676469 TATCTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATAATAATAAAATATTAT
Found at i:48679378 original size:26 final size:26
Alignment explanation
Indices: 48679349--48679406 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
48679339 TGATACAAAT
48679349 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
48679375 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
48679401 TGATAA
1 TGATAA
48679407 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:48684517 original size:131 final size:131
Alignment explanation
Indices: 48684255--48684514 Score: 382
Period size: 131 Copynumber: 2.0 Consensus size: 131
48684245 AATTTAGAGA
* * * * *
48684255 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCTAGCAC
1 ACATGAGTCAAATTCCAAAGGAATATTCAATTATTTTGAACAAACAGGAAATCACAACCCAGCAC
* * *
48684320 GATAGGGCACAGTTCCTCGAATTGCCAAACATCGAGTATTACCTTTGTTTTGAAGAGTTTTTAAA
66 GATAGAGCACAGTTCCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAATTTTTAAA
48684385 G
131 G
* *
48684386 ACATGAGTCAAATTCCAAAGGAATATTCAATTGTTTTGAACAAACGGGAAATCACAACCCAGCAC
1 ACATGAGTCAAATTCCAAAGGAATATTCAATTATTTTGAACAAACAGGAAATCACAACCCAGCAC
*
48684451 GATAGAGCAC-GATT-CTCGAATTGCCAAACATCGAGTATTGCCTTCGTTTT-AGAGAATTTTTA
66 GATAGAGCACAG-TTCCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGA-AGAATTTTTA
48684513 AA
129 AA
48684515 AGAATACTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
129 1 0.01
130 46 0.40
131 69 0.59
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (131 bp):
ACATGAGTCAAATTCCAAAGGAATATTCAATTATTTTGAACAAACAGGAAATCACAACCCAGCAC
GATAGAGCACAGTTCCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAATTTTTAAA
G
Found at i:48687009 original size:18 final size:18
Alignment explanation
Indices: 48686988--48687083 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 18
48686978 AAAAACTATT
48686988 TAAAATTTCAAAATATAA
1 TAAAATTTCAAAATATAA
* * *
48687006 T-AAACTT-AAAAAATAT
1 TAAAATTTCAAAATATAA
* *
48687022 TAAAAATTCAAAAAAT-A
1 TAAAATTTCAAAATATAA
* *
48687039 TAAAAGTTTCCAGATATATA
1 TAAAA-TTTCAAAATATA-A
* * *
48687059 TAAAAATTCAAGATATTA
1 TAAAATTTCAAAATATAA
48687077 -AAAATTT
1 TAAAATTT
48687084 AATACACATT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
16 8 0.13
17 21 0.35
18 16 0.27
19 9 0.15
20 6 0.10
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (18 bp):
TAAAATTTCAAAATATAA
Found at i:48687015 original size:35 final size:33
Alignment explanation
Indices: 48686976--48687042 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
48686966 TTCTAAAATT
* * *
48686976 TTAAAAACTATTTAAAATTTCAAAATATAATAAAC
1 TTAAAAAATA-TTAAAAATTCAAAAAAT-ATAAAC
48687011 TTAAAAAATATTAAAAATTCAAAAAATATAAA
1 TTAAAAAATATTAAAAATTCAAAAAATATAAA
48687043 AGTTTCCAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 15 0.52
35 9 0.31
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (33 bp):
TTAAAAAATATTAAAAATTCAAAAAATATAAAC
Found at i:48688143 original size:28 final size:28
Alignment explanation
Indices: 48688103--48688159 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
48688093 TTCAGAACAA
48688103 ATTTAATATTCCAACATCAATTCCACAT
1 ATTTAATATTCCAACATCAATTCCACAT
48688131 ATTTAATATTCCAACATCAATTCCACAT
1 ATTTAATATTCCAACATCAATTCCACAT
48688159 A
1 A
48688160 CTCATGGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (28 bp):
ATTTAATATTCCAACATCAATTCCACAT
Found at i:48692736 original size:33 final size:33
Alignment explanation
Indices: 48692693--48692767 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
48692683 TAATACGCTT
* * *
48692693 GATTTGCAATAGCAGATACAACAGCAAACTGTA
1 GATTTCCAATAGCAAATACAACAGCAAACTCTA
* * *
48692726 GATTTCCAATAGCAAATATAACGGCAAACTCTT
1 GATTTCCAATAGCAAATACAACAGCAAACTCTA
48692759 GATTTCCAA
1 GATTTCCAA
48692768 AATGAAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (33 bp):
GATTTCCAATAGCAAATACAACAGCAAACTCTA
Found at i:48693801 original size:21 final size:21
Alignment explanation
Indices: 48693777--48693817 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
48693767 TGACAACATA
48693777 AGTGAAATCTTGAGCGTAAAT
1 AGTGAAATCTTGAGCGTAAAT
48693798 AGTGAAATCTTGAGCGTAAA
1 AGTGAAATCTTGAGCGTAAA
48693818 CAGTCTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (21 bp):
AGTGAAATCTTGAGCGTAAAT
Found at i:48694297 original size:17 final size:16
Alignment explanation
Indices: 48694257--48694298 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
48694247 GCAACCTAAT
48694257 TTTTTATTTTTCTTTA
1 TTTTTATTTTTCTTTA
48694273 TTTATTATTTTAT-TTTA
1 TTT-TTATTTT-TCTTTA
48694290 TTATTTATT
1 TT-TTTATT
48694299 ACTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTTCTTTA
Found at i:48694308 original size:20 final size:20
Alignment explanation
Indices: 48694270--48694308 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48694260 TTATTTTTCT
*
48694270 TTATTTATTATTTTATTTTA
1 TTATTTATTACTTTATTTTA
*
48694290 TTATTTATTACTTTCTTTT
1 TTATTTATTACTTTATTTT
48694309 GTTTGGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTATTACTTTATTTTA
Found at i:48694530 original size:31 final size:30
Alignment explanation
Indices: 48694484--48694546 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
48694474 CCTACAGCCA
*
48694484 AACACTCTTCATTCTACGCCTTCAAACCCT
1 AACACTCTTCATTCTACACCTTCAAACCCT
48694514 AANCACTCTTTC-TTCTACACCTTCAAACCCT
1 AA-CACTC-TTCATTCTACACCTTCAAACCCT
48694545 AA
1 AA
48694547 ACTTTTCCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 2 0.07
31 25 0.83
32 3 0.10
ACGTcount: A:0.29, C:0.38, G:0.02, T:0.30
Consensus pattern (30 bp):
AACACTCTTCATTCTACACCTTCAAACCCT
Found at i:48694846 original size:13 final size:13
Alignment explanation
Indices: 48694830--48694871 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
48694820 TTTTTCTAAA
48694830 ACATTTTTCTTTC
1 ACATTTTTCTTTC
* *
48694843 ACATATTTGTTT-
1 ACATTTTTCTTTC
*
48694855 TCATTTTTCTTTC
1 ACATTTTTCTTTC
48694868 ACAT
1 ACAT
48694872 CGAGAACAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (13 bp):
ACATTTTTCTTTC
Found at i:48698949 original size:26 final size:25
Alignment explanation
Indices: 48698880--48698952 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
48698870 ATTAATTTCC
*
48698880 TCAAAATTTTACTAGGGACAAAATCG
1 TCAAAATTTTACTAGGG-TAAAATCG
* * * *
48698906 TCAAATTTTTATTGGGGTAAAATTG
1 TCAAAATTTTACTAGGGTAAAATCG
48698931 TCAAAAATTTTACTAGGGTAAA
1 TC-AAAATTTTACTAGGGTAAA
48698953 TTTGGGATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 8 0.21
26 30 0.79
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (25 bp):
TCAAAATTTTACTAGGGTAAAATCG
Found at i:48700238 original size:27 final size:27
Alignment explanation
Indices: 48700208--48700263 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
48700198 CTGCCACGTC
48700208 ATGTTGGTGGACAATAGGACATTTTCT
1 ATGTTGGTGGACAATAGGACATTTTCT
48700235 ATGTTGGTGGACAATAGGACATTTTCT
1 ATGTTGGTGGACAATAGGACATTTTCT
48700262 AT
1 AT
48700264 AAATACACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.38
Consensus pattern (27 bp):
ATGTTGGTGGACAATAGGACATTTTCT
Found at i:48703227 original size:31 final size:31
Alignment explanation
Indices: 48703158--48703235 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
48703148 TTTTAAAATA
* * *
48703158 ACTAATAATCCAATAACTTAAATAAAAAGTT
1 ACTAATAATTCAATGACTTAAATAAAAACTT
* * *
48703189 ACAAATAATTCAATGAGTTAAATGAAAACTT
1 ACTAATAATTCAATGACTTAAATAAAAACTT
*
48703220 TCTAATAACTT-AATGA
1 ACTAATAA-TTCAATGA
48703236 TATTTTATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (31 bp):
ACTAATAATTCAATGACTTAAATAAAAACTT
Found at i:48709736 original size:2 final size:2
Alignment explanation
Indices: 48709729--48710525 Score: 1594
Period size: 2 Copynumber: 398.5 Consensus size: 2
48709719 AAATTAACTT
48709729 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48709771 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48709813 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48709855 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48709897 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48709939 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48709981 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710023 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710065 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710107 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710149 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710191 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710233 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710275 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710317 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710359 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710401 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710443 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48710485 AG AG AG AG AG AG AG AG 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 AG AG AG AG AG AG AG AG A
48710526 AGCTTGCAGA
Statistics
Matches: 795, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 795 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48711889 original size:16 final size:18
Alignment explanation
Indices: 48711850--48711883 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48711840 AAAGTTTATA
48711850 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
48711867 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
48711884 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:48714763 original size:46 final size:46
Alignment explanation
Indices: 48714710--48714881 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
48714700 ACTTGTGTGT
*
48714710 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATGA-GATGGAA
* * * * *
48714756 GCTAGTGTAAGACCATATTTGAGACATAGCATCGG-CACTGAGA-CGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-TGAGATGGA-A
* *
48714804 GCTACTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-GAGATGGAA
48714850 GCTAGTGTAAGACATGTCTGGGACATGCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG
48714882 ACTACGAGAT
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 54 0.52
47 28 0.27
48 20 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGATGGAA
Found at i:48714928 original size:94 final size:95
Alignment explanation
Indices: 48714816--48715025 Score: 259
Period size: 94 Copynumber: 2.2 Consensus size: 95
48714806 TACTGTAAGA
* * *
48714816 CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCTAGTGTAAGA-CATGTCTGGGACAT-GC
1 CATGTCTGGGACATGGCATCGGCCTCGAGATATAAGCCAGTGTAAGACCATGTCTAGGACATGGC
*
48714878 ATCGACTACGAGATGATG-GTCAATGTAAAAC
66 ATCGACT-CGAGAT-ATGAGCCAATGTAAAAC
* * * * *
48714909 CATGTTTGGGACATGGCATC-GACTTGAGATATGAGCCAGTGTAAGACCATGTCTAGGACATGGG
1 CATGTCTGGGACATGGCATCGGCCTCGAGATATAAGCCAGTGTAAGACCATGTCTAGGACATGGC
* *
48714973 ATCGACTTGAGATATGAGCCAATGTAAGAC
66 ATCGACTCGAGATATGAGCCAATGTAAAAC
*
48715003 CATGTCTAGGACATGGCATCGGC
1 CATGTCTGGGACATGGCATCGGC
48715026 ATCTTACCCA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
93 37 0.38
94 52 0.53
95 9 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (95 bp):
CATGTCTGGGACATGGCATCGGCCTCGAGATATAAGCCAGTGTAAGACCATGTCTAGGACATGGC
ATCGACTCGAGATATGAGCCAATGTAAAAC
Found at i:48714938 original size:47 final size:47
Alignment explanation
Indices: 48714809--48715023 Score: 233
Period size: 47 Copynumber: 4.6 Consensus size: 47
48714799 CGAGTGCTAC
* * * * * * *
48714809 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATC-GACTTGAGATATGAGCCAA
* * *
48714855 TGTAAGA-CATGTCTGGGACAT-GCATCGACTACGAGATGATG-GTCAA
1 TGTAAGACCATGTCTAGGACATGGCATCGACT-TGAGAT-ATGAGCCAA
* * * *
48714901 TGTAAAACCATGTTTGGGACATGGCATCGACTTGAGATATGAGCCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGACTTGAGATATGAGCCAA
*
48714948 TGTAAGACCATGTCTAGGACATGGGATCGACTTGAGATATGAGCCAA
1 TGTAAGACCATGTCTAGGACATGGCATCGACTTGAGATATGAGCCAA
48714995 TGTAAGACCATGTCTAGGACATGGCATCG
1 TGTAAGACCATGTCTAGGACATGGCATCG
48715024 GCATCTTACC
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
45 3 0.02
46 43 0.29
47 92 0.63
48 9 0.06
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACTTGAGATATGAGCCAA
Found at i:48721818 original size:21 final size:20
Alignment explanation
Indices: 48721789--48721827 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48721779 AAAAGACCAA
*
48721789 ATATATTTAAATATAAAATGT
1 ATATATTT-AATAAAAAATGT
*
48721810 ATATTTTTAATAAAAAAT
1 ATATATTTAATAAAAAAT
48721828 TAAGTTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
ATATATTTAATAAAAAATGT
Found at i:48723065 original size:11 final size:11
Alignment explanation
Indices: 48723048--48723095 Score: 87
Period size: 11 Copynumber: 4.4 Consensus size: 11
48723038 AAAAGAGAAT
48723048 AAAGAAGAAAG
1 AAAGAAGAAAG
*
48723059 GAAGAAGAAAG
1 AAAGAAGAAAG
48723070 AAAGAAGAAAG
1 AAAGAAGAAAG
48723081 AAAGAAGAAAG
1 AAAGAAGAAAG
48723092 AAAG
1 AAAG
48723096 GTAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAAG
Found at i:48723072 original size:4 final size:4
Alignment explanation
Indices: 48723048--48723095 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
48723038 AAAAGAGAAT
*
48723048 AAAG -AAG AAAG GAAG -AAG AAAG AAAG -AAG AAAG AAAG -AAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
48723092 AAAG
1 AAAG
48723096 GTAAAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
3 12 0.31
4 27 0.69
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:48723072 original size:15 final size:15
Alignment explanation
Indices: 48723043--48723095 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
48723033 ATAGCAAAAG
*
48723043 AGAATAAAG-AAGAA
1 AGAAGAAAGAAAGAA
48723057 AGGAAG-AAGAAAGAA
1 A-GAAGAAAGAAAGAA
48723072 AGAAGAAAGAAAG-A
1 AGAAGAAAGAAAGAA
48723086 AGAAAGAAAG
1 AG-AAGAAAG
48723096 GTAAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 11 0.32
15 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (15 bp):
AGAAGAAAGAAAGAA
Found at i:48723154 original size:11 final size:11
Alignment explanation
Indices: 48723130--48723163 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
48723120 AAGAGAGCAG
48723130 AGAAAGAAAGAA
1 AGAAAG-AAGAA
*
48723142 AGAAAGTAGAA
1 AGAAAGAAGAA
48723153 AGAAAGAAGAA
1 AGAAAGAAGAA
48723164 GCAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (11 bp):
AGAAAGAAGAA
Found at i:48725894 original size:21 final size:21
Alignment explanation
Indices: 48725860--48725902 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
48725850 GTATACGGTC
*
48725860 AAAATGTTTATGAAGTGAAAAA
1 AAAATGTGTATGAA-TGAAAAA
*
48725882 AAAATGTGT-TGAATGACAAA
1 AAAATGTGTATGAATGAAAAA
48725902 A
1 A
48725903 TGATGACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (21 bp):
AAAATGTGTATGAATGAAAAA
Found at i:48726461 original size:27 final size:27
Alignment explanation
Indices: 48726401--48726552 Score: 205
Period size: 27 Copynumber: 5.6 Consensus size: 27
48726391 TAAATTGTAC
*
48726401 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
*
48726429 AACACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
48726456 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
48726483 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
48726511 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
48726538 AACACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48726553 GACTTAATAT
Statistics
Matches: 111, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
27 69 0.62
28 42 0.38
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:48726467 original size:55 final size:55
Alignment explanation
Indices: 48726401--48726552 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
48726391 TAAATTGTAC
48726401 AGCACTAAGTGTGCGAGTTGGACTATGTAACACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAACACTAAGTGTGCGAGATTGACTATGT
* * * * *
48726456 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAACACTAAGTGTGCGAGATTGACTATGT
* *
48726511 AGCACTAAGTGTGCGAGTTGACTATATAACACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAACACTAAGTGTGCG
48726553 GACTTAATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 23 0.27
55 63 0.73
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAACACTAAGTGTGCGAGATTGACTATGT
Found at i:48726549 original size:82 final size:82
Alignment explanation
Indices: 48726401--48726552 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 82
48726391 TAAATTGTAC
* **
48726401 AGCACTAAGTGTGCGAGTTGGACTATGTAACACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAACACTAAGTGTGCGAATTGACTATATAACACTAAGT
48726466 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * * *
48726483 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAACACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAACACTAAGTGTGCGAATTGACTATATAACACTAAGT
48726548 GTGCG
66 GTGCG
48726553 GACTTAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 62 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAACACTAAGTGTGCGAATTGACTATATAACACTAAGT
GTGCGAATTGACTATGT
Found at i:48730466 original size:21 final size:20
Alignment explanation
Indices: 48730442--48730480 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48730432 TTTACCTACA
48730442 TAAAAAACAAAAAATTTATGT
1 TAAAAAA-AAAAAATTTATGT
* *
48730463 TAAAATAATAAAATTTAT
1 TAAAAAAAAAAAATTTAT
48730481 CAAAACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAAAAAAAAATTTATGT
Found at i:48732458 original size:47 final size:47
Alignment explanation
Indices: 48732402--48732496 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
48732392 ATTTAAAAAT
48732402 TATAAAAATATAAAAATAAAAAATTAGAATAAAGAATAAATGAGTTA
1 TATAAAAATATAAAAATAAAAAATTAGAATAAAGAATAAATGAGTTA
48732449 TATAAAAATATAAAAATAAAAAATTAGAATAAAGAATAAATGAGTTA
1 TATAAAAATATAAAAATAAAAAATTAGAATAAAGAATAAATGAGTTA
48732496 T
1 T
48732497 CATATTTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.26
Consensus pattern (47 bp):
TATAAAAATATAAAAATAAAAAATTAGAATAAAGAATAAATGAGTTA
Found at i:48737454 original size:50 final size:49
Alignment explanation
Indices: 48737380--48737478 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 49
48737370 TTTTTTATTT
48737380 TGGGGAGGGGGGGGGTTGAGGGGGTGGGGTTCTAGACTTGTTAGCCTTA
1 TGGGGAGGGGGGGGGTTGAGGGGGTGGGGTTCTAGACTTGTTAGCCTTA
48737429 TGGGGAGGGGGGGGGGTTGAGGGGGTGGGGTTCTAGACTTGTTAGCCTTA
1 TGGGGA-GGGGGGGGGTTGAGGGGGTGGGGTTCTAGACTTGTTAGCCTTA
48737479 CAGTACATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 6 0.12
50 43 0.88
ACGTcount: A:0.12, C:0.08, G:0.54, T:0.26
Consensus pattern (49 bp):
TGGGGAGGGGGGGGGTTGAGGGGGTGGGGTTCTAGACTTGTTAGCCTTA
Found at i:48744697 original size:16 final size:16
Alignment explanation
Indices: 48744676--48744715 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
48744666 GGGATTAGGG
48744676 TTAGGGTTTTTATGGT
1 TTAGGGTTTTTATGGT
48744692 TTAGGGTTTTTATGGT
1 TTAGGGTTTTTATGGT
*
48744708 TCAGGGTT
1 TTAGGGTT
48744716 AGGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.03, G:0.33, T:0.53
Consensus pattern (16 bp):
TTAGGGTTTTTATGGT
Found at i:48744785 original size:26 final size:26
Alignment explanation
Indices: 48744754--48744817 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
48744744 AAGGGTTTAG
48744754 TTAATTAAATTAGGGTGTAAGATTAA
1 TTAATTAAATTAGGGTGTAAGATTAA
*
48744780 TTAATTAAATTTGGGTGTAAGATTAA
1 TTAATTAAATTAGGGTGTAAGATTAA
48744806 TTAATTAAATTA
1 TTAATTAAATTA
48744818 AATATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (26 bp):
TTAATTAAATTAGGGTGTAAGATTAA
Found at i:48745090 original size:126 final size:126
Alignment explanation
Indices: 48744945--48745203 Score: 340
Period size: 126 Copynumber: 2.1 Consensus size: 126
48744935 TTTTTTGGTT
* * * ** * **
48744945 TTTTTTTCTTCAGTAGTATCT-GGAAAAATTTTTTTAAGAAGAAGTTTCTGAAGAAATAGTATCC
1 TTTTTTTCTACAATAGTATCTAAG-AAAATAATTTTAAGAAGAAGTTTCTGAAAAAATAGTATAA
* * *
48745009 AAAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAATGCTCCCATGTGGACGC
65 AAAACGCTTCAAGCAGGATGCACTGTCAACAAAAGTACTGAAAAAAGCTCCCACGTGGACGC
* * * *
48745071 TTTTTTTCTACAATGGTATCTAAGAAAATAATTTTGAGAAGATGTTTCTGAAAAAATAGTGTAAA
1 TTTTTTTCTACAATAGTATCTAAGAAAATAATTTTAAGAAGAAGTTTCTGAAAAAATAGTATAAA
* *
48745136 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGC
66 AAACGCTTCAAGCAGGATGCACTGTCAACAAAAGTACTGAAAAAAGCTCCCACGTGGACGC
*
48745197 TCTTTTT
1 TTTTTTT
48745204 GTAATATCCC
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
126 113 0.99
127 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (126 bp):
TTTTTTTCTACAATAGTATCTAAGAAAATAATTTTAAGAAGAAGTTTCTGAAAAAATAGTATAAA
AAACGCTTCAAGCAGGATGCACTGTCAACAAAAGTACTGAAAAAAGCTCCCACGTGGACGC
Found at i:48746287 original size:19 final size:19
Alignment explanation
Indices: 48746265--48746322 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
48746255 AATTTAAGTA
48746265 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
48746284 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
48746301 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
48746319 ATAT
1 ATAT
48746323 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:48746307 original size:35 final size:35
Alignment explanation
Indices: 48746268--48746334 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
48746258 TTAAGTAATA
*
48746268 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
48746303 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
48746335 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:48751310 original size:27 final size:27
Alignment explanation
Indices: 48751270--48751367 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
48751260 CTTTTATTCT
48751270 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
* * *
48751297 ATTA-AAATACTAAAA-A-CAACTTTTATTTT
1 ATTACAAATA-TAAAAGAGTAA--ATTA--TA
48751326 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
48751353 ATTA-AAATATTAAAA
1 ATTACAAATA-TAAAA
48751368 ACAACTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 22 0.39
29 13 0.23
30 6 0.11
31 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (27 bp):
ATTACAAATATAAAAGAGTAAATTATA
Found at i:48751313 original size:56 final size:56
Alignment explanation
Indices: 48751253--48751385 Score: 248
Period size: 56 Copynumber: 2.4 Consensus size: 56
48751243 TTCCTTATTC
*
48751253 AAAACAACTTTTATTCTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
*
48751309 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATATTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
48751365 AAAACAACTTTTATTTTATTA
1 AAAACAACTTTTATTTTATTA
48751386 AATGAAAGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.38
Consensus pattern (56 bp):
AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
Found at i:48751378 original size:27 final size:26
Alignment explanation
Indices: 48751292--48751378 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
48751282 AAAGAGTAAA
48751292 TTATAATTAAAATACTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAACTT
* * *
48751319 TTATTTTATTACAAATATAAAAGAGTAA--A
1 TTA--TAATTA-AAATATAAAA-A-CAACTT
48751348 TTATAATTAAAATATTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAACTT
48751375 TTAT
1 TTAT
48751379 TTTATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 17 0.37
29 13 0.28
30 6 0.13
31 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (26 bp):
TTATAATTAAAATATAAAAACAACTT
Found at i:48751802 original size:18 final size:18
Alignment explanation
Indices: 48751781--48751815 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48751771 AAAAGGAAAC
*
48751781 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
48751799 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
48751816 CGCATCTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:48752443 original size:7 final size:7
Alignment explanation
Indices: 48752433--48752479 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
48752423 TTGTATACAT
48752433 AATACTA
1 AATACTA
48752440 AATACTA
1 AATACTA
48752447 AATACTA
1 AATACTA
48752454 AATACTA
1 AATACTA
*
48752461 AATATTA
1 AATACTA
48752468 AATACTA
1 AATACTA
48752475 AATAC
1 AATAC
48752480 GAAACGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:48753528 original size:49 final size:50
Alignment explanation
Indices: 48753418--48753528 Score: 156
Period size: 47 Copynumber: 2.3 Consensus size: 50
48753408 AAAAAATTAT
**
48753418 AAAATTAAAATTAAAATTGCATAAATGAAAAAAAATATTAAATTGTATTGA
1 AAAATTAAAATTAAAATTGCATAAAT-AAAAAAAATATTAAATACTATTGA
*
48753469 AAAATT--AATTAAAATTGCATAAAT-TAAAAAATATTAAATACTATTGA
1 AAAATTAAAATTAAAATTGCATAAATAAAAAAAATATTAAATACTATTGA
*
48753516 AATATTAAAATTA
1 AAAATTAAAATTA
48753529 TCACTTACCA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
47 25 0.46
49 23 0.43
51 6 0.11
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (50 bp):
AAAATTAAAATTAAAATTGCATAAATAAAAAAAATATTAAATACTATTGA
Found at i:48753699 original size:10 final size:10
Alignment explanation
Indices: 48753682--48753761 Score: 74
Period size: 10 Copynumber: 7.6 Consensus size: 10
48753672 GTTTTGAAAA
48753682 AATTTGAGAG
1 AATTTGAGAG
*
48753692 AATATGAGAG
1 AATTTGAGAG
48753702 AATTTTTG-GAAG
1 AA--TTTGAG-AG
48753714 AATTTGAGAG
1 AATTTGAGAG
48753724 AATTTGAGAG
1 AATTTGAGAG
48753734 AATTTTTG-GAAG
1 AA--TTTGAG-AG
*
48753746 AATGTGAGAG
1 AATTTGAGAG
48753756 AATTTG
1 AATTTG
48753762 GATAGGAGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
10 39 0.67
11 4 0.07
12 15 0.26
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.33
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:48753709 original size:32 final size:32
Alignment explanation
Indices: 48753673--48753758 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
48753663 TTAAAGAGAG
* *
48753673 TTTTGAAAAAATTTGAGAGAATATGAGAGAAT
1 TTTTGGAAGAATTTGAGAGAATATGAGAGAAT
*
48753705 TTTTGGAAGAATTTGAGAGAATTTGAGAGAAT
1 TTTTGGAAGAATTTGAGAGAATATGAGAGAAT
*
48753737 TTTTGGAAGAATGTGAGAGAAT
1 TTTTGGAAGAATTTGAGAGAAT
48753759 TTGGATAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.33
Consensus pattern (32 bp):
TTTTGGAAGAATTTGAGAGAATATGAGAGAAT
Found at i:48764759 original size:65 final size:65
Alignment explanation
Indices: 48764671--48764821 Score: 212
Period size: 65 Copynumber: 2.3 Consensus size: 65
48764661 CGGACTATCG
* *
48764671 CAACTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGACCCTGCATATATTGCGGACATAAACA
1 CAACTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGACCCTGCATATATTGCAGACACAAACA
* * * * * **
48764736 CAACTCTTTGTGAGCTTCTTGTTATATGATCGGTTGTGATCCTTCATATGTTGCAGACACAAATG
1 CAACTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGACCCTGCATATATTGCAGACACAAACA
*
48764801 CAGCTCTTTGTGAGCGTCCTG
1 CAACTCTTTGTGAGCGTCCTG
48764822 ATATGGCTCA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (65 bp):
CAACTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGACCCTGCATATATTGCAGACACAAACA
Found at i:48764899 original size:26 final size:26
Alignment explanation
Indices: 48764864--48764950 Score: 120
Period size: 26 Copynumber: 3.3 Consensus size: 26
48764854 TATCCGAAGC
*
48764864 TCCTGATTAATGGCTCTTCGTGAGCT
1 TCCTGATTAAAGGCTCTTCGTGAGCT
*
48764890 TCCTGTTTAAAGGCTCTTCGTGAGCT
1 TCCTGATTAAAGGCTCTTCGTGAGCT
* * * *
48764916 TCCTGATTAAAAGTTCTTTGTGAACT
1 TCCTGATTAAAGGCTCTTCGTGAGCT
48764942 TCCTGATTA
1 TCCTGATTA
48764951 TGAATCCTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (26 bp):
TCCTGATTAAAGGCTCTTCGTGAGCT
Found at i:48765033 original size:26 final size:26
Alignment explanation
Indices: 48764999--48765055 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
48764989 CTTCCCGATA
*
48764999 GGCTTTTTGTAAGCTTT-CTGAT-TAAT
1 GGCTCTTTGTAAG-TTTCCTGATAT-AT
*
48765025 GGCTCTTTGTGAGTTTCCTGATATAT
1 GGCTCTTTGTAAGTTTCCTGATATAT
48765051 GGCTC
1 GGCTC
48765056 GAGAGAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 23 0.85
27 1 0.04
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.46
Consensus pattern (26 bp):
GGCTCTTTGTAAGTTTCCTGATATAT
Found at i:48766412 original size:17 final size:16
Alignment explanation
Indices: 48766390--48766430 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 16
48766380 GGCCTAAGAT
48766390 ACGGGCGTGTCGATCAC
1 ACGGGCGTGT-GATCAC
48766407 ACGGGC---TGATCAC
1 ACGGGCGTGTGATCAC
48766420 ACGGGCGTGTG
1 ACGGGCGTGTG
48766431 TCCCCTACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.57
14 1 0.05
16 2 0.10
17 6 0.29
ACGTcount: A:0.17, C:0.27, G:0.39, T:0.17
Consensus pattern (16 bp):
ACGGGCGTGTGATCAC
Found at i:48778366 original size:40 final size:40
Alignment explanation
Indices: 48778322--48778470 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
48778312 GCTACTTGCT
* *
48778322 CAAATGCCTTCGGGACATAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
48778362 CAAATGTCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
48778402 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
48778442 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
48778471 CATCCGAATA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:48786784 original size:150 final size:150
Alignment explanation
Indices: 48786509--48786816 Score: 598
Period size: 150 Copynumber: 2.1 Consensus size: 150
48786499 GACGCGTGGG
48786509 GGTATGGGGCTGCTATAGTAGAGCAGTGTATAGGGCTAAGTACAAGTGGGGAGGGTTGCGGCTGA
1 GGTATGGGGCTGCTATAGTAGAGCAGTGTATAGGGCTAAGTACAAGTGGGGAGGGTTGCGGCTGA
*
48786574 GTAGGCTAAGGTTTCTGAAACCCTAAGTCTAGAGTTTGGGCTTCTGGGCCTGGGTTAAGTGTTGG
66 GTAGGCTAAGGTTTCTGAAACCCTAAGTCTAGAGTTTGGGCTTCTGGGCCTGGGTCAAGTGTTGG
48786639 GTTTTGGGTAGTTGGGCTAA
131 GTTTTGGGTAGTTGGGCTAA
48786659 GGTATGGGGCTGCTATAGTAGAGCAGTGTATAGGGCTAAGTACAAGTGGGGAGGGTTGCGGCTGA
1 GGTATGGGGCTGCTATAGTAGAGCAGTGTATAGGGCTAAGTACAAGTGGGGAGGGTTGCGGCTGA
48786724 GTAGGCTAAGGTTTCTGAAACCCTAAGTCTAGAGTTTGGGCTTCTGGGCCTGGGTCAAGTGTTGG
66 GTAGGCTAAGGTTTCTGAAACCCTAAGTCTAGAGTTTGGGCTTCTGGGCCTGGGTCAAGTGTTGG
48786789 GTTTTGGGTAGTTGGGCTAA
131 GTTTTGGGTAGTTGGGCTAA
*
48786809 GGTTTGGG
1 GGTATGGG
48786817 CAGGGGTTTT
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 156 1.00
ACGTcount: A:0.19, C:0.12, G:0.39, T:0.29
Consensus pattern (150 bp):
GGTATGGGGCTGCTATAGTAGAGCAGTGTATAGGGCTAAGTACAAGTGGGGAGGGTTGCGGCTGA
GTAGGCTAAGGTTTCTGAAACCCTAAGTCTAGAGTTTGGGCTTCTGGGCCTGGGTCAAGTGTTGG
GTTTTGGGTAGTTGGGCTAA
Found at i:48788042 original size:86 final size:88
Alignment explanation
Indices: 48787906--48788071 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 88
48787896 AACATCTATT
* * *
48787906 GAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG-AA
1 GAAAATACCTCAGCG-ATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAA
48787970 AACA-TAAATTGAAAAACAGAAATG
65 AACAGT-AATTGAAAAACAGAAATG
* * * * * * *
48787994 GAAAATACCTCAGC-ATGTCCTGAGGCTCAACTCACCTCTCGTAGTATGAGTTGGTTTTTGCCAA
1 GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAA
48788058 ACAGTAATTGAAAA
66 ACAGTAATTGAAAA
48788072 TACCTCAGCG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
86 38 0.58
87 14 0.21
88 14 0.21
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (88 bp):
GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAA
ACAGTAATTGAAAAACAGAAATG
Found at i:48788102 original size:73 final size:73
Alignment explanation
Indices: 48787983--48788119 Score: 193
Period size: 73 Copynumber: 1.9 Consensus size: 73
48787973 ATAAATTGAA
* * * * *
48787983 AAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGTAGTATGAGTTGG
1 AAACAGAAATGGAAAATACCTCAGCATGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGG
48788048 TTTTTGCC
66 TTTTTGCC
* * * *
48788056 AAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCTTGCAATATGAGTTG
1 AAACAGAAATGGAAAATACCTCAGCATGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTG
48788120 ATTTAGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 55 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (73 bp):
AAACAGAAATGGAAAATACCTCAGCATGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGG
TTTTTGCC
Found at i:48788230 original size:159 final size:154
Alignment explanation
Indices: 48787903--48788749 Score: 770
Period size: 159 Copynumber: 5.4 Consensus size: 154
48787893 AAAAACATCT
* * * * * * * *
48787903 ATTGAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG
1 ATTGAAAATACCTCAGCG--TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAG
* * * * * *
48787968 -AAAACATAAATTGAAAAACAGAAATGGAAAATACCTCAGCATGTC-CTGAGGCTCAACTCACCT
63 AAAAACATAAA-T----AACAGGAATTGAAAATACCTCAACGTGGCTC-AAGGCTCAACTCACCT
* * * ***
48788031 CTCGTAGTATGAGTTGGTTTTTGCCAAA-CAGTA
122 CTCGCAATATGAGTTGATTTTTTTGAAAGCAG-A
* *
48788064 ATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCTTGCAATATGAGTTGATTTAGAAA
1 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAG-AA
* *
48788129 ACAGACATAAA-AACA-GAGATTGAAAGTGA-CTCAACACGTGAGC-CAAGGCTCAACTCACCTT
65 A-A-ACATAAATAACAGGA-ATTGAAAAT-ACCTC-A-ACGTG-GCTCAAGGCTCAACTCACCTC
*
48788190 TCGCAATATGAGTTGATTTTTTTGAAAGTAGA
123 TCGCAATATGAGTTGATTTTTTTGAAAGCAGA
* *
48788222 ATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 A-TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAGA
* **
48788287 AAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
64 AAAACATAAA-T-AACAGGAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGC
*
48788352 AATATGAGTTGATTTTCTTGAAAAGCAGAA
127 AATATGAGTTGATTTTTTTG-AAAGCAG-A
** * **
48788382 ATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-----
1 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
*** * * * * **
48788442 -TTTTGAAA-AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
66 AACAT-AAATAACAGGAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGCAAT
48788505 ATGAGTTGATTTTTTTGACAA-CAGAA
130 ATGAGTTGATTTTTTTGA-AAGCAG-A
* * * * *
48788531 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTGAA
1 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAGAA
* **
48788596 AAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
65 AAACATAAA-T-AACAGGAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGCA
*
48788661 ATATGAGTTGATTTTCTTGAAAAGCAGAA
128 ATATGAGTTGATTTTTTTG-AAAGCAG-A
** * **
48788690 ATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
48788750 TTTTGAAAGT
Statistics
Matches: 587, Mismatches: 65, Indels: 71
0.81 0.09 0.10
Matches are distributed among these distances:
149 58 0.10
150 73 0.12
152 1 0.00
153 3 0.01
155 4 0.01
156 15 0.03
157 10 0.02
158 165 0.28
159 208 0.35
160 23 0.04
161 20 0.03
162 7 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (154 bp):
ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
AACATAAATAACAGGAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTGAAAGCAGA
Found at i:48788429 original size:75 final size:75
Alignment explanation
Indices: 48788306--48788825 Score: 722
Period size: 75 Copynumber: 6.8 Consensus size: 75
48788296 ATTGAACAGG
*
48788306 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
48788371 GAAAAGCAGA
66 GAAAAGCAGA
*
48788381 AATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
48788446 GAAAAGCAGA
66 GAAAAGCAGA
*
48788456 AATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
48788521 GACAA-CAGA
66 GAAAAGCAGA
* * * *
48788530 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--
*** *
48788595 AAAACATAAATTGAACAGG
64 --TTGA-AAA--G--CAGA
*
48788614 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
48788679 GAAAAGCAGA
66 GAAAAGCAGA
*
48788689 AATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
48788754 G-AAAGTAGA
66 GAAAAGCAGA
* * * ** * * *
48788763 ATTTGAAAATACCT-AGGCGTGCCCCGAGGCTCAACTAACCTCTCGCAATATGAATTGAATTTT
1 AATTGAAAATACCTCA-ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
48788826 GAAATAAAAC
Statistics
Matches: 400, Mismatches: 34, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
73 1 0.00
74 121 0.30
75 209 0.52
77 1 0.00
78 1 0.00
79 5 0.01
80 1 0.00
84 61 0.15
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (75 bp):
AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAAGCAGA
Found at i:48788585 original size:308 final size:308
Alignment explanation
Indices: 48787903--48788825 Score: 1162
Period size: 308 Copynumber: 3.0 Consensus size: 308
48787893 AAAAACATCT
* * * *
48787903 ATTGAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG
1 ATTGAAAATACCTCGGCG--TGACCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTG
* * * * *
48787968 -AAAACATAAATTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTC
64 AAAAACATAAATTG---AACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* * * * * ** * ** *
48788032 TCGTAGTATGAGTTG-GTTT-TTGCCAAA-CAGTAATTGAAAATACCTCAGCGTGCCCCGAGACT
126 TCGCAATATGAGTTGATTTTCTTG-AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCT
* **** * * *
48788094 CAACTCACCTCTTGCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGAGATTGAAAGTGA-
190 CAACTCACCTCTCGCAATATGAGTTGATTT----TTTTG----AAAAGCAGAAATTGAAAAT-AC
* * * *
48788158 CTCAACACGTGAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAGTAGAA
246 CTC-ACACGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAA
* * * *
48788223 TTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
1 ATTGAAAATACCTCGGCGTGACCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTGAA
48788288 AAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
66 AAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
48788353 ATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTC
131 ATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTC
* **
48788418 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCA-ATGTGTCTTG
196 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCACACGTG-CCCG
48788482 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAA
260 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAGCAGAA
* * *
48788531 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTGAA
1 ATTGAAAATACCTCGGCGTGACCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTGAA
48788596 AAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
66 AAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
48788661 ATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTC
131 ATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTC
* * **
48788726 ACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCT-AGGCGTGCCCCG
196 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCACACGTG-CCCG
* * *
48788789 AGGCTCAACTAACCTCTCGCAATATGAATTGAATTTT
260 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
48788826 GAAATAAAAC
Statistics
Matches: 541, Mismatches: 55, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
306 1 0.00
307 59 0.11
308 266 0.49
309 4 0.01
310 19 0.04
314 1 0.00
316 56 0.10
317 6 0.01
318 99 0.18
319 13 0.02
320 17 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (308 bp):
ATTGAAAATACCTCGGCGTGACCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTGAA
AAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCACACGTGCCCGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAA
Found at i:48788623 original size:233 final size:233
Alignment explanation
Indices: 48788381--48788829 Score: 767
Period size: 233 Copynumber: 1.9 Consensus size: 233
48788371 GAAAAGCAGA
* *
48788381 AATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
48788446 GAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 GAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
48788511 TGATTTTTTTGACAA-CAGAAATTGAAATTACCTCA-GCGTGTCCTGAGGCTCAAATCACCTCTC
131 TGATTTTTTTGA-AAGCAGAAATTGAAAATACCT-AGGCGTGCCCCGAGGCTCAAATAACCTCTC
* *
48788574 GCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGG
194 GCAATATGAATTGAATTTTGAAAAACATAAATTGAACAGG
48788614 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
48788679 GAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 GAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
48788744 TGATTTTTTTGAAAGTAGAATTTGAAAATACCTAGGCGTGCCCCGAGGCTCAACTAACCTCTCGC
131 TGATTTTTTTGAAAGCAGAAATTGAAAATACCTAGGCGTGCCCCGAGGCTCAAATAACCTCTCGC
48788809 AATATGAATTGAATTTTGAAA
196 AATATGAATTGAATTTTGAAA
48788830 TAAAACATCA
Statistics
Matches: 203, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
232 3 0.01
233 200 0.99
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (233 bp):
AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
GAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAGCAGAAATTGAAAATACCTAGGCGTGCCCCGAGGCTCAAATAACCTCTCGC
AATATGAATTGAATTTTGAAAAACATAAATTGAACAGG
Found at i:48790058 original size:45 final size:41
Alignment explanation
Indices: 48789997--48790105 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 41
48789987 GTTTCATTAG
*
48789997 GACGCCC-TCTCGGGTTTTCATCCTAAT-CTTTTTGTACTAATCAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTT-T--T--TCAA
** *
48790041 GACGCCCTTTTCGGGTTTTCGCCCTAATCCCTTTTTTTTTAA
1 GACGCCCTTTTCGGGTTTTCATCCTAAT-CCTTTTTTTTCAA
*
48790083 GATGCCCTTTTCGGGTTTTCATC
1 GACGCCCTTTTCGGGTTTTCATC
48790106 TTAAGCATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 23 0.42
44 8 0.15
45 17 0.31
46 1 0.02
47 6 0.11
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.42
Consensus pattern (41 bp):
GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTTTTTCAA
Found at i:48802077 original size:13 final size:13
Alignment explanation
Indices: 48802059--48802083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48802049 ACTACAGCAA
48802059 TAATATATATTTT
1 TAATATATATTTT
48802072 TAATATATATTT
1 TAATATATATTT
48802084 AATATGTATC
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:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATATATATTTT
Found at i:48807726 original size:5 final size:5
Alignment explanation
Indices: 48807715--48807749 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
48807705 AAATATGTGT
*
48807715 TTTTCA TTTCA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
48807750 CACATATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 24 0.89
6 3 0.11
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:48807743 original size:15 final size:16
Alignment explanation
Indices: 48807715--48807751 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
48807705 AAATATGTGT
48807715 TTTTCATTTCATTTTA
1 TTTTCATTTCATTTTA
*
48807731 TTTT-ATTTTATTTTA
1 TTTTCATTTCATTTTA
48807746 TTTTCA
1 TTTTCA
48807752 CATATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCATTTCATTTTA
Found at i:48811549 original size:3 final size:3
Alignment explanation
Indices: 48811543--48811570 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48811533 AATATTAATG
48811543 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
48811571 GAATTTAATG
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:48811756 original size:22 final size:21
Alignment explanation
Indices: 48811717--48811761 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
48811707 TTATAAAAAT
*
48811717 TATTTTATATTGATATTTTATA
1 TATTTTATATTGA-AATTTATA
48811739 TATTTTATAATT-AAATTTATA
1 TATTTTAT-ATTGAAATTTATA
48811760 TA
1 TA
48811762 AAAATATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTATATTGAAATTTATA
Found at i:48825999 original size:22 final size:22
Alignment explanation
Indices: 48825969--48826020 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
48825959 AATAATATAG
* *
48825969 AAAAGCACTTACAACTTGAAAT
1 AAAAACACTTACAAATTGAAAT
48825991 AAAAACACTTACAAATTGAAAT
1 AAAAACACTTACAAATTGAAAT
48826013 AAAAACAC
1 AAAAACAC
48826021 ATCCATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAAACACTTACAAATTGAAAT
Found at i:48830649 original size:24 final size:24
Alignment explanation
Indices: 48830617--48830662 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48830607 ATTACAAAAG
* *
48830617 ATAAAAGAAGGTTTTTTTTTTTTT
1 ATAAAAGAAGGGTTTTTCTTTTTT
48830641 ATAAAAGAAGGGTTTTTCTTTT
1 ATAAAAGAAGGGTTTTTCTTTT
48830663 CCCTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (24 bp):
ATAAAAGAAGGGTTTTTCTTTTTT
Found at i:48834937 original size:92 final size:89
Alignment explanation
Indices: 48834841--48835065 Score: 283
Period size: 91 Copynumber: 2.5 Consensus size: 89
48834831 TTAAAGGTGT
* * * *
48834841 AAAAAGCCCTCAAATTTTTCAAAAAAAAAAGCAATTAAGCCCCTCCTTTTTTTTTATACTCAATT
1 AAAAAACCCTCAAATTTTTC--AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTT-CACTCAATT
48834906 GAGCACTTGAACTTTCAAAATACATAAA
63 GAGCACTTGAACTTTCAAAATACAT-AA
* *
48834934 AAAAAATCCCTCAAACTTCTT-AAAAAAAAGCAATTAAACCCCTACTTTTGTTTTCACTCAATTG
1 AAAAAA-CCCTCAAA-TTTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTCACTCAATTG
* * * *
48834998 AGTATTTGAACTTTCAAAATGCATCA
64 AGCACTTGAACTTTCAAAATACATAA
48835024 AAAAAACCCTCAAAATTTTTC-AAAAAAAGCAATTAAGCCCCT
1 AAAAAACCCTC-AAATTTTTCAAAAAAAAGCAATTAAGCCCCT
48835066 GATCTTATTA
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
89 29 0.25
90 10 0.09
91 30 0.26
92 30 0.26
93 5 0.04
94 8 0.07
95 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (89 bp):
AAAAAACCCTCAAATTTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTCACTCAATTGAG
CACTTGAACTTTCAAAATACATAA
Found at i:48835010 original size:91 final size:90
Alignment explanation
Indices: 48834863--48835065 Score: 282
Period size: 89 Copynumber: 2.2 Consensus size: 90
48834853 AATTTTTCAA
* * *
48834863 AAAAAAAAGCAATTAAGCCCCTCCTTTTTTTTTATACTCAATTGAGCACTTGAACTTTCAAAATA
1 AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTACACTCAATTGAGCACTTGAACTTTCAAAATA
*
48834928 CATAAAAAAAAATCCCTCAAACTTCTT
66 CAT-AAAAAAAA-CCCTCAAAATTCTT
* * * *
48834955 AAAAAAAAGCAATTAAACCCCTACTTTTGTTTT-CACTCAATTGAGTATTTGAACTTTCAAAATG
1 AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTACACTCAATTGAGCACTTGAACTTTCAAAATA
* *
48835019 CATCAAAAAAACCCTCAAAATTTTT
66 CATAAAAAAAACCCTCAAAATTCTT
*
48835044 CAAAAAAAGCAATTAAGCCCCT
1 AAAAAAAAGCAATTAAGCCCCT
48835066 GATCTTATTA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
89 32 0.32
90 7 0.07
91 30 0.30
92 30 0.30
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (90 bp):
AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTACACTCAATTGAGCACTTGAACTTTCAAAATA
CATAAAAAAAACCCTCAAAATTCTT
Found at i:48835145 original size:19 final size:19
Alignment explanation
Indices: 48835084--48835147 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
48835074 TAAAAATTAG
*
48835084 AAAAAAATATAAT--AAAT
1 AAAAAATTATAATAAAAAT
* *
48835101 AATAAATT-TTATAAAAATT
1 AAAAAATTATAATAAAAA-T
**
48835120 ATTAAATTATAATAAAAAT
1 AAAAAATTATAATAAAAAT
48835139 AAAAAATTA
1 AAAAAATTA
48835148 AAATTTATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
16 3 0.08
17 6 0.17
18 3 0.08
19 16 0.44
20 8 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTATAATAAAAAT
Found at i:48835428 original size:10 final size:9
Alignment explanation
Indices: 48835413--48835485 Score: 56
Period size: 9 Copynumber: 7.7 Consensus size: 9
48835403 TTATTACGAC
48835413 TTTATAAAAT
1 TTTAT-AAAT
48835423 TTTATAAAT
1 TTTATAAAT
* *
48835432 TTTTTATAT
1 TTTATAAAT
*
48835441 TTCTATATAT
1 TT-TATAAAT
48835451 TTTATAAAT
1 TTTATAAAT
***
48835460 CTTTATGTTT
1 -TTTATAAAT
48835470 TTTATAAAAT
1 TTTAT-AAAT
48835480 TTTATA
1 TTTATA
48835486 GTTTTACAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
9 25 0.50
10 25 0.50
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTATAAAT
Found at i:48835472 original size:19 final size:20
Alignment explanation
Indices: 48835450--48835490 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
48835440 TTTCTATATA
48835450 TTTTAT-AAATCTTTAT-GTT
1 TTTTATAAAAT-TTTATAGTT
48835469 TTTTATAAAATTTTATAGTT
1 TTTTATAAAATTTTATAGTT
48835489 TT
1 TT
48835491 ACAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTATAAAATTTTATAGTT
Found at i:48835475 original size:28 final size:29
Alignment explanation
Indices: 48835415--48835485 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
48835405 ATTACGACTT
*
48835415 TATAAAATTTTATAAATTTTTTATATTTC
1 TATAAAATTTTATAAATTCTTTATATTTC
* * *
48835444 TAT-ATATTTTATAAA-TCTTTATGTTTTT
1 TATAAAATTTTATAAATTCTTTAT-ATTTC
48835472 TATAAAATTTTATA
1 TATAAAATTTTATA
48835486 GTTTTACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.17
28 17 0.49
29 12 0.34
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (29 bp):
TATAAAATTTTATAAATTCTTTATATTTC
Found at i:48836733 original size:42 final size:42
Alignment explanation
Indices: 48836682--48837013 Score: 364
Period size: 42 Copynumber: 7.9 Consensus size: 42
48836672 GTTTACAAAC
* *
48836682 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
48836724 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
48836766 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * * *
48836808 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
48836850 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
48836892 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ****
48836935 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
48836976 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
48837014 TTATACAAAA
Statistics
Matches: 253, Mismatches: 31, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
41 39 0.15
42 180 0.71
43 34 0.13
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:48836834 original size:126 final size:126
Alignment explanation
Indices: 48836693--48837028 Score: 415
Period size: 126 Copynumber: 2.7 Consensus size: 126
48836683 AAAACGCCGT
*
48836693 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
48836758 GCTTAGA-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
66 GCTTA-ATAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
*
48836819 TAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
** * * ***** *
48836884 GCTTAATGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGC
66 GCTTAATAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAAT-GCCAC
* * * **** * * *
48836946 TAAAGAACATGTTCTTTAGTGGC-ATTTTTTACAAACGCCGCAAAAGAACATGTTCTTTAGTGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
*
48837010 GCTTTTATACAAAAACGCC
66 GC-TTAATA-AAAAACGCC
48837029 ACTATTTTTG
Statistics
Matches: 181, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
125 1 0.01
126 143 0.79
127 29 0.16
128 8 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (126 bp):
TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
GCTTAATAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
Found at i:48837105 original size:14 final size:14
Alignment explanation
Indices: 48837082--48837115 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48837072 GCCCTCCTGT
*
48837082 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
48837096 AGCAACATTTCAAA
1 AGCAACATTTCAAA
48837110 AGCAAC
1 AGCAAC
48837116 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:48837407 original size:21 final size:21
Alignment explanation
Indices: 48837339--48837409 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
48837329 TTTTGCTCTG
* *
48837339 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
48837360 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
48837381 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
48837402 CTCTGCTT
1 CTCTGCTT
48837410 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:48842883 original size:18 final size:18
Alignment explanation
Indices: 48842860--48843024 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
48842850 AATTGCAATG
48842860 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
48842878 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
48842896 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
48842914 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
48842933 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
48842951 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
48842965 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
48842983 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
48842999 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
48843016 GTAAGTTAT
1 GTAAGTTAT
48843025 TATGTATTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:48842908 original size:11 final size:9
Alignment explanation
Indices: 48842860--48843024 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
48842850 AATTGCAATG
48842860 GTAAGTTAT
1 GTAAGTTAT
48842869 GTAAGTTAT
1 GTAAGTTAT
48842878 GTAAGTTAAAT
1 GTAAGTT--AT
48842889 GT-A-TTAT
1 GTAAGTTAT
48842896 GTAAGTTAAAT
1 GTAAGTT--AT
48842907 GTAAG-T-T
1 GTAAGTTAT
48842914 GTAAGTTAT
1 GTAAGTTAT
*
48842923 -TATGTATTAT
1 GTAAG--TTAT
48842933 GTAAG-T-T
1 GTAAGTTAT
48842940 GTAAGTTAAAT
1 GTAAGTT--AT
*
48842951 GT-A-TTGT
1 GTAAGTTAT
48842958 GTAAG-T-T
1 GTAAGTTAT
48842965 GTAAGTTAAAT
1 GTAAGTT--AT
48842976 GT-A-TTAT
1 GTAAGTTAT
48842983 GTAAG-T-T
1 GTAAGTTAT
48842990 GTAAGTTAT
1 GTAAGTTAT
*
48842999 -TATGTATTAT
1 GTAAG--TTAT
48843009 GTAAG-T-T
1 GTAAGTTAT
48843016 GTAAGTTAT
1 GTAAGTTAT
48843025 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:48842935 original size:19 final size:19
Alignment explanation
Indices: 48842874--48843170 Score: 78
Period size: 19 Copynumber: 15.6 Consensus size: 19
48842864 GTTATGTAAG
*
48842874 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
48842892 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
48842911 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
48842929 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
48842954 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
48842979 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
48842995 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
48843013 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
48843031 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
48843056 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
48843072 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
48843090 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
48843108 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
48843124 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
48843142 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
48843160 TTGTGTAAGTT
1 TTATGTAAGTT
48843171 GTAAGTTAAA
Statistics
Matches: 212, Mismatches: 31, Indels: 71
0.68 0.10 0.23
Matches are distributed among these distances:
14 3 0.01
15 18 0.08
16 11 0.05
17 3 0.01
18 53 0.25
19 60 0.28
20 3 0.01
21 1 0.00
22 2 0.01
23 5 0.02
24 1 0.00
25 52 0.25
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:48842939 original size:26 final size:26
Alignment explanation
Indices: 48842905--48843286 Score: 531
Period size: 26 Copynumber: 15.2 Consensus size: 26
48842895 TGTAAGTTAA
48842905 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
48842931 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
48842956 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
48842981 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
48843007 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
48843033 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
48843058 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
48843084 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
48843110 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
48843136 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
48843162 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
48843187 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
48843205 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
48843230 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
48843256 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
48843283 ATGT
1 ATGT
48843287 CGACAAGATT
Statistics
Matches: 323, Mismatches: 21, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 104 0.32
26 179 0.55
27 11 0.03
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:48843210 original size:43 final size:46
Alignment explanation
Indices: 48842905--48843287 Score: 277
Period size: 51 Copynumber: 7.7 Consensus size: 46
48842895 TGTAAGTTAA
* * *
48842905 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TATATGTATT
* *
48842956 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCA--TGTAA--TA-TATGTATT
* * * * *
48843007 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TATATGTATT
* *
48843058 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TA-TATGTATT
* * *
48843110 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TA-TATGTATT
* *
48843162 GTGTAAGTTGTAAGTTAAATGTATTATGTCA-GTCA-A-ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCATGTAATATATGTATT
*
48843205 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCA--TGTAA--TA-TATGTATT
48843256 ATGTAAGTAATGTAAGTTAAATGTATTATGTC
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTC
48843288 GACAAGATTT
Statistics
Matches: 300, Mismatches: 19, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
43 36 0.12
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.08
51 114 0.38
52 97 0.32
53 21 0.07
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (46 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTCATGTAATATATGTATT
Found at i:48843238 original size:18 final size:18
Alignment explanation
Indices: 48843170--48843213 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
48843160 TTGTGTAAGT
48843170 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
48843188 TGTCAGTCAAATGTATTA
1 TGTAAGTTAAATGTATTA
48843206 TGTAAGTT
1 TGTAAGTT
48843214 GTAAGTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:48845919 original size:7 final size:7
Alignment explanation
Indices: 48845866--48845941 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
48845856 ACCTTAATCA
*
48845866 CTAAACT
1 CTAAACC
48845873 CTCAAACC
1 CT-AAACC
48845881 CTAAACC
1 CTAAACC
** *
48845888 AAAAACA
1 CTAAACC
48845895 CTAAA-C
1 CTAAACC
* *
48845901 CTACATC
1 CTAAACC
*
48845908 GTAAACC
1 CTAAACC
48845915 CTAAACC
1 CTAAACC
*
48845922 CTAAACT
1 CTAAACC
48845929 CTAAACC
1 CTAAACC
48845936 CTAAAC
1 CTAAAC
48845942 TAGAATTCAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:48846004 original size:17 final size:17
Alignment explanation
Indices: 48845982--48846031 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
48845972 TATCCTATTT
48845982 CCTACATTATATAATAA
1 CCTACATTATATAATAA
48845999 CCTACATTATATAATAA
1 CCTACATTATATAATAA
*
48846016 ACTACA-TATATAATAA
1 CCTACATTATATAATAA
48846032 TCTAGCGGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (17 bp):
CCTACATTATATAATAA
Found at i:48846234 original size:113 final size:111
Alignment explanation
Indices: 48846053--48846403 Score: 411
Period size: 113 Copynumber: 3.1 Consensus size: 111
48846043 TTCCCACAAC
* * * *
48846053 GCGCCGCTAATAATATGTTTTACCGGCGTTTTACCATAAGCGCCAC-AACTGGTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-T-GTAGTATACATCA
48846117 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
63 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
* * *
48846166 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAAT-GTAGTATACATCAA
* * * * *
48846231 GACCAAA-CTCTGCGTTTTGGTTAA-GAAATATTGCGGCGCTTTTCACTAC
64 GACCAAAGCGCTGCGTTTTGGTTAATG---TTTTGCGGCGCTTTACAATAA
* * * *
48846280 TCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATAAGCGCCACTACTGCTAGTATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATG-TAGTATACATCAA
* * *
48846345 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGTTTTCCAATAA
64 GACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
*
48846393 GCGCCACTAAT
1 GCGCCGCTAAT
48846404 CCTAATATAC
Statistics
Matches: 200, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
111 1 0.00
112 16 0.08
113 87 0.44
114 80 0.40
115 16 0.08
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (111 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGTAGTATACATCAAGA
CCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
Found at i:48846505 original size:188 final size:188
Alignment explanation
Indices: 48846188--48846585 Score: 688
Period size: 188 Copynumber: 2.1 Consensus size: 188
48846178 CTATGCTTTA
* * * *
48846188 GCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
48846253 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
66 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
48846318 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
131 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
48846376 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
* * *
48846441 AAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTAGTAGCGTTTTAATATA
66 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
* *
48846506 AGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
131 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
* * *
48846564 GCGACGCTTTACAATAAGCGCC
1 GCGGCGTTTTCCAATAAGCGCC
48846586 GCTACTACTA
Statistics
Matches: 198, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 198 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (188 bp):
GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
Found at i:48846626 original size:113 final size:114
Alignment explanation
Indices: 48846376--48846801 Score: 464
Period size: 114 Copynumber: 3.7 Consensus size: 114
48846366 TTAATATTTT
* ** *
48846376 GCGGCGTTTTCCA-ATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCGTTTT-AATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
* * * *
48846440 TAAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
** * * ** *
48846490 GTAGCGTTTTAATATAAGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGT
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
* * * * ** * * *
48846555 T-A-ATATTTTGCGACGCTTTACAATAAGCGCCGCTACTACTATGCGTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* * *
48846603 GCGGCGTTTTTAA-ATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCG-TTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
*
48846667 TAAGAAATATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* ** * *
48846717 GCGGCGTTTGAATATAAGCGCCACTAAGGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGA
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
** *
48846782 TAAGAGCTTTTGCGGCGCTT
65 TAAGAAATATTGCGGCGCTT
48846802 GGTAGTAAAC
Statistics
Matches: 252, Mismatches: 53, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
112 14 0.06
113 76 0.30
114 119 0.47
115 43 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (114 bp):
GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGTT
AAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
Found at i:48857279 original size:21 final size:21
Alignment explanation
Indices: 48857250--48857294 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
48857240 TAAATTGCAA
*
48857250 TTATTTAAAGGGCCAAAACGG
1 TTATCTAAAGGGCCAAAACGG
*
48857271 TTATCTAAAGGGCCAAAATGG
1 TTATCTAAAGGGCCAAAACGG
48857292 TTA
1 TTA
48857295 ATAAACCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (21 bp):
TTATCTAAAGGGCCAAAACGG
Found at i:48858650 original size:14 final size:13
Alignment explanation
Indices: 48858631--48858667 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
48858621 TTTTAATTTC
48858631 AATTATATTAGGAT
1 AATTAT-TTAGGAT
*
48858645 AATTATTAAGGAT
1 AATTATTTAGGAT
48858658 AATTATTTAG
1 AATTATTTAG
48858668 ATTTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (13 bp):
AATTATTTAGGAT
Found at i:48861651 original size:24 final size:24
Alignment explanation
Indices: 48861624--48861686 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
48861614 ATTTCAATTT
48861624 ATCAACCTAAAGTCAATTGTATTA
1 ATCAACCTAAAGTCAATTGTATTA
* *
48861648 ATCAACTTAAAGTCATTTGTATTA
1 ATCAACCTAAAGTCAATTGTATTA
48861672 ATCAACCTAAAGTCA
1 ATCAACCTAAAGTCA
48861687 GCTGTTCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (24 bp):
ATCAACCTAAAGTCAATTGTATTA
Found at i:48864284 original size:23 final size:23
Alignment explanation
Indices: 48864258--48864355 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
48864248 ATAAGTGCCA
48864258 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48864281 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
48864304 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48864326 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48864349 CACTGAT
1 CACTGAT
48864356 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48864323 original size:45 final size:45
Alignment explanation
Indices: 48864265--48864353 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
48864255 CCACACTGAT
* *
48864265 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
48864310 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
48864354 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:48871656 original size:23 final size:23
Alignment explanation
Indices: 48871630--48871727 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
48871620 ATAAGTGCCA
48871630 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48871653 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
48871676 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48871698 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48871721 CACTGAT
1 CACTGAT
48871728 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48871695 original size:45 final size:45
Alignment explanation
Indices: 48871637--48871725 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
48871627 CCACACTGAT
* *
48871637 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
48871682 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
48871726 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:48877370 original size:26 final size:26
Alignment explanation
Indices: 48877334--48877443 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
48877324 CATGAAATTC
48877334 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
48877360 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
48877386 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
48877412 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
48877438 TTATCA
1 TTATCA
48877444 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:48885659 original size:17 final size:17
Alignment explanation
Indices: 48885637--48885669 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48885627 GCAAGGGAGA
*
48885637 AAAAGAAAGGAAGAAAG
1 AAAAGAAAAGAAGAAAG
48885654 AAAAGAAAAGAAGAAA
1 AAAAGAAAAGAAGAAA
48885670 AGAGAAAATT
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAGAAAG
Found at i:48885951 original size:30 final size:30
Alignment explanation
Indices: 48885917--48885976 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
48885907 GTAATTAAGG
48885917 TAAGCACTTTTGTGTTTTATGATTATTGAA
1 TAAGCACTTTTGTGTTTTATGATTATTGAA
*
48885947 TAAGCATTTTTGTGTTTTATGATTATTGAA
1 TAAGCACTTTTGTGTTTTATGATTATTGAA
48885977 ATAAATCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.52
Consensus pattern (30 bp):
TAAGCACTTTTGTGTTTTATGATTATTGAA
Done.