Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 201 of 325
Found at i:65117043 original size:131 final size:130
Alignment explanation
Indices: 65116741--65117013 Score: 282
Period size: 130 Copynumber: 2.1 Consensus size: 130
65116731 GGCAATTTGC
* * ** * * * * * *
65116741 GGAATCGTGCCCTAACGTATTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATACCACTTC
1 GGAATCATGCCCCAACGTGCTGGGTAGTAATTTCCCATTTGTTTAAAATAATCAAATACCACTTC
** * * * *
65116806 AAAATTTCACTCATGTCTTTTAAAATCCCTAAAACGAAGGCGATATGCGATATTTGGCAATTCAT
66 AAAATTTCACTCAAATCTTTGAAAATCCCTAAAACGAAGGCAATATGCGATATTTGACAATTCAG
* *
65116871 GGAATCGTGCCCCAACGTGTTGGGTAGTAATTTCCCATTTGTTTAAAATAATCAAATATCC-CTT
1 GGAATCATGCCCCAACGTGCTGGGTAGTAATTTCCCATTTGTTTAAAATAATCAAATA-CCACTT
* * * * *
65116935 CAAAATTTTACTCAAATCTTCTGAAAATCCTTTAAAACGAAGGTAATACT-CGGTGTTTGACAAT
65 CAAAATTTCACTCAAATCTT-TGAAAATCC-CTAAAACGAAGGCAATA-TGCGATATTTGACAAT
65116999 TC-G
127 TCAG
65117002 GGAATCATGCCC
1 GGAATCATGCCC
65117014 TTTCGTGCTG
Statistics
Matches: 119, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
130 70 0.59
131 21 0.18
132 27 0.23
133 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (130 bp):
GGAATCATGCCCCAACGTGCTGGGTAGTAATTTCCCATTTGTTTAAAATAATCAAATACCACTTC
AAAATTTCACTCAAATCTTTGAAAATCCCTAAAACGAAGGCAATATGCGATATTTGACAATTCAG
Found at i:65123708 original size:16 final size:16
Alignment explanation
Indices: 65123687--65123719 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65123677 GAAAAGAGGC
65123687 CCTACCCGGAAGGGGA
1 CCTACCCGGAAGGGGA
*
65123703 CCTACCTGGAAGGGGA
1 CCTACCCGGAAGGGGA
65123719 C
1 C
65123720 TTGGGAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.36, T:0.09
Consensus pattern (16 bp):
CCTACCCGGAAGGGGA
Found at i:65129048 original size:132 final size:131
Alignment explanation
Indices: 65128819--65129200 Score: 550
Period size: 132 Copynumber: 2.9 Consensus size: 131
65128809 ACAGATCCTG
* * *
65128819 TTTCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCTTGAAGTTGCAGTGA
1 TTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCT-AAGTTGCAGTGA
* * *
65128884 AGCAGATTTTAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTGAAATTTTAGATCT
65 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
*
65128949 TA
130 CA
* *
65128951 TTTCCCTGAAGTTGCAATGAAGCAGATCGAAGACGACGAATCTTGGCTTCCTAAAGTTGCAGTGA
1 TTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCT-AAGTTGCAGTGA
*
65129016 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGCGGAGTAGGCTGAAATTTTAGATCT
65 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
*
65129081 CG
130 CA
* * * * * * * *
65129083 TTTCCTTGAAGTTGCAGTGGAGTAGATCAAAGAC-AGTGAATCTAGGCTTCCTGAGATTGAAGCG
1 TTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGA-TGAATCTTGGCTTCCTAAG-TTGCAGTG
65129147 AAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
64 AAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
65129201 CGATTGCAGA
Statistics
Matches: 225, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 222 0.99
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
TTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTAAGTTGCAGTGAA
GCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTC
A
Found at i:65137333 original size:18 final size:18
Alignment explanation
Indices: 65137310--65137346 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
65137300 AAATAAATCC
65137310 ATACACTGTTTCATTTGA
1 ATACACTGTTTCATTTGA
65137328 ATACACTGTTTCATTTGA
1 ATACACTGTTTCATTTGA
65137346 A
1 A
65137347 CATTACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (18 bp):
ATACACTGTTTCATTTGA
Found at i:65138830 original size:11 final size:11
Alignment explanation
Indices: 65138814--65138841 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
65138804 TTGTAAAGTA
65138814 AATTAGGATTG
1 AATTAGGATTG
65138825 AATTAGGATTG
1 AATTAGGATTG
65138836 AATTAG
1 AATTAG
65138842 ATGCTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (11 bp):
AATTAGGATTG
Found at i:65139367 original size:76 final size:76
Alignment explanation
Indices: 65139248--65139410 Score: 256
Period size: 76 Copynumber: 2.1 Consensus size: 76
65139238 GCAGTTATAT
* * * *
65139248 ATGTGTGCAAGTGTAATAACATAGCTAAGCTATGGCAATGTGATAAAGTGTGTGATCATGGA-AA
1 ATGTGTGCAAGTGTAAGAACACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCAT-GACAA
*
65139312 AGCCATGGTAGA
65 AGCCATGGTAAA
*
65139324 ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
1 ATGTGTGCAAGTGTAAGAACACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
65139389 GCCATGGTAAA
66 GCCATGGTAAA
65139400 ATGTGTGCAAG
1 ATGTGTGCAAG
65139411 ACCAAAGCGG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 2 0.03
76 78 0.98
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.25
Consensus pattern (76 bp):
ATGTGTGCAAGTGTAAGAACACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
GCCATGGTAAA
Found at i:65139941 original size:193 final size:193
Alignment explanation
Indices: 65139590--65140056 Score: 566
Period size: 193 Copynumber: 2.4 Consensus size: 193
65139580 CGTTTGAATG
* *
65139590 AAAAACGCCACTAAAGAAT-GAGC-ATTAGCGGCGC-TTTTTAGAAAACGACGCTATACGTACAC
1 AAAAACGCCGCTAAAG-ATCGA-CTATTAGCGGCGCTTTTTTA-AAAACGACGCTATAAGTACAC
* ** *
65139652 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATCTTTAGCGGCGTTTTTCAAAAAATG
63 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATACTTGATCTTTAGCGGCGTTTTAAAAAAAACG
* * * ** * * *
65139717 CCGTAAAAAAATTAACACAACGCTGTCGTTTTGTATTGAGCCTTTGGTGGCTTTAGCGGCG-ATT
128 CCGCAAAAAAATTAACAAAACACCATCGTTTTGTATTGAGACTTTAGTGG-TTTAGCAGCGCATT
65139781 TT
192 TT
* *
65139783 AAAAACGCCGCTAAAGATCGACTATTAGCGGCGCTTTTTTAAAAACGCCGCTATATGTACACCTT
1 AAAAACGCCGCTAAAGATCGACTATTAGCGGCGCTTTTTTAAAAACGACGCTATAAGTACACCTT
* * *
65139848 TAGTGGTGCTTTTTAGAAAACG-CGCTAATACTTGATCTTTAGCGGCGTTTTAAAAAAAACGCTG
66 TAGCGGCGCTTTTTAGAAAACGCCGCTAATACTTGATCTTTAGCGGCGTTTTAAAAAAAACGCCG
* * *** * *
65139912 CAAATTAATTTTGTAAAACACCATCGTTTTGTATTGAGATTTTAGTGGTTTAGCAGCGCTTTTT
131 CAAA-AAAATTAACAAAACACCATCGTTTTGTATTGAGACTTTAGTGGTTTAGCAGCGCATTTT
* * * * *
65139976 AAAAACACTGCTAAAGATCGAGTATTAGCGGCACTTTTTTAAGAAACGGCGCTATAAGTACACCT
1 AAAAACGCCGCTAAAGATCGACTATTAGCGGCGCTTTTTTAA-AAACGACGCTATAAGTACACCT
65140041 TTAGCGGCGCTTTTTA
65 TTAGCGGCGCTTTTTA
65140057 ATACTCGATC
Statistics
Matches: 235, Mismatches: 33, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
192 52 0.22
193 143 0.61
194 40 0.17
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (193 bp):
AAAAACGCCGCTAAAGATCGACTATTAGCGGCGCTTTTTTAAAAACGACGCTATAAGTACACCTT
TAGCGGCGCTTTTTAGAAAACGCCGCTAATACTTGATCTTTAGCGGCGTTTTAAAAAAAACGCCG
CAAAAAAATTAACAAAACACCATCGTTTTGTATTGAGACTTTAGTGGTTTAGCAGCGCATTTT
Found at i:65140327 original size:22 final size:21
Alignment explanation
Indices: 65140302--65140346 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
65140292 GTTACTATTG
*
65140302 TAAGGTTTATGGATTATGAGTT
1 TAAGGATTATGGATTATG-GTT
*
65140324 TAAGGATTATGGTTTATGGTT
1 TAAGGATTATGGATTATGGTT
65140345 TA
1 TA
65140347 TGGGTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
TAAGGATTATGGATTATGGTT
Found at i:65140330 original size:15 final size:14
Alignment explanation
Indices: 65140305--65140368 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 14
65140295 ACTATTGTAA
*
65140305 GGTTTATGGATTAT
1 GGTTTAAGGATTAT
65140319 GAGTTTAAGGATTAT
1 G-GTTTAAGGATTAT
* *
65140334 GGTTTATGGTTTAT
1 GGTTTAAGGATTAT
* *
65140348 GGGTTAAAGG-TTAG
1 -GGTTTAAGGATTAT
65140362 GGTTTAA
1 GGTTTAA
65140369 ATTTTAAGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
13 6 0.15
14 15 0.37
15 20 0.49
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
GGTTTAAGGATTAT
Found at i:65140337 original size:29 final size:28
Alignment explanation
Indices: 65140305--65140367 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
65140295 ACTATTGTAA
* *
65140305 GGTTTATGGATTATGAGTTTAAGGATTAT
1 GGTTTATGGATTATGAGTTAAAGG-TTAG
* *
65140334 GGTTTATGGTTTATGGGTTAAAGGTTAG
1 GGTTTATGGATTATGAGTTAAAGGTTAG
65140362 GGTTTA
1 GGTTTA
65140368 AATTTTAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (28 bp):
GGTTTATGGATTATGAGTTAAAGGTTAG
Found at i:65140342 original size:7 final size:7
Alignment explanation
Indices: 65140305--65140349 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
65140295 ACTATTGTAA
65140305 GGTTTAT
1 GGTTTAT
*
65140312 GGATTAT
1 GGTTTAT
*
65140319 GAGTTTAA
1 G-GTTTAT
*
65140327 GGATTAT
1 GGTTTAT
65140334 GGTTTAT
1 GGTTTAT
65140341 GGTTTAT
1 GGTTTAT
65140348 GG
1 GG
65140350 GTTAAAGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:65140467 original size:7 final size:7
Alignment explanation
Indices: 65140334--65140468 Score: 74
Period size: 7 Copynumber: 19.0 Consensus size: 7
65140324 TAAGGATTAT
*
65140334 GGTTTAT
1 GGTTTAG
65140341 GGTTTATG
1 GGTTTA-G
* *
65140349 GGTTAAA
1 GGTTTAG
65140356 GG-TTAG
1 GGTTTAG
*
65140362 GGTTTAA
1 GGTTTAG
**
65140369 ATTTTAAG
1 GGTTT-AG
* *
65140377 GGGTTGG
1 GGTTTAG
*
65140384 GGTTTAA
1 GGTTTAG
65140391 GGTTTAG
1 GGTTTAG
*
65140398 GGTTAAG
1 GGTTTAG
* *
65140405 GGTTAAC
1 GGTTTAG
*
65140412 GGTTTAT
1 GGTTTAG
* *
65140419 GTTTTAT
1 GGTTTAG
*
65140426 GGTTTAA
1 GGTTTAG
65140433 GGTTTAG
1 GGTTTAG
*
65140440 GGGTTAG
1 GGTTTAG
*
65140447 GGGTTAG
1 GGTTTAG
65140454 GGATTTAG
1 GG-TTTAG
65140462 GGTTTAG
1 GGTTTAG
65140469 ATTAATTAGT
Statistics
Matches: 97, Mismatches: 27, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
6 4 0.04
7 79 0.81
8 14 0.14
ACGTcount: A:0.21, C:0.01, G:0.37, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:65156295 original size:19 final size:20
Alignment explanation
Indices: 65156271--65156308 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65156261 GGTACCACCA
65156271 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
65156290 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
65156309 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:65156600 original size:46 final size:46
Alignment explanation
Indices: 65156533--65156702 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
65156523 AACCTGCCCC
* *
65156533 TAAGTGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
65156579 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
65156627 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
65156672 TAGGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
65156703 AGATGCTCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 57 0.55
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:65156646 original size:93 final size:93
Alignment explanation
Indices: 65156538--65156708 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65156528 GCCCCTAAGT
* * *
65156538 GAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
65156603 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
65156631 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65156696 CGAGTTCAGATGC
66 CGAGTTCAGATGC
65156709 TCAACCATCC
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:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:65158453 original size:67 final size:67
Alignment explanation
Indices: 65158364--65158529 Score: 208
Period size: 67 Copynumber: 2.5 Consensus size: 67
65158354 GTGGATTCTA
* * ** *
65158364 TATGCTGTCATAGTTGGGCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTC
1 TATGTTGTCATAGTCGAACTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
65158429 TC
66 TC
* * *
65158431 TATGTTGTCATAGTCGAACTATGGTCTTATACATCATACCTTATGTTTAATGGCCTAGCAGACTC
1 TATGTTGTCATAGTCGAACTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
65158496 TC
66 TC
* * * *
65158498 TATATTGCCAT-GGCCAAGCTATGGTCTTACAC
1 TATGTTGTCATAGTCGAA-CTATGGTCTTACAC
65158530 GTTATACCCT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 4 0.05
67 81 0.95
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (67 bp):
TATGTTGTCATAGTCGAACTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
TC
Found at i:65158537 original size:67 final size:68
Alignment explanation
Indices: 65158381--65158529 Score: 212
Period size: 67 Copynumber: 2.2 Consensus size: 68
65158371 TCATAGTTGG
* * * *
65158381 GCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTCTCTATGTTGTCATAGTC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
*
65158446 GAA
66 CAA
* * *
65158449 -CTATGGTCTTATACATCATACCTTATGTTTAATGGCCTAGCAGACTCTCTATATTGCCAT-GGC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
65158512 CAA
66 CAA
65158515 GCTATGGTCTTACAC
1 GCTATGGTCTTACAC
65158530 GTTATACCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
66 4 0.06
67 67 0.94
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (68 bp):
GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
CAA
Found at i:65163890 original size:10 final size:10
Alignment explanation
Indices: 65163869--65163901 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
65163859 GAATTGTATG
65163869 ATGAAT-GAA
1 ATGAATAGAA
65163878 ATGAATAGAA
1 ATGAATAGAA
*
65163888 ATGGATAGAA
1 ATGAATAGAA
65163898 ATGA
1 ATGA
65163902 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (10 bp):
ATGAATAGAA
Found at i:65177216 original size:106 final size:105
Alignment explanation
Indices: 65177052--65177244 Score: 260
Period size: 106 Copynumber: 1.8 Consensus size: 105
65177042 GGTTAGATAA
* * * * **
65177052 ATTTTAATTAAGATAATTGGGATTTTAAATTAAATTAGGATAATTAGAGTTATAATTTATTTAAG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAATTAGAGTTATAATTTAGATAAG
*
65177117 ATAATTAATAATTTAAATTAATATATTTGAAAATATTTTAT
66 ATAATTAAGAATTT-AATTAATATATTTGAAAATATTTTAT
* * * * *
65177158 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATTATTAGATTTTTCATTTAGATATG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAATTAGAGTTATAATTTAGATAAG
*
65177223 ATAATTAGGAATTTAATTAATA
66 ATAATTAAGAATTTAATTAATA
65177245 GATTGGATAA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
105 8 0.11
106 66 0.89
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.45
Consensus pattern (105 bp):
ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAATTAGAGTTATAATTTAGATAAG
ATAATTAAGAATTTAATTAATATATTTGAAAATATTTTAT
Found at i:65182093 original size:16 final size:16
Alignment explanation
Indices: 65182047--65182096 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
65182037 TAAAATTAAA
65182047 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
65182064 A-A--AATAATAAATT
1 ATATTAATAATTTATT
65182077 ATATTAATAATTTATT
1 ATATTAATAATTTATT
65182093 ATAT
1 ATAT
65182097 GATTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:65182106 original size:26 final size:27
Alignment explanation
Indices: 65182028--65182093 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 27
65182018 TAAAAAATTA
65182028 TTATTAAAATAAAATTAAAATATTAAATAAT
1 TTATTAAAAT--AA-TAAAATATT-AATAAT
65182059 TTATTAAAATAATAAATTATATTAATAAT
1 TTATTAAAATAATAAA--ATATTAATAAT
65182088 TTATTA
1 TTATTA
65182094 TATGATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 4 0.12
29 14 0.42
30 5 0.15
31 10 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TTATTAAAATAATAAAATATTAATAAT
Found at i:65182113 original size:26 final size:26
Alignment explanation
Indices: 65182037--65182114 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 26
65182027 ATTATTAAAA
*
65182037 TAAAATTA-AAATATTAAATAATTTAT
1 TAAAATAATAAATA-TAAATAATTTAT
65182063 TAAAATAATAAATTATATTAATAATTTAT
1 TAAAATAATAAA-TATA--AATAATTTAT
* *
65182092 T-ATATGATTAAATATAAATAATT
1 TAAAAT-AATAAATATAAATAATT
65182115 AAATATGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
26 14 0.32
27 5 0.11
28 9 0.20
29 16 0.36
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAAATAATAAATATAAATAATTTAT
Found at i:65185856 original size:41 final size:41
Alignment explanation
Indices: 65185801--65185879 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
65185791 TGTACTTACT
* **
65185801 TGCTAGTATAATTACTTCGGTATATCTTATGATGCACTGCG
1 TGCTAGTATAATTACTTCGATATATCCGATGATGCACTGCG
65185842 TGCTAGTATAATTACTTCGATATATCCGATGATGCACT
1 TGCTAGTATAATTACTTCGATATATCCGATGATGCACT
65185880 TACATGCCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (41 bp):
TGCTAGTATAATTACTTCGATATATCCGATGATGCACTGCG
Found at i:65230414 original size:13 final size:11
Alignment explanation
Indices: 65230386--65230428 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
65230376 AGTTAAATAT
65230386 TATTTTATTAA
1 TATTTTATTAA
65230397 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
65230410 TA-TTTATTAT
1 TATTTTATTAA
65230420 TATTTTATT
1 TATTTTATT
65230429 TTGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:65235979 original size:247 final size:247
Alignment explanation
Indices: 65235545--65236285 Score: 1218
Period size: 247 Copynumber: 3.0 Consensus size: 247
65235535 ACCAAGAACC
* * * * * *
65235545 TTCTAATAGATCAATTTTGAGTTGGAATATCTATTGAATTGTGGATTTCCTCTT-AGAATTCAAG
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCT-TTCAAAATTCAAG
*
65235609 A--TACCATTAAAGCACCTTAAGCTTTTGAAGAAGATAACATTAATAAAAAATCATGCAATTATC
65 ATCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATC
* *
65235672 TCTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAATTTTAGAAATAATAATTACCTTT
130 ACTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTT
65235737 GATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
195 GATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
65235790 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
* *
65235855 TCTACCACTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATAATGCAATTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
* * *
65235920 CTCAAATAATGTAAATATGCTTCTAATCATTATGAAAATAAGTTTAGAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
* *
65235985 ATTCTTTCTAAATTCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
* * *
65236037 TTCTAATAGATCCATATTGAGTTGGAACATCCATTGATTTGTCGATTTCCTCTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
* * * **
65236102 TCCACCATTAAAGCACCTTAAACTTTTGAAGAAGATGACATTAATAAAGAATCATGCAGCTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
*
65236167 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATCAGTTTAGAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
*
65236232 ATTCGTTCTAAATCCTTTCATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
65236284 TT
1 TT
65236286 TAGAATATTT
Statistics
Matches: 460, Mismatches: 33, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
244 2 0.00
245 56 0.12
247 402 0.87
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (247 bp):
TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
Found at i:65236735 original size:24 final size:23
Alignment explanation
Indices: 65236708--65236752 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
65236698 TCAACCCAAA
* *
65236708 TTAATTATTTTAACTAATAATTAT
1 TTAATTAATTTAA-AAATAATTAT
65236732 TTAATTAATTTAAAAATAATT
1 TTAATTAATTTAAAAATAATT
65236753 TCCAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTAATTTAAAAATAATTAT
Found at i:65237836 original size:17 final size:18
Alignment explanation
Indices: 65237806--65237839 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65237796 GTCTATTAGG
65237806 TTAATTTAGGTTAATAAT
1 TTAATTTAGGTTAATAAT
*
65237824 TTAA-TTAGTTTAATAA
1 TTAATTTAGGTTAATAA
65237840 ATACTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TTAATTTAGGTTAATAAT
Found at i:65243731 original size:3 final size:3
Alignment explanation
Indices: 65243718--65243747 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
65243708 AAAATAGATA
65243718 ATT ATT AATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT
65243748 GTTAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:65247778 original size:9 final size:9
Alignment explanation
Indices: 65247755--65247797 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
65247745 GTGATAGAGA
*
65247755 AATAAGAGT
1 AATAATAGT
65247764 AATAATAGT
1 AATAATAGT
**
65247773 AATAATAAA
1 AATAATAGT
65247782 AATAATAGT
1 AATAATAGT
65247791 AATAATA
1 AATAATA
65247798 AAATGATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (9 bp):
AATAATAGT
Found at i:65247785 original size:18 final size:18
Alignment explanation
Indices: 65247764--65247800 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
65247754 AAATAAGAGT
65247764 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
65247782 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
65247800 A
1 A
65247801 TGATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAATAGTAATAATAAA
Found at i:65261639 original size:17 final size:17
Alignment explanation
Indices: 65261613--65261650 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
65261603 TATATATTGT
*
65261613 ATATTTAACACAAATAA
1 ATATTCAACACAAATAA
65261630 ATATTCAACACAAATAA
1 ATATTCAACACAAATAA
65261647 ATAT
1 ATAT
65261651 CAAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATTCAACACAAATAA
Found at i:65261682 original size:16 final size:16
Alignment explanation
Indices: 65261612--65261686 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 16
65261602 ATATATATTG
65261612 TATAT-TTAACACAAA
1 TATATATTAACACAAA
*
65261627 TAAATATTCAACACAAA
1 TATATATT-AACACAAA
* * * **
65261644 TAAATATCAAAATTTAA
1 TATATATTAACA-CAAA
* *
65261661 TGTATATTAACACTAA
1 TATATATTAACACAAA
65261677 TATATATTAA
1 TATATATTAA
65261687 AAAATGTCAA
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
15 4 0.09
16 17 0.37
17 25 0.54
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (16 bp):
TATATATTAACACAAA
Found at i:65262013 original size:24 final size:24
Alignment explanation
Indices: 65261986--65262031 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
65261976 TACTCATACA
*
65261986 TTGCTTTGTTCCATCATCTCAACT
1 TTGCCTTGTTCCATCATCTCAACT
**
65262010 TTGCCTTGTTTTATCATCTCAA
1 TTGCCTTGTTCCATCATCTCAA
65262032 AATATCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.09, T:0.48
Consensus pattern (24 bp):
TTGCCTTGTTCCATCATCTCAACT
Found at i:65268107 original size:84 final size:84
Alignment explanation
Indices: 65268002--65268167 Score: 305
Period size: 84 Copynumber: 2.0 Consensus size: 84
65267992 TAATTGTTAG
*
65268002 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTTGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
65268067 GGCCATAAGGTAATTAGAC
66 GGCCATAAGGTAATTAGAC
* *
65268086 AAGTGTATTATGAAAATGTTGATATATCAAGACTTGCTGTCCTTGATTTTCGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
65268151 GGCCATAAGGTAATTAG
66 GGCCATAAGGTAATTAG
65268168 CCCTTGTCTA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (84 bp):
AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
GGCCATAAGGTAATTAGAC
Found at i:65271873 original size:17 final size:18
Alignment explanation
Indices: 65271851--65271896 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
65271841 GGCTGTTCTA
65271851 GTGAGCTTGCA-GTCTTG
1 GTGAGCTTGCATGTCTTG
* * *
65271868 GTGAGCTCGCATTTTTTG
1 GTGAGCTTGCATGTCTTG
65271886 GTGAGCTTGCA
1 GTGAGCTTGCA
65271897 CATTGGGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.37
Consensus pattern (18 bp):
GTGAGCTTGCATGTCTTG
Found at i:65276862 original size:15 final size:15
Alignment explanation
Indices: 65276830--65276858 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65276820 ATTTTCTGTG
65276830 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
65276845 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
65276859 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:65278081 original size:45 final size:45
Alignment explanation
Indices: 65277949--65278071 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
65277939 TAGGATTATG
* *
65277949 ATATGTGATTTCGTGTAAGATCAAGTCTGGGACGTTGGCATCAAT
1 ATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
* * *
65277994 ATATGTGATTTCTTGTAAGACCACGTCTGGGTCGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
* * *
65278039 ATATGTGGTTACGTGTAAGACCATGTCTGGGAC
1 ATATGTGATTTCGTGTAAGACCAAGTCTGGGAC
65278072 ATCAGCATCG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
Found at i:65279130 original size:24 final size:24
Alignment explanation
Indices: 65279098--65279151 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
65279088 ATATATGTGT
65279098 TAGTAATGGTTTAAAATTAGTAGA
1 TAGTAATGGTTTAAAATTAGTAGA
65279122 TAGTAATGGTTTAAAATTAGTAGA
1 TAGTAATGGTTTAAAATTAGTAGA
65279146 TGAGTA
1 T-AGTA
65279152 TATTTGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (24 bp):
TAGTAATGGTTTAAAATTAGTAGA
Found at i:65284386 original size:23 final size:24
Alignment explanation
Indices: 65284360--65284410 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
65284350 AAATGGAAAG
65284360 AAGGAAAT-AAGGGA-AGAAAAGAA
1 AAGGAAATCAAGGGAGA-AAAAGAA
*
65284383 AAGG-AATCAATGGAGAAAAAGAA
1 AAGGAAATCAAGGGAGAAAAAGAA
65284406 AAGGA
1 AAGGA
65284411 TGGGGGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.12
23 20 0.83
24 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.29, T:0.06
Consensus pattern (24 bp):
AAGGAAATCAAGGGAGAAAAAGAA
Found at i:65296964 original size:17 final size:17
Alignment explanation
Indices: 65296942--65296983 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
65296932 AGAGCTCGCA
*
65296942 GGTGAGCTC-TCATGCTT
1 GGTGAGCTCGTAATG-TT
*
65296959 GGTGAGTTCGTAATGTT
1 GGTGAGCTCGTAATGTT
65296976 GGTGAGCT
1 GGTGAGCT
65296984 GTCCTGGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36
Consensus pattern (17 bp):
GGTGAGCTCGTAATGTT
Found at i:65297037 original size:17 final size:15
Alignment explanation
Indices: 65297015--65297057 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
65297005 GTAGTTTGTA
65297015 GGTGAGCTCACAGTCTT
1 GGTGAGCTCACA-T-TT
65297032 GGTGAGCTTGCACATTT
1 GGTGAGC-T-CACATTT
65297049 GGTGAGCTC
1 GGTGAGCTC
65297058 GTAGTTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 16 0.67
18 2 0.08
19 4 0.17
ACGTcount: A:0.16, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
GGTGAGCTCACATTT
Found at i:65297080 original size:60 final size:60
Alignment explanation
Indices: 65296988--65297135 Score: 190
Period size: 61 Copynumber: 2.5 Consensus size: 60
65296978 TGAGCTGTCC
* * * * *
65296988 TGGTGAGCTTGCAGTTCGTAGTTTGTAGGTGAGCTCACAGTC-TTGGTGAGCTTGCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACA-TCTTTGGTGAGCTTGCACATT
* * *
65297048 TGGTGAGCTCGTAGTTCGCAGTTAGCAAGTGAGCTCGCATCTTTTGGTGAGCTTTCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATC-TTTGGTGAGCTTGCACATT
*
65297109 TGGTGAGCTCACAGTTCGCAGTTAGCA
1 TGGTGAGCTCGCAGTTCGCAGTTAGCA
65297136 GGGATGGTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
59 2 0.03
60 32 0.42
61 42 0.55
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (60 bp):
TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATCTTTGGTGAGCTTGCACATT
Found at i:65297099 original size:18 final size:17
Alignment explanation
Indices: 65297076--65297118 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
65297066 CAGTTAGCAA
*
65297076 GTGAGCTCGCATCTTTTG
1 GTGAGCTCGCA-CATTTG
**
65297094 GTGAGCTTTCACATTTG
1 GTGAGCTCGCACATTTG
65297111 GTGAGCTC
1 GTGAGCTC
65297119 ACAGTTCGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.37
Consensus pattern (17 bp):
GTGAGCTCGCACATTTG
Found at i:65311575 original size:29 final size:27
Alignment explanation
Indices: 65311516--65311701 Score: 108
Period size: 29 Copynumber: 6.5 Consensus size: 27
65311506 ATAGCCATAG
* *
65311516 AGGC-TTCCTTTACAGAGATTGCTACAG
1 AGGCTTTCCTTTA-AGAGATTGCCACAA
*
65311543 AGGCTTTCCTTTGATAGAGATTACCACAA
1 AGGCTTTCCTTT-A-AGAGATTGCCACAA
65311572 AGGCGTTTCCTTTAAGAGATTTGCCACAA
1 AGGC-TTTCCTTTAAGAGA-TTGCCACAA
* * * *
65311601 AGGCATT-CTTAAACAGAGGTTG-CACAG
1 AGGCTTTCCTT-TA-AGAGATTGCCACAA
* * *
65311628 AGGCTTACCTTTCTAGAGTTTTGCCACAA
1 AGGCTTTCCTTT-AAGAG-ATTGCCACAA
* * *
65311657 AGGCTGTCCTTTACATCTAATAATTGCCACAA
1 AGGCTTTCCTTTA-A---GA-GATTGCCACAA
65311689 AGGCTTTCCTTTA
1 AGGCTTTCCTTTA
65311702 CATCCAGTAC
Statistics
Matches: 122, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
27 20 0.16
28 24 0.20
29 48 0.39
30 8 0.07
32 22 0.18
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (27 bp):
AGGCTTTCCTTTAAGAGATTGCCACAA
Found at i:65311723 original size:32 final size:32
Alignment explanation
Indices: 65311655--65311730 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
65311645 GTTTTGCCAC
* * ** *
65311655 AAAGGCTGTCCTTTACATCTAATAATTGCCAC
1 AAAGGCTTTCCTTTACATCCAATAATCACCAA
* *
65311687 AAAGGCTTTCCTTTACATCCAGTACTCACCAA
1 AAAGGCTTTCCTTTACATCCAATAATCACCAA
65311719 AAAGGCTTTCCT
1 AAAGGCTTTCCT
65311731 ATCTAGATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (32 bp):
AAAGGCTTTCCTTTACATCCAATAATCACCAA
Found at i:65316083 original size:14 final size:13
Alignment explanation
Indices: 65316063--65316121 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 13
65316053 ATAAGTTATG
65316063 TATAATAATATAA
1 TATAATAATATAA
*
65316076 TATGAATAAAATAA
1 TAT-AATAATATAA
*
65316090 -A-GA-AATATAA
1 TATAATAATATAA
*
65316100 AATAATAATAATAA
1 TATAATAAT-ATAA
65316114 TATAATAA
1 TATAATAA
65316122 GTATTTTGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 1 0.03
13 7 0.19
14 20 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:65316222 original size:30 final size:30
Alignment explanation
Indices: 65316161--65316222 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
65316151 AATTAGTAAA
*
65316161 AAAAGAATATATACATAATAAAAAATATAT
1 AAAAGAATATATACAGAATAAAAAATATAT
65316191 AAAAGAATATATA-AGAA-AAATAAATATTAT
1 AAAAGAATATATACAGAATAAA-AAATA-TAT
65316221 AA
1 AA
65316223 GGAATGTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.10
29 8 0.28
30 18 0.62
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (30 bp):
AAAAGAATATATACAGAATAAAAAATATAT
Found at i:65319369 original size:17 final size:17
Alignment explanation
Indices: 65319331--65319371 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
65319321 TTGGCCTCTC
65319331 CATTTT-TCTCTTTTTT
1 CATTTTCTCTCTTTTTT
*
65319347 CCTTTTCTCTCTTTTTT
1 CATTTTCTCTCTTTTTT
*
65319364 TATTTTCT
1 CATTTTCT
65319372 ATTTTTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (17 bp):
CATTTTCTCTCTTTTTT
Found at i:65332859 original size:44 final size:44
Alignment explanation
Indices: 65332796--65332880 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
65332786 AAAGTGACTT
65332796 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATTTTG
1 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATTTTG
*
65332840 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCATCCGATT
1 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATT
65332881 AAGCTTCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (44 bp):
CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATTTTG
Found at i:65337638 original size:29 final size:29
Alignment explanation
Indices: 65337605--65337668 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
65337595 AACTTGAAGA
65337605 AAGAAAAAAAATTATTTTAAGAAACTCAT
1 AAGAAAAAAAATTATTTTAAGAAACTCAT
*
65337634 AAGAAAAAAATTTATTTTAAGAAACTCAT
1 AAGAAAAAAAATTATTTTAAGAAACTCAT
65337663 AA-AAAA
1 AAGAAAA
65337669 TGACAAAGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (29 bp):
AAGAAAAAAAATTATTTTAAGAAACTCAT
Found at i:65341525 original size:45 final size:44
Alignment explanation
Indices: 65341469--65341580 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 44
65341459 CAAATAATAG
*
65341469 CATAGTTGAAAGACACTATGGCACTATATCG-GAACTGAA-TAAGAC
1 CATAGTTGAAAGACACTATGGCAC-ATATCGAAAAC--AAGTAAGAC
*
65341514 CATAGTTGAAAGAAACTATAGGC-CATATCGAAAACAAGTAAGAC
1 CATAGTTGAAAGACACTAT-GGCACATATCGAAAACAAGTAAGAC
* **
65341558 CATAGCTGAAAGACGTTATGGCA
1 CATAGTTGAAAGACACTATGGCA
65341581 TCACGATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
43 5 0.09
44 27 0.47
45 22 0.39
46 3 0.05
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (44 bp):
CATAGTTGAAAGACACTATGGCACATATCGAAAACAAGTAAGAC
Found at i:65341557 original size:44 final size:44
Alignment explanation
Indices: 65341455--65341570 Score: 121
Period size: 44 Copynumber: 2.6 Consensus size: 44
65341445 TGGCTTGAAT
* * * *
65341455 GAAACAAATAATAGCATAGTTGAAAGACACTATGGCACTATATC
1 GAAACGAATAAGACCATAGTTGAAAGAAACTATGGCACTATATC
*
65341499 GGAACTGAATAAGACCATAGTTGAAAGAAACTATAGGC-C-ATATC
1 GAAAC-GAATAAGACCATAGTTGAAAGAAACTAT-GGCACTATATC
*
65341543 GAAAAC-AAGTAAGACCATAGCTGAAAGA
1 G-AAACGAA-TAAGACCATAGTTGAAAGA
65341571 CGTTATGGCA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.03
44 28 0.46
45 28 0.46
46 3 0.05
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (44 bp):
GAAACGAATAAGACCATAGTTGAAAGAAACTATGGCACTATATC
Found at i:65341612 original size:45 final size:45
Alignment explanation
Indices: 65341550--65341672 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
65341540 ATCGAAAACA
* *
65341550 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACG
1 AGTAAGACCATAGCTGAAAGAAGTTATGGCATCACGATTCTAACG
* * *
65341595 AGTAAGATCATAACTGAAAGAAGTTATGACATCACGATTCTAACG
1 AGTAAGACCATAGCTGAAAGAAGTTATGGCATCACGATTCTAACG
* * * *
65341640 AGTAAAACCATAGTTGAAAGATGCTATGGCATC
1 AGTAAGACCATAGCTGAAAGAAGTTATGGCATC
65341673 CTTCAACCAT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGAAGTTATGGCATCACGATTCTAACG
Found at i:65348379 original size:17 final size:17
Alignment explanation
Indices: 65348359--65348395 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
65348349 CATTTCGATT
65348359 TACACATTATTGAAGGC
1 TACACATTATTGAAGGC
65348376 TACACATTATTGAAGGC
1 TACACATTATTGAAGGC
65348393 TAC
1 TAC
65348396 GTCATGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (17 bp):
TACACATTATTGAAGGC
Found at i:65348490 original size:46 final size:46
Alignment explanation
Indices: 65348440--65348531 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
65348430 CCAGGGGTCT
*
65348440 TAACCACATGGTTTTACATACATTCTTTCAGTCATTTCATATCTTG
1 TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATATCTTG
* *
65348486 TAACCACATGTTTTTACATTCATTCATTCAGTCATTTCATATCTTG
1 TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATATCTTG
65348532 CCATGGGCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (46 bp):
TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATATCTTG
Found at i:65348588 original size:54 final size:56
Alignment explanation
Indices: 65348486--65348622 Score: 181
Period size: 54 Copynumber: 2.5 Consensus size: 56
65348476 TCATATCTTG
* * *
65348486 TAACCACATGTTTTTACATTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
1 TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
* * *
65348542 TAACCACATGGTCTTAC-GTCATTCATTTAGTCGTTTC-TATCTTGCCATGGGTCT
1 TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
*
65348596 TAACCACATGGTCTGACA-TACATTCAT
1 TAACCACATGGTCTTACAGT-CATTCAT
65348623 GTATTGTGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
54 33 0.46
55 24 0.33
56 15 0.21
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (56 bp):
TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
Found at i:65349900 original size:20 final size:20
Alignment explanation
Indices: 65349875--65349912 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65349865 TTTGAACCCT
65349875 TAGACTTCTACCAATACAGG
1 TAGACTTCTACCAATACAGG
*
65349895 TAGACTTCTACCACTACA
1 TAGACTTCTACCAATACA
65349913 TCGAGCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (20 bp):
TAGACTTCTACCAATACAGG
Found at i:65351300 original size:27 final size:27
Alignment explanation
Indices: 65351267--65351319 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
65351257 ATCATGTTCA
65351267 AAGAATACAGGTAATTAGAATCCCAAT
1 AAGAATACAGGTAATTAGAATCCCAAT
65351294 AAGAATACAGGTAATTAGAATCCCAA
1 AAGAATACAGGTAATTAGAATCCCAA
65351320 GTACTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (27 bp):
AAGAATACAGGTAATTAGAATCCCAAT
Found at i:65351919 original size:20 final size:21
Alignment explanation
Indices: 65351894--65351932 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
65351884 AAAAATCACT
65351894 AAAAATGAAAAC-AACAAAAC
1 AAAAATGAAAACAAACAAAAC
*
65351914 AAAAATGATAACAAACAAA
1 AAAAATGAAAACAAACAAA
65351933 TTTAAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.74, C:0.13, G:0.05, T:0.08
Consensus pattern (21 bp):
AAAAATGAAAACAAACAAAAC
Found at i:65352129 original size:105 final size:105
Alignment explanation
Indices: 65351947--65352159 Score: 392
Period size: 105 Copynumber: 2.0 Consensus size: 105
65351937 AAGTTTGTAT
*
65351947 GTTACCCCCACACTTTATTTGTCACATTGTCCCTATGGTGCACCCAACAATAAATAAGAGAAAAG
1 GTTACCCCCACACTTTATTTGTCACATTGTCCCTATGGTGCACCCAAAAATAAATAAGAGAAAAG
*
65352012 ACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTTG
66 ACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
65352052 GTTACCCCCACACTTTATTTGTCACATTGTCCCTAAT-GTGCACCCAAAAATAAATAAGAGAAAA
1 GTTACCCCCACACTTTATTTGTCACATTGTCCCT-ATGGTGCACCCAAAAATAAATAAGAGAAAA
65352116 GACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
65 GACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
65352157 GTT
1 GTT
65352160 GTTGTCCTTT
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
105 103 0.98
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (105 bp):
GTTACCCCCACACTTTATTTGTCACATTGTCCCTATGGTGCACCCAAAAATAAATAAGAGAAAAG
ACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
Found at i:65357814 original size:36 final size:36
Alignment explanation
Indices: 65357763--65357838 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
65357753 CAAACATATG
* *
65357763 CATATCGTCCTTTATACAGGCCTACGGGGCCCAAAA
1 CATATCGTCCCTTATACAGGCCTACGAGGCCCAAAA
**
65357799 CATATCGTCCCTTATATGGGCCTACGAGGCCCAAAA
1 CATATCGTCCCTTATACAGGCCTACGAGGCCCAAAA
65357835 CATA
1 CATA
65357839 CATCGAGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (36 bp):
CATATCGTCCCTTATACAGGCCTACGAGGCCCAAAA
Found at i:65366280 original size:23 final size:24
Alignment explanation
Indices: 65366236--65366280 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
65366226 CCGGGCTAAA
*
65366236 CAGGAAACTCATAAGAGTTTTAAT
1 CAGGAAACTCATAAGAGCTTTAAT
*
65366260 CAGGAAGCTCAT-AGAGCTTTA
1 CAGGAAACTCATAAGAGCTTTA
65366281 CAGGTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (24 bp):
CAGGAAACTCATAAGAGCTTTAAT
Found at i:65370663 original size:46 final size:46
Alignment explanation
Indices: 65370611--65370738 Score: 143
Period size: 46 Copynumber: 2.7 Consensus size: 46
65370601 ACCTCTCACA
* * *
65370611 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCTTA-T-GTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCAAG
* * *
65370657 GCCGATGCATGTCCTAAACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
*
65370703 GCCGATGCCATGTCCCAGACATTATCTTACACTAGC
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGC
65370739 TCTAATAATG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 43 0.62
47 11 0.16
48 13 0.19
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
Found at i:65376753 original size:15 final size:15
Alignment explanation
Indices: 65376729--65376758 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65376719 CTAATGTATT
65376729 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
65376744 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
65376759 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:65379467 original size:290 final size:290
Alignment explanation
Indices: 65378947--65379526 Score: 1061
Period size: 290 Copynumber: 2.0 Consensus size: 290
65378937 TGCAGTTTTG
65378947 CCAACAAACTTCCATCATCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
1 CCAACAAACTTCCATCATCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
*
65379012 CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTGGGTGGTACTCTATCGAACAGCCGTA
66 CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTAGGTGGTACTCTATCGAACAGCCGTA
* * *
65379077 GTTTTTAAGCAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAATAGATACT
131 GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAAAAGATACT
*
65379142 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGTCTCCAAATTTTT
196 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGCCTCCAAATTTTT
65379207 AACGCAAAAATCACCGCTGCTAGCTCCAAA
261 AACGCAAAAATCACCGCTGCTAGCTCCAAA
* * *
65379237 CCAACAAGCTTCCATCGTCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATTAGTAACAACC
1 CCAACAAACTTCCATCATCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
** *
65379302 CTTCGACTCAACGCATTTGCCACCACATTAGCCTTTCCTAGGTGGTACTCTATCGAACAGTCGTA
66 CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTAGGTGGTACTCTATCGAACAGCCGTA
65379367 GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAAAAGATACT
131 GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAAAAGATACT
65379432 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGCCTCCAAATTTTT
196 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGCCTCCAAATTTTT
65379497 AACGCAAAAATCACCGCTGCTAGCTCCAAA
261 AACGCAAAAATCACCGCTGCTAGCTCCAAA
65379527 TCATGCGTAG
Statistics
Matches: 279, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
290 279 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (290 bp):
CCAACAAACTTCCATCATCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTAGGTGGTACTCTATCGAACAGCCGTA
GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAAAAGATACT
TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGCCTCCAAATTTTT
AACGCAAAAATCACCGCTGCTAGCTCCAAA
Found at i:65384123 original size:11 final size:11
Alignment explanation
Indices: 65384107--65384143 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
65384097 AAGCCCATTG
65384107 GGCCCAGTTTT
1 GGCCCAGTTTT
*
65384118 GGCCCA--TTG
1 GGCCCAGTTTT
65384127 GGCCCAGTTTT
1 GGCCCAGTTTT
65384138 GGCCCA
1 GGCCCA
65384144 TCGAGGCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.11, C:0.32, G:0.30, T:0.27
Consensus pattern (11 bp):
GGCCCAGTTTT
Found at i:65384124 original size:20 final size:20
Alignment explanation
Indices: 65384099--65384144 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
65384089 TGGTCCGTAA
65384099 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
65384119 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
65384139 GCCCAT
1 GCCCAT
65384145 CGAGGCCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (20 bp):
GCCCATTGGGCCCAGTTTTG
Found at i:65384158 original size:21 final size:20
Alignment explanation
Indices: 65384099--65384158 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
65384089 TGGTCCGTAA
* *
65384099 GCCCATTGGGCCCAGTTTTG
1 GCCCATCGGGCCCACTTTTG
* *
65384119 GCCCATTGGGCCCAGTTTTG
1 GCCCATCGGGCCCACTTTTG
*
65384139 GCCCATCGAGGCCCTCTTTT
1 GCCCATCG-GGCCCACTTTT
65384159 TTCGAAGTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 27 0.75
21 9 0.25
ACGTcount: A:0.10, C:0.33, G:0.27, T:0.30
Consensus pattern (20 bp):
GCCCATCGGGCCCACTTTTG
Found at i:65402175 original size:21 final size:19
Alignment explanation
Indices: 65402151--65402200 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
65402141 TGAAGTGCAA
*
65402151 TCTTCATCTTTGCTCAATTG
1 TCTTCATCTTTCCTC-ATTG
65402171 CTCTTCCATGCTTTCCTCATTG
1 -TCTT-CAT-CTTTCCTCATTG
65402193 TCTTCATC
1 TCTTCATC
65402201 CACCTCGCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 8 0.31
22 7 0.27
23 7 0.27
ACGTcount: A:0.12, C:0.32, G:0.08, T:0.48
Consensus pattern (19 bp):
TCTTCATCTTTCCTCATTG
Found at i:65403995 original size:25 final size:25
Alignment explanation
Indices: 65403966--65404029 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
65403956 ACAAACGCAG
65403966 TCCTGATATAGGCTCTTTATGAGCA
1 TCCTGATATAGGCTCTTTATGAGCA
*
65403991 TCCTGATATAGGCTCTTTATGAGCT
1 TCCTGATATAGGCTCTTTATGAGCA
*
65404016 TCCTGACAT-GGCTC
1 TCCTGATATAGGCTC
65404030 ACTTGAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
24 5 0.14
25 32 0.86
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (25 bp):
TCCTGATATAGGCTCTTTATGAGCA
Found at i:65404187 original size:25 final size:25
Alignment explanation
Indices: 65404149--65404197 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
65404139 TTTATCCCGA
* *
65404149 ATAAGCTTCGTATTACATAGCTCAC
1 ATAAGCATCCTATTACATAGCTCAC
* *
65404174 ATAAGCATCCTATTATATGGCTCA
1 ATAAGCATCCTATTACATAGCTCA
65404198 AAAGAGTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (25 bp):
ATAAGCATCCTATTACATAGCTCAC
Found at i:65414056 original size:10 final size:10
Alignment explanation
Indices: 65414041--65414073 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
65414031 TGATTATTTG
65414041 TCTTATTTTA
1 TCTTATTTTA
65414051 TCTTATTTTA
1 TCTTATTTTA
*
65414061 TTTTATTTT-
1 TCTTATTTTA
65414070 TCTT
1 TCTT
65414074 TTATTAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 18 0.86
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (10 bp):
TCTTATTTTA
Found at i:65423026 original size:46 final size:45
Alignment explanation
Indices: 65422959--65423123 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
65422949 CGCCCCTAAG
* *
65422959 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-ACATCCATAAA
*
65423005 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTACATCCATAAA
* * * * *
65423052 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTACATCCATAAA
65423098 TGAACTCGGACTCAACTCAACGAGTT
1 TGAACTCGGACTCAACTCAACGAGTT
65423124 TAGATGCTCA
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 1 0.01
46 53 0.53
47 29 0.29
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTACATCCATAAA
Found at i:65423130 original size:93 final size:93
Alignment explanation
Indices: 65422960--65423130 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
65422950 GCCCCTAAGT
* *
65422960 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
65423025 CGAGTTCGGATGCCTGGTTACATCTCAC
66 CGAGTTCAGATGCCTGGTTACATCTCAC
* ** *
65423053 GAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
65423118 CGAGTTTAGATGC
66 CGAGTTCAGATGC
65423131 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTGGTTACATCTCAC
Found at i:65423146 original size:46 final size:45
Alignment explanation
Indices: 65422955--65423138 Score: 131
Period size: 46 Copynumber: 4.0 Consensus size: 45
65422945 AACCCGCCCC
* * * * * *
65422955 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GACATGCTCAACCA
* * * * *
65423001 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACATC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--CATGCTCA-ACCA
* * ** *
65423049 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GACATGCTCAACCA
* *
65423094 TAAGTGAACTCGGACTCAACTCAACGAGTT-TAGATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATGCTCAACCA
65423138 T
1 T
65423139 CCTAGTGACA
Statistics
Matches: 108, Mismatches: 25, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
44 11 0.10
45 6 0.06
46 56 0.52
47 29 0.27
48 5 0.05
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATGCTCAACCA
Found at i:65425857 original size:23 final size:24
Alignment explanation
Indices: 65425781--65425898 Score: 71
Period size: 26 Copynumber: 4.8 Consensus size: 24
65425771 GACTCACCAT
* * *
65425781 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTACTG-T-TTTC
65425807 AGCTCGTAAGAGCTTACTGTTTTC
1 AGCTCGTAAGAGCTTACTGTTTTC
* *
65425831 AGCTTGTTAGAGCTTA-TCG-TTTC
1 AGCTCGTAAGAGCTTACT-GTTTTC
* * *
65425854 AGCTC-AATAGAGCTTATTGTCTATC
1 AGCTCGTA-AGAGCTTACTGT-TTTC
* *
65425879 AGCTCAGGAGGAGCTTACTG
1 AGCTC-GTAAGAGCTTACTG
65425899 ATCATAACTC
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
23 18 0.25
24 19 0.26
25 9 0.12
26 26 0.36
27 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTGTTTTC
Found at i:65426067 original size:20 final size:20
Alignment explanation
Indices: 65426042--65426127 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
65426032 AAAAGCTATG
*
65426042 TGTTTATACGGATGAATTAC
1 TGTTTATACGGATGAATTAT
* * *
65426062 TGTTTATATGGATGAAGTAA
1 TGTTTATACGGATGAATTAT
* *
65426082 TGTTTATACAGATGAGTTAT
1 TGTTTATACGGATGAATTAT
*
65426102 TG-TTAT-CGAATGAATTAT
1 TGTTTATACGGATGAATTAT
65426120 TGTTTATA
1 TGTTTATA
65426128 TGATTGATAG
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.21
19 8 0.15
20 34 0.64
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (20 bp):
TGTTTATACGGATGAATTAT
Found at i:65428068 original size:25 final size:25
Alignment explanation
Indices: 65428031--65428094 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
65428021 ACAGATGTGG
* *
65428031 TAATCAGAGAGCACTAACATGCTAA
1 TAATCAAAAAGCACTAACATGCTAA
* **
65428056 TAATCAAAAAGCACTGATGTGCTAA
1 TAATCAAAAAGCACTAACATGCTAA
*
65428081 TAATCAAATAGCAC
1 TAATCAAAAAGCAC
65428095 GCTAAGGTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (25 bp):
TAATCAAAAAGCACTAACATGCTAA
Found at i:65429613 original size:12 final size:12
Alignment explanation
Indices: 65429554--65429613 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
65429544 TGTCTTTCTT
*
65429554 TAATTTATAATAA
1 TAATATATAAT-A
65429567 TAATA-ATAATA
1 TAATATATAATA
*
65429578 TCAATGTCATAATA
1 T-AATAT-ATAATA
65429592 TAA-ATAATAATA
1 TAATAT-ATAATA
65429604 TAATATATAA
1 TAATATATAA
65429614 ATATCTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.05
12 22 0.56
13 8 0.21
14 7 0.18
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (12 bp):
TAATATATAATA
Found at i:65429744 original size:20 final size:18
Alignment explanation
Indices: 65429719--65429755 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
65429709 ATAAATTTAT
65429719 TTATTTCATAATATAATATC
1 TTATTT-ATAAT-TAATATC
65429739 TTATTTATAATTAATAT
1 TTATTTATAATTAATAT
65429756 AAATTACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTATAATTAATATC
Found at i:65430937 original size:42 final size:42
Alignment explanation
Indices: 65430888--65431002 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
65430878 ACTGAGATTA
* *
65430888 CATGTAAGACCATATTTGGGATATGGCATTAATACAAGACTT
1 CATGTAAGACCATATCTGGGATATGCCATTAATACAAGACTT
* * * ** * *
65430930 CGTGTAAGACCATAGCTGGGCTATTGCCATCGATACGAGATTT
1 CATGTAAGACCATATCTGGGATA-TGCCATTAATACAAGACTT
*
65430973 CATGTAAGACCATATCTAGGATATGCCATT
1 CATGTAAGACCATATCTGGGATATGCCATT
65431003 GTTATGGTAC
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGCCATTAATACAAGACTT
Found at i:65432525 original size:22 final size:22
Alignment explanation
Indices: 65432457--65432525 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 22
65432447 ACAAGGGCCA
65432457 ACACATTTAGCTAATCAATATG
1 ACACATTTAGCTAATCAATATG
* * * *
65432479 ACACA--TA-ATAA-AAAGACTA
1 ACACATTTAGCTAATCAATA-TG
*
65432498 AGACATTTAGCTAATCAATATG
1 ACACATTTAGCTAATCAATATG
65432520 ACACAT
1 ACACAT
65432526 AATAAAAAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
18 3 0.09
19 8 0.25
20 2 0.06
21 2 0.06
22 14 0.44
23 3 0.09
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (22 bp):
ACACATTTAGCTAATCAATATG
Found at i:65441149 original size:27 final size:27
Alignment explanation
Indices: 65441081--65441151 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
65441071 TAATCAGCAT
* *
65441081 ATAGCCATGGGTAAATATGATCGACAC
1 ATAGCCATAGGTAAATATGATAGACAC
* *
65441108 AAAGTCC-TCA-ATAAATATGATAGACAC
1 ATAG-CCAT-AGGTAAATATGATAGACAC
65441135 ATAGCCATAGGTAAATA
1 ATAGCCATAGGTAAATA
65441152 CAATTGGCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
26 3 0.09
27 29 0.85
28 2 0.06
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
ATAGCCATAGGTAAATATGATAGACAC
Found at i:65441205 original size:22 final size:22
Alignment explanation
Indices: 65441156--65441214 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
65441146 TAAATACAAT
65441156 TGGCACAAAGCCATAGTCAGGA
1 TGGCACAAAGCCATAGTCAGGA
* * * *
65441178 TAGCACAAAGCCATATTTAGGC
1 TGGCACAAAGCCATAGTCAGGA
*
65441200 TGGCACAGAGCCATA
1 TGGCACAAAGCCATA
65441215 AATAGATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAGGA
Found at i:65445226 original size:43 final size:42
Alignment explanation
Indices: 65445179--65445316 Score: 98
Period size: 42 Copynumber: 3.2 Consensus size: 42
65445169 TCCCAGATAT
** *
65445179 GGTCTTACATGTTATCAAATATCGATGCCACTGTCCCAAACAG
1 GGTCTTACATGAAATCAAATA-CGATGCCAATGTCCCAAACAG
* * * * * *
65445222 GGTCTTATATGAAATTATATACGATGCCAATGTCCTAGACAT
1 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAAACAG
* * ** * *
65445264 GGTCTTACACGTAAATCTCAAAT-CAATGCTGATGTCCCAGACAT
1 GGTCTTACATG-AAA--TCAAATACGATGCCAATGTCCCAAACAG
65445308 GGTCTTACA
1 GGTCTTACA
65445317 CAATATCACA
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
42 26 0.35
43 19 0.25
44 26 0.35
45 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAAACAG
Found at i:65447376 original size:30 final size:30
Alignment explanation
Indices: 65447340--65447400 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
65447330 CAATTTACCC
*
65447340 ATACAAATTATGTAATTATTGAATCTAGTG
1 ATACAAATTATGTAATTAATGAATCTAGTG
65447370 ATACAAATTATGTAATTAATGAATCTAGTG
1 ATACAAATTATGTAATTAATGAATCTAGTG
65447400 A
1 A
65447401 CATAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (30 bp):
ATACAAATTATGTAATTAATGAATCTAGTG
Found at i:65483731 original size:46 final size:46
Alignment explanation
Indices: 65483664--65483837 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
65483654 TGTAACCCGC
*
65483664 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
65483710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
65483760 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
65483803 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
65483838 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 29 0.26
46 34 0.31
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:65483784 original size:93 final size:92
Alignment explanation
Indices: 65483671--65483841 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
65483661 CGCCCATAAG
* *
65483671 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCA
65483736 ACGAGTTCGGATGCCTGGTTACATCTCA
65 ACGAGTTCGGATGCCTGGTTACATCTCA
*
65483764 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
65483829 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65483842 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 40 0.53
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTGGTTACATCTCA
Found at i:65486950 original size:47 final size:47
Alignment explanation
Indices: 65486881--65487378 Score: 825
Period size: 47 Copynumber: 10.5 Consensus size: 47
65486871 GTGTGTATAC
65486881 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
65486928 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
65486975 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
65487022 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
65487069 GCGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
65487118 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
65487165 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
65487212 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
65487261 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * ** *
65487308 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACATGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
65487355 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
65487379 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 19, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 337 0.79
49 91 0.21
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:65486992 original size:25 final size:25
Alignment explanation
Indices: 65486964--65487042 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
65486954 CTAATGGCCG
65486964 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* *** ***
65486989 ATGTGAT-AAGGCCTAA-TGGCCG-
1 ATGTGATGAATGTGAAAGTGTATGT
65487011 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
65487036 ATGTGAT
1 ATGTGAT
65487043 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:65487141 original size:143 final size:143
Alignment explanation
Indices: 65486881--65487378 Score: 842
Period size: 143 Copynumber: 3.5 Consensus size: 143
65486871 GTGTGTATAC
*
65486881 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATGTAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
*
65486944 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCTAATGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65487009 CGATGTGATGAAT
131 CGATGTGATGAAT
* *
65487022 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
65487087 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65487152 CGATGTGATGAAT
131 CGATGTGATGAAT
*
65487165 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
*
65487230 GTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65487295 CGATGTGATGAAT
131 CGATGTGATGAAT
* * * * * ** *
65487308 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACATGATGGATGTGAAAGTGTATA-A-AT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
65487371 GTGATAAG
66 GTGATAAG
65487379 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 64 0.19
142 1 0.00
143 273 0.81
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (143 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGAAT
Found at i:65487160 original size:22 final size:22
Alignment explanation
Indices: 65487132--65487207 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
65487122 AAGTGTATAT
65487132 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* ** ****
65487154 ATGTGATGAATGCGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
65487179 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
65487201 ATGTGAT
1 ATGTGAT
65487208 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:65487213 original size:190 final size:189
Alignment explanation
Indices: 65486883--65487378 Score: 823
Period size: 190 Copynumber: 2.6 Consensus size: 189
65486873 GTGTATACGT
*
65486883 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
65486948 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGAT
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
65487013 GTGATGAATGTGAAAGTG-TATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
131 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
65487071 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
65487136 GATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
65487201 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGT
129 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
65487263 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * ** * *
65487328 CAGGGCCGAGTGGCCAACATGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65487379 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
188 7 0.02
190 237 0.82
192 44 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (189 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
Found at i:65492223 original size:47 final size:47
Alignment explanation
Indices: 65492152--65492932 Score: 1355
Period size: 47 Copynumber: 16.6 Consensus size: 47
65492142 CCCTTCGGGA
* * * * * *
65492152 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65492199 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492246 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65492293 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492340 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65492387 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492434 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65492481 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65492577 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65492624 CTTATCACATATATACACTTTCAAATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492671 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65492718 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492765 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65492812 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492859 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65492906 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65492933 TATTCAAATA
Statistics
Matches: 700, Mismatches: 32, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 655 0.94
49 45 0.06
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65492230 original size:25 final size:25
Alignment explanation
Indices: 65492202--65492280 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
65492192 ACTCGGCCCT
65492202 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
65492227 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
65492249 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
65492274 ATCACAT
1 ATCACAT
65492281 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:65497122 original size:23 final size:23
Alignment explanation
Indices: 65497091--65497260 Score: 106
Period size: 23 Copynumber: 8.2 Consensus size: 23
65497081 GATACATCAC
*
65497091 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGGGACT
* * *
65497114 TAGCCCGAAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
65497131 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
65497154 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
65497177 TAGCCCGGAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
65497194 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
65497217 TAGCCCGGAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
65497234 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
65497257 TAGC
1 TAGC
65497261 CCGGATACAT
Statistics
Matches: 107, Mismatches: 22, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
17 25 0.23
18 6 0.06
19 9 0.08
21 9 0.08
22 6 0.06
23 52 0.49
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:65497163 original size:40 final size:39
Alignment explanation
Indices: 65496933--65497157 Score: 319
Period size: 40 Copynumber: 5.7 Consensus size: 39
65496923 ATTTTGTCCA
* ** *
65496933 AGCACGAATGC-CTTCGGGGTTTAGCACGGATATATCACT
1 AGCACGAATGCTCTTCGAGACTTAGC-CGGATACATCACT
65496972 AGCACGAATGCTCTTCG-GAACTTAGTCCGGATACATCACT
1 AGCACGAATGCTCTTCGAG-ACTTAG-CCGGATACATCACT
65497012 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAG-CCGGATACATCACT
*
65497052 AGCACGAATTCTCTTCGAGACTTAGCCTGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCC-GGATACATCACT
*
65497092 AGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAG-CCGGATACATCACT
*
65497132 AGCACGAATGCTCTTCGGGACTTAGC
1 AGCACGAATGCTCTTCGAGACTTAGC
65497158 ACGAATGCTC
Statistics
Matches: 172, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
39 15 0.09
40 153 0.89
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AGCACGAATGCTCTTCGAGACTTAGCCGGATACATCACT
Found at i:65497169 original size:63 final size:63
Alignment explanation
Indices: 65497091--65497220 Score: 242
Period size: 63 Copynumber: 2.1 Consensus size: 63
65497081 GATACATCAC
65497091 TAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
* *
65497154 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
65497217 TAGC
1 TAGC
65497221 CCGGATACAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (63 bp):
TAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
Found at i:65497195 original size:103 final size:103
Alignment explanation
Indices: 65497051--65497260 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 103
65497041 GATACATCAC
* *
65497051 TAGCACGAATTCTCTTCGAGACTTAGCCTGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
65497116 GCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
66 GCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
* *
65497154 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
*
65497219 GCCCGGATACATCACTAGCACGAATGCTCTTCGGGACT
66 GCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
65497257 TAGC
1 TAGC
65497261 CCGGATACAT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (103 bp):
TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
GCCCGAATACATCACTAGCACGAATGCTCTTCGGGACT
Found at i:65497198 original size:40 final size:40
Alignment explanation
Indices: 65497154--65497274 Score: 242
Period size: 40 Copynumber: 3.0 Consensus size: 40
65497144 CTTCGGGACT
65497154 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
65497194 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
65497234 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
65497274 T
1 T
65497275 CTCAATTCTC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
Found at i:65497234 original size:143 final size:143
Alignment explanation
Indices: 65497011--65497274 Score: 474
Period size: 143 Copynumber: 1.8 Consensus size: 143
65497001 GATACATCAC
*
65497011 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATTCTCTTCGAGACTTA
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
*
65497076 GCCTGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAAT
66 GCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAAT
65497141 GCTCTTCGGGACT
131 GCTCTTCGGGACT
* *
65497154 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
* *
65497219 GCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
66 GCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACT
65497275 CTCAATTCTC
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
143 115 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (143 bp):
TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
GCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAAT
GCTCTTCGGGACT
Found at i:65498758 original size:47 final size:47
Alignment explanation
Indices: 65498687--65499325 Score: 1100
Period size: 47 Copynumber: 13.6 Consensus size: 47
65498677 CCCTTCGGGA
* * * * * *
65498687 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65498734 CCTATCACATATATACACTTTCACATTCATCACAT-TGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65498780 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65498827 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65498874 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65498921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65498968 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65499015 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65499064 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65499111 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65499158 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65499205 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65499252 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65499299 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65499326 TATTCAAATA
Statistics
Matches: 564, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 43 0.08
47 476 0.84
49 45 0.08
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65503174 original size:14 final size:14
Alignment explanation
Indices: 65503155--65503183 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65503145 TTATATTTTA
65503155 TAGTGATATATTTG
1 TAGTGATATATTTG
65503169 TAGTGATATATTTG
1 TAGTGATATATTTG
65503183 T
1 T
65503184 GTGTGTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (14 bp):
TAGTGATATATTTG
Found at i:65511434 original size:24 final size:24
Alignment explanation
Indices: 65511402--65511450 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
65511392 ATGCATGGTT
*
65511402 ATGTCAATGTAGCA-TTTTCAGAAAA
1 ATGTCAATGCAG-ATTTTTCA-AAAA
65511427 ATGT-AATGCAGATTTTTCAAAAA
1 ATGTCAATGCAGATTTTTCAAAAA
65511450 A
1 A
65511451 CTTCCTTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.27
24 12 0.55
25 4 0.18
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (24 bp):
ATGTCAATGCAGATTTTTCAAAAA
Found at i:65523804 original size:85 final size:85
Alignment explanation
Indices: 65523694--65523870 Score: 327
Period size: 85 Copynumber: 2.1 Consensus size: 85
65523684 TAGTTAAGGT
* * *
65523694 TTATATTAATTTTTGTTACTAAGTTGCTTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
1 TTATGTTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
65523759 GTTTGGGAATGGCTTGCTGA
66 GTTTGGGAATGGCTTGCTGA
65523779 TTATGTTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
1 TTATGTTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
65523844 GTTTGGGAATGGCTTGCTGA
66 GTTTGGGAATGGCTTGCTGA
65523864 TTATGTT
1 TTATGTT
65523871 TGAACTTGGT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (85 bp):
TTATGTTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
GTTTGGGAATGGCTTGCTGA
Found at i:65524870 original size:25 final size:25
Alignment explanation
Indices: 65524842--65524892 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65524832 TATAAATGAG
65524842 TTTGACTTGAATGATTATATATATA
1 TTTGACTTGAATGATTATATATATA
65524867 TTTGACTTGAATGATTATATATATA
1 TTTGACTTGAATGATTATATATATA
65524892 T
1 T
65524893 GAATGCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (25 bp):
TTTGACTTGAATGATTATATATATA
Found at i:65529960 original size:44 final size:44
Alignment explanation
Indices: 65529884--65530144 Score: 218
Period size: 44 Copynumber: 5.9 Consensus size: 44
65529874 GTCTAAGTGT
* * * *
65529884 AAGCCAAAGTAGCAAACAATCTAAATGCAAGCCAAAAGTGGGTGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCC-AAAGTGGGTGC
* * * * *
65529929 AAGCCAAA-TTGTTGACAGTTTAAGTGCAAGCCAAAGTTGGTGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
* * * * * * **
65529972 AAGCCAAAATAGCAGGCAATCTAAATGCAAGCTAAAGTGGGCAC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
* * * * * * *
65530016 ATGTCAAAGTGGCAGACAATATAAATGCAAGCCAAATTTGGTGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
* * *
65530060 AATCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATGGATGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCC-AAAGTGGGTGC
* * * *
65530105 AAGCCAAAGTGGTGGATAGTTTAAGTGCAAGCCAAAGTGG
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGG
65530145 TAGATAGTTT
Statistics
Matches: 169, Mismatches: 45, Indels: 5
0.77 0.21 0.02
Matches are distributed among these distances:
43 18 0.11
44 107 0.63
45 44 0.26
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (44 bp):
AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
Found at i:65530142 original size:28 final size:27
Alignment explanation
Indices: 65530102--65530196 Score: 136
Period size: 28 Copynumber: 3.4 Consensus size: 27
65530092 CAAAAATGGA
65530102 TGCAAGCCAAAGTGGTGGATAGTTTAAG
1 TGCAAGCCAAAGTGGT-GATAGTTTAAG
65530130 TGCAAGCCAAAGTGGTAGATAGTTTAAG
1 TGCAAGCCAAAGTGGT-GATAGTTTAAG
* *
65530158 TGCAAGCCAAAGTGGTGATCAGTCTAAA
1 TGCAAGCCAAAGTGGTGAT-AGTTTAAG
*
65530186 TGCAAGTCAAA
1 TGCAAGCCAAA
65530197 AGTAGTGGCA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 3 0.05
28 59 0.95
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (27 bp):
TGCAAGCCAAAGTGGTGATAGTTTAAG
Found at i:65530232 original size:101 final size:101
Alignment explanation
Indices: 65530056--65530241 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 101
65530046 GCCAAATTTG
* * **
65530056 GTGCAATCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATGGATGCAAGCCAAAGTGGTGGA
1 GTGCAAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATAGATGCAAGCCAAAGTGGCAGA
* **
65530121 TAGTTTAAGTGCAAGCCAAAGTGGTAGATAGTTTAA
66 CAGTCCAAGTGCAAGCCAAAGTGGTAGATAGTTTAA
* *
65530157 GTGCAAGCCAAAGTGGT-GATCAGTCTAAATGCAAGTCAAAAGTAG-TGGCAAGCCAAAGTGGCA
1 GTGCAAGCCAAAGTGGTAGA-CAGTCTAAATGCAAGCCAAAAATAGAT-GCAAGCCAAAGTGGCA
*
65530220 GACAGTCCAAGTGGAAGCCAAA
64 GACAGTCCAAGTGCAAGCCAAA
65530242 ATGACGAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
100 3 0.04
101 70 0.96
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (101 bp):
GTGCAAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATAGATGCAAGCCAAAGTGGCAGA
CAGTCCAAGTGCAAGCCAAAGTGGTAGATAGTTTAA
Found at i:65534209 original size:49 final size:50
Alignment explanation
Indices: 65534156--65534292 Score: 217
Period size: 49 Copynumber: 2.8 Consensus size: 50
65534146 CGTATGTGTT
*
65534156 GGGCCA-TAGGTAGGGCATGTTAGTTGCTAACCAGGTTGGTGAAGATGAC
1 GGGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGGTTAGTGAAGATGAC
65534205 GGGCCACTA-GTAGGGCATGTTAGTTGCTAACCAGGTTAGTGAAGATGAC
1 GGGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGGTTAGTGAAGATGAC
* * *
65534254 AGGCCACT-GGTAGGGCATGTTAGTTGGTAACCAGCTTAG
1 GGGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGGTTAG
65534293 CATTATGGTT
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
49 80 0.98
50 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (50 bp):
GGGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGGTTAGTGAAGATGAC
Found at i:65546198 original size:17 final size:18
Alignment explanation
Indices: 65546160--65546198 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
65546150 CTTTCATTAA
65546160 GTTTTTAAGATTCAATTT
1 GTTTTTAAGATTCAATTT
*
65546178 -TTTTTTAGATTC-ATTT
1 GTTTTTAAGATTCAATTT
65546194 GTTTT
1 GTTTT
65546199 CCTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (18 bp):
GTTTTTAAGATTCAATTT
Found at i:65547616 original size:24 final size:26
Alignment explanation
Indices: 65547565--65547616 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
65547555 ATCGATAGAA
**
65547565 ATTATAAGTTGAGAATAATTTATTTTG
1 ATTATAAGTTGAGAAT-ATTTAGCTTG
65547592 ATTATAAGTTGAGAAT-TTT-GCTTG
1 ATTATAAGTTGAGAATATTTAGCTTG
65547616 A
1 A
65547617 AGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
27 16 0.70
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (26 bp):
ATTATAAGTTGAGAATATTTAGCTTG
Found at i:65560679 original size:53 final size:52
Alignment explanation
Indices: 65560609--65560724 Score: 178
Period size: 53 Copynumber: 2.2 Consensus size: 52
65560599 TTAACTTATA
* * * *
65560609 TAAATCAATAGTGGTTAATTTTTATGACTTTTATGATTTAGTCCTTTTTTTCT
1 TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACC-TTTTTCCT
65560662 TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACCTTTTTCCT
1 TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACCTTTTTCCT
*
65560714 TAAATAAATAG
1 TAAATCAATAG
65560725 ACAAACGACG
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
52 17 0.29
53 41 0.71
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (52 bp):
TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACCTTTTTCCT
Found at i:65561535 original size:16 final size:16
Alignment explanation
Indices: 65561510--65561544 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
65561500 AAAATGCGAA
65561510 CCTATCGAAGAGCAAG
1 CCTATCGAAGAGCAAG
*
65561526 CCTATTGAAGAGCAAG
1 CCTATCGAAGAGCAAG
65561542 CCT
1 CCT
65561545 GTCAAAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (16 bp):
CCTATCGAAGAGCAAG
Found at i:65561552 original size:16 final size:16
Alignment explanation
Indices: 65561510--65561553 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
65561500 AAAATGCGAA
*
65561510 CCTATCGAAGAGCAAG
1 CCTATCAAAGAGCAAG
**
65561526 CCTATTGAAGAGCAAG
1 CCTATCAAAGAGCAAG
*
65561542 CCTGTCAAAGAG
1 CCTATCAAAGAG
65561554 AAAGTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (16 bp):
CCTATCAAAGAGCAAG
Found at i:65561647 original size:28 final size:28
Alignment explanation
Indices: 65561615--65561737 Score: 129
Period size: 28 Copynumber: 4.4 Consensus size: 28
65561605 AAGTTGGTGT
* * *
65561615 AAGCCAAAGCGGCAGACAGTTTAAATGC
1 AAGCCAAAGTGGCAGACAATCTAAATGC
* *
65561643 AAGCCAAAAGTGACAGACAATCTAAGTGC
1 AAGCC-AAAGTGGCAGACAATCTAAATGC
* *
65561672 AAGACAAAGTGGCAGACAATCTAAATGT
1 AAGCCAAAGTGGCAGACAATCTAAATGC
** * * *
65561700 AAGCCAAAGTGGTGGACATTCCAAATGT
1 AAGCCAAAGTGGCAGACAATCTAAATGC
65561728 AAGCCAAAGT
1 AAGCCAAAGT
65561738 TGGTGCAAGC
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 58 0.73
29 22 0.28
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (28 bp):
AAGCCAAAGTGGCAGACAATCTAAATGC
Found at i:65561832 original size:16 final size:16
Alignment explanation
Indices: 65561813--65561856 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
65561803 GATAGTTTAA
*
65561813 GTGCAAGTTAAACTTG
1 GTGCAAGTCAAACTTG
65561829 GTGCAAGTCAAACTTG
1 GTGCAAGTCAAACTTG
* *
65561845 GTTCAAGCCAAA
1 GTGCAAGTCAAA
65561857 GTGGCGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (16 bp):
GTGCAAGTCAAACTTG
Found at i:65562458 original size:15 final size:15
Alignment explanation
Indices: 65562440--65562471 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65562430 CATTTTACTA
*
65562440 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
65562455 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
65562470 TT
1 TT
65562472 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:65564048 original size:37 final size:36
Alignment explanation
Indices: 65563997--65564109 Score: 113
Period size: 37 Copynumber: 3.1 Consensus size: 36
65563987 ATTCCAAAAA
* *
65563997 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATA-TTTAATATTAATTTAATATT
**
65564033 TAATAATTATCTTAATATTATTTTATTAATTTAATATT
1 TAAT-ATTATCTTAATATT-TAATATTAATTTAATATT
* *
65564071 AAAGTGATTATCTTAATATTAAAT-TTAATTTAATATT
1 TAA-T-ATTATCTTAATATTTAATATTAATTTAATATT
65564108 TA
1 TA
65564110 TTTTGTAGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
36 6 0.10
37 36 0.57
38 6 0.10
39 15 0.24
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATATTTAATATTAATTTAATATT
Found at i:65564070 original size:11 final size:11
Alignment explanation
Indices: 65563997--65564072 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
65563987 ATTCCAAAAA
*
65563997 TAATATTATTT
1 TAATATTAATT
65564008 TAATAGTTTAATAT
1 TAATA--TTAAT-T
65564022 TAA-ATTAAATT
1 TAATATT-AATT
65564033 TAATAATT-ATCT
1 TAAT-ATTAAT-T
65564045 TAATATT-ATT
1 TAATATTAATT
65564055 T--TATTAATT
1 TAATATTAATT
65564064 TAATATTAA
1 TAATATTAA
65564073 AGTGATTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 2 0.04
11 24 0.44
12 8 0.15
13 8 0.15
14 4 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Done.