Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 42 of 213
Found at i:11268038 original size:191 final size:191
Alignment explanation
Indices: 11267700--11268048 Score: 518
Period size: 191 Copynumber: 1.8 Consensus size: 191
11267690 GCAAATCCCT
* ** * * *
11267700 AGACCTTTCACCTTTTCAACGGCAATTTCCCCTCTTCTCGATCGAATATCGGTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACAATTTCCCCTCTTCTCGACCGAATATCGCTTCTCGTCTGGGC
* * * * *
11267765 TGACTGGTAAAAAACTTTCGAAATCCCTAATTTCTCCGTTGACTCCGTATATGGCTGTTCATTTT
66 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
11267830 TATGTTCGATTTTTTCTTTCTATAATGCCCGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
131 TATGTTCGATTTTTTCTTTCTATAATGCCCGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
* * * *
11267891 AGACCATTCACCCCTTCAACGACGATTTCCCCTTTTTTCGACCGAATATTGCTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACAATTTCCCCTCTTCTCGACCGAATATCGCTTCTCGTCTGGGC
* *
11267956 TGACTGGTAAAAATCTTTCCAAATCCCTAATTTATTCGTTGAATACGTATATGGCTATTCATTTT
66 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
* * *
11268021 TCTGTTTGATTTTTTCTTTCTCTAATGC
131 TATGTTCGATTTTTTCTTTCTATAATGC
11268049 TCGCACAAAT
Statistics
Matches: 138, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
191 138 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.42
Consensus pattern (191 bp):
AGACCATTCACCCCTTCAACGACAATTTCCCCTCTTCTCGACCGAATATCGCTTCTCGTCTGGGC
TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
TATGTTCGATTTTTTCTTTCTATAATGCCCGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
Found at i:11269579 original size:17 final size:17
Alignment explanation
Indices: 11269559--11269608 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
11269549 TTAATATCTA
11269559 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
11269576 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
11269590 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
11269606 TAT
1 TAT
11269609 TTGTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
16 2 0.07
17 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:11269595 original size:13 final size:13
Alignment explanation
Indices: 11269577--11269604 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11269567 TTCTAAATTT
11269577 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
11269590 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
11269603 AT
1 AT
11269605 TTATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:11269635 original size:15 final size:15
Alignment explanation
Indices: 11269600--11269638 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
11269590 ATAAGTTTTC
*
11269600 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
11269615 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
11269631 TAAATTTA
1 TAAATTTA
11269639 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:11269711 original size:9 final size:9
Alignment explanation
Indices: 11269697--11270078 Score: 279
Period size: 9 Copynumber: 41.9 Consensus size: 9
11269687 GTGTATTAAG
11269697 TTACATAAC
1 TTACATAAC
*
11269706 TTACATAAA
1 TTACATAAC
*
11269715 TTAAAT-AC
1 TTACATAAC
**
11269723 TTATGTAAAC
1 TTACAT-AAC
* *
11269733 TTGCATAAA
1 TTACATAAC
* *
11269742 TTAAATAAT
1 TTACATAAC
11269751 TTACATAAC
1 TTACATAAC
* *
11269760 CTACATAAA
1 TTACATAAC
*
11269769 TTAAATAAC
1 TTACATAAC
*
11269778 TTAAATAA-
1 TTACATAAC
*
11269786 TTGACATAAA
1 TT-ACATAAC
* * *
11269796 TTTCGTGGAC
1 TTACAT-AAC
11269806 TTACATAAC
1 TTACATAAC
11269815 TTACATAAAC
1 TTACAT-AAC
* *
11269825 TTGCATAAA
1 TTACATAAC
*
11269834 TTAAATAAC
1 TTACATAAC
11269843 TTACATAAAC
1 TTACAT-AAC
*
11269853 -TAAATAAC
1 TTACATAAC
11269861 TTACATAAC
1 TTACATAAC
*
11269870 TTACATAAA
1 TTACATAAC
*
11269879 TTAAATAAC
1 TTACATAAC
11269888 TTACATAAC
1 TTACATAAC
11269897 TTACATAAAC
1 TTACAT-AAC
* *
11269907 TTGCATAAA
1 TTACATAAC
* *
11269916 TTAAATTAC
1 TTACATAAC
11269925 TTACATAAC
1 TTACATAAC
*
11269934 TTACATAAA
1 TTACATAAC
*
11269943 TTAAATAAC
1 TTACATAAC
*
11269952 TTAAATAA-
1 TTACATAAC
*
11269960 TTGACATAAA
1 TT-ACATAAC
* * *
11269970 TTCCGTGGAC
1 TTACAT-AAC
11269980 TTACATAAC
1 TTACATAAC
11269989 TTACATAAAC
1 TTACAT-AAC
* *
11269999 TTGCATAAA
1 TTACATAAC
*
11270008 TTAAATAAC
1 TTACATAAC
11270017 TTACATAAAC
1 TTACAT-AAC
*
11270027 -TAAATAAC
1 TTACATAAC
*
11270035 TTACATATC
1 TTACATAAC
*
11270044 TTACATAAA
1 TTACATAAC
*
11270053 TTAAATAAC
1 TTACATAAC
11270062 TTACATAAC
1 TTACATAAC
11270071 TTACATAA
1 TTACATAA
11270079 TACATAAAAA
Statistics
Matches: 286, Mismatches: 72, Indels: 30
0.74 0.19 0.08
Matches are distributed among these distances:
8 15 0.05
9 222 0.78
10 49 0.17
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (9 bp):
TTACATAAC
Found at i:11269766 original size:27 final size:27
Alignment explanation
Indices: 11269697--11270078 Score: 347
Period size: 27 Copynumber: 13.6 Consensus size: 27
11269687 GTGTATTAAG
11269697 TTACATAACTTACATAAATTAAAT-AC
1 TTACATAACTTACATAAATTAAATAAC
** * *
11269723 TTATGTAAACTTGCATAAATTAAATAAT
1 TTACAT-AACTTACATAAATTAAATAAC
*
11269751 TTACATAACCTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *** *
11269778 TTAAATAA-TTGACATAAATTTCGTGGAC
1 TTACATAACTT-ACATAAATTAAAT-AAC
** *
11269806 TTACATAACTTACATAAACTTGCATAAA
1 TTACATAACTTACATAAA-TTAAATAAC
* *
11269834 TTAAATAACTTACATAAACTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
11269861 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
11269888 TTACATAACTTACATAAACTTGCATAAATTAAA
1 TTACATAACTTACATAAA--T---TAAA-TAAC
11269921 TTACTTACATAACTTACATAAATTAAATAAC
1 TTAC----ATAACTTACATAAATTAAATAAC
* *** *
11269952 TTAAATAA-TTGACATAAATTCCGTGGAC
1 TTACATAACTT-ACATAAATTAAAT-AAC
** *
11269980 TTACATAACTTACATAAACTTGCATAAA
1 TTACATAACTTACATAAA-TTAAATAAC
* *
11270008 TTAAATAACTTACATAAACTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
11270035 TTACATATCTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
11270062 TTACATAACTTACATAA
1 TTACATAACTTACATAA
11270079 TACATAAAAA
Statistics
Matches: 288, Mismatches: 48, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.02
27 159 0.55
28 73 0.25
29 13 0.05
31 6 0.02
32 8 0.03
33 7 0.02
35 1 0.00
37 14 0.05
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (27 bp):
TTACATAACTTACATAAATTAAATAAC
Found at i:11269824 original size:92 final size:92
Alignment explanation
Indices: 11269728--11270051 Score: 427
Period size: 92 Copynumber: 3.6 Consensus size: 92
11269718 AATACTTATG
*
11269728 TAAACTTGCATAAATTAAATAATTTACATAACCTACATAAATTAAATAACTTAAATAATTGACAT
1 TAAACTTGCATAAATTAAATAACTTACATAACCTACATAAATTAAATAACTTAAATAATTGACAT
*
11269793 AAATTTCGTGGACTTACATAACTTACA
66 AAATTACGTGGACTTACATAACTTACA
*
11269820 TAAACTTGCATAAATTAAATAACTTACATAA---AC------TAAATAACTTACATAACTT-ACA
1 TAAACTTGCATAAATTAAATAACTTACATAACCTACATAAATTAAATAACTTAAATAA-TTGACA
** *
11269875 TAAATTAAAT-AACTTACATAACTTACA
65 TAAATTACGTGGACTTACATAACTTACA
* *
11269902 TAAACTTGCATAAATTAAATTACTTACATAACTTACATAAATTAAATAACTTAAATAATTGACAT
1 TAAACTTGCATAAATTAAATAACTTACATAACCTACATAAATTAAATAACTTAAATAATTGACAT
*
11269967 AAATTCCGTGGACTTACATAACTTACA
66 AAATTACGTGGACTTACATAACTTACA
* * * * * *
11269994 TAAACTTGCATAAATTAAATAACTTACATAAACTAAATAACTTACATATCTTACATAA
1 TAAACTTGCATAAATTAAATAACTTACATAACCTACATAAATTAAATAACTTAAATAA
11270052 ATTAAATAAC
Statistics
Matches: 200, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
82 46 0.23
83 25 0.12
84 2 0.01
85 2 0.01
89 2 0.01
90 2 0.01
91 25 0.12
92 96 0.48
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (92 bp):
TAAACTTGCATAAATTAAATAACTTACATAACCTACATAAATTAAATAACTTAAATAATTGACAT
AAATTACGTGGACTTACATAACTTACA
Found at i:11269941 original size:174 final size:174
Alignment explanation
Indices: 11269697--11270078 Score: 658
Period size: 174 Copynumber: 2.2 Consensus size: 174
11269687 GTGTATTAAG
* * * * ** *
11269697 TTACATAACTTACATAAATTAAAT-ACTTATGTAAACTTGCATAAATTAAATAATTTACATAACC
1 TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACC
*
11269761 TACATAAATTAAATAACTTAAATAATTGACATAAATTTCGTGGACTTACATAACTTACATAAACT
66 TACATAAATTAAATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACT
11269826 TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
131 TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
* *
11269870 TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATTACTTACATAACT
1 TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACC
11269935 TACATAAATTAAATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACT
66 TACATAAATTAAATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACT
*
11270000 TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATATC
131 TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
11270044 TTACATAAATTAAATAACTTACATAACTTACATAA
1 TTACATAAATTAAATAACTTACATAACTTACATAA
11270079 TACATAAAAA
Statistics
Matches: 197, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
173 20 0.10
174 177 0.90
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (174 bp):
TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACC
TACATAAATTAAATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACT
TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
Found at i:11278177 original size:21 final size:21
Alignment explanation
Indices: 11278151--11278200 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
11278141 CTACAACTTA
*
11278151 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* *
11278172 AAGCAGAAGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
11278193 AAGCAGAG
1 AAGCAGAG
11278201 CAGGCCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:11278628 original size:42 final size:42
Alignment explanation
Indices: 11278522--11278723 Score: 156
Period size: 42 Copynumber: 4.8 Consensus size: 42
11278512 TGTATAAAAG
* * *
11278522 CGCCGCTAAAGAACATGTTCTTTAGCGGGGTTTTAAAAAAAA
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTAAAATAAA
***** * *
11278564 CGCCACTATTTTTCATGTTCTTTAGCGGCGCTTTAGAATAAA
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTAAAATAAA
* **** *
11278606 CGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTAAAATAAA
* * * **
11278648 CGCCGCAAAAGAACATGTTCTTTAGCGGCATTTT--TTTCAAA
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTAAAAT-AAA
* * *
11278689 GCGTCGCTAAAGAACATGGTCTTTAGCGGCGTTTT
1 -CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTT
11278724 TGTTTGTAAA
Statistics
Matches: 126, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 122 0.97
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (42 bp):
CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTAAAATAAA
Found at i:11278724 original size:42 final size:42
Alignment explanation
Indices: 11278606--11278724 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
11278596 TTAGAATAAA
* *
11278606 CGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCAAAG
* * *
11278648 CGCCGCAAAAGAACATGTTCTTTAGCGGCATTTTTTTCAAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCAAAG
* *
11278690 CGTCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
11278725 GTTTGTAAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCAAAG
Found at i:11279319 original size:43 final size:43
Alignment explanation
Indices: 11279240--11279440 Score: 262
Period size: 43 Copynumber: 4.7 Consensus size: 43
11279230 ATATTTTTTT
* * * **
11279240 TAAAGGTTAT-GTTTTTAGTGGCGTTTGTGACAAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GGAAAAGCGCCGC
*
11279283 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
11279326 TAAAGGT-ATTTGTCTTTAGTGGCGTTTGTGGGAAAAACGCCGC
1 TAAAGGTCA-TGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
11279369 TAAAGGTCATGGTCTTTAGCTGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
11279412 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGT
11279441 TTCTAAAAAC
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 119 0.86
44 18 0.13
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:11279385 original size:86 final size:85
Alignment explanation
Indices: 11279240--11279460 Score: 316
Period size: 86 Copynumber: 2.6 Consensus size: 85
11279230 ATATTTTTTT
* *
11279240 TAAAGGTTATGTTTTTAGTGGCGTTTGTGACAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
1 TAAAGGTTTTGTCTTTAGTGGCGTTTGTGACAAAAA-CGCCGCTAAAGGTCATGGTCTTTAGCGG
*
11279305 CGTTTGTGGGAAAAGCGTCGC
65 CGTTTGTGGGAAAAGCGCCGC
** *
11279326 TAAAGGTATTTGTCTTTAGTGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTCTTTAGCTG
1 TAAAGGT-TTTGTCTTTAGTGGCGTTTGTGACAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGG
11279391 CGTTTGTGGGAAAAGCGCCGC
65 CGTTTGTGGGAAAAGCGCCGC
* * **
11279412 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTTTCTAAAAACGCCGCTAAAG
1 TAAAGGTTTTG-TCTTTAGTGGCGTTTGTGAC-AAAAACGCCGCTAAAG
11279461 TTAGCGATGC
Statistics
Matches: 121, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
85 3 0.02
86 77 0.64
87 41 0.34
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (85 bp):
TAAAGGTTTTGTCTTTAGTGGCGTTTGTGACAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGC
GTTTGTGGGAAAAGCGCCGC
Found at i:11283538 original size:13 final size:13
Alignment explanation
Indices: 11283520--11283545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11283510 CATGTCTCTT
11283520 TTTTTAATATTTA
1 TTTTTAATATTTA
11283533 TTTTTAATATTTA
1 TTTTTAATATTTA
11283546 CTATACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:11284028 original size:13 final size:13
Alignment explanation
Indices: 11284010--11284034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11284000 CTCGTATTAA
11284010 ATTTTTTTATATT
1 ATTTTTTTATATT
11284023 ATTTTTTTATAT
1 ATTTTTTTATAT
11284035 AAAATAAGTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTTTATATT
Found at i:11284776 original size:34 final size:35
Alignment explanation
Indices: 11284732--11284798 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
11284722 CAATAAAATA
*
11284732 TTTTCCGTAAAATAATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* * *
11284766 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
11284799 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:11289367 original size:21 final size:22
Alignment explanation
Indices: 11289341--11289387 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
11289331 CTCTGCTCAA
*
11289341 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
11289362 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
11289384 ACTC
1 ACTC
11289388 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:11295664 original size:32 final size:32
Alignment explanation
Indices: 11295605--11295665 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
11295595 TAGAGTTTTG
* * *
11295605 TTTAACATATTATTTTATTATTCTCATAACTT
1 TTTAACAAATTATGTTATTATTATCATAACTT
11295637 TTTAACAAATTATAGTTATTA-TATCATAA
1 TTTAACAAATTAT-GTTATTATTATCATAA
11295666 TATCTCAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 19 0.76
33 6 0.24
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.51
Consensus pattern (32 bp):
TTTAACAAATTATGTTATTATTATCATAACTT
Found at i:11306484 original size:27 final size:27
Alignment explanation
Indices: 11306446--11306500 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11306436 ATTAAAGCAT
11306446 ACTTAACAGACCTAATTTGGTTGGAAG
1 ACTTAACAGACCTAATTTGGTTGGAAG
11306473 ACTTAACAGACCTAATTTGGTTGGAAG
1 ACTTAACAGACCTAATTTGGTTGGAAG
11306500 A
1 A
11306501 TACGAAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (27 bp):
ACTTAACAGACCTAATTTGGTTGGAAG
Found at i:11319656 original size:10 final size:10
Alignment explanation
Indices: 11319631--11319661 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
11319621 CAATAAGAGT
11319631 AATAATAAATA
1 AATAATAAA-A
11319642 AATAATAAAA
1 AATAATAAAA
11319652 AATAATAAAA
1 AATAATAAAA
11319662 TTAATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAATAAAA
Found at i:11320488 original size:3 final size:3
Alignment explanation
Indices: 11320480--11320541 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
11320470 ATAACCAAAC
* * *
11320480 ATA ATA ATA AT- ATCA ACA ATA ATA AGA GTA ATA ATA ATAA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* *
11320526 AAA ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA A
11320542 AATTAATTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.87
4 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:11320525 original size:22 final size:22
Alignment explanation
Indices: 11320497--11320542 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
11320487 TAATATCAAC
* * *
11320497 AATAATAAGAGTAATAATAATA
1 AATAATAAAAATAAAAATAATA
11320519 AATAATAAAAATAAAAATAATA
1 AATAATAAAAATAAAAATAATA
11320541 AA
1 AA
11320543 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (22 bp):
AATAATAAAAATAAAAATAATA
Found at i:11320536 original size:15 final size:16
Alignment explanation
Indices: 11320512--11320563 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
11320502 TAAGAGTAAT
11320512 AATAATAAATAATAAA
1 AATAATAAATAATAAA
11320528 AATAA-AAATAATAAA
1 AATAATAAATAATAAA
* * **
11320543 ATTAATTAATAGCAAA
1 AATAATAAATAATAAA
11320559 AATAA
1 AATAA
11320564 CAAACAGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 14 0.47
16 16 0.53
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AATAATAAATAATAAA
Found at i:11325643 original size:21 final size:20
Alignment explanation
Indices: 11325600--11325648 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
11325590 TTTAGCTCTC
* *
11325600 ATGAGCTTTAGTTAACTCAT
1 ATGAGTTTTAGTTAACCCAT
*
11325620 ATGAGTTTTAGATTAACCCTT
1 ATGAGTTTTAG-TTAACCCAT
*
11325641 ATGGGTTT
1 ATGAGTTT
11325649 CAATTCAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (20 bp):
ATGAGTTTTAGTTAACCCAT
Found at i:11325709 original size:42 final size:42
Alignment explanation
Indices: 11325629--11325743 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
11325619 TATGAGTTTT
11325629 AGATTAACCCTTATGGGTTTCAATTCAGCTCTTTTGAGCTTC
1 AGATTAACCCTTATGGGTTTCAATTCAGCTCTTTTGAGCTTC
* * * * * *
11325671 AGTTTAACCCTAATGGGTTTTAGTTTATCT-TTTCTGAGCTTC
1 AGATTAACCCTTATGGGTTTCAATTCAGCTCTTT-TGAGCTTC
**
11325713 AGATTAACCCTTATGGGTTTCTGTTCAGCTC
1 AGATTAACCCTTATGGGTTTCAATTCAGCTC
11325744 CTTATGGTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.05
42 56 0.95
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (42 bp):
AGATTAACCCTTATGGGTTTCAATTCAGCTCTTTTGAGCTTC
Found at i:11346424 original size:41 final size:41
Alignment explanation
Indices: 11346361--11346477 Score: 171
Period size: 41 Copynumber: 2.9 Consensus size: 41
11346351 GATGAATTTT
* * *
11346361 TCAGACTATAAATCTAGCAGGCTAAGTGCCGGTGATCGGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
* * *
11346402 TCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATATGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
*
11346443 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGA
11346478 ATATGTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
Found at i:11358689 original size:9 final size:9
Alignment explanation
Indices: 11358675--11358707 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
11358665 AATTATGAAA
11358675 TAAAAAATT
1 TAAAAAATT
11358684 TAAAAAAATT
1 T-AAAAAATT
11358694 TAAAAAATT
1 TAAAAAATT
11358703 TAAAA
1 TAAAA
11358708 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAAAAATT
Found at i:11358691 original size:10 final size:10
Alignment explanation
Indices: 11358676--11358707 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
11358666 ATTATGAAAT
11358676 AAAAAATTTA
1 AAAAAATTTA
11358686 AAAAAATTT-
1 AAAAAATTTA
11358695 AAAAAATTTA
1 AAAAAATTTA
11358705 AAA
1 AAA
11358708 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:11358698 original size:17 final size:16
Alignment explanation
Indices: 11358688--11358721 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11358678 AAAATTTAAA
11358688 AAAATTTAAAAAATTT
1 AAAATTTAAAAAATTT
*
11358704 AAAATTTATTAAAATTT
1 AAAATTTA-AAAAATTT
11358721 A
1 A
11358722 GTCTTACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATTTAAAAAATTT
Found at i:11358701 original size:26 final size:26
Alignment explanation
Indices: 11358672--11358721 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
11358662 TATAATTATG
11358672 AAATAAAAAATTTAAAAAAATTTAAA
1 AAATAAAAAATTTAAAAAAATTTAAA
** **
11358698 AAATTTAAAATTTATTAAAATTTA
1 AAATAAAAAATTTAAAAAAATTTA
11358722 GTCTTACCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATAAAAAATTTAAAAAAATTTAAA
Found at i:11361750 original size:126 final size:126
Alignment explanation
Indices: 11361524--11361812 Score: 454
Period size: 126 Copynumber: 2.3 Consensus size: 126
11361514 GGCCAAATAA
* * *
11361524 GAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGATTCTTTCAGTACTTTAGCTGACATTACATC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTAGCTGACAATACATC
*
11361589 CTGCTTGAAGCGTTTTTAACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCA-
66 CTGCTTAAAGCGTTTTTAACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAT
* * *
11361649 GAAACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCAT
1 G-AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTAGCTGACAATACAT
* * * *
11361714 TCTGCTTAAAGCGTTTTTGACATTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAT
65 CCTGCTTAAAGCGTTTTTAACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAT
*
11361776 GAACTACTGTAGCAAAAGAGCGTTCACGTGGGAGCTT
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
11361813 TTTAAAATTA
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
125 1 0.01
126 147 0.99
127 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (126 bp):
GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTAGCTGACAATACATC
CTGCTTAAAGCGTTTTTAACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAT
Found at i:11362039 original size:95 final size:96
Alignment explanation
Indices: 11361850--11362223 Score: 592
Period size: 96 Copynumber: 3.9 Consensus size: 96
11361840 GTAACCCTGG
**
11361850 ACCCCAAACCCTAATTTATTT-AAATTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
1 ACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAA-T
11361914 TTTTTAAAATTTATAATTAATTTACTCAAGTA
65 TTTTTAAAATTTATAATTAATTTACTCAAGTA
* * * *
11361946 ACCCCAAACCCTAATTTATTTTATTTTTTTCTT-AAAACCTTAAACCCTAAACCTTAATCTAATT
1 ACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
*
11362010 TTTTAAAATTTATAATTAATTCACTCAAGTA
66 TTTTAAAATTTATAATTAATTTACTCAAGTA
* *
11362041 ACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATT
1 ACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
11362106 TTTTAAAATTTATAATTAATTTACTCAAGTA
66 TTTTAAAATTTATAATTAATTTACTCAAGTA
* * * *
11362137 ATCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCTAATCTAATT
1 ACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
*
11362202 TCTT-AAATTTATAATTAATTTA
66 TTTTAAAATTTATAATTAATTTA
11362224 ATTAAGAAAC
Statistics
Matches: 259, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
95 80 0.31
96 171 0.66
97 8 0.03
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.41
Consensus pattern (96 bp):
ACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
TTTTAAAATTTATAATTAATTTACTCAAGTA
Found at i:11362046 original size:52 final size:52
Alignment explanation
Indices: 11361896--11362151 Score: 174
Period size: 52 Copynumber: 5.2 Consensus size: 52
11361886 ACCTTAAACA
*
11361896 CTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
1 CTAAACCCTAATCTAA-TTTTTTAAAATTTATAATTAATTAACTCAAGTAACC
* * ** *
11361949 CCAAACCCTAAT-TTATTTTATT----TTT-TTCTTAA--AAC-C--TTAAACC
1 CTAAACCCTAATCTAATTTT-TTAAAATTTATAATTAATTAACTCAAGT-AACC
* *
11361992 CTAAACCTTAATCTAATTTTTTAAAATTTATAATTAATTCACTCAAGTAACC
1 CTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTAACTCAAGTAACC
* * ** * * * *
11362044 CTAAACCCTAAT-TTATTTGATT----TTT-TCCTTAA-AAACCCTA--AACA
1 CTAAACCCTAATCTAATTT-TTTAAAATTTATAATTAATTAACTCAAGTAACC
* *
11362088 CTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACTCAAGTAATC
1 CTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTAACTCAAGTAACC
11362140 CTAAACCCTAAT
1 CTAAACCCTAAT
11362152 TTATTTGATT
Statistics
Matches: 147, Mismatches: 33, Indels: 47
0.65 0.15 0.21
Matches are distributed among these distances:
42 1 0.01
43 16 0.11
44 24 0.16
45 7 0.05
46 4 0.03
47 13 0.09
48 14 0.10
49 5 0.03
50 6 0.04
51 10 0.07
52 35 0.24
53 12 0.08
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (52 bp):
CTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTAACTCAAGTAACC
Found at i:11362148 original size:191 final size:191
Alignment explanation
Indices: 11361850--11362245 Score: 598
Period size: 191 Copynumber: 2.1 Consensus size: 191
11361840 GTAACCCTGG
* *
11361850 ACCCCAAACCCTAATTTATTTAAATTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAATTT
1 ACCCTAAACCCTAATTTATTTAAATTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTT
* *
11361915 TTTTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTTATTTTTTTCTT-
66 TTTTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTGATTTTTTCCTTA
* * * * * *
11361979 AAAACCTTAAACCCTAAACCTTAATCTAATTTTTTAAAATTTATAATTAATTCACTCAAGTA
131 AAAACCATAAACACTAAACCCTAATCTAATTTCTT-AAATTTATAATTAATTCAATCAAGAA
**
11362041 ACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA-T
1 ACCCTAAACCCTAATTTATTT-AAATTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATT
* *
11362105 TTTTTAAAATTTATAATTAATTTACTCAAGTAATCCTAAACCCTAATTTATTTGATTTTTTCCTT
65 TTTTTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTGATTTTTTCCTT
* * *
11362170 AAAAATCATAAACACTAAACCCTAATCTAATTTCTTAAATTTATAATTAATTTAATTAAGAA
130 AAAAACCATAAACACTAAACCCTAATCTAATTTCTTAAATTTATAATTAATTCAATCAAGAA
*
11362232 ACCTTAAACCCTAA
1 ACCCTAAACCCTAA
11362246 ACCCTTATTT
Statistics
Matches: 185, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
191 117 0.63
192 68 0.37
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (191 bp):
ACCCTAAACCCTAATTTATTTAAATTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTT
TTTTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTGATTTTTTCCTTA
AAAACCATAAACACTAAACCCTAATCTAATTTCTTAAATTTATAATTAATTCAATCAAGAA
Found at i:11368008 original size:29 final size:28
Alignment explanation
Indices: 11367966--11368022 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
11367956 ATTCCTCCCA
* * *
11367966 AAAAATTCTCTTCTTTCATTCTCTCTCT
1 AAAAACTCTCTTCTCTCACTCTCTCTCT
*
11367994 AAAAACTCTCATTCTCTCGCTCTCTCTCT
1 AAAAACTCTC-TTCTCTCACTCTCTCTCT
11368023 CTCTCTCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.44
Consensus pattern (28 bp):
AAAAACTCTCTTCTCTCACTCTCTCTCT
Found at i:11368011 original size:2 final size:2
Alignment explanation
Indices: 11368006--11368048 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
11367996 AAACTCTCAT
*
11368006 TC TC TC GC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11368048 T
1 T
11368049 TTCTTCACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
TC
Found at i:11368400 original size:2 final size:2
Alignment explanation
Indices: 11368395--11368427 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11368385 CTTTTTTTTT
11368395 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
11368428 CTGTTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:11374430 original size:21 final size:21
Alignment explanation
Indices: 11374403--11374451 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
11374393 ACAATCACTG
11374403 ATTAACTAGCTGATGTGG-CA
1 ATTAACTAGCTGATGTGGCCA
11374423 AGTTAACTAGCTGATGTGGCCA
1 A-TTAACTAGCTGATGTGGCCA
11374445 ATTAACT
1 ATTAACT
11374452 TGTCACGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (21 bp):
ATTAACTAGCTGATGTGGCCA
Found at i:11374856 original size:16 final size:17
Alignment explanation
Indices: 11374825--11374869 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
11374815 CCGATATAAT
* * *
11374825 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
11374842 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
11374858 AAATATTTTTAA
1 AAATATTTTTAA
11374870 AATACTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:11374899 original size:31 final size:30
Alignment explanation
Indices: 11374864--11374962 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 30
11374854 TTTAAAATAT
*
11374864 TTTTAAAATACTTTTTTTTATTATTTTTTAA
1 TTTTAAAATAC-TTTTTTTAATATTTTTTAA
11374895 TTTTAAAATAC--TTTTTAAT-TTTTTTAA
1 TTTTAAAATACTTTTTTTAATATTTTTTAA
**
11374922 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTTTTAATA-TTTTTTAA
11374952 TTTTTAAAATA
1 -TTTTAAAATA
11374963 AATTTTTGGT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
27 18 0.30
28 13 0.22
30 8 0.13
31 21 0.35
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTTTAATATTTTTTAA
Found at i:11374915 original size:26 final size:26
Alignment explanation
Indices: 11374878--11374962 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 26
11374868 AAAATACTTT
*
11374878 TTTTTATTATTTTTTAATTTTAAAATA
1 TTTTTAAT-TTTTTTAATTTTAAAATA
11374905 CTTTTTAATTTTTTTAATTTTAAAATA
1 -TTTTTAATTTTTTTAATTTTAAAATA
11374932 TTTTTAAAATACTTTTTTAATTTTTAAAATA
1 TTTTT--AAT--TTTTTTAA-TTTTAAAATA
11374963 AATTTTTGGT
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
26 5 0.10
27 18 0.35
28 10 0.20
30 8 0.16
31 10 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTTAATTTTTTTAATTTTAAAATA
Found at i:11374968 original size:20 final size:20
Alignment explanation
Indices: 11374931--11374969 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11374921 ATTTTAAAAT
**
11374931 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
11374951 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
11374970 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:11374976 original size:22 final size:20
Alignment explanation
Indices: 11374930--11374987 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
11374920 AATTTTAAAA
*
11374930 TATTTTTAAAAT-ACTTTTT
1 TATTTTTAAAATAAATTTTT
11374949 TAATTTTTAAAATAAATTTTT
1 T-ATTTTTAAAATAAATTTTT
11374970 GGTATTTATTAAAA-AAAT
1 --TATTT-TTAAAATAAAT
11374988 GGGTCGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 6 0.18
22 8 0.24
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:11376860 original size:18 final size:17
Alignment explanation
Indices: 11376837--11376880 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
11376827 TTAAAAAAAA
*
11376837 TATAAATTGTTGAATTTT
1 TATAAATT-TGGAATTTT
11376855 TATAAATATTGGAATTTT
1 TATAAAT-TTGGAATTTT
11376873 TATAAATT
1 TATAAATT
11376881 ACTTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAATTTGGAATTTT
Found at i:11380751 original size:20 final size:21
Alignment explanation
Indices: 11380726--11380776 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
11380716 AAGTTTTATA
*
11380726 ATATATATTCATTA-TAACAT
1 ATATATATTCAATAGTAACAT
* *
11380746 ATATATGTACAATAGTTAACAT
1 ATATATATTCAATAG-TAACAT
11380768 ATATATATT
1 ATATATATT
11380777 TACATATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 11 0.46
22 13 0.54
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATATATTCAATAGTAACAT
Found at i:11388060 original size:47 final size:47
Alignment explanation
Indices: 11388008--11388141 Score: 147
Period size: 47 Copynumber: 2.9 Consensus size: 47
11387998 TCATTTTTTC
* *
11388008 CTTTTTCTAATTTT-TTTATTTATTTGTCCTTT-TTTGTTTTTTATTT
1 CTTTTTC-AATTTTATTTATTTATTTCTCCTTTATTTATTTTTTATTT
*
11388054 ACTTTTTCAGTTTTATTTATTTATTTCTCCTTTATTTATTTTTTATTT
1 -CTTTTTCAATTTTATTTATTTATTTCTCCTTTATTTATTTTTTATTT
* *
11388102 CTTTTTC-A--TTATTTCTTT-TTTCTTCTTT-TTTATTTGTTTA
1 CTTTTTCAATTTTATTTATTTATTTCTCCTTTATTTATTT-TTTA
11388142 ATAATATTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
42 7 0.09
43 13 0.17
44 9 0.12
46 5 0.06
47 31 0.40
48 13 0.17
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (47 bp):
CTTTTTCAATTTTATTTATTTATTTCTCCTTTATTTATTTTTTATTT
Found at i:11388076 original size:26 final size:23
Alignment explanation
Indices: 11388039--11388136 Score: 78
Period size: 24 Copynumber: 4.1 Consensus size: 23
11388029 ATTTGTCCTT
*
11388039 TTTTGTTTTTTATTTACTTTTTCA
1 TTTTATTTTTTATTT-CTTTTTCA
*
11388063 GTTTTATTTATTTATTTCTCCTTT-A
1 -TTTTATTT-TTTATTTCT-TTTTCA
11388088 -TTTATTTTTTATTTCTTTTTCA
1 TTTTATTTTTTATTTCTTTTTCA
*
11388110 TTATT-TCTTTTT-TCTTCTTTTTTA
1 TT-TTAT-TTTTTAT-TTCTTTTTCA
11388134 TTT
1 TTT
11388137 GTTTAATAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
21 3 0.05
22 10 0.16
23 11 0.18
24 18 0.29
25 10 0.16
26 10 0.16
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTATTTTTTATTTCTTTTTCA
Found at i:11388080 original size:19 final size:18
Alignment explanation
Indices: 11388046--11388097 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
11388036 CTTTTTTGTT
* *
11388046 TTTTATTTACTTTTTCAG
1 TTTTATTTATTTTTTCAC
*
11388064 TTTTATTTATTTATTTCTC
1 TTTTATTTATTT-TTTCAC
*
11388083 CTTTATTTATTTTTT
1 TTTTATTTATTTTTT
11388098 ATTTCTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTATTTATTTTTTCAC
Found at i:11388120 original size:25 final size:25
Alignment explanation
Indices: 11388019--11388131 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
11388009 TTTTTCTAAT
* * * * *
11388019 TTTTTTATTTATTTGTCCTTTTTTG
1 TTTTTTATTTCTTTTTCATTATTTA
*
11388044 TTTTTTATTTACTTTTTCAGT-TTTA
1 TTTTTTATTT-CTTTTTCATTATTTA
* *
11388069 TTTATTTATTTC---TCCTTTATTTA
1 TTT-TTTATTTCTTTTTCATTATTTA
*
11388092 TTTTTTATTTCTTTTTCATTATTTC
1 TTTTTTATTTCTTTTTCATTATTTA
*
11388117 TTTTTT-CTTCTTTTT
1 TTTTTTATTTCTTTTT
11388132 TATTTGTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
22 11 0.16
23 7 0.10
24 8 0.11
25 31 0.44
26 13 0.19
ACGTcount: A:0.12, C:0.11, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTTATTTCTTTTTCATTATTTA
Found at i:11388132 original size:36 final size:35
Alignment explanation
Indices: 11387974--11388136 Score: 116
Period size: 36 Copynumber: 4.5 Consensus size: 35
11387964 TCCAACAACC
* *
11387974 TTTTCTTTATTTTTTATTTGTTTTTCATTTTTTCCT
1 TTTTCTTTATTTTTTATTT-TTTTTCATTATTTCTT
* * * * *
11388010 TTTTC-TAATTTTTTTATTTATTTGTCCTTTTTTGTT
1 TTTTCTTTA-TTTTTTATTT-TTTTTCATTATTTCTT
* * * *
11388046 TTTTATTTACTTTTTCAGTTTTATTT-ATTTATTTCTC
1 TTTTCTTTA-TTTTTTA-TTTTTTTTCA-TTATTTCTT
* *
11388083 CTTTATTTATTTTTTATTTCTTTTTCATTATTTCTT
1 TTTTCTTTATTTTTTATTT-TTTTTCATTATTTCTT
*
11388119 TTTTC-TTCTTTTTTATTT
1 TTTTCTTTATTTTTTATTT
11388137 GTTTAATAAT
Statistics
Matches: 98, Mismatches: 23, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
35 17 0.17
36 52 0.53
37 26 0.27
38 3 0.03
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.75
Consensus pattern (35 bp):
TTTTCTTTATTTTTTATTTTTTTTCATTATTTCTT
Found at i:11388666 original size:7 final size:7
Alignment explanation
Indices: 11388628--11388667 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
11388618 TAGTAAGGTA
*
11388628 TTTATAG
1 TTTATAT
11388635 TTTATAT
1 TTTATAT
*
11388642 TTTGTAT
1 TTTATAT
*
11388649 TTTGTAT
1 TTTATAT
11388656 TTTATAT
1 TTTATAT
11388663 TTTAT
1 TTTAT
11388668 TGTTATTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (7 bp):
TTTATAT
Found at i:11390526 original size:3 final size:3
Alignment explanation
Indices: 11390508--11390555 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
11390498 CAAATTTTGG
* * * *
11390508 ATT ATC ATT GTT ATT ATT ATT GTT ATT ATT ATT ATT ATA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11390556 TATTCGTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:11394883 original size:12 final size:12
Alignment explanation
Indices: 11394866--11394913 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
11394856 TTAGATCCGA
11394866 TCAAAAAATATT
1 TCAAAAAATATT
**
11394878 TCAAAAAAATCAAAA
1 TC-AAAAAAT--ATT
11394893 TCAAAAAATATT
1 TCAAAAAATATT
11394905 TCAAAAAAT
1 TCAAAAAAT
11394914 GAAAAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 12 0.41
13 7 0.24
14 7 0.24
15 3 0.10
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (12 bp):
TCAAAAAATATT
Found at i:11394959 original size:17 final size:17
Alignment explanation
Indices: 11394939--11394975 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11394929 AATGAAAATG
*
11394939 AAGAAAAAGAGAAGAAA
1 AAGAAAAAGAAAAGAAA
*
11394956 AAGAAAAGGAAAAGAAA
1 AAGAAAAAGAAAAGAAA
11394973 AAG
1 AAG
11394976 GAGATGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAAAGAAA
Found at i:11394960 original size:9 final size:10
Alignment explanation
Indices: 11394907--11394960 Score: 53
Period size: 9 Copynumber: 5.7 Consensus size: 10
11394897 AAAATATTTC
11394907 AAAA-AATGA
1 AAAAGAATGA
11394916 AAAA-AATGA
1 AAAAGAATGA
11394925 AAAA-AATGA
1 AAAAGAATGA
*
11394934 AAATGAA-GA
1 AAAAGAATGA
*
11394943 AAAAGAGAAGA
1 AAAAGA-ATGA
11394954 AAAAGAA
1 AAAAGAA
11394961 AAGGAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
9 28 0.70
10 4 0.10
11 8 0.20
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (10 bp):
AAAAGAATGA
Found at i:11394971 original size:11 final size:11
Alignment explanation
Indices: 11394939--11394973 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
11394929 AATGAAAATG
*
11394939 AAGAAAAAGAG
1 AAGAAAAAGAA
11394950 AAGAAAAAGAA
1 AAGAAAAAGAA
*
11394961 AAGGAAAAGAA
1 AAGAAAAAGAA
11394972 AA
1 AA
11394974 AGGAGATGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:11396555 original size:132 final size:132
Alignment explanation
Indices: 11396369--11397055 Score: 547
Period size: 132 Copynumber: 5.2 Consensus size: 132
11396359 CTCTGAGTTT
* * * * *
11396369 GCAGTGAAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAAAAAAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGCAGTAGTTGAGCAGATCAAAGAC
* * *
11396434 GGTGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGGCCTATCTCCCTAAG
66 GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
11396499 CA
131 CA
* * * *
11396501 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGTAGTGGTTGAGCAGATCGAAGGC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGCAGTAGTTGAGCAGATCAAAGAC
* * * **** * * * * **
11396566 AGCGAATCATATC-TCTTTGGCGTTA-CAGTGGAA-CAGATTAAAGCTA-AAGGTAGTGAATCTT
66 GGTGAATCTTATCTTCCCAAG-G-TAGTAG-GGAAGCAGATTTAAGCCACCA-GTCCT--ATC--
11396627 GTTTCCCTG-GCA
123 ---TCCCTGAGCA
** * * * ** * * ** ** * * *
11396639 TTGCAGCAGAGTAGATTAAAG-CTG-A-AGGCAG-CTAATCTTATCTCTCTGGCCTT-A-AAGCT
1 --GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCT--CCTTA-AGCAGTAG--TTGAGCAGAT
** * *
11396698 -AAAGATAGTGAATCTTATTTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCT
59 CAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
11396762 CCCTGAGCA
124 CCCTGAGCA
* *
11396771 ACAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCT-CTCTAAGCAGTAG-TGAAGCAAATCAAAG
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCT-TAAGCAGTAGTTG-AGCAGATCAAAG
*
11396834 ACGGTGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTG
64 ACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTG
11396899 AGCA
129 AGCA
* * * ** * *
11396903 ACAGTAGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAAATCAAAGAT
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGCAGTAGTTGAGCAGATCAAAGAC
* * *
11396968 GGTGAATCTTATCTTTCCAAGGTAGTAGAGAAGCAGATTTAAGCCACCAGTCCTATCTTCCTGAG
66 GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
*
11397033 CG
131 CA
* *
11397035 GCAGTGGAGCAGCTTGAAGAT
1 GCAGTGGAGTAGGTTGAAGAT
11397056 ACCAACTTTA
Statistics
Matches: 428, Mismatches: 93, Indels: 68
0.73 0.16 0.12
Matches are distributed among these distances:
128 1 0.00
130 15 0.04
131 19 0.04
132 291 0.68
133 11 0.03
134 5 0.01
136 5 0.01
137 9 0.02
138 37 0.09
139 17 0.04
140 16 0.04
141 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGCAGTAGTTGAGCAGATCAAAGAC
GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
CA
Found at i:11397096 original size:44 final size:44
Alignment explanation
Indices: 11397035--11397181 Score: 179
Period size: 44 Copynumber: 3.3 Consensus size: 44
11397025 TTCCTGAGCG
* *
11397035 GCAGTGGAGCAGCTTGAAGATACCAACTTTATCTCCTTGAAGTT
1 GCAGTGGAGCAGATTGAAGATACCAACTTTATCTCCCTGAAGTT
* *
11397079 GCAGTGGAACAGGTTGAAGATACCAACTTTATCTCCCTGAAGTT
1 GCAGTGGAGCAGATTGAAGATACCAACTTTATCTCCCTGAAGTT
* ** * *
11397123 GCAGTGGAGCAGATTGAAGCTATTAA-TCCTATCACCCTGAAGTT
1 GCAGTGGAGCAGATTGAAGATACCAACT-TTATCTCCCTGAAGTT
* *
11397167 GAAGTGGAGCGGATT
1 GCAGTGGAGCAGATT
11397182 AAAATGATGA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
43 1 0.01
44 89 0.99
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
GCAGTGGAGCAGATTGAAGATACCAACTTTATCTCCCTGAAGTT
Found at i:11397195 original size:44 final size:44
Alignment explanation
Indices: 11397108--11397206 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
11397098 ATACCAACTT
* * ** *
11397108 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCC
1 TATCACCCTGAAGTTGAAGTGGAGCAGATTGAAAATATGAATCC
*
11397152 TATCACCCTGAAGTTGAAGTGGAGCGGATT-AAAATGATGAATCC
1 TATCACCCTGAAGTTGAAGTGGAGCAGATTGAAAAT-ATGAATCC
11397196 TAT-ACCTCTGA
1 TATCACC-CTGA
11397207 TATTGCAGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 6 0.13
44 41 0.87
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCACCCTGAAGTTGAAGTGGAGCAGATTGAAAATATGAATCC
Found at i:11398411 original size:3 final size:3
Alignment explanation
Indices: 11398393--11398460 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
11398383 CAAATTTTGG
* * * * * *
11398393 ATT ATC ATT GTT ATT ATT ATT TTT ATT GTT GTT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11398441 ATT ATT ATTT ATT AGTT ATT
1 ATT ATT A-TT ATT A-TT ATT
11398461 TATTTTCCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.25, C:0.01, G:0.07, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11401792 original size:22 final size:22
Alignment explanation
Indices: 11401707--11402004 Score: 165
Period size: 22 Copynumber: 13.5 Consensus size: 22
11401697 CTTTAAAAAT
11401707 AATTTTAAAAAATTATATTTAA
1 AATTTTAAAAAATTATATTTAA
*
11401729 TATTTTAAAAAATTATATTTAA
1 AATTTTAAAAAATTATATTTAA
*
11401751 TATTTTAAAAAATTATATTTTAA
1 AATTTTAAAAAATTATA-TTTAA
* *
11401774 AATTTTAAAATA-TACATTTAA
1 AATTTTAAAAAATTATATTTAA
*
11401795 AATATTATAAAACAA--ATA-AT-A
1 AAT-TT-TAAAA-AATTATATTTAA
* * * *
11401816 AATTTGAAAAGCATATCT-TTAAA
1 AATTTTAAAA-AAT-TATATTTAA
* * *
11401839 AATAATATTTATAAA-TAT-TTTAT
1 AAT--T-TTAAAAAATTATATTTAA
*
11401862 AATATTAAAAAATTTATATTTAA
1 AATTTTAAAAAA-TTATATTTAA
* *
11401885 AAATTT-AAAAATAATATTT-A
1 AATTTTAAAAAATTATATTTAA
* *
11401905 AATTTTTAAAAATAATATTTAA
1 AATTTTAAAAAATTATATTTAA
*
11401927 AA--TTAAAAAA-TAAATTTAA
1 AATTTTAAAAAATTATATTTAA
* *
11401946 AATTTTTTTAAAAATAATATTATAAA
1 AA--TTTTAAAAAATTATATT-T-AA
* * *
11401972 AAATTTAAAATA-TACATTTAA
1 AATTTTAAAAAATTATATTTAA
11401993 AATTTTAAAAAA
1 AATTTTAAAAAA
11402005 ATAATAAACA
Statistics
Matches: 211, Mismatches: 41, Indels: 49
0.70 0.14 0.16
Matches are distributed among these distances:
19 14 0.07
20 21 0.10
21 44 0.21
22 57 0.27
23 53 0.25
24 12 0.06
25 3 0.01
26 7 0.03
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (22 bp):
AATTTTAAAAAATTATATTTAA
Found at i:11401897 original size:42 final size:40
Alignment explanation
Indices: 11401845--11402010 Score: 118
Period size: 43 Copynumber: 3.9 Consensus size: 40
11401835 TAAAAATAAT
* *
11401845 ATTTATAAATAT-TTTATAATATTAAAAAATTTATATTTAAAA
1 ATTTAAAAATATATTTA-AATATTAAAAAA-TAATATTT-AAA
* *
11401887 ATTTAAAAATAATATTTAAATTTTTAAAAATAATATTTAAA
1 ATTTAAAAAT-ATATTTAAATATTAAAAAATAATATTTAAA
* * * *
11401928 ATTAAAAAATAAATTTAAAATTTTTTTAAAAATAATATTATAAAAA
1 ATTTAAAAATATATTT-AAA--TATTAAAAAATAATATT-T--AAA
* *
11401974 ATTTAAAATATACATTTAAAATTTTAAAAAAATAATA
1 ATTTAAAA-ATATATTT-AAATATT-AAAAAATAATA
11402011 AACAAATAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
40 5 0.05
41 15 0.14
42 16 0.15
43 29 0.28
44 5 0.05
45 4 0.04
46 20 0.19
47 11 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (40 bp):
ATTTAAAAATATATTTAAATATTAAAAAATAATATTTAAA
Found at i:11401901 original size:21 final size:21
Alignment explanation
Indices: 11401877--11402007 Score: 126
Period size: 21 Copynumber: 6.1 Consensus size: 21
11401867 TAAAAAATTT
11401877 ATATTTAAAAATTTAAAAATA
1 ATATTTAAAAATTTAAAAATA
**
11401898 ATATTTAAATTTTTAAAAATA
1 ATATTTAAAAATTTAAAAATA
*
11401919 ATATTT-AAAATTAAAAAATA
1 ATATTTAAAAATTTAAAAATA
*
11401939 A-ATTTAAAATTTTTTTAAAAATA
1 ATATTTAAAA---ATTTAAAAATA
11401962 ATATTATAAAAAATTT-AAAATA
1 ATATT-T-AAAAATTTAAAAATA
* *
11401984 TACATTTAAAATTTTAAAAA-A
1 -ATATTTAAAAATTTAAAAATA
11402005 ATA
1 ATA
11402008 ATAAACAAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.04
20 17 0.19
21 33 0.37
22 11 0.12
23 17 0.19
24 3 0.03
25 1 0.01
26 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATTTAAAAATTTAAAAATA
Found at i:11401939 original size:41 final size:41
Alignment explanation
Indices: 11401865--11401949 Score: 61
Period size: 41 Copynumber: 2.1 Consensus size: 41
11401855 ATTTTATAAT
* * *
11401865 ATTAAAAAATTTATATTTAAAAATTTAAAAA-TAATATTTAAA
1 ATTAAAAAA--TAAATTTAAATATTAAAAAATTAATATTTAAA
* *
11401907 TTTTTAAAAATAATATTTAAA-ATTAAAAAA-TAA-ATTTAAA
1 -ATTAAAAAATAA-ATTTAAATATTAAAAAATTAATATTTAAA
11401947 ATT
1 ATT
11401950 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
39 2 0.06
40 7 0.19
41 13 0.36
42 7 0.19
43 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (41 bp):
ATTAAAAAATAAATTTAAATATTAAAAAATTAATATTTAAA
Found at i:11401997 original size:47 final size:43
Alignment explanation
Indices: 11401877--11401998 Score: 151
Period size: 41 Copynumber: 2.8 Consensus size: 43
11401867 TAAAAAATTT
*
11401877 ATATTTAAAAATTTAAAAATAATATTTAAA--TTTTTAAAAATA
1 ATATTTAAAAATTTAAAAATAAT-TTAAAATTTTTTTAAAAATA
*
11401919 ATATTT-AAAATTAAAAAATAAATTTAAAATTTTTTTAAAAATA
1 ATATTTAAAAATTTAAAAAT-AATTTAAAATTTTTTTAAAAATA
11401962 ATATTATAAAAAATTTAAAATATACATTTAAAATTTT
1 ATATT-T-AAAAATTTAAAA-ATA-ATTTAAAATTTT
11401999 AAAAAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
41 17 0.25
42 9 0.13
43 17 0.25
44 1 0.01
46 11 0.16
47 14 0.20
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.43
Consensus pattern (43 bp):
ATATTTAAAAATTTAAAAATAATTTAAAATTTTTTTAAAAATA
Found at i:11402038 original size:26 final size:26
Alignment explanation
Indices: 11402008--11402104 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 26
11401998 TAAAAAAATA
*
11402008 ATAAACAAATAAAAGAGAAATAAAGG
1 ATAAACAAATAAAAAAGAAATAAAGG
*
11402034 ATAAATAAATAATTGAAAAAGTAAATAAA-G
1 ATAAACAAAT-A---AAAAAG-AAATAAAGG
*
11402064 AAAAACAAATAAAAAACG-AA-AAAGG
1 ATAAACAAATAAAAAA-GAAATAAAGG
*
11402089 ACAAACAAATAAAAAA
1 ATAAACAAATAAAAAA
11402105 ATCATAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
24 3 0.05
25 18 0.31
26 14 0.24
27 2 0.03
29 1 0.02
30 14 0.24
31 7 0.12
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.12
Consensus pattern (26 bp):
ATAAACAAATAAAAAAGAAATAAAGG
Found at i:11402045 original size:15 final size:14
Alignment explanation
Indices: 11402025--11402076 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
11402015 AATAAAAGAG
*
11402025 AAATAAAGGATAAAT
1 AAATAAA-GAAAAAT
*
11402040 AAATAATTGAAAAAGT
1 AAATAA-AGAAAAA-T
*
11402056 AAATAAAGAAAAAC
1 AAATAAAGAAAAAT
11402070 AAATAAA
1 AAATAAA
11402077 AAACGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 7 0.23
15 17 0.55
16 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (14 bp):
AAATAAAGAAAAAT
Found at i:11403431 original size:11 final size:11
Alignment explanation
Indices: 11403415--11403477 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
11403405 CTTTTAAAAT
11403415 TTAAAAAATTA
1 TTAAAAAATTA
*
11403426 TTAAAAAATCA
1 TTAAAAAATTA
11403437 -T-AAAAATTA
1 TTAAAAAATTA
*
11403446 TAAAAAAAATTA
1 T-TAAAAAATTA
*
11403458 -TAAAAATTTTA
1 TTAAAAA-ATTA
11403469 TTAAAAAAT
1 TTAAAAAAT
11403478 AACAAGACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
9 7 0.17
10 6 0.15
11 14 0.34
12 14 0.34
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:11403442 original size:21 final size:21
Alignment explanation
Indices: 11403416--11403477 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
11403406 TTTTAAAATT
11403416 TAAAAAATTATTAAAAAATCA
1 TAAAAAATTATTAAAAAATCA
* *
11403437 T-AAAAATTATAAAAAAAATTA
1 TAAAAAATTAT-TAAAAAATCA
*
11403458 TAAAAATTTTATTAAAAAAT
1 TAAAAA-ATTATTAAAAAAT
11403478 AACAAGACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.26
21 10 0.29
22 11 0.32
23 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAAATTATTAAAAAATCA
Found at i:11403455 original size:12 final size:12
Alignment explanation
Indices: 11403438--11403463 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11403428 AAAAAATCAT
11403438 AAAAATTATAAA
1 AAAAATTATAAA
11403450 AAAAATTATAAA
1 AAAAATTATAAA
11403462 AA
1 AA
11403464 TTTTATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:11404869 original size:23 final size:23
Alignment explanation
Indices: 11404843--11404902 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
11404833 AAAAGACAGT
11404843 TGAACAATGAAGATTCTCT-GCGA
1 TGAACAATGAAGATTCTCTAGC-A
* * *
11404866 TGAATAGT-AAAATTCTCTAGCA
1 TGAACAATGAAGATTCTCTAGCA
11404888 TGAACAATGAAGATT
1 TGAACAATGAAGATT
11404903 TTCCGTAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (23 bp):
TGAACAATGAAGATTCTCTAGCA
Found at i:11407670 original size:9 final size:9
Alignment explanation
Indices: 11407656--11407686 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11407646 GTTAAACGAA
11407656 TCGAGTTAT
1 TCGAGTTAT
*
11407665 TCGAGTTAA
1 TCGAGTTAT
11407674 TCGAGTTAT
1 TCGAGTTAT
11407683 TCGA
1 TCGA
11407687 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11407758 original size:9 final size:9
Alignment explanation
Indices: 11407739--11407775 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11407729 TGAGTTTTCG
*
11407739 AATTTGAAT
1 AATTCGAAT
*
11407748 AACTCGAAT
1 AATTCGAAT
11407757 AATTCGAAT
1 AATTCGAAT
11407766 AATTCGAAT
1 AATTCGAAT
11407775 A
1 A
11407776 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11408023 original size:30 final size:31
Alignment explanation
Indices: 11407989--11408048 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11407979 AAACCTTTTA
*
11407989 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
11408019 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
11408049 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:11409484 original size:26 final size:26
Alignment explanation
Indices: 11409455--11409512 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
11409445 CAATTATGTG
* * *
11409455 ATTTATATTTATAAAAATATATATAT
1 ATTTAAATTAATAAAAATATAAATAT
*
11409481 ATTTAAATTAATGAAAATATAAATAT
1 ATTTAAATTAATAAAAATATAAATAT
11409507 ATTTAA
1 ATTTAA
11409513 CCAAATAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTAAATTAATAAAAATATAAATAT
Found at i:11411894 original size:113 final size:114
Alignment explanation
Indices: 11411749--11411984 Score: 291
Period size: 113 Copynumber: 2.1 Consensus size: 114
11411739 CAGATTCAAA
* * *
11411749 GACATTAGTGGCGCTTTAAAGAAAACGCCGCAAAAGA-GAAACATTAGCGACGCTTTCTACAAAA
1 GACATTAGTGGCGATTTAAAGAAAACGCCGCAAAAGATCAAACATTAGCGACGCGTTC-ACAAAA
* *
11411813 GCGCCGCAAAAGTGATTAACAGACGATG-C-CGTATTGATTTACGTTTGAT
65 GCGCCGCAAAACTGATTAACAGACGACGACTCGT-TTGATTTACGTTTGAT
* *** * *
11411862 GACATTAGTGGC-ATTTATAAGTAAACGCCGCAAAAGATCATGTATTCGCGGCGCGTTCACAAAA
1 GACATTAGTGGCGATTTA-AAGAAAACGCCGCAAAAGATCAAACATTAGCGACGCGTTCACAAAA
* * *
11411926 GCGCCGCAGATCTGATTAACAGACGACGACTTGTTTGATTTACGTTTGAT
65 GCGCCGCAAAACTGATTAACAGACGACGACTCGTTTGATTTACGTTTGAT
11411976 GACATTAGT
1 GACATTAGT
11411985 AGCGTTTTCG
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
112 4 0.04
113 60 0.57
114 39 0.37
115 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (114 bp):
GACATTAGTGGCGATTTAAAGAAAACGCCGCAAAAGATCAAACATTAGCGACGCGTTCACAAAAG
CGCCGCAAAACTGATTAACAGACGACGACTCGTTTGATTTACGTTTGAT
Found at i:11412821 original size:37 final size:37
Alignment explanation
Indices: 11412774--11412858 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
11412764 AGGGTTGAGG
* *
11412774 TTTAAGGTTTAGGGTTTATAGTTTATATATAT-TATGA
1 TTTAAGGTTTAGGATTTAGAGTTTATATAT-TCTATGA
* *
11412811 TTTAAGGTTTAGGATTTAGGGTTTATATGTTCTATGA
1 TTTAAGGTTTAGGATTTAGAGTTTATATATTCTATGA
*
11412848 TTTAGGGTTTA
1 TTTAAGGTTTA
11412859 AGGAATATGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.02
37 41 0.98
ACGTcount: A:0.26, C:0.01, G:0.22, T:0.51
Consensus pattern (37 bp):
TTTAAGGTTTAGGATTTAGAGTTTATATATTCTATGA
Found at i:11412859 original size:44 final size:44
Alignment explanation
Indices: 11412771--11412861 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
11412761 TTAAGGGTTG
* *
11412771 AGGTTTAAGGTTTAGGGTTTATAGTTTATATATATTATGATTTA
1 AGGTTTAAGGTTTAGGGTTTATAGTTTATAGATATTAGGATTTA
*
11412815 AGGTTT-AGGATTTAGGGTTTATATGTTCTAT-GAT-TTAGGGTTTA
1 AGGTTTAAGG-TTTAGGGTTTATA-GTT-TATAGATATTAGGATTTA
11412859 AGG
1 AGG
11412862 AATATGGCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 3 0.07
44 30 0.73
45 5 0.12
46 3 0.07
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.47
Consensus pattern (44 bp):
AGGTTTAAGGTTTAGGGTTTATAGTTTATAGATATTAGGATTTA
Found at i:11413156 original size:14 final size:14
Alignment explanation
Indices: 11413133--11413195 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
11413123 TCTAGGTCAA
11413133 TTTAAGGTTAAGGG
1 TTTAAGGTTAAGGG
*
11413147 TTTAATGTTAAGGG
1 TTTAAGGTTAAGGG
* *
11413161 TTAAAGGTTTAGGG
1 TTTAAGGTTAAGGG
* *
11413175 TTTAGGGTTAAAGG
1 TTTAAGGTTAAGGG
*
11413189 TCTAAGG
1 TTTAAGG
11413196 AATAGAGTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.37
Consensus pattern (14 bp):
TTTAAGGTTAAGGG
Found at i:11413164 original size:21 final size:21
Alignment explanation
Indices: 11413134--11413195 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
11413124 CTAGGTCAAT
* *
11413134 TTAA-GGTTAAGGGTTTAATG
1 TTAAGGGTTAAAGGTTTAAGG
*
11413154 TTAAGGGTTAAAGGTTTAGGG
1 TTAAGGGTTAAAGGTTTAAGG
* *
11413175 TTTAGGGTTAAAGGTCTAAGG
1 TTAAGGGTTAAAGGTTTAAGG
11413196 AATAGAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.35
Consensus pattern (21 bp):
TTAAGGGTTAAAGGTTTAAGG
Found at i:11416166 original size:9 final size:9
Alignment explanation
Indices: 11416148--11416275 Score: 193
Period size: 9 Copynumber: 14.2 Consensus size: 9
11416138 CTTATATATA
*
11416148 AACTTGCAT
1 AACTTACAT
11416157 AACTTACAT
1 AACTTACAT
11416166 AACTTACAT
1 AACTTACAT
* *
11416175 AAATTAAAT
1 AACTTACAT
11416184 AACTTACAT
1 AACTTACAT
11416193 AACTTACAT
1 AACTTACAT
* *
11416202 AAATTAAAT
1 AACTTACAT
11416211 AACTTACAT
1 AACTTACAT
11416220 AACTTACAT
1 AACTTACAT
*
11416229 AACTTAAAT
1 AACTTACAT
11416238 AACTTACAT
1 AACTTACAT
11416247 AACTTACAT
1 AACTTACAT
*
11416256 AACTTAAAT
1 AACTTACAT
11416265 AACTTACAT
1 AACTTACAT
11416274 AA
1 AA
11416276 TACATAAGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 106 1.00
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:11416187 original size:27 final size:27
Alignment explanation
Indices: 11416155--11416282 Score: 224
Period size: 27 Copynumber: 4.8 Consensus size: 27
11416145 ATAAACTTGC
11416155 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
11416182 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
*
11416209 ATAACTTACATAACTTACATAACTTAA
1 ATAACTTACATAACTTACATAAATTAA
*
11416236 ATAACTTACATAACTTACATAACTTAA
1 ATAACTTACATAACTTACATAAATTAA
11416263 ATAACTTACATAA--TACATAA
1 ATAACTTACATAACTTACATAA
11416283 GTTTACTTAC
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
25 7 0.07
27 93 0.93
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (27 bp):
ATAACTTACATAACTTACATAAATTAA
Found at i:11419485 original size:41 final size:41
Alignment explanation
Indices: 11419437--11419595 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
11419427 GTGAAATTAT
* * *
11419437 TCAGACTATACGTCTAGCAGGCTAAGTGTCGGTGAATTGAA
1 TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAATTGAA
*
11419478 TC-GGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAGTTGAA
1 TCAGG-CTATACG-CCTAGCAGGCTAAGTGCCGGTGAATTGAA
* * * *
11419519 TCAGGCTACAAGCCTAGCAGGCTAAGTGCTGGTGAACTGAA
1 TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAATTGAA
*
11419560 TCAGGCTATAGGCCTAGCAGGCTAAGTGCCGGTGAA
1 TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAA
11419596 CGGAATTAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
40 3 0.03
41 96 0.94
42 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (41 bp):
TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAATTGAA
Found at i:11419596 original size:41 final size:41
Alignment explanation
Indices: 11419450--11419636 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 41
11419440 GACTATACGT
* * *
11419450 CTAGCAGGCTAAGTGTCGGTGAATTGAATC-GGACTATACGTC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTATAAG-C
** *
11419492 C-AGCAGGCTAAGTGCCGGTGAGTTGAATCAGGCTACAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* *
11419532 CTAGCAGGCTAAGTGCTGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* * **
11419573 CTAGCAGGCTAAGTGCCGGTGAACGGAATTAAACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* *
11419614 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
11419637 TCTGTTTAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.02
41 119 0.95
42 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
Found at i:11421001 original size:21 final size:20
Alignment explanation
Indices: 11420975--11421040 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 20
11420965 CAACTTAAAA
*
11420975 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGC-GCAGCGAGAGAAG
*
11420996 CAGAGGCTGCAACGAGAGAAG
1 CAGAGGC-GCAGCGAGAGAAG
11421017 CAGAGGTCGCAGCGAGAGAAG
1 CAGAGG-CGCAGCGAGAGAAG
11421038 CAG
1 CAG
11421041 CGAGAGAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.44, T:0.03
Consensus pattern (20 bp):
CAGAGGCGCAGCGAGAGAAG
Found at i:11421042 original size:12 final size:12
Alignment explanation
Indices: 11421025--11421052 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11421015 AGCAGAGGTC
11421025 GCAGCGAGAGAA
1 GCAGCGAGAGAA
11421037 GCAGCGAGAGAA
1 GCAGCGAGAGAA
11421049 GCAG
1 GCAG
11421053 AGGTTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:11421591 original size:42 final size:42
Alignment explanation
Indices: 11421488--11421801 Score: 276
Period size: 43 Copynumber: 7.4 Consensus size: 42
11421478 GTTTGTGAAA
* * * ***
11421488 TAAGCGCCGCGAAAGAACACT-ACTTTTAGCGGTGTTTGTAGA
1 TAAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTTTCC
* * *
11421530 TGAAGCGCTGCTAAAGAACATTACTTTTAGCGGCATTTTTTACC
1 T-AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT-CC
* * *
11421574 -AAGCGCCGCTATAGAACATTACTTTTAGCGGTGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCC
* * * * * *
11421615 TAAACGTCGCTAAAGATCATGTCATTTAGCAGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCC
* * *
11421657 AAAGCGCCGCTAAAGAACATGA-TCATTAGCGGAGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCG-TTTTTTCC
* *
11421700 TAAGCGCCACTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCG-TTTTTTCC
* * *
11421743 TAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTG
1 TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCG-TTTTTTC-C
*
11421787 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
11421802 TTAGCGACGT
Statistics
Matches: 226, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.01
42 93 0.41
43 118 0.52
44 13 0.06
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCC
Found at i:11423873 original size:22 final size:22
Alignment explanation
Indices: 11423847--11424137 Score: 348
Period size: 22 Copynumber: 13.2 Consensus size: 22
11423837 AGAAATTATC
**
11423847 CAACATTCAGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
11423869 TAACATTTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
*
11423891 TAACATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
11423913 CAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
* *
11423935 CAATATTTGGACAGCATTTAAT
1 CAACATTTGGACAACATTTAAT
* * *
11423957 CAACAATTGGACAACACTAAAT
1 CAACATTTGGACAACATTTAAT
11423979 CAACATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* * * * * *
11424001 CAAAAATAGGATAGCATTCAAT
1 CAACATTTGGACAACATTTAAT
*
11424023 CAATATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
11424045 CAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAAT
**
11424067 CAACATTTGGACAGTATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
11424089 CAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
*
11424111 CAATATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
11424133 CAACA
1 CAACA
11424138 ATTTTTACTT
Statistics
Matches: 222, Mismatches: 47, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 222 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.29
Consensus pattern (22 bp):
CAACATTTGGACAACATTTAAT
Found at i:11423904 original size:44 final size:44
Alignment explanation
Indices: 11423847--11424140 Score: 426
Period size: 44 Copynumber: 6.7 Consensus size: 44
11423837 AGAAATTATC
** * *
11423847 CAACATTCAGACAACATTTAATTAACATTTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
*
11423891 TAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
* * * *
11423935 CAATATTTGGACAGCATTTAATCAACAATTGGACAACACTAAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
* * * *
11423979 CAACATTTGGACAACATTTAATCAAAAATAGGATAGCATTCAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
* *
11424023 CAATATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
**
11424067 CAACATTTGGACAGTATTTAATCAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
*
11424111 CAATATTTGGACAACATTTAATCAACAATT
1 CAACATTTGGACAACATTTAATCAACAATT
11424141 TTTACTTCAA
Statistics
Matches: 219, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 219 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.29
Consensus pattern (44 bp):
CAACATTTGGACAACATTTAATCAACAATTGGACAACATTCAAT
Found at i:11423906 original size:11 final size:11
Alignment explanation
Indices: 11423870--11423997 Score: 50
Period size: 11 Copynumber: 11.6 Consensus size: 11
11423860 ACATTTAATT
11423870 AACATTTGGAC
1 AACATTTGGAC
** *
11423881 AACA-TTCAATT
1 AACATTTGGA-C
11423892 AACATTTGGAC
1 AACATTTGGAC
*
11423903 AACATTT-AATC
1 AACATTTGGA-C
*
11423914 AACAATTGGAC
1 AACATTTGGAC
**
11423925 AACA-TTCAATC
1 AACATTTGGA-C
*
11423936 AATATTTGGAC
1 AACATTTGGAC
* *
11423947 AGCATTT-AATC
1 AACATTTGGA-C
*
11423958 AACAATTGGAC
1 AACATTTGGAC
* **
11423969 AACA-CTAAATC
1 AACATTTGGA-C
11423980 AACATTTGGAC
1 AACATTTGGAC
11423991 AACATTT
1 AACATTT
11423998 AATCAAAAAT
Statistics
Matches: 81, Mismatches: 26, Indels: 20
0.64 0.20 0.16
Matches are distributed among these distances:
10 10 0.12
11 61 0.75
12 10 0.12
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (11 bp):
AACATTTGGAC
Found at i:11425024 original size:42 final size:43
Alignment explanation
Indices: 11424919--11425033 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
11424909 TCATACAATA
* * * *
11424919 CCAACGTCCCAGACATGGTCTTTCATGTAATCAAACAACGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACG
* * * * *
11424962 CCACTGTCCCAGACAGGGTCTTACACGTAATCATA-TACTACG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACG
*
11425004 CCAATGTCCCAGATATGGTCTTACACGTAA
1 CCAATGTCCCAGACATGGTCTTACACGTAA
11425034 ATCTCAAATT
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACG
Found at i:11427838 original size:28 final size:28
Alignment explanation
Indices: 11427806--11427873 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
11427796 ATAAGATTTA
11427806 ATATTAAATTTAATCTAATATTAAATTG
1 ATATTAAATTTAATCTAATATTAAATTG
* * *
11427834 ATATTAGATTAAATTTAATATTAAATTG
1 ATATTAAATTTAATCTAATATTAAATTG
11427862 --ATTAAATTTAAT
1 ATATTAAATTTAAT
11427874 ATAGTTGAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 10 0.29
28 25 0.71
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (28 bp):
ATATTAAATTTAATCTAATATTAAATTG
Found at i:11432496 original size:20 final size:20
Alignment explanation
Indices: 11432423--11432497 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
11432413 CGTATAACCT
*
11432423 GTAATTCATCAATAAT-AACA
1 GTAATTCATCCAT-ATCAACA
* * * *
11432443 GAAATTTATCCGTATCAACC
1 GTAATTCATCCATATCAACA
* *
11432463 GTAACTT-ATACATATCAACG
1 GTAA-TTCATCCATATCAACA
11432483 GTAATTCATCCATAT
1 GTAATTCATCCATAT
11432498 AATTACATAG
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
19 4 0.10
20 36 0.86
21 2 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (20 bp):
GTAATTCATCCATATCAACA
Found at i:11432698 original size:23 final size:23
Alignment explanation
Indices: 11432669--11432750 Score: 128
Period size: 23 Copynumber: 3.6 Consensus size: 23
11432659 CCGAGCTGAT
* *
11432669 AAACGGTAAGCTCTATCGAGTTG
1 AAACGGTAAGCTCCATAGAGTTG
* *
11432692 AAACGGTAAGTTCCATAGAGCTG
1 AAACGGTAAGCTCCATAGAGTTG
11432715 AAACGGTAAGCTCCATAGAGTTG
1 AAACGGTAAGCTCCATAGAGTTG
11432738 AAACGGTAAGCTC
1 AAACGGTAAGCTC
11432751 ATACGAGCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGTTG
Found at i:11432724 original size:46 final size:46
Alignment explanation
Indices: 11432660--11432760 Score: 141
Period size: 46 Copynumber: 2.2 Consensus size: 46
11432650 AAGCTTATTC
* * *
11432660 CGAGCTGATAAACGGTAAGCTCTATCGAGTTGAAACGGTAAGTTCCATA
1 CGAGCTG--AAACGGTAAGCTCCATAGAGTTGAAACGGTAAGCT-CATA
11432709 -GAGCTGAAACGGTAAGCTCCATAGAGTTGAAACGGTAAGCTCATA
1 CGAGCTGAAACGGTAAGCTCCATAGAGTTGAAACGGTAAGCTCATA
11432754 CGAGCTG
1 CGAGCTG
11432761 TGGTGAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 4 0.08
46 38 0.79
48 6 0.12
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (46 bp):
CGAGCTGAAACGGTAAGCTCCATAGAGTTGAAACGGTAAGCTCATA
Found at i:11441043 original size:18 final size:17
Alignment explanation
Indices: 11441021--11441090 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 17
11441011 AATATTCTAC
11441021 AAAAAGAAAAGAAAAAA
1 AAAAAGAAAAGAAAAAA
* *
11441038 ATAAA-AAAATAAAAAA
1 AAAAAGAAAAGAAAAAA
* *
11441054 AAGAAGAAAAAGAAGAAA
1 AAAAAG-AAAAGAAAAAA
*
11441072 AAGAAGAAAA-AAAGAAA
1 AAAAAGAAAAGAAA-AAA
11441089 AA
1 AA
11441091 GAAATGAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 15 0.35
17 13 0.30
18 15 0.35
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAA
Found at i:11441063 original size:8 final size:8
Alignment explanation
Indices: 11441024--11441089 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
11441014 ATTCTACAAA
11441024 AAGAAAAG
1 AAGAAAAG
* *
11441032 AAAAAAAT
1 AAGAAAAG
* *
11441040 AAAAAAATA
1 AAGAAAA-G
*
11441049 AAAAAAAG
1 AAGAAAAG
11441057 AAGAAAAAG
1 AAG-AAAAG
11441066 AAGAAAAAG
1 AAG-AAAAG
*
11441075 AAGAAAAA
1 AAGAAAAG
11441083 AAGAAAA
1 AAGAAAA
11441090 AGAAATGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
8 26 0.52
9 24 0.48
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (8 bp):
AAGAAAAG
Found at i:11441090 original size:8 final size:9
Alignment explanation
Indices: 11441027--11441093 Score: 86
Period size: 9 Copynumber: 7.8 Consensus size: 9
11441017 CTACAAAAAG
11441027 AAAAGAA-A
1 AAAAGAAGA
*
11441035 AAAATAA-A
1 AAAAGAAGA
* *
11441043 AAAATAAAA
1 AAAAGAAGA
11441052 AAAAGAAGA
1 AAAAGAAGA
11441061 AAAAGAAGA
1 AAAAGAAGA
11441070 AAAAGAAGA
1 AAAAGAAGA
11441079 AAAA-AAGA
1 AAAAGAAGA
11441087 AAAAGAA
1 AAAAGAA
11441094 ATGAAAGGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
8 22 0.41
9 32 0.59
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:11443031 original size:82 final size:81
Alignment explanation
Indices: 11442915--11443070 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
11442905 AAATTGTACA
* * * *
11442915 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
11442979 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
11442996 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
11443061 TGCGAGTTGA
65 TGCGAATTGA
11443071 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:11443038 original size:55 final size:52
Alignment explanation
Indices: 11442914--11443067 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
11442904 TAAATTGTAC
* *
11442914 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
11442967 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
11443022 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
11443068 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:11443072 original size:27 final size:27
Alignment explanation
Indices: 11442915--11443070 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
11442905 AAATTGTACA
*
11442915 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
11442942 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
11442969 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
11442996 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
11443024 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
11443051 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
11443071 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:11443081 original size:27 final size:27
Alignment explanation
Indices: 11442907--11443091 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
11442897 GCGGGATTAA
*
11442907 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
11442934 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
11442961 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
11442988 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
11443016 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
11443043 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
11443070 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
11443092 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:11443082 original size:82 final size:81
Alignment explanation
Indices: 11442907--11443091 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
11442897 GCGGGATTAA
* * * *
11442907 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
11442972 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
11442988 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
11443052 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
11443070 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
11443092 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:11445411 original size:100 final size:100
Alignment explanation
Indices: 11445236--11446296 Score: 1021
Period size: 100 Copynumber: 10.7 Consensus size: 100
11445226 ACCCCTGAGG
* * * * *
11445236 TTGCAGTTAAAAAGATTGAAGCCACAAC-GACGAATCTTACTTCCCTAGCGGTGTAGTGGAACAA
1 TTGCAATTAAAAAGATTGAAGCCACAACAG-TGAATCTTACTTCCCTGGCGGTGCAGTGGAACAG
** *
11445300 ATTGAAGCTACAATTATGAATCTTGCTCCCCCGACA
65 ATTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
* * * * *
11445336 TTGCAATTAAAAAGATTGAAGCTATAACATTGAATTTTACTTCCCTGGCAGTGCAGT-GAAGCAG
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAA-CAG
* * ** ** * *
11445400 ATTGAAACTACAATGGCGAATCTTGCTTTGCTGACT
65 ATTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
* * * *
11445436 TTGCAATTAAAAAGATTGAAGCCACAACTGTGAATCTTACTTCCCTGGTGGTACAGTGGAGCAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* * *
11445501 TTAAAGCTACAACGGCT-AATCTTACTTCCCCGACA
66 TTGAAGCTACAAC-GATGAATCTTGCTTCCCCGACA
* * * * * * *
11445536 TTACAATTAAAAAGATTGAATCTATAATAGTAAATCTTACTTCTCTGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11445601 TTGAAGCTATAACGATGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
* ** * *
11445636 TTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTTTCTGGTGGTGCAGTGGAGCAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* *
11445701 TTGAAGCTACAACGACT-AATCTTGTTTTCCCGACA
66 TTGAAGCTACAACGA-TGAATCTTGCTTCCCCGACA
* * * * * * * *
11445736 TTGTAGTTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCT----GTACAGTAGAATAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* *
11445797 TTGAAGCTACAACGGTGAATATTGCTTCCCCGACA
66 TTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
* * ** * * *
11445832 TTGCAATTAAAAAGGTTGAAGCCACAACGGTGAATCTTACTTCCCTGGTAGTGCAGTAGATCATA
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* *
11445897 TTGAAGCTACAAC-A-GCAAATCTTACTTCTCCGACA
66 TTGAAGCTACAACGATG--AATCTTGCTTCCCCGACA
* * * *
11445932 TTACAATTAAAAAGATTGAAGCCACAAC-GACGAATCTTACTTCCCAGGCGGTGCAGTGGAATAG
1 TTGCAATTAAAAAGATTGAAGCCACAACAG-TGAATCTTACTTCCCTGGCGGTGCAGTGGAACAG
* **
11445996 ATTGAAACTACAACGACAAATCTTGCTTCCCCGACA
65 ATTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
* * *
11446032 TT---A-T----A-ATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTACAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* * * *
11446088 TTAAAGCTACGACGACGAATCTTGTTTCCCCGACA
66 TTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
* * * * * ** ** *
11446123 TTGCAGTTAAATAGATTAAAGCTACTAC-GACAAATCTTACTTCCCTGGCGGTATAGTGGAATAG
1 TTGCAATTAAAAAGATTGAAGCCACAACAG-TGAATCTTACTTCCCTGGCGGTGCAGTGGAACAG
* * * *
11446187 ATTGAAGCTACGACGGTGAATCTTGTTTCCTCGACA
65 ATTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
* * * * * * *
11446223 TTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGCCGGTACAGTGGAACATA
1 TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11446288 TTAAAGCTA
66 TTGAAGCTA
11446297 TAAATTACTG
Statistics
Matches: 793, Mismatches: 140, Indels: 56
0.80 0.14 0.06
Matches are distributed among these distances:
91 76 0.10
92 2 0.00
95 2 0.00
96 80 0.10
97 1 0.00
98 1 0.00
99 8 0.01
100 617 0.78
101 6 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACGATGAATCTTGCTTCCCCGACA
Found at i:11445502 original size:50 final size:50
Alignment explanation
Indices: 11445248--11446296 Score: 381
Period size: 50 Copynumber: 21.2 Consensus size: 50
11445238 GCAGTTAAAA
* ** * *
11445248 AGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *** * * * * ** * ** *
11445298 AAATTGAAGCTACAATTATGAATCTTGCTCCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* ** * *
11445348 AGATTGAAGCTATAACATTGAATTTTACTTCCCTGGCAGTGCAGT-GAAGC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAA-C
* * * * ** * ** * ** *
11445398 AGATTGAAACTACAATGGCGAATCTTGCTTTGCTGACTTTGCAATTAAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * * *
11445448 AGATTGAAGCCACAACTGTGAATCTTACTTCCCTGGTGGTACAGTGGAGC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * ** * * ** *
11445498 AGATTAAAGCTACAACGGCT-AATCTTACTTCCCCGACATTACAATTAAAA
1 AGATTGAAGCTACAACGG-TGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * ** * *
11445548 AGATTGAATCTATAATAGTAAATCTTACTTCTCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * * * ** * ** *
11445598 AGATTGAAGCTATAACGATGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* ** * *
11445648 AGATTGAAGCCACAACGGTGAATCTTACTTTTCTGGTGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* ** * ** * ** *
11445698 AGATTGAAGCTACAACGACT-AATCTTGTTTTCCC-GACATTGTAGTTAAAA
1 AGATTGAAGCTACAACG-GTGAATCTT-ACTTCCCTGGCGGTGCAGTGGAAC
* * * * * *
11445748 AGATTGAAGCTACAACAGCGAATCTTACTTTCCT----GTACAGTAGAAT
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * * ** * ** *
11445794 AGATTGAAGCTACAACGGTGAATATTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * ** * *
11445844 AGGTTGAAGCCACAACGGTGAATCTTACTTCCCTGGTAGTGCAGTAGATC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * ** * ** * * ** *
11445894 ATATTGAAGCTACAACAGCAAATCTTACTTCTCC-GACATTACAATTAAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTC-CCTGGCGGTGCAGTGGAAC
* ** * *
11445944 AGATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGGTGCAGTGGAAT
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *** * * * *
11445994 AGATTGAAACTACAACGACAAATCTTGCTTCCC---C-G-ACA-T--TAT
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * *
11446036 A-ATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTACAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * ** ** * * ** ** *
11446085 AGATTAAAGCTACGACGACGAATCTTGTTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * *** ** *
11446135 AGATTAAAGCTACTACGACAAATCTTACTTCCCTGGCGGTATAGTGGAAT
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * * ** ** *
11446185 AGATTGAAGCTACGACGGTGAATCTT-GTTTCCTCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCT-GGCGGTGCAGTGGAAC
* * * *
11446235 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGCCGGTACAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *
11446285 ATATTAAAGCTA
1 AGATTGAAGCTA
11446297 TAAATTACTG
Statistics
Matches: 702, Mismatches: 272, Indels: 50
0.69 0.27 0.05
Matches are distributed among these distances:
41 25 0.04
42 3 0.00
44 2 0.00
45 3 0.00
46 38 0.05
47 2 0.00
49 16 0.02
50 599 0.85
51 14 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
Found at i:11446103 original size:91 final size:91
Alignment explanation
Indices: 11445946--11446124 Score: 261
Period size: 91 Copynumber: 2.0 Consensus size: 91
11445936 AATTAAAAAG
* * *
11445946 ATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGGTGCAGTGGAATAGATTGAAACTACAACG
1 ATTGAAGCCACAACGACGAATCTTACTTCCCAGGCAGTACAGTGGAACAGATTGAAACTACAACG
11446011 ACAAATCTTGCTTCCCCGACATTATA
66 ACAAATCTTGCTTCCCCGACATTATA
** * *
11446037 ATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTACAGTGGAACAGATT-AAAGCTACGAC
1 ATTGAAGCCACAACGACGAATCTTACTTCCCAGGCAGTACAGTGGAACAGATTGAAA-CTACAAC
* *
11446101 GACGAATCTTGTTTCCCCGACATT
65 GACAAATCTTGCTTCCCCGACATT
11446125 GCAGTTAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 3 0.04
91 75 0.96
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (91 bp):
ATTGAAGCCACAACGACGAATCTTACTTCCCAGGCAGTACAGTGGAACAGATTGAAACTACAACG
ACAAATCTTGCTTCCCCGACATTATA
Found at i:11446366 original size:41 final size:43
Alignment explanation
Indices: 11446309--11446415 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 43
11446299 AATTACTGAT
* * * *
11446309 CTTATCTTTTTGAAGTTGCAGTAGAGCA-AAT-CATATCAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGAATAAATAACAAAC
**
11446350 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGAAT-AAATAACAAAC
11446394 CTTATCTCTCTGAAGTTGCAGT
1 CTTATCTCTCTGAAGTTGCAGT
11446416 GAAGCAGGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 26 0.46
42 1 0.02
44 30 0.53
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (43 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGAATAAATAACAAAC
Found at i:11446463 original size:45 final size:44
Alignment explanation
Indices: 11446345--11446505 Score: 173
Period size: 44 Copynumber: 3.6 Consensus size: 44
11446335 CAAATCATAT
* *
11446345 CAAACCTTATCTCTCTGAAGTTGCAGT-AGAGCAGGTTGAA-ATAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGGTTGAAGAT-A
* * *
11446389 CAAACCTTATCTCTCTGAAGTTGCAGTGAAGCAGGTTAAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGATA
* * * *
11446433 CCCAATCTTATCTCCCTGAAGTTGCTGTGAAGCAGATTGAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGATA
* * *
11446478 CTAATCATATCTCCTTGAAGTTGCAGTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTG
11446506 GAGCGGATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
44 62 0.61
45 40 0.39
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGATA
Found at i:11455002 original size:9 final size:9
Alignment explanation
Indices: 11454988--11455033 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
11454978 ACAAACAATC
11454988 CATGTAAAT
1 CATGTAAAT
**
11454997 CATGTATCT
1 CATGTAAAT
11455006 CATGTAAAT
1 CATGTAAAT
*
11455015 --TTTAAAT
1 CATGTAAAT
11455022 CATGTAAAT
1 CATGTAAAT
11455031 CAT
1 CAT
11455034 ATAACATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
7 6 0.21
9 23 0.79
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (9 bp):
CATGTAAAT
Found at i:11455033 original size:25 final size:26
Alignment explanation
Indices: 11454992--11455042 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
11454982 ACAATCCATG
** *
11454992 TAAATCATGTATCTCATGTAA-ATTT
1 TAAATCATGTAAATCATATAACATTT
11455017 TAAATCATGTAAATCATATAACATTT
1 TAAATCATGTAAATCATATAACATTT
11455043 ATATCAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (26 bp):
TAAATCATGTAAATCATATAACATTT
Found at i:11455145 original size:20 final size:19
Alignment explanation
Indices: 11455097--11455146 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
11455087 TAACATAAAT
*
11455097 TTATCCGTATCAACCGTAA
1 TTATCCATATCAACCGTAA
* *
11455116 CTTATACATATCAACGGTAA
1 -TTATCCATATCAACCGTAA
11455136 TTCATCCATAT
1 TT-ATCCATAT
11455147 AATTGCATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (19 bp):
TTATCCATATCAACCGTAA
Found at i:11455351 original size:23 final size:23
Alignment explanation
Indices: 11455295--11455376 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
11455285 GAGCCATGAT
11455295 CGGTAAGCT-CATTCCGAGCTGATAAA
1 CGGTAAGCTCCA-T-CGAGCTG--AAA
*
11455321 CGGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCCATCGAGCTGAAA
* **
11455344 CGGAAAGCTCCATAAAGCTGAAA
1 CGGTAAGCTCCATCGAGCTGAAA
11455367 CGGTAAGCTC
1 CGGTAAGCTC
11455377 ATACGAACTG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.63
25 7 0.14
26 10 0.20
27 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (23 bp):
CGGTAAGCTCCATCGAGCTGAAA
Found at i:11457691 original size:15 final size:15
Alignment explanation
Indices: 11457671--11457699 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11457661 TGCTTTCATA
11457671 CACAACCATCAATTC
1 CACAACCATCAATTC
11457686 CACAACCATCAATT
1 CACAACCATCAATT
11457700 ATAATATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (15 bp):
CACAACCATCAATTC
Found at i:11462693 original size:22 final size:22
Alignment explanation
Indices: 11462668--11462717 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
11462658 CCTAATCAAC
* *
11462668 TTAAATAATTGGGTTAGTACT-
1 TTAAATAATTGGATCAGTACTG
*
11462689 TTTAATAATTGGATCAGTACTG
1 TTAAATAATTGGATCAGTACTG
11462711 TTAAATA
1 TTAAATA
11462718 GAAAAGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (22 bp):
TTAAATAATTGGATCAGTACTG
Found at i:11463508 original size:10 final size:10
Alignment explanation
Indices: 11463493--11463535 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
11463483 ATAACTTTAT
11463493 TTAAATATAA
1 TTAAATATAA
11463503 TTAAATAATAA
1 TTAAAT-ATAA
*
11463514 TTAATTATAA
1 TTAAATATAA
*
11463524 ATAAATACTAA
1 TTAAATA-TAA
11463535 T
1 T
11463536 AACTCTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 15 0.56
11 12 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAAATATAA
Found at i:11463522 original size:21 final size:21
Alignment explanation
Indices: 11463493--11463535 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11463483 ATAACTTTAT
*
11463493 TTAAATATAATTAAATAATAA
1 TTAAATATAAATAAATAATAA
* *
11463514 TTAATTATAAATAAATACTAA
1 TTAAATATAAATAAATAATAA
11463535 T
1 T
11463536 AACTCTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATATAAATAAATAATAA
Found at i:11464473 original size:24 final size:24
Alignment explanation
Indices: 11464437--11464485 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
11464427 AAATTTTCAA
*
11464437 ATTTAATCTTTAAATTATT-ATTT
1 ATTTAATATTTAAATTATTAATTT
11464460 ATTTAGATATTTAAATTATTAATTT
1 ATTTA-ATATTTAAATTATTAATTT
11464485 A
1 A
11464486 GTCTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTAATATTTAAATTATTAATTT
Found at i:11469115 original size:6 final size:6
Alignment explanation
Indices: 11469104--11469153 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
11469094 GTTTTCATGC
*
11469104 AAAAAT AAAAAT AAAAAT -AAAAT -AAAAT AGTAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A--AAAAT AAA-AAT AAAAAT
11469153 A
1 A
11469154 GGATTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 18 0.46
7 5 0.13
8 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:11469137 original size:13 final size:11
Alignment explanation
Indices: 11469104--11469153 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 11
11469094 GTTTTCATGC
11469104 AAAAATAAAAAT
1 AAAAAT-AAAAT
11469116 AAAAATAAAAT
1 AAAAATAAAAT
11469127 AAAATAGTAAAAT
1 AAAA-A-TAAAAT
11469140 AAATAATAATAAT
1 AAA-AATAA-AAT
11469153 A
1 A
11469154 GGATTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.26
12 10 0.29
13 14 0.41
14 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:11479888 original size:9 final size:9
Alignment explanation
Indices: 11479874--11479905 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
11479864 TTTCGAATTT
11479874 GAATAACTC
1 GAATAACTC
*
11479883 GAATAATTC
1 GAATAACTC
11479892 GAATAACTC
1 GAATAACTC
11479901 GAATA
1 GAATA
11479906 TCAAACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (9 bp):
GAATAACTC
Done.