Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 39 of 196
Found at i:10832354 original size:22 final size:23
Alignment explanation
Indices: 10832344--10832399 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
10832334 TTACTAACAA
* * *
10832344 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAACTAATT
*
10832366 TTAATTTTATTAAAAAACTAATT
1 TTAATTTTAATAAAAAACTAATT
10832389 TTAATTTTAAT
1 TTAATTTTAAT
10832400 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAACTAATT
Found at i:10834243 original size:24 final size:24
Alignment explanation
Indices: 10834195--10834243 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10834185 AGGCCAGCTG
* *
10834195 GTGTATGGAGGTGGTGGACGTGGC
1 GTGTACGGAGGTGGTGGACGCGGC
10834219 GTGTACGGAGGT-GTGGTACGCGGC
1 GTGTACGGAGGTGGTGG-ACGCGGC
10834243 G
1 G
10834244 GTGGTGCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.12, C:0.12, G:0.53, T:0.22
Consensus pattern (24 bp):
GTGTACGGAGGTGGTGGACGCGGC
Found at i:10834804 original size:88 final size:88
Alignment explanation
Indices: 10834679--10834879 Score: 289
Period size: 88 Copynumber: 2.3 Consensus size: 88
10834669 CTTCAATCTA
* * *
10834679 CTCCACTGTAA-TCTCGGGGAGGTAAAATCTGTCATCTTCAGTCTACCCCACTGCATCTTCAGGG
1 CTCCACTGTAACT-TCAGGGAGATAAAATCTGCCATCTTCAGTCTACCCCACTGCATCTTCAGGG
* * *
10834743 GATAAGACCTATTTACTCAGTTTT
65 GATAAGACCTACTTACTCAGTCTG
* *
10834767 CTCCATTGTAACCTT-AGGGAGATAAAATCTGCCATCTTCAGTCTACCCCATTGCATCTTCAGGG
1 CTCCACTGTAA-CTTCAGGGAGATAAAATCTGCCATCTTCAGTCTACCCCACTGCATCTTCAGGG
*
10834831 GATAAGACCTGCTTACTCAGTCTG
65 GATAAGACCTACTTACTCAGTCTG
10834855 CTCCACTGTAACTTCAGGGAGATAA
1 CTCCACTGTAACTTCAGGGAGATAA
10834880 GACCTAATGC
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
87 3 0.03
88 95 0.95
89 1 0.01
90 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (88 bp):
CTCCACTGTAACTTCAGGGAGATAAAATCTGCCATCTTCAGTCTACCCCACTGCATCTTCAGGGG
ATAAGACCTACTTACTCAGTCTG
Found at i:10834853 original size:43 final size:44
Alignment explanation
Indices: 10834716--10834884 Score: 139
Period size: 43 Copynumber: 3.9 Consensus size: 44
10834706 TCTGTCATCT
**
10834716 TCAGTCTACCCCACTGCATCTTCAGGG-GATAAGACCTATTTAC
1 TCAGTCTACCCCACTGCATCTTCAGGGAGATAAGACCTGCTTAC
* * * * * * * * *
10834759 TCAGTTTTCTCCATTGTAACCTT-AGGGAGATAAAATCTGC-CATC
1 TCAGTCTACCCCACTG-CATCTTCAGGGAGATAAGACCTGCTTA-C
*
10834803 TTCAGTCTACCCCATTGCATCTTCAGGG-GATAAGACCTGCTTAC
1 -TCAGTCTACCCCACTGCATCTTCAGGGAGATAAGACCTGCTTAC
* * * *
10834847 TCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCT
1 TCAGTCTACCCCACTGCATCTTCAGGGAGATAAGACCT
10834885 AATGCAATCT
Statistics
Matches: 95, Mismatches: 24, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
43 39 0.41
44 38 0.40
45 18 0.19
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (44 bp):
TCAGTCTACCCCACTGCATCTTCAGGGAGATAAGACCTGCTTAC
Found at i:10834962 original size:44 final size:40
Alignment explanation
Indices: 10834854--10834963 Score: 105
Period size: 44 Copynumber: 2.6 Consensus size: 40
10834844 TACTCAGTCT
*
10834854 GCTCCACTGTAACTTCAGGGAGATAAGACCTAATGCAATCT
1 GCTCCACTGTAACTTCAGGGAGATAAGACCTAATG-AATCC
* ** * *
10834895 ACTTTACTGCAACTTCAGAGAGATAAGATCCATCATTATG-ATCC
1 GCTCCACTGTAACTTCAGGGAGATAAGA-CC-T-A--ATGAATCC
10834939 GCTCCACTGTAACTTCAGGGAGATA
1 GCTCCACTGTAACTTCAGGGAGATA
10834964 GGATTGGTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
41 23 0.43
42 2 0.04
43 1 0.02
44 24 0.45
46 3 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
GCTCCACTGTAACTTCAGGGAGATAAGACCTAATGAATCC
Found at i:10835057 original size:50 final size:50
Alignment explanation
Indices: 10835003--10835160 Score: 192
Period size: 50 Copynumber: 3.1 Consensus size: 50
10834993 TCGGGGAAAC
10835003 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAAGT
* * ** * * *
10835053 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG-TCGGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCT-AGGGAAGT
* * **
10835103 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTACACCGCCCGGAGAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGG-GAAGT
10835154 AAGATTC
1 AAGATTC
10835161 AACCTACTCC
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 76 0.86
51 11 0.12
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (50 bp):
AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAAGT
Found at i:10835625 original size:132 final size:132
Alignment explanation
Indices: 10835282--10835814 Score: 682
Period size: 132 Copynumber: 4.1 Consensus size: 132
10835272 AGATAAGATT
*** * *
10835282 CGCCATCTTCGATCTGCTCTGTTACTGCTTAGGGAGGTAAGTTCTGAAATCTTCAATCTATTCCA
1 CGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCA
* *
10835347 CTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCA-CATGGAGGTAAA
66 CTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA-CATCAGGGAGGT-AA
10835411 AATC
129 AATC
* * * * * *
10835415 CGCCATCTTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCCGAAATCTTCAATCCATTCCA
1 CGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCA
10835480 CTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCAT-AGGGAGGTAAA
66 CTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA-CATCAGGGAGGTAAA
10835544 ATC
130 ATC
* * * *
10835547 CGCCATCTTCGATCTACTCCGCTACTACTTATGGAGGTAAGATCTAAAATCTTCAATCTATTCCA
1 CGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCA
* * * *
10835612 CTGCTGCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACTTCAGGGAGCTAAAA
66 CTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAA
10835677 TC
131 TC
** * * ** * * * *
10835679 CGCCATCAAC-A--TGCTCCACTGCAACCGAGAGAGGTAAGGTCTGTAATCTTCAATCTATTCTA
1 CGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCA
* * *
10835741 CTGCTACCAAGGG-AGATAGAATTACCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
66 CTGCTACCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAA
10835805 ATC
130 ATC
10835808 CGCCATC
1 CGCCATC
10835815 AACCTACTCT
Statistics
Matches: 354, Mismatches: 43, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
128 2 0.01
129 104 0.29
131 3 0.01
132 129 0.36
133 116 0.33
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
CGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCA
CTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAA
TC
Found at i:10835858 original size:129 final size:128
Alignment explanation
Indices: 10835312--10835850 Score: 569
Period size: 129 Copynumber: 4.1 Consensus size: 128
10835302 GTTACTGCTT
* *
10835312 AGGGAGGTAAGTTCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCT
* * * * * * * **
10835377 TCAATGTACTCCACTGTAATCACATGGAGGTAAAAATCCGCCATCTTTGATCTGCTCCATTACTG
66 TCAATGTACTCCACTGTAACCTCAGGGAGGT-AAAATCCGCCATC---AACCTACTCCA-CACAA
*
10835442 CTT
126 CTG
* * *
10835445 AGGGAGATAAGATCCGAAATCTTCAATCCATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCT
* * * * *
10835510 TCAATGTACTCCACTGTAATCAT-AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCGCTACTA
66 TCAATGTACTCCACTGTAA-CCTCAGGGAGGTAAAATCCGCCA---TCAACCTACTCCAC-ACAA
*
10835574 CTT
126 CTG
* * * *
10835577 ATGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCTCAGGGAAGTAGAATTACTGGCT
1 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCT
* * * * * *
10835642 TCAATGTACTCCACTGTAACTTCAGGGAGCTAAAATCCGCCATCAACATGCTCCACTGCAACCG
66 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCAACCTACTCCAC-ACAACTG
* * * * * *
10835706 AGAGAGGTAAGGTCTGTAATCTTCAATCTATTCTACTGCTACCAAGGG-AGATAGAATTACCGGC
1 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGC
* *
10835770 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCAACCTACTCTACAGAAACTG
65 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCAACCTACTCCACA-CAACTG
* * *
10835835 CGGGAGGCAAGGTCTG
1 AGGGAGGTAAGATCTG
10835851 GTATCTTCGA
Statistics
Matches: 346, Mismatches: 52, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
128 2 0.01
129 133 0.38
131 2 0.01
132 121 0.35
133 86 0.25
135 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (128 bp):
AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCAACCTACTCCACACAACTG
Found at i:10838894 original size:12 final size:12
Alignment explanation
Indices: 10838877--10838903 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10838867 AGTAAGTGCC
10838877 AAAGAATATACA
1 AAAGAATATACA
10838889 AAAGAATATACA
1 AAAGAATATACA
10838901 AAA
1 AAA
10838904 AAATGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAGAATATACA
Found at i:10852794 original size:11 final size:10
Alignment explanation
Indices: 10852770--10852794 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10852760 TCTTTTTCAA
10852770 TTTTTGTTTC
1 TTTTTGTTTC
10852780 TTTTTGTTTC
1 TTTTTGTTTC
10852790 TTTTT
1 TTTTT
10852795 CTCTCGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTGTTTC
Found at i:10853794 original size:13 final size:12
Alignment explanation
Indices: 10853775--10853810 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
10853765 GAATGGAAAC
10853775 ATTTTTTTTTGA
1 ATTTTTTTTTGA
10853787 ATTTTTTTTTGA
1 ATTTTTTTTTGA
10853799 ATTTTTTTTTGA
1 ATTTTTTTTTGA
10853811 GAAAACTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (12 bp):
ATTTTTTTTTGA
Found at i:10860330 original size:12 final size:12
Alignment explanation
Indices: 10860313--10860348 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
10860303 AATGGTTTCT
10860313 TCAAAAAAAAAA
1 TCAAAAAAAAAA
*
10860325 TCAAAAAAAAAT
1 TCAAAAAAAAAA
10860337 TCAAAAAAAAAA
1 TCAAAAAAAAAA
10860349 AAATTTTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (12 bp):
TCAAAAAAAAAA
Found at i:10860419 original size:16 final size:16
Alignment explanation
Indices: 10860398--10860437 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10860388 ATCAAGTTGG
* *
10860398 GAAAAAAAAAATTTGT
1 GAAAAAAAAAAGTAGT
10860414 GAAAAAAAAAAGTAGT
1 GAAAAAAAAAAGTAGT
10860430 GAAAAAAA
1 GAAAAAAA
10860438 GAAGAAGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
GAAAAAAAAAAGTAGT
Found at i:10861533 original size:17 final size:18
Alignment explanation
Indices: 10861498--10861540 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10861488 AAAGGAGATT
*
10861498 GTGGGAAAAGAAAGAGAA
1 GTGGAAAAAGAAAGAGAA
* *
10861516 GTTGAAAAAGAAA-CGAA
1 GTGGAAAAAGAAAGAGAA
10861533 GTGGAAAA
1 GTGGAAAA
10861541 GATGAAAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.56, C:0.02, G:0.33, T:0.09
Consensus pattern (18 bp):
GTGGAAAAAGAAAGAGAA
Found at i:10864522 original size:25 final size:25
Alignment explanation
Indices: 10864477--10864525 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10864467 GAGTTCGTAT
*
10864477 CAAGAATTTTCTTTGGGGTTTTCTC
1 CAAGAATTTTCTTTGGAGTTTTCTC
10864502 CAAGAATTTTCTCTT-GAGTTTTCT
1 CAAGAATTTTCT-TTGGAGTTTTCT
10864526 TTAGAAGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (25 bp):
CAAGAATTTTCTTTGGAGTTTTCTC
Found at i:10870831 original size:51 final size:50
Alignment explanation
Indices: 10870706--10870831 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
10870696 ATGAACAAAT
* * * * *
10870706 GAGTTACTTAATGAATGACTTAATATATGATGCAATCTTAACTATCATGA
1 GAGTTACATAATGCATGACTTTATTTATGATGCAAACTTAACTATCATGA
* * *
10870756 GAGTTACATAATGCATGTCATTATTTATGATGCAAACTTAACTAATTATGA
1 GAGTTACATAATGCATGACTTTATTTATGATGCAAACTTAACT-ATCATGA
*
10870807 GGGTTACATAATGCATGACTTTATT
1 GAGTTACATAATGCATGACTTTATT
10870832 AAATGTAGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 36 0.56
51 28 0.44
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTTATTTATGATGCAAACTTAACTATCATGA
Found at i:10876106 original size:11 final size:11
Alignment explanation
Indices: 10876087--10876133 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
10876077 ATATTACAGT
*
10876087 ATTGTAAAAAA
1 ATTGAAAAAAA
10876098 ATTGAAAAAAA
1 ATTGAAAAAAA
10876109 ATTTGGAAAAAAA
1 A-TT-GAAAAAAA
*
10876122 ATTCAAAAAAA
1 ATTGAAAAAAA
10876133 A
1 A
10876134 AAAGTTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 19 0.59
12 4 0.12
13 9 0.28
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (11 bp):
ATTGAAAAAAA
Found at i:10876109 original size:12 final size:12
Alignment explanation
Indices: 10876092--10876134 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
10876082 ACAGTATTGT
10876092 AAAAAAATTGAA
1 AAAAAAATTGAA
* *
10876104 AAAAAATTTGGA
1 AAAAAAATTGAA
*
10876116 AAAAAAATTCAA
1 AAAAAAATTGAA
10876128 AAAAAAA
1 AAAAAAA
10876135 AAGTTTGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:10878610 original size:24 final size:24
Alignment explanation
Indices: 10878583--10878629 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
10878573 CGAAACATCA
10878583 TGTGAAAAAGAAAAAGAAAAAGAG
1 TGTGAAAAAGAAAAAGAAAAAGAG
*** *
10878607 TGTGAGCGAGAAAATGAAAAAGA
1 TGTGAAAAAGAAAAAGAAAAAGA
10878630 AGAAGAAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.28, T:0.11
Consensus pattern (24 bp):
TGTGAAAAAGAAAAAGAAAAAGAG
Found at i:10878636 original size:18 final size:19
Alignment explanation
Indices: 10878615--10878653 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10878605 AGTGTGAGCG
*
10878615 AGAAAATGAAA-AAGAAGA
1 AGAAAATGAAAGAAAAAGA
10878633 AG-AAATGAAAGAAAAAGA
1 AGAAAATGAAAGAAAAAGA
10878651 AGA
1 AGA
10878654 TGAGTGTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (19 bp):
AGAAAATGAAAGAAAAAGA
Found at i:10892592 original size:19 final size:18
Alignment explanation
Indices: 10892556--10892595 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10892546 TTTCCACTCG
*
10892556 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
10892574 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
10892593 TTT
1 TTT
10892596 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:10899814 original size:13 final size:12
Alignment explanation
Indices: 10899783--10899837 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
10899773 ATGTGAACAG
*
10899783 AAAAGAAATTGA
1 AAAAGAAGTTGA
10899795 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
10899807 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
10899819 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
10899831 AAAAGAA
1 AAAAGAA
10899838 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:10902504 original size:30 final size:30
Alignment explanation
Indices: 10902470--10902566 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
10902460 TAAACTAAAA
10902470 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
10902500 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
10902530 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
10902559 ATGAGCTA
1 -TGAGCTA
10902567 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:10904717 original size:12 final size:12
Alignment explanation
Indices: 10904702--10904732 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
10904692 TTCTTTTTGC
10904702 TTTTCAAAGGCT
1 TTTTCAAAGGCT
10904714 TTTTCAAAGGCT
1 TTTTCAAAGGCT
10904726 TTTTCAA
1 TTTTCAA
10904733 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:10904842 original size:23 final size:24
Alignment explanation
Indices: 10904801--10904848 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
10904791 TTTCATTTTC
*
10904801 TTTTTCTTCTCTTGCTTTT-TCTT
1 TTTTTCTTCTCTTGATTTTCTCTT
* *
10904824 TTTTTCTTTTCTTTATTTTCTCTT
1 TTTTTCTTCTCTTGATTTTCTCTT
10904848 T
1 T
10904849 ACAAGAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTCTTCTCTTGATTTTCTCTT
Found at i:10904845 original size:34 final size:37
Alignment explanation
Indices: 10904780--10904847 Score: 99
Period size: 34 Copynumber: 1.9 Consensus size: 37
10904770 CTTGCCTCTC
10904780 TTTTCTTTTTATTTCATTTTCTTTTTCTTCTCTTGCT
1 TTTTCTTTTTATTTCATTTTCTTTTTCTTCTCTTGCT
10904817 TTTTC-TTTT-TTTC-TTTTCTTTATT-TTCTCTT
1 TTTTCTTTTTATTTCATTTTCTTT-TTCTTCTCTT
10904848 TACAAGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 15 0.50
35 6 0.20
36 4 0.13
37 5 0.17
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTATTTCATTTTCTTTTTCTTCTCTTGCT
Found at i:10905739 original size:20 final size:20
Alignment explanation
Indices: 10905686--10905740 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
10905676 TTTTCACTCC
**
10905686 TTTTTTT-ATATACTTCGAT
1 TTTTTTTAATATTTTTCGAT
*
10905705 TTTTTTTAATTTTTTTCGATT
1 TTTTTTTAATATTTTTCGA-T
10905726 TTTTTTTAA-ATTTTT
1 TTTTTTTAATATTTTT
10905741 TTTCGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 7 0.23
20 13 0.43
21 10 0.33
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTTTTAATATTTTTCGAT
Found at i:10908855 original size:13 final size:14
Alignment explanation
Indices: 10908837--10908872 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
10908827 AGCTCTCTTG
10908837 TTTTTCACAA-TTT
1 TTTTTCACAATTTT
10908850 TTTTTCA-AATTTT
1 TTTTTCACAATTTT
10908863 TTTTTCACAA
1 TTTTTCACAA
10908873 CTTGATATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.10
13 17 0.81
14 2 0.10
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTCACAATTTT
Found at i:10908931 original size:11 final size:11
Alignment explanation
Indices: 10908915--10908957 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
10908905 CCAAAAAAAT
10908915 TTTTTTTTGAA
1 TTTTTTTTGAA
10908926 TTTTTTTTGAA
1 TTTTTTTTGAA
*
10908937 TTTCTTTTTCGAG
1 TTT-TTTTT-GAA
10908950 TTTTTTTT
1 TTTTTTTT
10908958 CGAGAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 14 0.48
12 10 0.34
13 5 0.17
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:10908961 original size:12 final size:12
Alignment explanation
Indices: 10908912--10908960 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
10908902 AAACCAAAAA
*
10908912 AATTTTTTTTTG
1 AATTTTTTTTCG
10908924 AATTTTTTTT-G
1 AATTTTTTTTCG
10908935 AATTTCTTTTTCG
1 AATTT-TTTTTCG
*
10908948 AGTTTTTTTTCG
1 AATTTTTTTTCG
10908960 A
1 A
10908961 GAAACTACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.18
12 23 0.68
13 5 0.15
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.67
Consensus pattern (12 bp):
AATTTTTTTTCG
Found at i:10912695 original size:132 final size:133
Alignment explanation
Indices: 10912392--10912923 Score: 611
Period size: 132 Copynumber: 4.1 Consensus size: 133
10912382 AGAGTAGGTT
* *
10912392 GATGGCGGATTTTACCTCCCTGA-GGTTACAGTGGAGTACATTGAAGCCGGTAATTCTA-TCTCC
1 GATGGCGGATTTTACCTCCCTGATGATTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCC
* * * * * * ** ** * **
10912455 CTTG-GTATCAGTAGAATAGA-TGAAGATTACAGACCTTACCTCTCTCGGTTGCAGTGGAGC--A
65 C-TGAGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTACCTCCCTAAGCAGTAACGGAGCAGA
**
10912516 T-GTT
129 TCGAA
* *
10912520 GATGGCGGATTTTAGCTCCCTGAAG-TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
1 GATGGCGGATTTTACCTCCCTGATGATTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
* * * *
10912584 TGAGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTACCTCCCTAAGTAGTAGCGGAGTAGATC
66 TGAGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTACCTCCCTAAGCAGTAACGGAGCAGATC
10912649 GAA
131 GAA
*
10912652 GATGGCGGATTTTACCTCCCT-ATGATTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCT
1 GATGGCGGATTTTACCTCCCTGATGATTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
* * * * * *
10912716 TGGGTAGCAGTGCAATAGATTGAAGATTTCGGATCTTATCTCCCTAAGCAGTAATGGAGCAGATC
66 TGAGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTACCTCCCTAAGCAGTAACGGAGCAGATC
*
10912781 AAA
131 GAA
* *
10912784 GATGACGGATTTTTACCTCCATG-TGATTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCC
1 GATGGCGGA-TTTTACCTCCCTGATGATTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCC
* *
10912848 CT-AGGCAGCAGTGGAATAGATTGAAGATTTCAG-TACTTATCTCCCTAAGCAGTAACGGAGCAA
65 CTGA-GCAGCAGTGGAATAGATTGAAGATTTCAGAT-CTTACCTCCCTAAGCAGTAACGGAGCAG
10912911 ATCGAA
128 ATCGAA
*
10912917 GACGGCG
1 GATGGCG
10912924 AATCTTATCT
Statistics
Matches: 349, Mismatches: 43, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
127 2 0.01
128 71 0.20
129 32 0.09
131 4 0.01
132 125 0.36
133 115 0.33
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (133 bp):
GATGGCGGATTTTACCTCCCTGATGATTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
TGAGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTACCTCCCTAAGCAGTAACGGAGCAGATC
GAA
Found at i:10912871 original size:265 final size:260
Alignment explanation
Indices: 10912392--10912923 Score: 664
Period size: 265 Copynumber: 2.0 Consensus size: 260
10912382 AGAGTAGGTT
* *
10912392 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCGGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * ** ** * *
10912457 TGGTATCAGTAGAATAGATGAAGATTACAGACCTTACCTCTCTCGGTTGCAGTGGAGCATGTTGA
66 TGGTAGCAGTAGAATAGATGAAGATTACAGACCTTACCTCCCTAAGCAGCAATGGAGCATGTAGA
* * *
10912522 TGGCGGATTTTAGCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGA
131 TGACGGATTTTACCTCCATGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGA
* * * * *
10912587 GCAGCAGTGGAATAGATTGAAGATTTTAG-ATCTTACCTCCCTAAGTAGTAGCGGAGTAGATCGA
196 GCAGCAGTGGAATAGATTGAAGATTTCAGTA-CTTACCTCCCTAAGCAGTAACGGAGCAAATCGA
10912651 A
260 A
*
10912652 GATGGCGGATTTTACCTCCCT-ATGATTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCC
1 GATGGCGGATTTTACCTCCCTGA-GATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
* * * * *
10912715 TTGGGTAGCAGT-GCAATAGATTGAAGATTTCGGATCTTATCTCCCTAAGCAGTAATGGAGCA-G
65 TT-GGTAGCAGTAG-AATAGA-TGAAGATTACAGACCTTACCTCCCTAAGCAGCAATGGAGCATG
*
10912778 ATCAAAGATGACGGATTTTTACCTCCATG-TGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
127 -T---AGATGACGGA-TTTTACCTCCATGAAG-TTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
10912842 ACTTCCCT-AGGCAGCAGTGGAATAGATTGAAGATTTCAGTACTTATCTCCCTAAGCAGTAACGG
186 ACTTCCCTGA-GCAGCAGTGGAATAGATTGAAGATTTCAGTACTTACCTCCCTAAGCAGTAACGG
10912906 AGCAAATCGAA
250 AGCAAATCGAA
*
10912917 GACGGCG
1 GATGGCG
10912924 AATCTTATCT
Statistics
Matches: 233, Mismatches: 27, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
259 8 0.03
260 69 0.30
261 31 0.13
264 10 0.04
265 114 0.49
266 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (260 bp):
GATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
TGGTAGCAGTAGAATAGATGAAGATTACAGACCTTACCTCCCTAAGCAGCAATGGAGCATGTAGA
TGACGGATTTTACCTCCATGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGA
GCAGCAGTGGAATAGATTGAAGATTTCAGTACTTACCTCCCTAAGCAGTAACGGAGCAAATCGAA
Found at i:10913228 original size:50 final size:50
Alignment explanation
Indices: 10913074--10913229 Score: 213
Period size: 50 Copynumber: 3.1 Consensus size: 50
10913064 GGTGTAGTGG
*
10913074 AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTA
1 AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTCA
* * * * * **
10913124 AAAAGATTAAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGG
1 AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTCA
** *
10913174 AACAGATTAAAGCCACAACGACGAATCTTGTTTCCCCGACATTGCAGTCA
1 AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTCA
10913224 AACAGA
1 AACAGA
10913230 AAAAACCAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (50 bp):
AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTCA
Found at i:10913435 original size:88 final size:88
Alignment explanation
Indices: 10913322--10913506 Score: 259
Period size: 88 Copynumber: 2.1 Consensus size: 88
10913312 TTGCATTGTC
* *
10913322 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAGTAAGCAGGTCTTAT-CCCTGAAGATGCAAGT
1 TTATCTCCCTGAAGTTACAATGGAGCAGACTGAGTAAACAGGTCTTATCCCCTGAAGATGC-AGT
* *
10913386 GGGGTAGATTGAAGATG-GAGATT
65 GGGGTAGACTGAAGATGACAGATT
* *
10913409 TTATCTCTCCT-AAGGTTACAATGGAGCAGACTGAGTAAATAGGTTTTATCCCCTGAAGATGCAG
1 TTATCTC-CCTGAA-GTTACAATGGAGCAGACTGAGTAAACAGGTCTTATCCCCTGAAGATGCAG
10913473 TGGGGTAGACTGAAGATGACAGATT
64 TGGGGTAGACTGAAGATGACAGATT
*
10913498 TTACCTCCC
1 TTATCTCCC
10913507 CGAGATTACA
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
87 9 0.10
88 55 0.63
89 23 0.26
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (88 bp):
TTATCTCCCTGAAGTTACAATGGAGCAGACTGAGTAAACAGGTCTTATCCCCTGAAGATGCAGTG
GGGTAGACTGAAGATGACAGATT
Found at i:10913485 original size:43 final size:44
Alignment explanation
Indices: 10913322--10913485 Score: 106
Period size: 43 Copynumber: 3.8 Consensus size: 44
10913312 TTGCATTGTC
* ** *
10913322 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAGTAAGCAGGTC
1 TTATCTCCCTGAAGATACAGTGGAGCAGACTGAGTAAATAGGTT
* * * * * *
10913366 TTA--TCCCTGAAGATGCAAGTGGGGTAGATTGA--AGATGGAGATT
1 TTATCTCCCTGAAGATAC-AGTGGAGCAGACTGAGTAAAT--AGGTT
* *
10913409 TTATCTCTCCT-AAGGTTACAATGGAGCAGACTGAGTAAATAGGTT
1 TTATCTC-CCTGAA-GATACAGTGGAGCAGACTGAGTAAATAGGTT
* * *
10913454 TTATC-CCCTGAAGATGCAGTGGGGTAGACTGA
1 TTATCTCCCTGAAGATACAGTGGAGCAGACTGA
10913486 AGATGACAGA
Statistics
Matches: 87, Mismatches: 23, Indels: 21
0.66 0.18 0.16
Matches are distributed among these distances:
41 1 0.01
42 11 0.13
43 36 0.41
44 6 0.07
45 24 0.28
46 6 0.07
47 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (44 bp):
TTATCTCCCTGAAGATACAGTGGAGCAGACTGAGTAAATAGGTT
Found at i:10917289 original size:13 final size:13
Alignment explanation
Indices: 10917271--10917295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10917261 AATAAAAACG
10917271 AAAATAAAATAAT
1 AAAATAAAATAAT
10917284 AAAATAAAATAA
1 AAAATAAAATAA
10917296 AAATACAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:10917399 original size:23 final size:22
Alignment explanation
Indices: 10917361--10917407 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
10917351 ATGAGATCGG
*
10917361 GGACGTGCGCGTACGGAGGCGC
1 GGACGTGCACGTACGGAGGCGC
*
10917383 GGACGTGGCACGTACGGAGGTGC
1 GGACGT-GCACGTACGGAGGCGC
10917406 GG
1 GG
10917408 TGCTGGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.15, C:0.23, G:0.51, T:0.11
Consensus pattern (22 bp):
GGACGTGCACGTACGGAGGCGC
Found at i:10917721 original size:22 final size:22
Alignment explanation
Indices: 10917687--10917732 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10917677 ACTGATGGAC
10917687 TTTTAATAATTTTTGTT-TTTAT
1 TTTTAATAATTTTT-TTGTTTAT
* *
10917709 TTTTTATATTTTTTTTGTTTAT
1 TTTTAATAATTTTTTTGTTTAT
10917731 TT
1 TT
10917733 ATTTTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTAATAATTTTTTTGTTTAT
Found at i:10920843 original size:21 final size:21
Alignment explanation
Indices: 10920805--10920844 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10920795 TTAAAAATCA
**
10920805 ATTTAATTTCTTTAAATTATT
1 ATTTAATTGATTTAAATTATT
*
10920826 ATTTAATTGATTTTAATTA
1 ATTTAATTGATTTAAATTA
10920845 AATAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTAATTGATTTAAATTATT
Found at i:10920999 original size:16 final size:17
Alignment explanation
Indices: 10920980--10921011 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10920970 AAATGAGTTA
10920980 GAAAA-TAATTTAATTG
1 GAAAATTAATTTAATTG
10920996 GAAAATTAATTTAATT
1 GAAAATTAATTTAATT
10921012 AATATTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
GAAAATTAATTTAATTG
Found at i:10922754 original size:47 final size:47
Alignment explanation
Indices: 10922701--10922796 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
10922691 GCAAAATCTC
*
10922701 GTCTTTTACTTTCTGTTTGGCATGATTGGCTTGATCAGCTCTTACGA
1 GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
10922748 GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
1 GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
10922795 GT
1 GT
10922797 TTCTGTTTAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (47 bp):
GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
Found at i:10922823 original size:21 final size:21
Alignment explanation
Indices: 10922782--10922837 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
10922772 ATTGGCTAGA
* *
10922782 TCAGCTCTTACGAGTTTCTGT
1 TCAGCTCTTACGAGCTCCTGT
* *
10922803 TTAGCTCTTATGAGCTCCTGT
1 TCAGCTCTTACGAGCTCCTGT
10922824 TCAGCT-TT-CGAGCT
1 TCAGCTCTTACGAGCT
10922838 TCTATTGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 5 0.17
20 2 0.07
21 22 0.76
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTCCTGT
Found at i:10929553 original size:43 final size:42
Alignment explanation
Indices: 10929490--10929646 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 42
10929480 CCCTATGCCT
*
10929490 AGATGGTAAGCAAATATTATACGAATAAAACAAATATTCCTTA
1 AGATGGTAAACAAATATTATACGAATAAAA-AAATATTCCTTA
* * *
10929533 ACATGGTAAATAAATATTATACGAGTAAAAAAA-ATTCCTTA
1 AGATGGTAAACAAATATTATACGAATAAAAAAATATTCCTTA
* * * *
10929574 AGATGGTAGACAAATATTATATGAGTACAAAAAAAAATATTTCTTA
1 AGATGGTAAACAAATATTATA--CG-A-ATAAAAAAATATTCCTTA
* *
10929620 AGATGCTAGACAAATATTATACGAATA
1 AGATGGTAAACAAATATTATACGAATA
10929647 TTATACCAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 26 0.27
42 5 0.05
43 28 0.29
44 2 0.02
45 7 0.07
46 27 0.28
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (42 bp):
AGATGGTAAACAAATATTATACGAATAAAAAAATATTCCTTA
Found at i:10929621 original size:46 final size:43
Alignment explanation
Indices: 10929490--10929643 Score: 179
Period size: 41 Copynumber: 3.6 Consensus size: 43
10929480 CCCTATGCCT
* *
10929490 AGATGGTA-AGCAAATATTATACGAATAAAACAAATATTCCTTA
1 AGATGGTAGA-CAAATATTATACGAGTAAAAAAAATATTCCTTA
* * *
10929533 ACATGGTAAATAAATATTATACGAGT-AAAAAAA-ATTCCTTA
1 AGATGGTAGACAAATATTATACGAGTAAAAAAAATATTCCTTA
* *
10929574 AGATGGTAGACAAATATTATATGAGTACAAAAAAAAATATTTCTTA
1 AGATGGTAGACAAATATTATACGAGT---AAAAAAAATATTCCTTA
*
10929620 AGATGCTAGACAAATATTATACGA
1 AGATGGTAGACAAATATTATACGA
10929644 ATATTATACC
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 30 0.32
42 6 0.06
43 21 0.22
44 1 0.01
45 7 0.07
46 29 0.31
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (43 bp):
AGATGGTAGACAAATATTATACGAGTAAAAAAAATATTCCTTA
Found at i:10929709 original size:21 final size:21
Alignment explanation
Indices: 10929683--10929723 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10929673 ATCTACTAAT
10929683 AAACAAATATTATACAAATAG
1 AAACAAATATTATACAAATAG
* *
10929704 AAACAAATATTTTACGAATA
1 AAACAAATATTATACAAATA
10929724 CTAAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (21 bp):
AAACAAATATTATACAAATAG
Found at i:10930409 original size:12 final size:12
Alignment explanation
Indices: 10930392--10930461 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
10930382 TGTTCATTTA
*
10930392 TTCATCAAGTCT
1 TTCATCAAGTTT
10930404 TTCATCAAGTGTTT
1 TTCATCAA--GTTT
10930418 TTCATCAAGTTT
1 TTCATCAAGTTT
* *
10930430 TTAAGCAAG-TT
1 TTCATCAAGTTT
*
10930441 TCCATCAAGTTT
1 TTCATCAAGTTT
*
10930453 TTAATCAAG
1 TTCATCAAG
10930462 CTTTCATCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
11 8 0.17
12 28 0.60
14 11 0.23
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (12 bp):
TTCATCAAGTTT
Found at i:10930422 original size:14 final size:13
Alignment explanation
Indices: 10930392--10930431 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
10930382 TGTTCATTTA
*
10930392 TTCATCAAG-TCT
1 TTCATCAAGTTTT
10930404 TTCATCAAGTGTTT
1 TTCATCAAGT-TTT
10930418 TTCATCAAGTTTT
1 TTCATCAAGTTTT
10930431 T
1 T
10930432 AAGCAAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 9 0.36
13 4 0.16
14 12 0.48
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (13 bp):
TTCATCAAGTTTT
Found at i:10930438 original size:26 final size:24
Alignment explanation
Indices: 10930392--10930469 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 24
10930382 TGTTCATTTA
* *
10930392 TTCATCAAGTCTTTCATCAAGTGTTT
1 TTCATCAAGTTTTTAATCAAG-G-TT
*
10930418 TTCATCAAGTTTTTAAGCAA-GTT
1 TTCATCAAGTTTTTAATCAAGGTT
* *
10930441 TCCATCAAGTTTTTAATCAA-GCT
1 TTCATCAAGTTTTTAATCAAGGTT
10930464 TTCATC
1 TTCATC
10930470 TTTTGAGTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 27 0.60
24 1 0.02
26 17 0.38
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (24 bp):
TTCATCAAGTTTTTAATCAAGGTT
Found at i:10933507 original size:31 final size:31
Alignment explanation
Indices: 10933370--10933831 Score: 332
Period size: 31 Copynumber: 15.1 Consensus size: 31
10933360 ATATATTGTC
* * * *
10933370 AAATTCGAAGTGTTTATAGTTATACATTGTCG
1 AAATT-GAATTGTATATGGTTATACATTGCCG
* * *
10933402 AAATTGATTTGCATATGGATATA-AGTTGCCG
1 AAATTGAATTGTATATGGTTATACA-TTGCCG
* * * *
10933433 -AATTGATTTGTATATGATTGTACATTTGCTG
1 AAATTGAATTGTATATGGTTATACA-TTGCCG
**
10933464 AAATT-AATTTGTATATGGTTATACATTGTTG
1 AAATTGAA-TTGTATATGGTTATACATTGCCG
*
10933495 AAATTGAATTGTATATGGATATA-AGTTGCCG
1 AAATTGAATTGTATATGGTTATACA-TTGCCG
* * *
10933526 -AATT-AATTTGTATATGATTATATATTGCTG
1 AAATTGAA-TTGTATATGGTTATACATTGCCG
* **
10933556 AAATT-AATTTGTACATGGTTATACATTGTTG
1 AAATTGAA-TTGTATATGGTTATACATTGCCG
* *
10933587 AAATTGAATTGTATATGGATATA-AGTTTCCG
1 AAATTGAATTGTATATGGTTATACA-TTGCCG
* * * *
10933618 -AATTGATTTGTATATGATTATATATTGCTG
1 AAATTGAATTGTATATGGTTATACATTGCCG
* **
10933648 AAATT-AATTTGTACATGGTTATACATTGTTG
1 AAATTGAA-TTGTATATGGTTATACATTGCCG
*
10933679 AAATTGAATTG--TATGGATATA-AGTTGCCG
1 AAATTGAATTGTATATGGTTATACA-TTGCCG
* *
10933708 -AATTG-ATTCATATATGATTATACATTGCCG
1 AAATTGAATT-GTATATGGTTATACATTGCCG
* *
10933738 -AATTTAATTTGTATATGATTATACATTGCC-
1 AAATTGAA-TTGTATATGGTTATACATTGCCG
10933768 AAACTTG-ATTCGTATATGGTTATACATTGCCG
1 AAA-TTGAATT-GTATATGGTTATACATTGCCG
* * *
10933800 -AATTGATTTGTATATAGATATACATTGCCG
1 AAATTGAATTGTATATGGTTATACATTGCCG
10933830 AA
1 AA
10933832 TTTGGTTCGT
Statistics
Matches: 346, Mismatches: 56, Indels: 57
0.75 0.12 0.12
Matches are distributed among these distances:
27 3 0.01
28 6 0.02
29 14 0.04
30 109 0.32
31 180 0.52
32 34 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (31 bp):
AAATTGAATTGTATATGGTTATACATTGCCG
Found at i:10933841 original size:61 final size:60
Alignment explanation
Indices: 10933390--10933846 Score: 381
Period size: 61 Copynumber: 7.5 Consensus size: 60
10933380 TGTTTATAGT
* * *
10933390 TATACATTGTCGAAATTGATTTGCATATGGATATA-AGTTGCCGAATTGATTTGTATATGA
1 TATACATTGCCGAAATTGATTTGTATATGGTTATACA-TTGCCGAATTGATTTGTATATGA
* * * ** *
10933450 TTGTACATTTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
1 -TATACA-TTGCCGAAATTGATTTGTATATGGTTATACATTGCCG-AATTGATTTGTATAT-GA
* * * * * * *
10933514 TATA-AGTTGCCG-AATTAATTTGTATATGATTATATATTGCTGAAATTAATTTGTACATGGT
1 TATACA-TTGCCGAAATTGATTTGTATATGGTTATACATTGCCG-AATTGATTTGTATAT-GA
** * * *
10933575 TATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTTCCGAATTGATTTGTATATGA
1 TATACATTGCCGAAATTGATTTGTATATGGTTATACA-TTGCCGAATTGATTTGTATATGA
* * * * ** * *
10933635 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTAT-GGA
1 -TATACATTGCCGAAATTGATTTGTATATGGTTATACATTGCCG-AATTGATTTGTATATGA
** * *
10933696 TATA-AGTTGCCG-AATTGATTCATATATGATTATACATTGCCGAATTTAATTTGTATATGA
1 TATACA-TTGCCGAAATTGATTTGTATATGGTTATACATTGCCGAA-TTGATTTGTATATGA
*
10933756 TTATACATTGCC-AAACTTGATTCGTATATGGTTATACATTGCCGAATTGATTTGTATATAGA
1 -TATACATTGCCGAAA-TTGATTTGTATATGGTTATACATTGCCGAATTGATTTGTATAT-GA
* * *
10933818 TATACATTGCCGAATTTGGTTCGTATATG
1 TATACATTGCCGAAATTGATTTGTATATG
10933847 AATATAAATA
Statistics
Matches: 320, Mismatches: 57, Indels: 38
0.77 0.14 0.09
Matches are distributed among these distances:
58 2 0.01
59 33 0.10
60 12 0.04
61 150 0.47
62 103 0.32
63 18 0.06
64 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.43
Consensus pattern (60 bp):
TATACATTGCCGAAATTGATTTGTATATGGTTATACATTGCCGAATTGATTTGTATATGA
Found at i:10933847 original size:92 final size:92
Alignment explanation
Indices: 10933388--10933827 Score: 631
Period size: 92 Copynumber: 4.8 Consensus size: 92
10933378 AGTGTTTATA
* * * *
10933388 GTTATACATTGTCGAAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGTATATGATTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
10933453 TACATTTGCTGAAATTAATTTGTATATG
66 TACA-TTGCTGAAATTAATTTGTATATG
*
10933481 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTAATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* *
10933546 TATATTGCTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTATATG
*
10933573 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTTCCGAATTGATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* *
10933638 TATATTGCTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTATATG
**
10933665 GTTATACATTGTTGAAATTGAATTG--TATGGATATAAGTTGCCGAATTGATTCATATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* *
10933728 TACATTGCCGAATTTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
* ** *
10933755 ATTATACATTG-CCAAACTTG-ATTCGTATATGGTTATACA-TTGCCGAATTGATTTGTATATAG
1 GTTATACATTGTTGAAA-TTGAATT-GTATATGGATATA-AGTTGCCGAATTGATTTGTATAT-G
10933817 A-TATACATTGC
62 ATTATACATTGC
10933828 CGAATTTGGT
Statistics
Matches: 319, Mismatches: 22, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
89 6 0.02
90 72 0.23
92 175 0.55
93 66 0.21
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (92 bp):
GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
TACATTGCTGAAATTAATTTGTATATG
Found at i:10934107 original size:41 final size:41
Alignment explanation
Indices: 10933993--10934115 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 41
10933983 GAGGTGTGAT
* *
10933993 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTAAGAAA
1 TTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-A-TATG-AA
* *
10934037 AT-GTGTAAG-CCCATGTCTAGGACATTGGCATCGTATATG-A
1 TTCGTGTAAGACCC-TGTCTGGGACATTGGCATCG-ATATGAA
* *
10934077 TTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 TTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATATG
10934116 CGTTAACATG
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
40 7 0.10
41 24 0.36
42 8 0.12
43 27 0.40
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (41 bp):
TTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATATGAA
Found at i:10937087 original size:69 final size:69
Alignment explanation
Indices: 10937004--10937138 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
10936994 AGTTGTTTGT
10937004 GCCAGTCTCTATTTTTCTACTTGTGGAAGTTGACAACGATGTGCTGGATGCAATAGACAGACTTG
1 GCCAGTCTCTATTTTTCTACTTGTGGAAGTTGACAACGATGTGCTGGATGCAATAGACAGACTTG
10937069 TTGC
66 TTGC
* * *
10937073 GCCAGTCTTTATTTTTCTTCTTGTGGAAGTTGACAACGATGTGCTGGATGCAATAGTCAGACTTG
1 GCCAGTCTCTATTTTTCTACTTGTGGAAGTTGACAACGATGTGCTGGATGCAATAGACAGACTTG
10937138 T
66 T
10937139 ATGGAGCCCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (69 bp):
GCCAGTCTCTATTTTTCTACTTGTGGAAGTTGACAACGATGTGCTGGATGCAATAGACAGACTTG
TTGC
Found at i:10940660 original size:48 final size:48
Alignment explanation
Indices: 10940593--10940691 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 48
10940583 TATTTCTCTC
* *
10940593 TTTATTTCTTCTCCGATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
1 TTTATTTCATCTCCCATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
* *
10940641 TTTATTTCATCTCCCATTCGTCTCTTTTTTCTGTCATTTTTCATTTAT
1 TTTATTTCATCTCCCATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
10940689 TTT
1 TTT
10940692 TCCCCCTTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.11, C:0.23, G:0.04, T:0.62
Consensus pattern (48 bp):
TTTATTTCATCTCCCATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
Found at i:10945953 original size:22 final size:20
Alignment explanation
Indices: 10945928--10945985 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
10945918 TATTTTAGGG
10945928 TTTGATTTTTTTCTTATATATA
1 TTTGATTTTTTT-TTATAT-TA
*
10945950 TTTG-TATTTTTTTATATTA
1 TTTGATTTTTTTTTATATTA
*
10945969 TTTCGAGTTTTTTTTAT
1 TTT-GATTTTTTTTTAT
10945986 TTTTAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 5 0.16
20 7 0.23
21 15 0.48
22 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTGATTTTTTTTTATATTA
Found at i:10948389 original size:14 final size:15
Alignment explanation
Indices: 10948367--10948443 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
10948357 CAATCAAACA
10948367 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
10948381 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
10948396 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
10948416 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
10948430 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
10948444 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:10948408 original size:20 final size:20
Alignment explanation
Indices: 10948383--10948422 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10948373 AATATTTTCC
*
10948383 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
10948403 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
10948423 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:10948428 original size:34 final size:35
Alignment explanation
Indices: 10948371--10948437 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
10948361 CAAACACCAG
*
10948371 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
10948406 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
10948438 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10950153 original size:22 final size:22
Alignment explanation
Indices: 10950115--10950158 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10950105 TAAGTTAGTG
* *
10950115 GAAAAAGAATCAATATATTATT
1 GAAAAAGAATAAATATAATATT
10950137 GAAAAA-AATAAAGTATAATATT
1 GAAAAAGAATAAA-TATAATATT
10950159 AAATTTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
GAAAAAGAATAAATATAATATT
Found at i:10950389 original size:18 final size:18
Alignment explanation
Indices: 10950361--10950403 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
10950351 TGTCTTCAAC
*
10950361 AAATAATTCAAAAATTATA
1 AAAT-ATTCAAAAAATATA
10950380 AAATATTCAAAAAATATA
1 AAATATTCAAAAAATATA
10950398 AAATAT
1 AAATAT
10950404 AAAAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATTCAAAAAATATA
Found at i:10950408 original size:26 final size:27
Alignment explanation
Indices: 10950371--10950421 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
10950361 AAATAATTCA
*
10950371 AAAATTATAAAATATTCAA-AAAATAT
1 AAAATTATAAAAAATTCAAGAAAATAT
10950397 AAAA-TATAAAAAAATTCAAGAAAAT
1 AAAATTAT-AAAAAATTCAAGAAAAT
10950422 TAGCAAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 14 0.64
27 5 0.23
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAATTATAAAAAATTCAAGAAAATAT
Found at i:10950409 original size:18 final size:18
Alignment explanation
Indices: 10950370--10950410 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10950360 CAAATAATTC
* **
10950370 AAAAATTATAAAATATTC
1 AAAAAATATAAAATATAA
10950388 AAAAAATATAAAATATAA
1 AAAAAATATAAAATATAA
10950406 AAAAA
1 AAAAA
10950411 TTCAAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAATATAAAATATAA
Found at i:10952935 original size:20 final size:20
Alignment explanation
Indices: 10952912--10952949 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10952902 AATACATCAA
10952912 AATA-ATAAAATTTACAAACC
1 AATACATAAAA-TTACAAACC
*
10952932 AATACCTAAAATTACAAA
1 AATACATAAAATTACAAA
10952950 GTCAAAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AATACATAAAATTACAAACC
Found at i:10957152 original size:9 final size:9
Alignment explanation
Indices: 10957138--10957164 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10957128 GTTTCCCACC
10957138 TTAGGGTTT
1 TTAGGGTTT
10957147 TTAGGGTTT
1 TTAGGGTTT
10957156 TTAGGGTTT
1 TTAGGGTTT
10957165 ATGAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.33, T:0.56
Consensus pattern (9 bp):
TTAGGGTTT
Found at i:10957542 original size:126 final size:126
Alignment explanation
Indices: 10957289--10957856 Score: 716
Period size: 126 Copynumber: 4.5 Consensus size: 126
10957279 GATAAAATCA
* * * * * * * * *
10957289 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTTGCGCCCACGTGTACATACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
* * * *
10957354 AGGT-CTTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTTTAAAAAATGCTTC
66 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
10957414 AAGCAGGATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGGACGTGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
* * * * * *
10957479 TGGTCCTGGAAGAAATAATTTCGAGTTGACTTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
10957540 AAGTAGGATGCTTTAT-AAAAGGAATTTGTGAAGTCGCGCCCACGTGGACGTGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAA-GAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAG
* * *
10957604 TAGGTCCT-GAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
65 TAGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * **
10957666 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAG
* * * *
10957730 TAAGTCCTGG-AAAAATAATTTCGACTTGACGTTTCTGAGTAAATAGTAT-AAAATCACTTC
65 TAGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
10957790 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
10957855 AG
66 AG
10957857 CATGTTTAGG
Statistics
Matches: 381, Mismatches: 55, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
123 2 0.01
124 62 0.16
125 102 0.27
126 209 0.55
127 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:10957776 original size:251 final size:251
Alignment explanation
Indices: 10957289--10957856 Score: 777
Period size: 251 Copynumber: 2.3 Consensus size: 251
10957279 GATAAAATCA
* * * * *
10957289 AAGCAGGATGATTTATCAGAAGG-ATTTTTGAAGTTGCGCCCACGTGTACATACTTTTGCTACAG
1 AAGCAGGATGCTTTATCAGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAG
* * * *
10957353 TAGGTCTTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTTTAAAAAATGCTTCAAGC
66 TAGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTGCAAGC
* ** * **
10957418 AGGATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGGACGTGCTTTTGCTATAGTTGGT
131 AGCATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGGACGCACTTTTGCTACAGTAAGT
* * * * *
10957483 CCTGGAAGAAATAATTTCGAGTTGACTTTTTTGAGCAAATAGTTTAAAAAACGCTTC
196 CCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAAACACTTC
* * *
10957540 AAGTAGGATGCTTTAT-AAAAGGAATTTGTGAAGTCGCGCCCACGTGGACGTGCTTTTGCTACAG
1 AAGCAGGATGCTTTATCAGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAG
* * *
10957604 TAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAG
66 TAGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTATAAAA-AACGCTGCAAG
* *
10957669 CAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGTAA
130 CAGCATGCT-TTATGAGAAGAATTTATGAAATCGCGCCCTCATGGACGCACTTTTGCTACAGTAA
* *
10957733 GTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGTAAATAGTATAAAATCACTTC
194 GTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACACTTC
* * *
10957790 TAGCAGGATGCTTTATGAGAA-GAATTTGTGAAATTGCGCCCACGTGGACGTGCTTTTGCTACAG
1 AAGCAGGATGCTTTATCAGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAG
10957854 TAG
66 TAG
10957857 CATGTTTAGG
Statistics
Matches: 278, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
250 72 0.26
251 133 0.48
252 71 0.26
253 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (251 bp):
AAGCAGGATGCTTTATCAGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAG
TAGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTGCAAGC
AGCATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGGACGCACTTTTGCTACAGTAAGT
CCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACACTTC
Found at i:10961070 original size:22 final size:22
Alignment explanation
Indices: 10961029--10961524 Score: 595
Period size: 22 Copynumber: 23.0 Consensus size: 22
10961019 TCAAATTATA
10961029 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961050 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961072 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961093 TTTAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961114 TTTAGGTTAAGGGTTTATGGGTT
1 TTTAAGTTAAGGGTTTA-GGGTT
*
10961137 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
10961159 TTTAATTTAAAGGCTTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961181 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961203 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
10961224 TTTAAGTTAAGGGATTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961246 TTTAAGTTAATGG---AGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
10961265 TTTAAGTTAAGGGGTTGGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
10961287 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
10961308 TTTAGGTTAAGAGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
10961330 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961352 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
10961374 TTAAAGTTAAGGG-TTAGGGCT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961395 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
10961417 TTAAAGTTAATGG-TTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
10961438 TTTAGGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10961460 TTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
10961482 TTTAGGTTAAGGATTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
10961504 TTTAA-TTCAAGGG-TTAGGGTT
1 TTTAAGTT-AAGGGTTTAGGGTT
10961525 AGGGTTTTTA
Statistics
Matches: 409, Mismatches: 53, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.04
21 135 0.33
22 234 0.57
23 23 0.06
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:10961089 original size:43 final size:43
Alignment explanation
Indices: 10961029--10961524 Score: 624
Period size: 43 Copynumber: 11.5 Consensus size: 43
10961019 TCAAATTATA
*
10961029 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
10961072 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
10961114 TTTAGGTTAAGGGTTTATGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTA-GGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
10961159 TTTAATTTAAAGGCTTAGGGGTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
10961203 TTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGATTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
10961246 TTTAAGTTAATGG--AGGGTTTTTAAGTTAAGGGGTTGGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
10961287 TTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGAGTTTATGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTT
*
10961330 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
10961374 TTAAAGTTAAGGGTTAGGGCTTTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * *
10961417 TTAAAGTTAATGGTTATGGTTTTTAGGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
10961460 TTTAAGTTAAGGGTTTAGAGTTTTTAGGTTAAGGATTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
10961504 TTTAA-TTCAAGGGTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
10961525 AGGGTTTTTA
Statistics
Matches: 391, Mismatches: 51, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
41 36 0.09
42 19 0.05
43 195 0.50
44 120 0.31
45 17 0.04
46 4 0.01
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:10962126 original size:18 final size:18
Alignment explanation
Indices: 10962100--10962142 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10962090 GACTTGAAAA
* *
10962100 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
10962118 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
10962136 AGGAAAC
1 AGGAAAC
10962143 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:10962918 original size:20 final size:20
Alignment explanation
Indices: 10962881--10962918 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10962871 TTTATTTTTA
*
10962881 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
10962901 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
10962919 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:10963595 original size:21 final size:21
Alignment explanation
Indices: 10963569--10963608 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10963559 TCCGGATATT
10963569 GCAGGTAGTTCTCTACCAATG
1 GCAGGTAGTTCTCTACCAATG
10963590 GCAGGTAGTTCTCTACCAA
1 GCAGGTAGTTCTCTACCAA
10963609 CGGTGATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
GCAGGTAGTTCTCTACCAATG
Found at i:10963942 original size:51 final size:51
Alignment explanation
Indices: 10963887--10963984 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
10963877 AATTATTTAA
10963887 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
10963938 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
10963985 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:10963971 original size:22 final size:22
Alignment explanation
Indices: 10963946--10964012 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
10963936 ATAAATATGG
10963946 ATTTGAGAGAAATTTTGAAGGA
1 ATTTGAGAGAAATTTTGAAGGA
10963968 ATTTGAGAGCAAA--TTGAGAGGAA
1 ATTTGAGAG-AAATTTTGA-AGG-A
10963991 ATTT-AGAAGAAATTTTGAAGGA
1 ATTTGAG-AGAAATTTTGAAGGA
10964013 TTAGTTTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
21 4 0.10
22 18 0.46
23 13 0.33
24 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.27, T:0.28
Consensus pattern (22 bp):
ATTTGAGAGAAATTTTGAAGGA
Found at i:10963982 original size:12 final size:11
Alignment explanation
Indices: 10963946--10964005 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
10963936 ATAAATATGG
10963946 ATTTGAGAGAA
1 ATTTGAGAGAA
*
10963957 ATTTTGA-AGGA
1 A-TTTGAGAGAA
10963968 ATTTGAGAGCAA
1 ATTTGAGAG-AA
10963980 A-TTGAGAGGAA
1 ATTTGAGA-GAA
10963991 ATTT-AGAAGAA
1 ATTTGAG-AGAA
10964002 ATTT
1 ATTT
10964006 TGAAGGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
10 5 0.12
11 25 0.61
12 11 0.27
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:10966829 original size:21 final size:19
Alignment explanation
Indices: 10966803--10966841 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
10966793 AAAACTATAC
10966803 TCATGCCTATACTTATTGTTT
1 TCATG-CTATA-TTATTGTTT
*
10966824 TCATGCTATATTTTTGTT
1 TCATGCTATATTATTGTT
10966842 CCAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.56
Consensus pattern (19 bp):
TCATGCTATATTATTGTTT
Found at i:10968817 original size:3 final size:3
Alignment explanation
Indices: 10968809--10968845 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10968799 CATGTATGTT
10968809 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10968846 ACAGTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10970673 original size:89 final size:91
Alignment explanation
Indices: 10970564--10970776 Score: 288
Period size: 89 Copynumber: 2.4 Consensus size: 91
10970554 TACCGATATA
* * * *
10970564 GGAAGACAGGACCTGCTATCTTTGATCAACTTCACGCCAGTACATGAAGATAAGATCT-ATTTT-
1 GGAAGACAAGATCTGGTATCTTTGATCAACTTCACGCCAGTACATGAAGACAAGATCTCATTTTC
*
10970627 CTTCGATCTACTTCGCCACCAGTATG
66 CTTCAATCTACTTCGCCACCAGTATG
* *
10970653 GGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTT
1 GGAAGACAAGATCTGGTATCTTTGATCAACTTCACGCCAGTACATGAAGACAAGATCT-CATTTT
*
10970718 CCTTCAATCTGCTTCGCCACCAGTATG
65 CCTTCAATCTACTTCGCCACCAGTATG
* * * *
10970745 GGAAGACAAAATCT-GTATATTCGATCCACTTC
1 GGAAGACAAGATCTGGTATCTTTGATCAACTTC
10970777 GCTACCGATA
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
89 53 0.49
91 19 0.17
92 37 0.34
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (91 bp):
GGAAGACAAGATCTGGTATCTTTGATCAACTTCACGCCAGTACATGAAGACAAGATCTCATTTTC
CTTCAATCTACTTCGCCACCAGTATG
Found at i:10970753 original size:48 final size:45
Alignment explanation
Indices: 10970483--10971388 Score: 486
Period size: 44 Copynumber: 20.3 Consensus size: 45
10970473 TCAGGGAGAT
** *
10970483 AAGATCTGTAATCTTCAATCTACTTC-CCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * * * *
10970527 AAAATCTG-TATATTCGATCCACTTCACTACC-GATATAGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAG-TATGGGAAGAC
* * * * * * * * *** *
10970571 AGGACCTGCTATCTTTGATCAACTTC-ACGCCAGTACATGAAGAT
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
*
10970615 AAGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * * ***
10970660 AAGATCTGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* *
10970704 AAGATCTGCTTTTTCCTTCAATCTGCTTCGCCACCAGTATGGGAAGAC
1 AAGATCTG--TTTT-CTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * * *
10970752 AAAATCTG-TATATTCGATCCACTTCGCTACC-GATATAGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAG-TATGGGAAGAC
* * * * * * * *** *
10970796 AGGACCTGCTATCTTTGATCTACTTC-ACGCCAGTACATGAAGAT
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * *
10970840 AAGATCTATTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * ***
10970885 AAGATCTGGTATC-TCTGATCTACTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGAC
* * *
10970929 AAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * ***
10970974 AAGATCTGGTATC-TCTGATCTACTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGAC
* * * * *
10971018 AAGATCTGTTTTCTTTGATCTGCTTCGCCACCAATATAGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * *** ***
10971063 AAGATCTGGTATC-TCTAATCTACTTC-ATGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGAC
* * * *
10971107 AAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * ***
10971152 AAGATCTGGTATC-TCTGATCTACTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGAC
* * *
10971196 AAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * * ***
10971241 AAGATCTGGTATC-TCTAATCTACTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGAC
* * *
10971285 AAGATCTGTTTTC-TCTGATCTGCTTCGTGC-CCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTC-GATCTACTTCG-CCACCAGTATGGGAAGAC
* * * * * * ***
10971330 AAGATTTGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
*
10971374 AAGATCTGTTATCTT
1 AAGATCTGTTTTCTT
10971389 TCAACCTGCT
Statistics
Matches: 633, Mismatches: 199, Indels: 60
0.71 0.22 0.07
Matches are distributed among these distances:
43 16 0.03
44 326 0.52
45 256 0.40
46 4 0.01
47 11 0.02
48 20 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
Found at i:10970794 original size:92 final size:91
Alignment explanation
Indices: 10970587--10970805 Score: 223
Period size: 92 Copynumber: 2.4 Consensus size: 91
10970577 TGCTATCTTT
* * * * *
10970587 GATCAACTTCACGCCAGTACATGAAGATAAGA--T-CTATTTTCTTCGATCTACTTCGCCACCAG
1 GATCCACTTCACACCAGTACAGGAAGACAAGACCTGCT-TTTTCTTCAATCTACTTCGCCACCAG
* * *
10970649 TATGGGAAGACAAGATCTGGTATCTTT
65 TATGGGAAGACAAAATCTGGTATATTC
* * * * *
10970676 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCAATCTGCTTCGCCACCAG
1 GATCCACTTCACACCAGTACAGGAAGACAAGACCTGCTTTTT-CTTCAATCTACTTCGCCACCAG
10970741 TATGGGAAGACAAAATCT-GTATATTC
65 TATGGGAAGACAAAATCTGGTATATTC
* * *
10970767 GATCCACTTCGCTACC-GATATAGGAAGACAGGACCTGCT
1 GATCCACTTCAC-ACCAG-TACAGGAAGACAAGACCTGCT
10970806 ATCTTTGATC
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
89 30 0.27
91 22 0.20
92 58 0.53
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (91 bp):
GATCCACTTCACACCAGTACAGGAAGACAAGACCTGCTTTTTCTTCAATCTACTTCGCCACCAGT
ATGGGAAGACAAAATCTGGTATATTC
Found at i:10970882 original size:89 final size:89
Alignment explanation
Indices: 10970805--10971389 Score: 1019
Period size: 89 Copynumber: 6.6 Consensus size: 89
10970795 CAGGACCTGC
* * * *
10970805 TATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTTGATCTACTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
10970870 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
10970894 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
10970959 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
10970983 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
* *
10971048 CCAATATAGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
10971072 TATCTCTAATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
10971137 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
10971161 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
10971226 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
10971250 TATCTCTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTCTGATCTGCTTCGTGC
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCG-CC
*
10971315 -CCAGTATGGGAAGGCAAGATTTGG
65 ACCAGTATGGGAAGGCAAGATCTGG
* *
10971339 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATCTTT
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTT
10971390 CAACCTGCTC
Statistics
Matches: 473, Mismatches: 22, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
89 472 1.00
90 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
CCAGTATGGGAAGGCAAGATCTGG
Found at i:10974834 original size:22 final size:22
Alignment explanation
Indices: 10974809--10974851 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10974799 TATTCAAACA
10974809 ATAACA-ATAAACTAGTAGCAAC
1 ATAACAGATAAA-TAGTAGCAAC
* *
10974831 ATAATAGTTAAATAGTAGCAA
1 ATAACAGATAAATAGTAGCAA
10974852 AATAGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAACAGATAAATAGTAGCAAC
Found at i:10974913 original size:21 final size:22
Alignment explanation
Indices: 10974862--10974911 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
10974852 AATAGTAAAA
*
10974862 AAAAAAATACGAAGAAAACAAT
1 AAAAAAATAAGAAGAAAACAAT
* *
10974884 AAAAAAATAATAAGAAAGCAAT
1 AAAAAAATAAGAAGAAAACAAT
10974906 AAAAAA
1 AAAAAA
10974912 TAGCAGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.76, C:0.06, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAAAAATAAGAAGAAAACAAT
Found at i:10977105 original size:4 final size:4
Alignment explanation
Indices: 10977096--10977136 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
10977086 TTTACTTCAG
10977096 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
10977137 CTGTGATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:10980029 original size:43 final size:43
Alignment explanation
Indices: 10979915--10980019 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
10979905 CCACAAACGT
* * * * * *
10979915 TATAGAACATAACCTTTCGCGGCACTTTTATCACAAGCGTCGC
1 TATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCAC
* *
10979958 TAAAGAACATGACTTTTAGCGGCACTTTTACCACAAACGCCAC
1 TATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCAC
10980001 TATAGAACATGACCTTTAG
1 TATAGAACATGACCTTTAG
10980020 TGGTGCTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
TATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCAC
Found at i:10980467 original size:66 final size:66
Alignment explanation
Indices: 10980361--10980498 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
10980351 TCATATTCTG
* * * **
10980361 AAGTTGTAGCTAGAGTTCGTCATATTTTCTGTTTGCCTCTGTTTCCCTCGCTGCTGCCTCCGCTT
1 AAGTTGTAACTAGAGTTCGTCATATTTTCTGTTAGCCTCTGCTTCCCTCAATGCTGCCTCCGCTT
10980426 T
66 T
* * * *
10980427 AAGTTGTAACTGGAGTTCTTCATATTTTCT-TTGAGCCTCTGCTTCTCTCAATGCTGCCTTCGCT
1 AAGTTGTAACTAGAGTTCGTCATATTTTCTGTT-AGCCTCTGCTTCCCTCAATGCTGCCTCCGCT
10980491 TT
65 TT
10980493 AAGTTG
1 AAGTTG
10980499 AGCAAGTTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 2 0.03
66 60 0.97
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.43
Consensus pattern (66 bp):
AAGTTGTAACTAGAGTTCGTCATATTTTCTGTTAGCCTCTGCTTCCCTCAATGCTGCCTCCGCTT
T
Found at i:10988956 original size:9 final size:9
Alignment explanation
Indices: 10988942--10988967 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10988932 TGATATATAT
10988942 TTATGTAAG
1 TTATGTAAG
10988951 TTATGTAAG
1 TTATGTAAG
10988960 TTATGTAA
1 TTATGTAA
10988968 TTCATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:10989523 original size:25 final size:25
Alignment explanation
Indices: 10989495--10989542 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
10989485 GGACAAGATT
10989495 TTGTTAAATGAAATAATAAAAATAA
1 TTGTTAAATGAAATAATAAAAATAA
*
10989520 TTGTTAACTGAAATAATAAAAAT
1 TTGTTAAATGAAATAATAAAAAT
10989543 TGAGCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
TTGTTAAATGAAATAATAAAAATAA
Found at i:10991798 original size:19 final size:20
Alignment explanation
Indices: 10991770--10991824 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
10991760 CAGTTTTAAA
*
10991770 TAAATAATATTTGAAA-ATT
1 TAAATAATATTTGAAAGAAT
* *
10991789 TAAGTAATATTTAAAAGAAT
1 TAAATAATATTTGAAAGAAT
*
10991809 TAAATAAAATTTGAAA
1 TAAATAATATTTGAAA
10991825 TTTTTGTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (20 bp):
TAAATAATATTTGAAAGAAT
Found at i:10992602 original size:58 final size:58
Alignment explanation
Indices: 10992512--10992629 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
10992502 TGCTTGACCT
* *
10992512 TTTTAATGAGAAATTTTTATATTGAATTATTATATCTTTCATATCAGTTTTAAAATAA
1 TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
10992570 TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
1 TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
10992628 TT
1 TT
10992630 AGATAAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (58 bp):
TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
Found at i:10993338 original size:41 final size:41
Alignment explanation
Indices: 10993293--10993418 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
10993283 TTTTTTTATT
* *
10993293 ACCTTTTGCGGCGGTTTTCTCATAAACGCCGCTATTGCTTG
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
* * * *
10993334 ACCTTTTGTGG-GTTTTTCGCATAAACGTCACTACTGCTTG
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
* * * *
10993374 ACCTTTTGCGACATTTTTCTCATAAAAGCCGCTACTGCTTT
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
10993415 ACCT
1 ACCT
10993419 ATTGTGACAT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
40 33 0.47
41 37 0.53
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (41 bp):
ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
Found at i:10993428 original size:41 final size:41
Alignment explanation
Indices: 10993307--10993432 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
10993297 TTTGCGGCGG
* **
10993307 TTTTCTCATAAACGCCGCTATTGCTTGACCTTTTGTG-GGT
1 TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
* * * *
10993347 TTTTCGCATAAACGTCACTACTGCTTGACCTTTTGCGACAT
1 TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
* * *
10993388 TTTTCTCATAAAAGCCGCTACTGCTTTACCTATTGTGACAT
1 TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
10993429 TTTT
1 TTTT
10993433 TTGTTAGCGC
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 32 0.45
41 39 0.55
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (41 bp):
TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
Found at i:10995265 original size:10 final size:10
Alignment explanation
Indices: 10995250--10995306 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
10995240 GTTAACATCC
10995250 ATTAATTTTA
1 ATTAATTTTA
* *
10995260 AGTAATTTTT
1 ATTAATTTTA
*
10995270 ATTAAGTTTA
1 ATTAATTTTA
*
10995280 ATTAATTTTG
1 ATTAATTTTA
*
10995290 ATCAA-TTTA
1 ATTAATTTTA
10995299 AGTTAATT
1 A-TTAATT
10995307 AGGTGATTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
9 4 0.11
10 30 0.86
11 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:10995279 original size:20 final size:19
Alignment explanation
Indices: 10995250--10995306 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
10995240 GTTAACATCC
*
10995250 ATTAATTTTAAGTAATTTTT
1 ATTAA-TTTAAGTAATTTTG
*
10995270 ATTAAGTTTAATTAATTTTG
1 ATTAA-TTTAAGTAATTTTG
*
10995290 ATCAATTTAAGTTAATT
1 ATTAATTTAAG-TAATT
10995307 AGGTGATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (19 bp):
ATTAATTTAAGTAATTTTG
Found at i:10995780 original size:20 final size:21
Alignment explanation
Indices: 10995755--10995799 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
10995745 TGAAATTAGT
10995755 TTTAAAACCAAAGCTCAAAA-
1 TTTAAAACCAAAGCTCAAAAC
*
10995775 TTTAAAACCAAAGCTTAAAAC
1 TTTAAAACCAAAGCTCAAAAC
10995796 TTTA
1 TTTA
10995800 GGGGTATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (21 bp):
TTTAAAACCAAAGCTCAAAAC
Found at i:10996160 original size:43 final size:43
Alignment explanation
Indices: 10996096--10996180 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
10996086 GTGAGAGTTG
* *
10996096 GACTAAATTGTAAAGAGATGTTTATATGTGTTAAAAGGTGCTC
1 GACTAAATTGTAAAGAAATGTTTATATGTGTTAAAAAGTGCTC
*
10996139 GACTAAATTGTAAAGAAATGTTTATATGTTTTAAAAAGTGCT
1 GACTAAATTGTAAAGAAATGTTTATATGTGTTAAAAAGTGCT
10996181 TGGGTGAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (43 bp):
GACTAAATTGTAAAGAAATGTTTATATGTGTTAAAAAGTGCTC
Found at i:10996530 original size:31 final size:31
Alignment explanation
Indices: 10996492--10996553 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10996482 AGTTCAACAG
10996492 GCGAAGTGGTTAATGTAAAATGAAAAATTGA
1 GCGAAGTGGTTAATGTAAAATGAAAAATTGA
10996523 GCGAAGTGGTTAATGTAAAATGAAAAATTGA
1 GCGAAGTGGTTAATGTAAAATGAAAAATTGA
10996554 AATGACATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.26
Consensus pattern (31 bp):
GCGAAGTGGTTAATGTAAAATGAAAAATTGA
Found at i:10998374 original size:25 final size:25
Alignment explanation
Indices: 10998345--10998396 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10998335 AGCATTTAAA
*
10998345 GTTATTTTTATTAGTTTTTGCATTG
1 GTTATTTTTATTAGTTTTGGCATTG
10998370 GTTATTTTTATTAGTTTTGGCATTG
1 GTTATTTTTATTAGTTTTGGCATTG
10998395 GT
1 GT
10998397 GTTAGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.62
Consensus pattern (25 bp):
GTTATTTTTATTAGTTTTGGCATTG
Found at i:11002848 original size:20 final size:20
Alignment explanation
Indices: 11002814--11002855 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11002804 AACTATTTAA
** *
11002814 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11002834 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11002854 AT
1 AT
11002856 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11007578 original size:3 final size:3
Alignment explanation
Indices: 11007570--11007600 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11007560 TTATAGAATG
11007570 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11007601 AACTCTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11008369 original size:22 final size:21
Alignment explanation
Indices: 11008344--11008395 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
11008334 TAGATATTCT
*
11008344 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
11008366 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
11008388 TAAT-TTAA
1 TAATATTAA
11008396 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:11008594 original size:27 final size:28
Alignment explanation
Indices: 11008564--11008622 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
11008554 TAAATATAGT
*
11008564 AATG-AAGAATTTATAGTATACGATTAA
1 AATGCAAGAATTTATAGTATACAATTAA
*
11008591 AATGCTAATAATTTATAGTATACAATTAA
1 AATGC-AAGAATTTATAGTATACAATTAA
11008620 AAT
1 AAT
11008623 ATTATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
29 24 0.86
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (28 bp):
AATGCAAGAATTTATAGTATACAATTAA
Found at i:11011358 original size:24 final size:24
Alignment explanation
Indices: 11011331--11011395 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
11011321 CATTTTAACT
*
11011331 TAATCGAACATGTTCATGAACATA
1 TAATTGAACATGTTCATGAACATA
*
11011355 TAATTAAATC-TGTTCATGAACATA
1 TAATTGAA-CATGTTCATGAACATA
*
11011379 TAATTGAATATGTTCAT
1 TAATTGAACATGTTCAT
11011396 TGTTGACACC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 34 0.97
25 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (24 bp):
TAATTGAACATGTTCATGAACATA
Found at i:11012887 original size:3 final size:3
Alignment explanation
Indices: 11012874--11012925 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
11012864 AAATATAAGA
11012874 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11012920 AAT AAT
1 AAT AAT
11012926 CCGCGTAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11013131 original size:20 final size:19
Alignment explanation
Indices: 11013106--11013149 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
11013096 AAAAAGAGAA
11013106 AAAAATAATAATAAATAAAT
1 AAAAATAATAAT-AATAAAT
11013126 AAAAATAATAATAATAAAT
1 AAAAATAATAATAATAAAT
11013145 AAAAA
1 AAAAA
11013150 AATTGAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATAATAATAATAAAT
Found at i:11013135 original size:23 final size:21
Alignment explanation
Indices: 11013104--11013151 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 21
11013094 GCAAAAAGAG
11013104 AAAAAAATAATAATAAATAAA
1 AAAAAAATAATAATAAATAAA
11013125 TAAAAATAATAATAATAAATAAA
1 -AAAAA-AATAATAATAAATAAA
11013148 AAAA
1 AAAA
11013152 TTGAATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAAATAATAATAAATAAA
Found at i:11013150 original size:20 final size:21
Alignment explanation
Indices: 11013105--11013150 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
11013095 CAAAAAGAGA
11013105 AAAAAATAATAATAAATAAAT
1 AAAAAATAATAATAAATAAAT
11013126 -AAAAATAATAAT-AATAAAT
1 AAAAAATAATAATAAATAAAT
11013145 AAAAAA
1 AAAAAA
11013151 ATTGAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAAATAATAATAAATAAAT
Found at i:11014758 original size:44 final size:44
Alignment explanation
Indices: 11014604--11015424 Score: 612
Period size: 44 Copynumber: 18.7 Consensus size: 44
11014594 CACTACTGCT
* * * **
11014604 TAGGGAGATAAGATCTG-TAATCTTCAATCTACTTCATGCCAATA
1 TAGGAAGACAAGATCTGCT-ATCTTCGATCTACTTCACACCAATA
* * * * * *
11014648 CATG-AGACAAGATCTACTTTCTTCGATCTACTTTACCACCAGTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATA
* * * *
11014692 TGGGAAGACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * *
11014735 TAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * *
11014779 CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
* * * * * *
11014824 TGGGAAGACAAGATCTGC-GTCGTCGATCCACTTC-CAATCATTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * * * *
11014867 TAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * *
11014911 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
* * * *
11014956 TGGGAAGACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * *
11014999 TAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * * *
11015043 CATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
* * * * * *
11015088 TGGGAAGACAAGATCTGC-GTCGTCGATCCACTTC-CAATCATTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * * * *
11015131 TAGGAAGATAAAACCTGTTATCTTTGATCTACTTCACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * *
11015175 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * *
11015219 TGGGAAGACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * *
11015262 TAGGAAGATAGGA-CTTGCTATCTTCGATCTACTTCACGCCAATA
1 TAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCACACCAATA
* * * *
11015306 CATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATA
1 TAGGAAGACAAGATCTGCTATCT-TCGATCTACTTC-ACACCAATA
* * * *
11015351 TGGGAAGACAAGATCTGC-GTCGTCGATCCACTTC-CTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * *
11015394 TAGGAAGATAGGATCAGCTATCTTCGATCTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTA
11015425 TTTCTTGCCC
Statistics
Matches: 592, Mismatches: 157, Indels: 56
0.74 0.20 0.07
Matches are distributed among these distances:
42 7 0.01
43 151 0.26
44 330 0.56
45 104 0.18
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
Found at i:11014852 original size:132 final size:132
Alignment explanation
Indices: 11014623--11015424 Score: 1257
Period size: 132 Copynumber: 6.1 Consensus size: 132
11014613 AAGATCTGTA
* * * * **
11014623 ATCTTCAATCTACTTCATGCCAATACATG-AGACAAGATCTACTTTCTTCGATCTACTTTACCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * *
11014687 CAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
11014752 CT
131 CT
11014754 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
11014819 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
11014884 TT
131 CT
* *
11014886 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
11014951 CAATATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
11015016 CT
131 CT
*
11015018 ATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * **
11015083 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAAAACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
11015148 TT
131 CT
* *
11015150 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG-CAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * *
11015214 CAATATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACTTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
11015279 CT
131 CT
*
11015281 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * *
11015346 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
11015411 CT
131 CT
11015413 ATCTTCGATCTA
1 ATCTTCGATCTA
11015425 TTTCTTGCCC
Statistics
Matches: 610, Mismatches: 59, Indels: 3
0.91 0.09 0.00
Matches are distributed among these distances:
131 145 0.24
132 465 0.76
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
CT
Found at i:11015122 original size:264 final size:264
Alignment explanation
Indices: 11014630--11015424 Score: 1423
Period size: 264 Copynumber: 3.0 Consensus size: 264
11014620 GTAATCTTCA
* * ** *
11014630 ATCTACTTCATGCCAATACATG-AGACAAGATCTACTTTCTTCGATCTACTTTACCACCAGTATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
11014694 GGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTT
66 GGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTT
11014759 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
131 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
11014824 TGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATC
196 TGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATC
11014889 TTTG
261 TTTG
11014893 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
11014958 GGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTT
66 GGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTT
*
11015023 CGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
131 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
**
11015088 TGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAAAACCTGTTATC
196 TGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATC
11015153 TTTG
261 TTTG
11015157 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG-CACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
*
11015221 GGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACTTGCTATCTT
66 GGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTT
*
11015286 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATA
131 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
* * * * * *
11015351 TGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATC
196 TGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATC
*
11015416 TTCG
261 TTTG
11015420 ATCTA
1 ATCTA
11015425 TTTCTTGCCC
Statistics
Matches: 511, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
263 223 0.44
264 288 0.56
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (264 bp):
ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
GGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTT
CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
TGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATC
TTTG
Found at i:11015646 original size:95 final size:95
Alignment explanation
Indices: 11015541--11016384 Score: 887
Period size: 95 Copynumber: 9.0 Consensus size: 95
11015531 AAGATCTGCA
11015541 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CAT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAC-T
11015605 GTAGTCAGGGAGGTAAAATCTGCCATCTTTG
65 GTAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
11015636 ATCTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
11015701 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
11015731 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
11015796 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
11015826 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
11015891 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * * * *
11015921 ATCTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCAGCTTTAATGTACTCCTCTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
11015986 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * * * * * ** * *
11016016 ATC-T---GC--TT-CGCTGCCAAATACAGGAAGGTA-AGATCTGCAATCTTCAATCTATTCCAC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCAC
* * * * * *
11016073 TGCCAAATACAGAGAGATAGAGT-T---ATC---G
64 TG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTG
* * * * * * * * * ** ** ** * * *
11016101 -GCTTCAATGTACTCCTCTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT-TATCGGCTTCAATGTACTCCACT
* * * * *
11016162 GCCAAATACAGGAAGGCAAGATCTG-CA------
65 G--TAGT-CAGGGAGGTAAAATCTGCCATCTTTG
* * * *
11016189 ATCTTCAATCTATTCCACTGCCAAATACAGTGAGATAGAATTATAGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
11016254 TAGTCATATGGAGGTAAAATCTGCCATCCTTG
66 TAGTC--AGGGAGGTAAAATCTGCCATCTTTG
11016286 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
11016351 TTGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
11016381 ATCT
1 ATCT
11016385 GCTTCGCTGC
Statistics
Matches: 630, Mismatches: 88, Indels: 62
0.81 0.11 0.08
Matches are distributed among these distances:
84 1 0.00
85 2 0.00
87 4 0.01
88 60 0.10
89 39 0.06
90 14 0.02
91 27 0.04
92 21 0.03
94 1 0.00
95 395 0.63
96 1 0.00
97 65 0.10
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:11016076 original size:46 final size:46
Alignment explanation
Indices: 11016026--11016218 Score: 157
Period size: 46 Copynumber: 4.3 Consensus size: 46
11016016 ATCTGCTTCG
11016026 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * * *
11016072 CTGCCAAATACA-GAGAGATAGAGTTAT-C-GGCTTCAATGTACTCCT
1 CTGCCAAATACAGGA-AGGTA-AGATCTGCAATCTTCAATCTATTCCA
* * * * * ** *
11016117 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTACTT-CG
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTA-TTCCA
*
11016160 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
11016206 CTGCCAAATACAG
1 CTGCCAAATACAG
11016219 TGAGATAGAA
Statistics
Matches: 106, Mismatches: 31, Indels: 20
0.68 0.20 0.13
Matches are distributed among these distances:
41 3 0.03
42 7 0.07
43 14 0.13
44 1 0.01
45 21 0.20
46 56 0.53
47 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
Found at i:11016161 original size:134 final size:134
Alignment explanation
Indices: 11015921--11016289 Score: 612
Period size: 134 Copynumber: 2.7 Consensus size: 134
11015911 GCCATCTTTG
* * *
11015921 ATCTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCAGCTTTAATGTACTCCTCTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCTCTG
* *
11015986 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGTAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
11016051 TGCA
131 TGCA
11016055 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCTCTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCTCTG
11016120 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
11016185 TGCA
131 TGCA
* * * * *
11016189 ATCTTCAATCTATTCCACTGCCAAATACAGTGAGATAGAATTATAGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCTCTG
* *
11016254 TAGTCATATGGAGGTAAAATCTGCCATCCTTGATCT
66 TAGTC--AGGGAGGTAAAATCTGCCATCTTTGATCT
11016290 TCAATCTATT
Statistics
Matches: 221, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 194 0.88
136 27 0.12
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCTCTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:11016501 original size:86 final size:86
Alignment explanation
Indices: 11016375--11016724 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
11016365 AAATCTGCCA
* * * * * *
11016375 TCTTTGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTAATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
11016440 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
11016462 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
11016527 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
11016548 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
11016613 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
11016634 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
11016699 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
11016720 TCTTC
1 TCTTC
11016725 AATTTTTACT
Statistics
Matches: 246, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
86 227 0.92
87 19 0.08
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:11016584 original size:42 final size:42
Alignment explanation
Indices: 11016450--11016670 Score: 107
Period size: 42 Copynumber: 5.2 Consensus size: 42
11016440 CAAACGAGAG
*
11016450 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
11016492 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
11016535 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
11016578 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
11016621 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
11016664 AGGCAAG
1 AGGCAAG
11016671 ATCTGATAAC
Statistics
Matches: 122, Mismatches: 37, Indels: 40
0.61 0.19 0.20
Matches are distributed among these distances:
41 24 0.20
42 33 0.27
43 16 0.13
44 25 0.20
45 24 0.20
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:11020859 original size:19 final size:20
Alignment explanation
Indices: 11020835--11020878 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
11020825 CGTGAAAGTC
* *
11020835 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
11020854 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
11020874 -AATGC
1 TAATGC
11020879 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:11023413 original size:3 final size:3
Alignment explanation
Indices: 11023400--11023451 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
11023390 AAATATAAGA
11023400 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11023446 AAT AAT
1 AAT AAT
11023452 CCGCGTAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11023656 original size:20 final size:19
Alignment explanation
Indices: 11023631--11023674 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
11023621 AAAAAGAGAA
11023631 AAAAATAATAATAAATAAAT
1 AAAAATAATAAT-AATAAAT
11023651 AAAAATAATAATAATAAAT
1 AAAAATAATAATAATAAAT
11023670 AAAAA
1 AAAAA
11023675 AATTGAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATAATAATAATAAAT
Found at i:11023660 original size:23 final size:21
Alignment explanation
Indices: 11023629--11023676 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 21
11023619 GCAAAAAGAG
11023629 AAAAAAATAATAATAAATAAA
1 AAAAAAATAATAATAAATAAA
11023650 TAAAAATAATAATAATAAATAAA
1 -AAAAA-AATAATAATAAATAAA
11023673 AAAA
1 AAAA
11023677 TTGAATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAAATAATAATAAATAAA
Found at i:11023675 original size:20 final size:21
Alignment explanation
Indices: 11023630--11023675 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
11023620 CAAAAAGAGA
11023630 AAAAAATAATAATAAATAAAT
1 AAAAAATAATAATAAATAAAT
11023651 -AAAAATAATAAT-AATAAAT
1 AAAAAATAATAATAAATAAAT
11023670 AAAAAA
1 AAAAAA
11023676 ATTGAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAAATAATAATAAATAAAT
Found at i:11025665 original size:6 final size:7
Alignment explanation
Indices: 11025638--11025666 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11025628 GAATTTATTT
11025638 ATTTTAA
1 ATTTTAA
11025645 ATTTTAA
1 ATTTTAA
11025652 ATTTTAA
1 ATTTTAA
11025659 A-TTTAA
1 ATTTTAA
11025665 AT
1 AT
11025667 AAATTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTTAA
Done.